CRISPRimmunity

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Overview of predicted results

Overview of the results

Contig_ID	Contig_def	CRISPR array number	Contig Signature genes	Self targeting spacer number	Target MGE spacer number	Prophage number	Anti-CRISPR protein number
NC_011146	Geobacter bemidjiensis Bem, complete sequence	12 crisprs	cas6,csa3,cas3,cas3HD,DEDDh,Cas9_archaeal,WYL,DinG	0	0	1	0

Results visualization

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CRISPR-Cas detection and classification

Crispr_ID: NC_011146_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_011146_1

100520-100624

Orphan

Consensus_repeat	Method
ATTGACAACGGGTTAGGCCGAGTCGCAG	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_011146_1

>merge|NC_011146|1|100520-100624|CRISPRCasFinder
ATTGACAACGGGTTAGGCCGAGTCGCAGACGACGGCGACGAAGAAACGGTGAATCAATTGACAATTGACGATTGACAATTGACAACGGGTTAGACCGAGTCGCAG

>NC_011146|1|1|100520-100624|CRISPRCasFinder
ATTGACAACGGGTTAGGCCGAGTCGCAG	ACGACGGCGACGAAGAAACGGTGAATCAATTGACAATTGACGATTGACA
ATTGACAACGGGTTAGACCGAGTCGCAG

Protein	Signature genes	Signature genes Name	Protein_function
NC_011146.1\|WP_012528527.1\|106489_106708_+\|hypothetical-protein	unknown	unknown	unknown
NC_011146.1\|WP_012528516.1\|90434_92633_+\|UvrD-helicase-domain-containing-protein	unknown	unknown	gnl\|CDD\|273429
NC_011146.1\|WP_012528526.1\|105214_106054_-\|alpha/beta-hydrolase	unknown	unknown	gnl\|CDD\|366166
NC_011146.1\|WP_012528531.1\|113939_115316_-\|bifunctional-UDP-N-acetylglucosamine-diphosphorylase/glucosamine-1-phosphate-N-acetyltransferase-GlmU	unknown	unknown	gnl\|CDD\|237685
NC_011146.1\|WP_012528521.1\|96950_99365_+\|diguanylate-cyclase	unknown	unknown	gnl\|CDD\|143635
NC_011146.1\|WP_012528513.1\|86222_88130_+\|anaerobic-carbon-monoxide-dehydrogenase-catalytic-subunit	unknown	unknown	gnl\|CDD\|238896
NC_011146.1\|WP_012528515.1\|89458_90142_+\|response-regulator	unknown	unknown	gnl\|CDD\|381108
NC_011146.1\|WP_012528525.1\|103766_104936_+\|aminotransferase	unknown	unknown	gnl\|CDD\|181026
NC_011146.1\|WP_012528529.1\|110802_111777_-\|sulfurtransferase	unknown	unknown	gnl\|CDD\|225450
NC_011146.1\|WP_012528519.1\|94611_95571_+\|transglycosylase-domain-containing-protein	unknown	unknown	gnl\|CDD\|376415
NC_011146.1\|WP_012528520.1\|95858_96932_+\|response-regulator	unknown	unknown	gnl\|CDD\|225971
NC_011146.1\|WP_012528517.1\|92689_93427_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|183072
NC_011146.1\|WP_012528524.1\|102689_103763_+\|type-IV-pilus-twitching-motility-protein-PilT	unknown	unknown	gnl\|CDD\|225364
NC_011146.1\|WP_012528522.1\|99396_100401_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|238845
NC_011146.1\|WP_012528530.1\|112024_113854_-\|glutamine--fructose-6-phosphate-transaminase-(isomerizing)	unknown	unknown	gnl\|CDD\|234729
NC_011146.1\|WP_041262468.1\|93611_94586_+\|4-hydroxythreonine-4-phosphate-dehydrogenase-PdxA	unknown	unknown	gnl\|CDD\|273137
NC_011146.1\|WP_012528528.1\|106761_110661_+\|multicopper-oxidase-domain-containing-protein	unknown	unknown	gnl\|CDD\|259913
NC_011146.1\|WP_012528514.1\|88291_89068_+\|AAA-family-ATPase	unknown	unknown	gnl\|CDD\|349754
NC_011146.1\|WP_148212880.1\|106050_106290_-\|hypothetical-protein	unknown	unknown	unknown
NC_011146.1\|WP_012528523.1\|101018_102677_+\|Flp-pilus-assembly-complex-ATPase-component-TadA	unknown	unknown	gnl\|CDD\|131585

Protein	Function_ID	Function_description	E-value
NC_011146.1\|WP_012528531.1\|113939_115316_-\|bifunctional-UDP-N-acetylglucosamine-diphosphorylase/glucosamine-1-phosphate-N-acetyltransferase-GlmU	gnl\|CDD\|237685	PRK14355, glmU, bifunctional UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase GlmU.	0
NC_011146.1\|WP_012528516.1\|90434_92633_+\|UvrD-helicase-domain-containing-protein	gnl\|CDD\|273429	TIGR01073, ATP-dependent_DNA_helicase_PcrA, ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily. [DNA metabolism, DNA replication, recombination, and repair].	0
NC_011146.1\|WP_012528526.1\|105214_106054_-\|alpha/beta-hydrolase	gnl\|CDD\|366166	pfam00561, Abhydrolase_1, alpha/beta hydrolase fold. This catalytic domain is found in a very wide range of enzymes.	4.54782e-45
NC_011146.1\|WP_012528521.1\|96950_99365_+\|diguanylate-cyclase	gnl\|CDD\|143635	cd01949, GGDEF, Diguanylate-cyclase (DGC) or GGDEF domain. Diguanylate-cyclase (DGC) or GGDEF domain: Originally named after a conserved residue pattern, and initially described as a domain of unknown function 1 (DUF1). This domain is widely present in bacteria, linked to a wide range of non-homologous domains in a variety of cell signaling proteins. The domain shows homology to the adenylyl cyclase catalytic domain. This correlates with the functional information available on two GGDEF-containing proteins, namely diguanylate cyclase and phosphodiesterase A of Acetobacter xylinum, both of which regulate the turnover of cyclic diguanosine monophosphate. Together with the EAL domain, GGDEF might be involved in regulating cell surface adhesion in bacteria.	2.80722e-59
NC_011146.1\|WP_012528513.1\|86222_88130_+\|anaerobic-carbon-monoxide-dehydrogenase-catalytic-subunit	gnl\|CDD\|238896	cd01915, CODH, Carbon monoxide dehydrogenase (CODH) is found in acetogenic and methanogenic organisms and is responsible for the synthesis and breakdown of acetyl-CoA, respectively. CODH has two types of metal clusters, a cubane [Fe4-S4] center (B-cluster) similar to that of hybrid cluster protein (HCP) and a Ni-Fe-S center (C-cluster) where carbon monoxide oxidation occurs. Bifunctional CODH forms a heterotetramer with acetyl-CoA synthase (ACS) consisting of two CODH and two ACS subunits while monofunctional CODH forms a homodimer. Bifunctional CODH reduces carbon dioxide to carbon monoxide and ACS then synthesizes acetyl-CoA from carbon monoxide, CoA, and a methyl group donated by another protein (CoFeSP), while monofunctional CODH oxidizes carbon monoxide to carbon dioxide. CODH and ACS each have a metal cluster referred to as the C- and A-clusters, respectively.	0
NC_011146.1\|WP_012528515.1\|89458_90142_+\|response-regulator	gnl\|CDD\|381108	cd17557, REC_Rcp-like, phosphoacceptor receiver (REC) domain of cyanobacterial phytochrome response regulator Rcp and similar domains. This family is composed of response regulators (RRs) that are members of phytochrome-associated, light-sensing two-component signal transduction pathways such as Synechocystis sp. Rcp1, Tolypothrix sp. RcpA, and Agrobacterium tumefaciens bacteriophytochrome response regulator AtBRR. They are stand-alone RRs containing only a REC domain with no output/effector domain. The REC domain itself functions as an effector domain. Also included in this family us Methanosaeta harundinacea methanogenesis regulatory protein FilR2, also a stand-alone RR. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.	1.32589e-28
NC_011146.1\|WP_012528525.1\|103766_104936_+\|aminotransferase	gnl\|CDD\|181026	PRK07550, PRK07550, aminotransferase.	0
NC_011146.1\|WP_012528529.1\|110802_111777_-\|sulfurtransferase	gnl\|CDD\|225450	COG2897, SseA, Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism].	9.5438e-50
NC_011146.1\|WP_012528519.1\|94611_95571_+\|transglycosylase-domain-containing-protein	gnl\|CDD\|376415	pfam00912, Transgly, Transglycosylase. The penicillin-binding proteins are bifunctional proteins consisting of transglycosylase and transpeptidase in the N- and C-terminus respectively. The transglycosylase domain catalyzes the polymerization of murein glycan chains.	3.51388e-78
NC_011146.1\|WP_012528520.1\|95858_96932_+\|response-regulator	gnl\|CDD\|225971	COG3437, COG3437, Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms].	6.85061e-103
NC_011146.1\|WP_012528517.1\|92689_93427_+\|hypothetical-protein	gnl\|CDD\|183072	PRK11280, PRK11280, hypothetical protein; Provisional.	0.00314611
NC_011146.1\|WP_012528524.1\|102689_103763_+\|type-IV-pilus-twitching-motility-protein-PilT	gnl\|CDD\|225364	COG2805, PilT, Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion].	0
NC_011146.1\|WP_012528522.1\|99396_100401_-\|hypothetical-protein	gnl\|CDD\|238845	cd01712, ThiI, ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide.	5.39661e-48
NC_011146.1\|WP_012528530.1\|112024_113854_-\|glutamine--fructose-6-phosphate-transaminase-(isomerizing)	gnl\|CDD\|234729	PRK00331, PRK00331, isomerizing glutamine--fructose-6-phosphate transaminase.	0
NC_011146.1\|WP_041262468.1\|93611_94586_+\|4-hydroxythreonine-4-phosphate-dehydrogenase-PdxA	gnl\|CDD\|273137	TIGR00557, pdxA, 4-hydroxythreonine-4-phosphate dehydrogenase. This model represents PdxA, an NAD+-dependent 4-hydroxythreonine 4-phosphate dehydrogenase (EC 1.1.1.262) active in pyridoxal phosphate biosynthesis. [Biosynthesis of cofactors, prosthetic groups, and carriers, Pyridoxine].	1.4108e-150
NC_011146.1\|WP_012528514.1\|88291_89068_+\|AAA-family-ATPase	gnl\|CDD\|349754	cd02034, CooC1, accessory protein CooC1. The accessory protein CooC1, a nickel-binding ATPase, participates in the incorporation of nickel into the complex active site ([Ni-4Fe-4S]) cluster of Ni,Fe-dependent carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible oxidation of CO to CO2. CODH contains a nickel-iron-sulfur cluster (C-center) and an iron-sulfur cluster (B-center). CO oxidation occurs at the C-center. Three accessory proteins encoded by cooCTJ genes are involved in nickel incorporation into a nickel site. CooC functions as a nickel insertase that mobilizes nickel to apoCODH using energy released from ATP hydrolysis. CooC is a homodimer and has NTPase activities. Mutation at the P-loop abolishs its function.	7.14897e-92
NC_011146.1\|WP_012528528.1\|106761_110661_+\|multicopper-oxidase-domain-containing-protein	gnl\|CDD\|259913	cd13844, CuRO_1_BOD_CotA_like, The first Cupredoxin domain of Bilirubin oxidase (BOD), the bacterial endospore coat component CotA, and similar proteins. Bilirubin oxidase (BOD) catalyzes the oxidation of bilirubin to biliverdin and the four-electron reduction of molecular oxygen to water. CotA protein is an abundant component of the outer coat layer in bacterial endospore coat and it is required for spore resistance against hydrogen peroxide and UV light. Also included in this subfamily are phenoxazinone synthase (PHS), which catalyzes the oxidative coupling of substituted o-aminophenols to produce phenoxazinones. PHS has been shown to participate in diverse biological functions such as spore pigmentation and biosynthesis of the antibiotic grixazone. These are Laccase-like multicopper oxidases (MCOs) that are able to couple oxidation of substrates with reduction of dioxygen to water. MCOs are capable of oxidizing a vast range of substrates, varying from aromatic compounds to inorganic compounds such as metals. Although the members of this family have diverse functions, majority of them have three cupredoxin domain repeats. The copper ions are bound in several sites: Type 1, Type 2, and/or Type 3. The ensemble of types 2 and 3 copper is called a trinuclear cluster. MCOs oxidize their substrate by accepting electrons at a mononuclear copper center and transferring them to the active site trinuclear copper center. The cupredoxin domain 1 of 3-domain MCOs contains part the trinuclear copper binding site, which is located at the interface of domains 1 and 3.	3.62334e-47
NC_011146.1\|WP_012528523.1\|101018_102677_+\|Flp-pilus-assembly-complex-ATPase-component-TadA	gnl\|CDD\|131585	TIGR02533, Type_II_secretion_system_protein_E, type II secretion system protein E. This family describes GspE, the E protein of the type II secretion system, also called the main terminal branch of the general secretion pathway. This model separates GspE from the PilB protein of type IV pilin biosynthesis. [Protein fate, Protein and peptide secretion and trafficking, Cellular processes, Pathogenesis].	1.45557e-24

>NC_011146.1|WP_012528522.1|99396_100401_-|hypothetical-protein
MQRKAIALLSGGLDSTLAVKVLLDQGIAVEALNFTSPFCTCTGKNAGCKSEAVRVAEEFKIPIKVMHKGADYLEVVRNPKHGHGKGMNPCIDCRIFLLKKAKEYMLESGADFVFTGEVLGQRPMSQRRDTLRIIEKESGLEGLLLRPLSAKHFQPTIPEQEGWVDREKLLSIQGRSRKEQFELAAELDVKNYPCPAGGCLLTEPSFVGKIRDVFDHSDELNMRDFRLLKLGRHFRIGPRTKVVLGRNEGENELLERAVQPGEATLRWVEGMSPLAAVMGETTDHLLEKAGQILLRYTKAEPGCAATLSILRDGSETELKTVNALDEAAVEALRR
>NC_011146.1|WP_012528521.1|96950_99365_+|diguanylate-cyclase
MSRCSLKIKMSLVVFLLIGTVSSCVAGLGLLFFMREFKETVAARQFAVVSAMAGELDEKILAAQRELVAVAMSIPPATGRDAAAMQSFLDQRLDLHQVFSDGTAFFSADGRLVAFSPGQTPDIGDNFSKLDFLAATLRSGKALISEPFPSQRRRGHQVVMFTVPVLGGGGRMIGVLGGRVDLMEENFLSRVAHLNLQDGGEFFLFNRQRQIVAHRNHDKIGKPMPAKGMRELLDRAIDGYQGSGEMDNPAGSPSIYSFKRLPARGWILAAERPLSEAYAPIYRAQKLAIFSLALLLPLALITVWLFVGRLTAPLQLFAGRVREIGGDAGKYLPVLVNNNDEIGDLAQAFNAMMQELVINKRSLESEKGFAVQLLQHSAVPCFVIDAEHRVIIWNSAMEELTGVAAGAQLGQIEPWRAFYDEPRRVLADIVVAGTLYEMADLYCCYADSPLIPEGLRAEGWYRLKGKQRYLAFEAAPIRDAEGRLIAAIQTMQDMTLRANNEEQLRGMVAAIGESEERFRRLVELSLDGIAILVGRRFVFVNPAGCEMLGYRSSDELLGKEMREFIQRDSEQQFLEQATCAEETGTTAPWIEERLLRHDRTAVEVELGVGPFVFRGENALQVIFRDITERKLAKARLETLAHYDSLTSLPNRVLFFDRLRHAVFEAKRYQHPMALMFLDLDSFKQVNDRLGHAAGDAVLVEAGYRLRECVRACDMVARMGGDEFTIILTKMADRRDASLVAERVLEAFALPFLVEGESAQVGVSIGICVYPDCDADLDGMVRYADYAMYQAKQDGKNVYRFHLGG
>NC_011146.1|WP_012528520.1|95858_96932_+|response-regulator
MENLKSGRVVLVDDDPYVLESVALLLSVSGFEVTSFSNGHEALQLLRRSPPDVVLTDVNMPQMSGIELLEQIHDFDRDIPVILMTAYAELEMAVSAIKKGAFDFIIKPFKTPYLIYAVEKGINYQRLVLMEKNYKAELEQKVQDRTRELGAALVQMRNMSRETIERLTAAAELRDEDTGRHISRIGLYAKRLAEQLQMPADFAEGIGMAAPMHDVGKIGIPDAILLKAGPLNGEEFGVMKSHTEIGGRILAGSTHMVLQMAASIALTHHERWDGSGYPHGLAGEKIPVEGRIVMLVDQYDALRSKRVYKPTFEHGKTVRIITEGDGRTMPEHFDPEILRAFVTAAHDFEAIYENHSD
>NC_011146.1|WP_012528519.1|94611_95571_+|transglycosylase-domain-containing-protein
MKKYLTWGGIVLAVYLIYVVISLAMTPPVTELKDKKFNMTIQVKDWQGNYHPLVVGPKNRYWTPLSQIPSEMKWAVILAEDASFYKHEGIDVKAIKEAIKYDLEKQSFARGASTITQQVAKNLFLSREKTLTRKAKELYLAKRMEQELTKGRIIELYLNVIELGPLVHGIGHGARYYFGKSPANLTPRECAFLAAMLPGPRVAYNPYKNLGKVLKRSNMILGLLAKKGVLSEAEYRTALAQSPNVGRMQRKVDMSIKQVEVMANHTSATLPEQPLSQEEMNAQEPKAGAPEGAAPQPAPEPAQEPASPASPPAAQEEKQ
>NC_011146.1|WP_041262468.1|93611_94586_+|4-hydroxythreonine-4-phosphate-dehydrogenase-PdxA
MGDPCGIGPEIIAAALADPAITALCRPLVLGDRGAMERGIAVAGVKLAIASAPDLLPPLDASPHTLYLRELSRLKLDEIPYGAPTKAGGDACYRYICEAAKLCLDGTVQAMATAPINKESMNSAGHDYPGHTELLAELTGTPEVVMMLAGERLRVTLVTIHEPLARVPELVTFDRVLSTIRITHDALSRWFCCAPRLAVLALNPHCGEGGMFGDEESRIIAPAVAAAREAGIDAAGPVSADTLFHFAAKGGYDAVVCMYHDQGLIPLKLLHFDDGVNVTLGLPIIRTSVDHGTAYNLAGTGKASAESMKAALVMAARMAQQGCQ
>NC_011146.1|WP_012528517.1|92689_93427_+|hypothetical-protein
MKKLCVLMISMLLFSACTSYKSQYVSFRPPEAYTNYREVNGVSMGGEAYPDADSAEKAFGFDIKGAGLLPVMLVFDNKSANNLELISGQTFLVDDGGNYWPVVPNNTAFDRLESSTQFASFFGKGAGKGAILGAAAGGILATAIGIASGKSVGEAVGKGVALGAAGGALIGGTQEGTSGEREHRISDDLRSKGLEGKPIPAGALANGFLFFPGEANSAKELRLQVRERESGQVHKVSLPLNTAKK
>NC_011146.1|WP_012528516.1|90434_92633_+|UvrD-helicase-domain-containing-protein
MKLLHNLNPPQKEAVLHGEGPLLVLAGAGSGKTRVIVHRIAYLIHERGVPAWQILGVTFTNKAAGEMRERLAHMLGDGELPLISTFHSTCARILRSEIRHLGYDSNFAIYDDRDCEKLLKDCAAELNLDEKRYPAKALAGALDEFKNQGLAPDDVPTDSPYQATLARVYRCYQERLKRCNAVDFGDLLLLAVQLLEQVKEVRDKYLQRYRWIMVDEYQDTNPVQYRLVQLLAGERKNLCVVGDDDQSIYGWRGADIRNILEFEKDFPGVKVVKLEQNYRSTKTILDGAWNVVQKNRGRKPKRLWTDNPDGERIVYRTLPNEWEEARTVCRETERFLDEGGDLSEVAVFYRTNAQSRAVEDAMVSAGVAYHMVGGVRFYARLEVKDILAYLKVLDNPSDDVALKRIINTPPRGIGNTTVQRLSEFAAEKGIPLYDAMLEGAFGPLLSVAAKGKVAAFAQEIDGYKEKAEQMPLSELTSTIIYESGYFARLKALGSDEAQERIENLQELVTAMQAYESGPGEKGLADFLEQVALVSDLEQEGDGKKSSATLMTLHSAKGLEFPLVFIIGMEERLFPHVRALEDPAQMEEERRLCYVGMTRAKKRLFLLNVRRRHIFGQEQMNPPARFIADIPRELLDSGENWQEPARHREFPSHNLASLFEEEMEPEEDDNEVRMVPEHDEGIYLGMKVRHAQFGPGTIRKIEGEGDNQKVIVWFNSLGGPKKLLVRFAGLERA
>NC_011146.1|WP_012528515.1|89458_90142_+|response-regulator
MNPTILLVDDLQMFLEIEKDFFKYAQVNLLTARDGIEALEVVKNRKPDLIFMDLQMPRMDGAQCCRAIRSDPELASTPVVLISSSSDAKDKEMSLAAGCNYFLSKPAGRDRFLEIAREFIPGINRRDHRIPCDVGAVLNVGGQAIACSLHDLGSEGAFVVTDFPGQPGNIVSLTFTLPDGSVIDSPCKIVWTSESMVFRPKGLGVKFALMPKEVKSALARYLEGKSR
>NC_011146.1|WP_012528514.1|88291_89068_+|AAA-family-ATPase
MRIAVTGKGGVGKTTFASLLARAFADDGARVLAVDADPDANLAQALGISSEAARALQPVARMKELAEERTGASGGYGSFFKLNPKVSDLPERFCLTHDGVRFLWMGTFEQGGSGCACPESTLVKRLMGHLLLERDEVVIMDMEAGLEHLGRRTAESVDALVVVVEPGQRSIQTAEQIMKLAADLGIEEVYVVGSKVRDEEDRLLISGAIPARQLLGTVSFCDGIRRADRENQAPARLSAGALEEVGAIKERLLALHAA
>NC_011146.1|WP_012528513.1|86222_88130_+|anaerobic-carbon-monoxide-dehydrogenase-catalytic-subunit
MTLNLTTDPSAATLLPIAKKEGISTVWDRHRAMQPQCGFGQLGVCCRICWKGPCRIDPFGDGPQRGICGADADTIVARNLIRMIAAGAAGHSEHGRHVALALQGVSQGKLPAYQIRDEAKLLRVAAKLKICTEGQEIQAVAAAVAKATLEDFQSQDHDAPCNWIEATLTKERLERLQALHVVPHNIDAVITQIMGRTLVGCDADPVNLILGGIKGALADFNGMCLATEISDALFGAPAPVVTAANLGVIKPDAVNIAVHGHNPLLSEVVCEVAQQMDEEARKAGAKEGINIVGICCTGNEVMVRHGIPLAANYLSQELALVTGAVDAMVVDVQCIMPSVAEIGACFHTAVITTMEENKIKGASHVSFKEETALENARQIVETAIEAYKRRDPRRVNIPDFKQTAIVGFGLESVVAALATLNAEDPLQPLIDNIANGNIRGIALFAGCNSTQVAQDSSFVTMAKKLAKNNVLLLATGCGAGSFAKHGLMTQEATVEYAGDSLKAVLTAIGTSAGLNGPLPLVLHMGSCVDNSRAVEVAVAVANRLGVDLDKLPLVASAPEAMSEKAVAIGTWSVALGIPTHLGTMPQVTGSAQVTELLTQTAKDLLGGYFLVELDPELAAEKLLEVIDERRKGLGI
>NC_011146.1|WP_012528523.1|101018_102677_+|Flp-pilus-assembly-complex-ATPase-component-TadA
MNGLVKEGSIGEILFKSQIITEQELSAALEEQKVSGCRVGEALVRLGVVAQEDIDWALANQLNIPYVRLKKENIDPAAVAKVPGQLARRYSLCPIFLSGSELSIAMADPLNKEAVEEITRVTGCQISISVGLIREIREMHDAMYGPDQNLPELGFSSGHFPAKVLSAINADLSGAMLLNHLLLRVVQKKFASVALQPLGDQVRVLARGEGRTSELGKLSATHYGRLTERIRRLSGIGGAEENPSSGILTFIWQGKRIPFQTLVMPGNGGDYLTLKLHVGAPKISELDDLGVSAGKRADLKALCSEKEGLVLFTGRDPEERSRLIDLFLDACDHADRTVILVGERLGRGRDRWPRLPAGRCGADDTAKVVSAALEHDPDTLVIEDVTELASFIAASKAVMRGKLVVAGMSQGNKGAVLKQLLYLSQKNFLIPTHLKGVVSLKCVLLLCPECKKQYTPAADELAALRLKATAPEYFRPTGCPSCDQTGYSGKKYLLDVIRFDQGLLEAFEVIRDSDEIIRHLKDNGYRGIGEEGAELLERGEISPGEYVASILL
>NC_011146.1|WP_012528524.1|102689_103763_+|type-IV-pilus-twitching-motility-protein-PilT
MARIDALFKLLHEAGASDLHLSAGSPPIFRLRGEMERQNFKSLGHEELKALLYEILTPKQRETFEEKHDLDFAYSVPGLARFRGNFMMQHRGIAAVFRIIPTKILSADELGLPEGIRNLTKLRKGLVLVTGPTGSGKSTTLAAMIDLINITRREHILTLEDPLEFIHENKMSLFNQRQIGEHSESFASALRAALREDPDVILVGEMRDLETIALAMSAAETGHLVFGTLHTSSAAKTVDRIIDVFPKDGQEQVRAILSESLRGVVCQQLLKTADGKGRAAAQEIMVWNAAIGNLIREGKTFQIPSIMQTGRKDGMQLMDQHILDLLKTKKIAPEEAYRCCTDKRQFEQYLPNKPAEQ
>NC_011146.1|WP_012528525.1|103766_104936_+|aminotransferase
MRFPVSPLIAGVHPPPISEVKSWIAGAPAGLPLIDLCQAIPDYPPPRELTDHLAEVMLDPHTSRYSIDEGLPEVREAICGGYRELYGACIDPSQLILTIGASQAFWLAMVTLCRAGDEVIVQLPAYFDHPMALEVLGIRCVYAPFEEARGGLPSVAAIASLITEKTRAILLVTPSNPTGAVISPETVRELHRLAVSRDIALVLDETYNSFITGGVRPHDLFQEPNWGDHFVHIASFGKTFALTGYRAGMLAASEEFIRHALKAQDTMAVCQPRVAQHAVKYGFERLSGWVAENRVMMERRHEVFRAEFEKPGNAFKLVASGPFFGWVRHPLPKATGREVARRLVEEAGILLLPGEVFGPGLEGYLRLAFGNIREETIPEAVARFREFNP
>NC_011146.1|WP_012528526.1|105214_106054_-|alpha/beta-hydrolase
MNYITVGKENSCNIDLYYEDMGEGQPVVLIHGWPLSSRSWERQVPALLKAGFRVIAYDRRGFGQSSRPGSGYDYDTLADDLHALMTRLDLRKAVLVGFSMGGGEVAHYLGRYGTERVQKAVFMAAVTPFLRKAADNAAGLDAGIFEEIKQAIRADRPSFLTSFLSNFYNVHAFGGKKVSEELLRLSWSIAAAASPIGTLACVDSWLTDFRDDLVRIRIPTLVMHGDDDRILPFAATGSRTHEAVEGSRLIVVAGAPHGLNWTHAEEVNDGLIDFMQEAI
>NC_011146.1|WP_148212880.1|106050_106290_-|hypothetical-protein
MRRAPGEKDYDGPVYSLLRSSGFFSQLEDFSHPFVAAPERVSTFKVQLTWQENAVFEHLRRGLRRDDRLKTEAKRGDAQ
>NC_011146.1|WP_012528527.1|106489_106708_+|hypothetical-protein
MKRIITMAAGFLVALSLAATAYAAPKGANARKSSPGIENSKKVMQYRMQREKKMEDVRKKAQLKKQQAKAGK
>NC_011146.1|WP_012528528.1|106761_110661_+|multicopper-oxidase-domain-containing-protein
MNRLTKTLMAGLAMLVMTLGIYPQTAQAIDETKVPHYYGPYPNWALSPLPFKNLSTGVVTGGIKKFVNRLPGLGEANANDLGNFLPVAVPDTTTYADADYYEIGLVQYRQQMHSDLPPTLLRGYVQLSTAVVPGGQVPLTNATVDGSPDVPIIGYTGVTKPSYLGPVIVAKKDRPVRIVFRNLLPNGAGGDLFLPVDSTMMGSGMGPMGMTAPVDGKSVTDMVRNPLCTDNPKSDMCFKDNRATLHLHGGVTPWISDGTPHQWITPKDEMTAWPKGVSVKNVPDMPDPGPGAMTFFYTNQQSARLMFYHDHAWGITRLNVYAGQAAGYIIEDSTEQALLDKGVIPGATDTIPLIIQDRTFVPPGDKTTRTGQLYESDPTWDANRWGGFGNLWYHHVYMPAQNPSDPSGMSAFGRWMYGPWFWPPATPKYPPIPNPRYNMDPATAFTTPLAKPCLLSDPTSWQYQTDPFCEPELIPGTPNISVGMEQFNDTPVVNGTVYPYTTVDPKAYRLRILNAANDRFLNLQLYVADTTGTEVALKAAELAAAQLDPNVFPTPDTALSPKGPDWIQIGSEGGFLPAPAVIPPQPITWIIDPTRFDFGNVDQHSLALAPAERADVIVDFSKYAGQTLILYNDAPAAYPARVASYDYYTGAPDLSPNGAPGVLPGYGPNTRTVMQIKVNPLVDPTVPAPTFNLAALQQAFTHQLDGTPSAFETGQHPIIVGQAAYNSAYGTKFAASSWCNAPGSTNQLCDGFARISDQGGDLFGFNTLLNQGGKLQIPLQPKALHDEMNAVAFDEFGRMTANIGVEAVPAAPGAQNVVLYPYVNPPTELIDGTNLPKGDLNITPITTADGTQIWKITHNGVDTHPIHFHLYDVQVLNRVTWDNIIIPPDANELGWKDTVRVSPLEDTIVALRPIVPSLPFEIPNSVRLLNPMMPAGDTSMFEPTDVSGNPTNAIINQLVNFGWEYVYHCHILSHEEMDMMRPVSLALPPKAADGLTFAINGNGNKAKLTLNWNDNSITETAFVVQKTTDGTTWTNVGTIATPLDAVNSTGPKSLVDPAAYNPNVVAKYQVVAQNTVGYGGQMPSLTVTSVSAPLLTGTVPAAPTALTATLQAGPQVTLSFTDNALTEIGFVVERSDNGGAFVQIAKLAARANTGAVTYVDKTVAAAATDTTYVYRVAAINAAGLSGYAVTAPLLLPALPAAPAGLTAVNGPNGTGNNRTVILNWQDLSSNETGFSVQRATNATFTTGVSNTTVGAGVTTLTQAGLARNTNYYYRVRANNGSIVSSAWVAATPSPILTNP
>NC_011146.1|WP_012528529.1|110802_111777_-|sulfurtransferase
MAGKHLVRLLSVLALIISLAGTSWAKQQQGYKGYARGSALITAKELKQLIDAKDKKLVIIAAENDVEYRLGHIPGSFQVDRPAYEAPAATQNGVTGNLIDAAGFTKLAQELGINKDSKVVVYDTKYDATRLWWAFLYYGKGDVRVLDGGIKAWKDAGYDTAILAPDAARAGAFVAKVALPRSRVETPEILALKDPAKGQLWDNRDRKEYCGEELKKGAYRKGRIPWGKHSDWAIFKKKENAGEWLTAAEAQAILKKLGVDGKKDQYFFCQSGVRSTQAMFTFYLLGYPLNKLHNYDSSWIGWSKDASLPIETGCDLNPAVATAR
>NC_011146.1|WP_012528530.1|112024_113854_-|glutamine--fructose-6-phosphate-transaminase-(isomerizing)
MCGIVGFTGRQEATSIIIEGLRRLEYRGYDSAGICTISDGKASIRRSEGKLSNLEKLLAASPVTGTVGIGHTRWATHGRPSEINAHPHQAGPIVVVHNGIIENYLQLREELKGQGHVFKSETDTEVISHLIDQRLKSCDSFEQAVREALAVLKGAYAICIVSENDPDEMIAAKLGSPMVVGIGDGEFYVASDIPAILSHTRSMIFMEDGEMVVFKGGSATFSNVAGGVLNKVPRHIDWSAHMAEKGGYKHFMLKEIFEQPRAVRDTIAGRLREEQGDVYLEDLSLNDAALKGINRICIIACGTSWHAALVGKFLIEEHCRVPVEVDIASEFRYRNPVVDENTLVMLISQSGETADTLAAMRESKRRGGKCVAICNVVDSSIAREADGVIYTHAGPEIGVASTKAFVTQLIALYLFTIRLGRSREVMSLEEGRDLIAAVVRVPALMEEALKLNEQVEKVARNYLQARDFLYLGRGMNYPIALEGALKLKEISYIHAEGYAAGEMKHGPIALIDEHMPVVVLVPKGPNYDKVFSNMEEVIARGGRVIAVCSEGDQEVKDKVEVALEIPEDGCNVSPLILSIPMQLLAYHVAVLKGTDVDQPRNLAKSVTVE
>NC_011146.1|WP_012528531.1|113939_115316_-|bifunctional-UDP-N-acetylglucosamine-diphosphorylase/glucosamine-1-phosphate-N-acetyltransferase-GlmU
MGNKISAIVLAAGMGTRMKSDLVKVMHLVAGVPMIQWPVAAAFASGVERCVLVVGHQQEKVRELFAGRGEVSFALQSEQLGTGHAVRCAMTELDPGADTVLILCGDTPLLEAQSLAGMLKAHRETKACITVMTATLGNPFGYGRIVKDATGKVSAITEEKDATEKERLIDEVNAGVYCIDRAFLEKAIATIKNDNAQGEYYLTDVVRQAAQHGLSCLSYKVADPREISGVNDRAQMAEAARVLRGRINRELMLSGVTMIDPETVYIDRGVRIGRDSVVYPGATIEGNTVIGERCVIGQGSLIQNCSIADDVVVKAGSVLEDSKVGPEAAIGPMAHLRAGTELSAHVKIGNFVETKKTFMGEGSKASHLTYLGDATIGRDVNIGCGTITCNYDGVKKHKTVIEDGVFVGSDVQLVAPVTVGRNSLIAAGTTVTKDIPADSLAIARSPQVNKEGYMLRKK

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Crispr_ID: NC_011146_2

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_011146_2

418422-418512

Orphan

Consensus_repeat	Method
TCAATTGTCAATTATCAATTGGGTTT	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_011146_2

>merge|NC_011146|2|418422-418512|CRISPRCasFinder
GTAATCGTCAATTATCAATTGTCAATTATCAATTGGGTTTTAGCCTTAATTGCCTCTCCACGGTTTTCGTTGTCAATTGTCAATTGTCAAT

>NC_011146|2|2|418422-418512|CRISPRCasFinder
GTAATCGTCAATTATCAATTGTCAAT	TATCAATTGGGTTTTAGCCTTAATTGCCTCTCCACGGTT
TTCGTTGTCAATTGTCAATTGTCAAT

Protein	Signature genes	Signature genes Name	Protein_function
NC_011146.1\|WP_012528779.1\|417205_418003_-\|alpha/beta-fold-hydrolase	unknown	unknown	gnl\|CDD\|131480
NC_011146.1\|WP_012528771.1\|408558_409578_+\|glycosyltransferase-family-4-protein	unknown	unknown	gnl\|CDD\|340831
NC_011146.1\|WP_012528777.1\|414469_415606_-\|IS481-like-element-ISGebe1-family-transposase	unknown	unknown	gnl\|CDD\|366234
NC_011146.1\|WP_012528783.1\|424196_427421_-\|exodeoxyribonuclease-V-subunit-gamma	unknown	unknown	gnl\|CDD\|335690
NC_011146.1\|WP_012528787.1\|431139_432243_-\|homoserine-O-acetyltransferase	unknown	unknown	gnl\|CDD\|234678
NC_011146.1\|WP_012528784.1\|427758_428691_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|213021
NC_011146.1\|WP_148212883.1\|412993_413221_+\|hypothetical-protein	unknown	unknown	unknown
NC_011146.1\|WP_012528790.1\|433819_434689_-\|TIGR02757-family-protein	unknown	unknown	gnl\|CDD\|378237
NC_011146.1\|WP_012528786.1\|429913_431143_+\|acetate-kinase	unknown	unknown	gnl\|CDD\|234680
NC_011146.1\|WP_012528772.1\|409935_411441_+\|methylmalonyl-CoA-carboxytransferase-subunit-5S	unknown	unknown	gnl\|CDD\|183445
NC_011146.1\|WP_041262526.1\|433631_433823_-\|hypothetical-protein	unknown	unknown	unknown
NC_011146.1\|WP_012528776.1\|413798_414263_+\|CHRD-domain-containing-protein	unknown	unknown	gnl\|CDD\|377837
NC_011146.1\|WP_012528775.1\|413311_413707_+\|acetyl-CoA-carboxylase-biotin-carboxyl-carrier-protein-subunit	unknown	unknown	gnl\|CDD\|223585
NC_011146.1\|WP_012528785.1\|428766_429798_+\|endonuclease/exonuclease/phosphatase-family-protein	unknown	unknown	gnl\|CDD\|197318
NC_011146.1\|WP_012528789.1\|432685_433549_-\|NAD(P)-dependent-oxidoreductase	unknown	unknown	gnl\|CDD\|224995
NC_011146.1\|WP_012528788.1\|432518_432689_-\|hypothetical-protein	unknown	unknown	unknown
NC_011146.1\|WP_012528782.1\|420610_424003_-\|exodeoxyribonuclease-V-subunit-beta	unknown	unknown	gnl\|CDD\|273172
NC_011146.1\|WP_012528778.1\|415877_417194_-\|DNA-recombination-protein-RmuC	unknown	unknown	gnl\|CDD\|224241
NC_011146.1\|WP_012528780.1\|418054_418411_-\|four-helix-bundle-protein	unknown	unknown	gnl\|CDD\|183395
NC_011146.1\|WP_012528773.1\|411468_413013_+\|methylmalonyl-CoA-carboxyltransferase	unknown	unknown	gnl\|CDD\|130187

Protein	Function_ID	Function_description	E-value
NC_011146.1\|WP_012528779.1\|417205_418003_-\|alpha/beta-fold-hydrolase	gnl\|CDD\|131480	TIGR02427, b-ketoadipate_enol-lactone_hydrolase, 3-oxoadipate enol-lactonase. Members of this family are 3-oxoadipate enol-lactonase. Note that the substrate is known as 3-oxoadipate enol-lactone, 2-oxo-2,3-dihydrofuran-5-acetate, 4,5-Dihydro-5-oxofuran-2-acetate, and 5-oxo-4,5-dihydrofuran-2-acetate. The enzyme the catalyzes the fourth step in the protocatechuate degradation to beta-ketoadipate and then to succinyl-CoA and acetyl-CoA. 4-hydroxybenzoate, 3-hydroxybenzoate, and vanillate all can be converted in one step to protocatechuate. This enzyme also acts in catechol degradation. In genomes that catabolize both catechol and protocatechuate, two forms of this enzyme may be found. All members of the seed alignment for this model were chosen from within protocatechuate degradation operons of at least three genes of the pathway, from genomes with the complete pathway through beta-ketoadipate. [Energy metabolism, Other].	2.20446e-45
NC_011146.1\|WP_012528771.1\|408558_409578_+\|glycosyltransferase-family-4-protein	gnl\|CDD\|340831	cd03801, GT4_PimA-like, phosphatidyl-myo-inositol mannosyltransferase. This family is most closely related to the GT4 family of glycosyltransferases and named after PimA in Propionibacterium freudenreichii, which is involved in the biosynthesis of phosphatidyl-myo-inositol mannosides (PIM) which are early precursors in the biosynthesis of lipomannans (LM) and lipoarabinomannans (LAM), and catalyzes the addition of a mannosyl residue from GDP-D-mannose (GDP-Man) to the position 2 of the carrier lipid phosphatidyl-myo-inositol (PI) to generate a phosphatidyl-myo-inositol bearing an alpha-1,2-linked mannose residue (PIM1). Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate residue. This group of glycosyltransferases is most closely related to the previously defined glycosyltransferase family 1 (GT1). The members of this family may transfer UDP, ADP, GDP, or CMP linked sugars. The diverse enzymatic activities among members of this family reflect a wide range of biological functions. The protein structure available for this family has the GTB topology, one of the two protein topologies observed for nucleotide-sugar-dependent glycosyltransferases. GTB proteins have distinct N- and C- terminal domains each containing a typical Rossmann fold. The two domains have high structural homology despite minimal sequence homology. The large cleft that separates the two domains includes the catalytic center and permits a high degree of flexibility. The members of this family are found mainly in certain bacteria and archaea.	1.16303e-45
NC_011146.1\|WP_012528777.1\|414469_415606_-\|IS481-like-element-ISGebe1-family-transposase	gnl\|CDD\|366234	pfam00665, rve, Integrase core domain. Integrase mediates integration of a DNA copy of the viral genome into the host chromosome. Integrase is composed of three domains. The amino-terminal domain is a zinc binding domain pfam02022. This domain is the central catalytic domain. The carboxyl terminal domain that is a non-specific DNA binding domain pfam00552. The catalytic domain acts as an endonuclease when two nucleotides are removed from the 3' ends of the blunt-ended viral DNA made by reverse transcription. This domain also catalyzes the DNA strand transfer reaction of the 3' ends of the viral DNA to the 5' ends of the integration site.	1.58302e-24
NC_011146.1\|WP_012528780.1\|418054_418411_-\|four-helix-bundle-protein	gnl\|CDD\|183395	PRK12275, PRK12275, hypothetical protein; Reviewed.	3.42923e-34
NC_011146.1\|WP_012528784.1\|427758_428691_+\|hypothetical-protein	gnl\|CDD\|213021	cd10916, CE4_PuuE_HpPgdA_like, Catalytic domain of bacterial PuuE allantoinases, Helicobacter pylori peptidoglycan deacetylase (HpPgdA), and similar proteins. This family is a member of the very large and functionally diverse carbohydrate esterase 4 (CE4) superfamily. It contains bacterial PuuE (purine utilization E) allantoinases, a peptidoglycan deacetylase from Helicobacter pylori (HpPgdA), Escherichia coli ArnD, and many uncharacterized homologs from all three kingdoms of life. PuuE allantoinase appears to be metal-independent and specifically catalyzes the hydrolysis of (S)-allantoin into allantoic acid. Different from PuuE allantoinase, HpPgdA has the ability to bind a metal ion at the active site and is responsible for a peptidoglycan modification that counteracts the host immune response. Both PuuE allantoinase and HpPgdA function as a homotetramer. The monomer is composed of a 7-stranded barrel with detectable sequence similarity to the 6-stranded barrel NodB homology domain of polysaccharide deacetylase (DCA)-like proteins in the CE4 superfamily, which removes N-linked or O-linked acetyl groups from cell wall polysaccharides. However, in contrast with the typical DCAs, PuuE allantoinase and HpPgdA might not exhibit a solvent-accessible polysaccharide binding groove and only recognize a small substrate molecule. ArnD catalyzes the deformylation of 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol to 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol.	2.70821e-07
NC_011146.1\|WP_012528787.1\|431139_432243_-\|homoserine-O-acetyltransferase	gnl\|CDD\|234678	PRK00175, metX, homoserine O-acetyltransferase; Provisional.	0
NC_011146.1\|WP_012528790.1\|433819_434689_-\|TIGR02757-family-protein	gnl\|CDD\|378237	pfam09674, DUF2400, Protein of unknown function (DUF2400). Members of this uncharacterized protein family are found sporadically, so far only among spirochetes, epsilon and delta proteobacteria, and Bacteroides. The function is unknown and its gene neighborhoods show little conservation.	1.1869e-113
NC_011146.1\|WP_012528786.1\|429913_431143_+\|acetate-kinase	gnl\|CDD\|234680	PRK00180, PRK00180, acetate kinase A/propionate kinase 2; Reviewed.	0
NC_011146.1\|WP_012528772.1\|409935_411441_+\|methylmalonyl-CoA-carboxytransferase-subunit-5S	gnl\|CDD\|183445	PRK12330, PRK12330, methylmalonyl-CoA carboxytransferase subunit 5S.	0
NC_011146.1\|WP_012528776.1\|413798_414263_+\|CHRD-domain-containing-protein	gnl\|CDD\|377837	pfam07452, CHRD, CHRD domain. CHRD (after SWISS-PROT abbreviation for chordin) is a novel domain identified in chordin, an inhibitor of bone morphogenetic proteins. This family includes bacterial homologs. It is anticipated to have an immunoglobulin-like beta-barrel structure based on limited similarity to superoxide dismutases but, as yet, no clear functional prediction can be made. Its most conserved feature is a GE[I/L]RCG[V/I/L] motif towards its C-terminal end Most bacterial proteins in this family have only one CHRD domain, whereas it is found repeated in many eukaryotic proteins such as human chordin and Drosophila SOG..	3.99288e-31
NC_011146.1\|WP_012528775.1\|413311_413707_+\|acetyl-CoA-carboxylase-biotin-carboxyl-carrier-protein-subunit	gnl\|CDD\|223585	COG0511, AccB, Biotin carboxyl carrier protein [Lipid metabolism].	1.94789e-21
NC_011146.1\|WP_012528785.1\|428766_429798_+\|endonuclease/exonuclease/phosphatase-family-protein	gnl\|CDD\|197318	cd09084, EEP-2, Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; uncharacterized family 2. This family of uncharacterized proteins belongs to a superfamily that includes the catalytic domain (exonuclease/endonuclease/phosphatase, EEP, domain) of a diverse set of proteins including the ExoIII family of apurinic/apyrimidinic (AP) endonucleases, inositol polyphosphate 5-phosphatases (INPP5), neutral sphingomyelinases (nSMases), deadenylases (such as the vertebrate circadian-clock regulated nocturnin), bacterial cytolethal distending toxin B (CdtB), deoxyribonuclease 1 (DNase1), the endonuclease domain of the non-LTR retrotransposon LINE-1, and related domains. These diverse enzymes share a common catalytic mechanism of cleaving phosphodiester bonds; their substrates range from nucleic acids to phospholipids and perhaps, proteins.	1.4829e-51
NC_011146.1\|WP_012528789.1\|432685_433549_-\|NAD(P)-dependent-oxidoreductase	gnl\|CDD\|224995	COG2084, MmsB, 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism].	1.927e-90
NC_011146.1\|WP_012528782.1\|420610_424003_-\|exodeoxyribonuclease-V-subunit-beta	gnl\|CDD\|273172	TIGR00609, RecBCD_enzyme_subunit_RecB, exodeoxyribonuclease V, beta subunit. The RecBCD holoenzyme is a multifunctional nuclease with potent ATP-dependent exodeoxyribonuclease activity. Ejection of RecD, as occurs at chi recombinational hotspots, cripples exonuclease activity in favor of recombinagenic helicase activity. All proteins in this family for which functions are known are DNA-DNA helicases that are used as part of an exonuclease-helicase complex (made up of RecBCD homologs) that function to generate substrates for the initiation of recombination and recombinational repair. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). [DNA metabolism, DNA replication, recombination, and repair].	0
NC_011146.1\|WP_012528778.1\|415877_417194_-\|DNA-recombination-protein-RmuC	gnl\|CDD\|224241	COG1322, COG1322, Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only].	1.71123e-81
NC_011146.1\|WP_012528783.1\|424196_427421_-\|exodeoxyribonuclease-V-subunit-gamma	gnl\|CDD\|335690	pfam04257, Exonuc_V_gamma, Exodeoxyribonuclease V, gamma subunit. The Exodeoxyribonuclease V enzyme is a multi-subunit enzyme comprised of the proteins RecB, RecC (this family) and RecD. This enzyme plays an important role in homologous genetic recombination, repair of double strand DNA breaks resistance to UV irradiation and chemical DNA-damage. The enzyme (EC:3.1.11.5) catalyzes ssDNA or dsDNA-dependent ATP hydrolysis, hydrolysis of ssDNA or dsDNA and unwinding of dsDNA. This family consists of two AAA domains.	0
NC_011146.1\|WP_012528773.1\|411468_413013_+\|methylmalonyl-CoA-carboxyltransferase	gnl\|CDD\|130187	TIGR01117, methylmalonyl-CoA_decarboxylase_alpha-subunit, methylmalonyl-CoA decarboxylase alpha subunit. This model describes methymalonyl-CoA decarboxylase aplha subunit in archaea and bacteria. Metylmalonyl-CoA decarboxylase Na+ pump is a representative of a class of Na+ transport decarboxylases that couples the energy derived by decarboxylation of carboxylic acid substrates to drive the extrusion of Na+ ion across the membrane. [Energy metabolism, ATP-proton motive force interconversion, Energy metabolism, Fermentation, Transport and binding proteins, Cations and iron carrying compounds].	0

>NC_011146.1|WP_012528780.1|418054_418411_-|four-helix-bundle-protein
METNAVKDKSFAFALRIIKLYQYLCERKEFVISKQLLRSGTAVGALVREAEQAESRADFIHKLAIALKEANETEYWLELLHQSNYLEDKNYQSISSDSKCLLRLLTSIIKTTKMHNKK
>NC_011146.1|WP_012528779.1|417205_418003_-|alpha/beta-fold-hydrolase
MLTQINNIRLAYDDLGHGPAVLLIHGFPLNRQMWQPQLKPLADAGYRAIAPDLRGFGASDAPAAGYSMDRFADDLVALLDALQIDKAVVGGMSMGGYILMNLLERRPDRVRAAAFIATRSNADDEAARQRRSEMAAQAERLGANPITKIFAELLFADDTTVSRPELIAQVTSWMRSTNPNGLAGGLVAIRDRKEYTPLLASFGKPSLVIAGTEDRAAPLDVARVLIEALPGCRTKIIEKAGHMVNMEQPELFNKTLVDFLDSLPD
>NC_011146.1|WP_012528778.1|415877_417194_-|DNA-recombination-protein-RmuC
MTPDLFQLIILLLGAATFVFAFLCYLHLKRAHIAEARFDQLEKGLERLERTLQAELGRNREELGGNLRQFGEAVQKRMVDIASLQKGQLEGFTQQLGSLTASNEQRLDKLRETVELRLKWLQDDNSKKLEQMRATVDEKLHETLEKRLGESFKQVSGQLEQVHKGLGEMQSLASGVGDLKKVLSNIKTRGTLGEVQLHNLLEQILTPDQYGANVATKPGSDARVEFAIRLPGKDDKPLWLPVDAKFPQEDYLRLVEAQEQGNQAAVQEATRQFDKTVAAMAKLICEKYLAPPDTTDFAVMFLANEASYAQVLSRPGLFDAILREHKVIVAGPTTIAALLSSLSLGFKTLTIEKRSSDVWRLLGAIKTEFMTFGTLLEKTRKKLDEASSSIDTAATRTRRIQRKMQGIEQLPEHEAKGLLGGEFGAAEPESEVILIDEA
>NC_011146.1|WP_012528777.1|414469_415606_-|IS481-like-element-ISGebe1-family-transposase
MPWRPVDTMTLRFEFVHLALQEGSNIAFLCKRFNISRPTGYKWISRFLETGVEGLIDLSRKPLTCPHKTVTATEDAILKLREEHQAWGARKLRKRLEKLGHQGVPVPSTITAILRRNGCIDPAESDKHTAFQRFEHPYPNDLWQMDFKGSIPMKHHGRCHPLTVLDDHSRFSVVLVACANERTETVKAALIEAFRQYGLPYRMTMDNGSPWGNDQYNDLTPLTVWLIRNEIRVSHSRPYHPQTQGKDERFHRTLVAEAIAGRVFEDLADCQLRFDTFRHCYNLERPHESLGMETPMTRYKPSRRTYSEILPEIQYAPDDEIRKVQAEGKVSFKGRCVRLAKALRGQPVAFRPTIRDGEYGVYFCSQKIAEVDLKEQKV
>NC_011146.1|WP_012528776.1|413798_414263_+|CHRD-domain-containing-protein
MKRVRLLLLVVLAAFFAVSTGYAAEHSFKAKLSPKEEVGKPDAKSSGKAEFKLSKDGKELTYKLHVKDVVDASAAHIHVGKKGENGPPIVGLFSGGKKGKFSGVLSEGKVSGNDLMGDYKGKFDELVKLMRSGDTYVNVHTDKYPDGEIRGQIK
>NC_011146.1|WP_012528775.1|413311_413707_+|acetyl-CoA-carboxylase-biotin-carboxyl-carrier-protein-subunit
MQLTMTIDGKKYRVDVEVEEGEEVRTEGAFPPTATMQAYPVYSAHPTATPPLAAPTPASSSEKICRSPIAGVVFKIVAQVGQHLEMNDLLVVLEAMKMETNITAHMSGKVEKILVSVGEAVQPGQAIAEFA
>NC_011146.1|WP_148212883.1|412993_413221_+|hypothetical-protein
MASFRCKGEAVDEEMEQEHDPEITPELLMVMSAAIAAYLGKTVRIRRARFVDPNLINAWGQSSRVVLQASHNLRR
>NC_011146.1|WP_012528773.1|411468_413013_+|methylmalonyl-CoA-carboxyltransferase
MSIEEKIKALNDKKSKLKLGGGRSKIDQQHAQGSLTARERIEALVDKDSFQEIGIFARHRCTNFGMAGKELPAEGVVTGAGSVGGRMVHLASQDFTVAGGSAGEVHSDKIVQAMLGSLKTGTPFVFMNDSGGARIQEGIDSLAGYGKVFYHNVMLSGVVPQISLICGPCAGGAAYSPALTDFIIQTAKARMFITGPSVIKEATGEEISAEELGGPLSQMNHSGVAHFVAENDLVALRICKKLLSYLPSNNIEDPPQLESDDVIVPDKTLNSIVPSEQKKAYDVRNVITRLIDGGDFLEVQPLFAANIVVGFGRILGRSVGIVANQPSVLAGALDINASDKGARFVRFCNAFNIPLVTLVDVPGFLPGVQQEKGGIIRHGAKMLFAYAAATVPKITVIMRKAYGGAFLAMCGKELETDRVFAWPSAEIAVMGPQGAVNVIFRNEIAQAEDPKKKRDELIASYQGTFATPYAAAARRDVDDIIEPADTRRHLAMTLDILSTKREFRPMKKHGLIPL
>NC_011146.1|WP_012528772.1|409935_411441_+|methylmalonyl-CoA-carboxytransferase-subunit-5S
MDRIIDITELALRDAHQSLIATRLGIDDMVPVCEDLDQAGYWSIECWGGATYDACIRFLNEDPWVRLRTFKELMPKTPLQMLLRGQNLLGYRHYQDEVVDRFVQKSAENGIDVFRIFDALNDLRNLERSVQAVKQCGKHAQVAISYTISPIHTTAKFVEQAKRLVDMGCDSICIKDMAALIKPHATYDLVRGIKEACGDRIRIQLHAHATSGVTMVSYMKAVEAGVDGVDTAVSSMSLGPGHNPTESFAEMLENTGYTTRIDLGRVNKVKEHFAKVLPRYSEFLSTITGAETEIFRSQIPGGMLSNMESQLKQQGAGDRMRDVLEEIPLVRKDTGYVPLVTPTSQIVGTQAVLNVLMGRYKVLTGEFADLMLGYYGLTPGERNPEVVEQARRHANKEPIECRPADLLEPEWGKLRAAALPLEGCDGSDEDVLTYALFPQVAPKFFATRSEGPRNLGRDPVTGASETSIPEGHPGKITGPVTYTVTLSGQPHKVTVAPYGQE
>NC_011146.1|WP_012528771.1|408558_409578_+|glycosyltransferase-family-4-protein
MRVGIISPNYFAEETGNAVTVRRIERHLRALGCEVKVFATDRVAGEQLQAAVKEFAPDILHAFHAYHGGRVACALAKALGVPYLVTFTGTDIYKALCDQRNMELHGALRGASRLVAFHGCIRHRLAEHMPTLEERTAIIPQGVDLPDDYSPLPPAEEQAFTFLLPAGLRPVKNVLFPLEPLAALYADHPQVRLLLAGPVLDKDYAAQVMEALERYPFARYLGVVGHDRMGDLYRRVDVVLNSSLSEGGMANTVLEAMAYAKPLLVADIEGNRSVVKENVTGLLYRDAGDLVAKAGKLAANARLREKLGNNGRAQVRDHYSPDKEAASYLTLYRDILQKN
>NC_011146.1|WP_012528782.1|420610_424003_-|exodeoxyribonuclease-V-subunit-beta
MKRFDLLHTPLAGRNLIEASAGTGKTFTIAGVYLRLVLEQKFDVSRILVVTFTEAATKELKERIRNKLKEAENGFLTGATDDFLIEGLLKSTQDHSEARRLLSSAIRSFDEAAIFTIHGFCQRMLQDNPFESGSLCDTELVTDQGKILMEIAQDYWRINCYGQPEERIAAAGAAKVSPESLLKLVQRVCGDPNAAVIPDPPADANELDDWLQGLKRGFFDYLRAELPKRKRLKNLRSFDDLLLDLHAALLRPASTLPRLIRERYQAALIDEFQDTDPLQFAIFDAIYPVGHEAPFFLIGDPKQAIYSFRGADIFAYMGAAQATKERHTLLQNFRSEAGLIDAVNALFASRELPFLYPQIGFNKVEAAPKEKSRLVEAGQRKAPLKLWLAPRKDAGKPINKGDAWEQLPETVAAEISRLLRDGADGKLTVEELRKDAEEGSENWVQRAVEPRDIAVLVRANRQAKLMQRALTHRGIPSVLCSAGNLFESDEAAELLRLLSAVAQPGHESLLRGALATDLVGVSGTELARLMDDEKGWEEILEEFRSYHDTWNSGSCMSMALQFMEKREVRKRLLAEPMGERRLTNLLHAIETIHQAQVNERLGMEAVISWLACRITEEPKKDEYEIRLETDEAAVQLVTIHKSKGLEYPIVFLPFCWAEYAGKDEGALFHDEDGRVVLDIGSEQMGEHKAQAAREALAESLRLLYVALTRGKHRTYLTWGVFKDAGDSALHYLLHPGETPVKGQVTLSDADIRKRLDTLAASSAGRIEVLDLPAADLAPYRAHDKKAPDLAPLPFTGAISRDWRVASFTSLSSHKHHTAELPDRDEGSPVEERPVHDVEPTGIFAFPKGAKAGIFLHKIFEDLDFTRVGEQLSPLVKEQLDKHGFAPDWSQAVRDMVQNVLQAPLGDGEIALAQVGLERRLTEMEFFFPLSHVTSDRLREAAARFTAGHGTAGVAGLPVDLADLFSRLSFAPVQGMLLGFIDLVFEHGGRYYIVDWKSNHLGNTPGNYGQAALKKEMEENFYPLQYLLYTVALDNYLRLRIPGYDYDRHFGGVFYLFLRGVDGTGNGVYADRPPRELIAHLAEVLLPESARPSRIDEPSPSPLPSPAGRGGVGKKPRKTEIEGQLSLDLFD
>NC_011146.1|WP_012528783.1|424196_427421_-|exodeoxyribonuclease-V-subunit-gamma
MPLKIYTSNRMERLVDELERVVRAPRPAPCTPFDKELVVVQNKGMQRWLSMELATRIGVWANGDFLFPNKFVEEVFAYVLPESPADAPLFAPEVMTWRILELLQQSAGRAGFEEVAGYLADDGDGLKRMQLARRISDTFDRYTIYRPKELLRWEQGEEEHWQAQLWRALNDRAGQKHRARLLHDFLASRKNDRSWRRRISVIGIPSLPPFHLDVLAKVAEHAEVNLFLLNPCRQYWGEIVSERELARLEKHGQGEEQWYETGNPLLASWGKLGRDFFKAIIDDCGDHEREDSFYELPQGVLLHEVQADIVELRGAEAGPRQVQAGDLSLKIHSCHSPMREVEVLYDTLLSLFDADPLLSPRDVLVMTPDIEAYAPYISAVFDNPEEDRKRIPYSIADRSLKNEGEAARALVAILGLCGGRYGVATVLDILESPPVARRFGLSGDDLENVRDWLRGANIRWGIDASQRAEHGVPPFSENSWAAGLDRLLLGYAMNGDGRSFYNGILPYDDMEGGVALSFGRFLTFCEKLFAQTGALSRPRVPSEWVPALRQILDDFILPDQEGEREFLLLIEMAKKLGEFPAAAGFEEEIGIEVVRYWVEQQLGASKRDLGFLTGNVTFCAMLPMRSIPFPVVALLGMNEGEFPRRNPPQGFDLMTREPRSGDSSPRDEDRYLFLEALLSARKRLHISYVGQSIKDNAELPPSVLVSELLDYLERAFVTPEGKPAAEVARHPLQPFSLQYFNRDSALFSYSQQNCEGAKAKLSSPTPREPFLDAPLPAWEEEGTVTLKTLIDFLCNPAKELLRRRLGIRIEQGVEPLEESEPFALDTLAKYQLEQEMVTALLRGEELDTPYAVACARGDLPPGVCGSALFRKLGEPAQEFAAKVVEASDGEPLPPLDIDLVLPGGRIIGRIENLRTDRMVRYRYTKLKAKDQLRLWVEHLALNCAKAEGYPLESSFVASDSTIHLPPVEACTEHLDRLLELYRMGMTCPLKFFPESSLEYAKKSRDPKKAAKALADALGKWHGSEFYEGEGKDEHCRRCFGDDAPLDEEFATLALQVWEPLLELQKAKGKGKDRL
>NC_011146.1|WP_012528784.1|427758_428691_+|hypothetical-protein
MKLITEEMVARAYYWVKPLMSRKLQILLRRVVARRKRALHRSIWPIDPDAGGKPAGFPGWPNGNRFSVVLTHDVDTARGLERCEELMELEKEMGFRSSFNFVAHDYVLPPELRRKLVEQGFEVGVHGLEHNRKLYESPDTFARQAALINGYLKEWGAVGFRSPCVYHNFEWLHQLDISYEASAFDTDPFEPQSDSLRTIFPVHQTAVPGREYVVLPYTLPQDFTMFILFREKGIGIWKEKLRWIAEHGGMALLITHPDYMNFDGNRQFDEYHCELYRELLEHIRTEYQGEYCHLLPHEIASFWTERVALR
>NC_011146.1|WP_012528785.1|428766_429798_+|endonuclease/exonuclease/phosphatase-family-protein
MRPVLWLNLLYAAVIAAIALSHRIGADRFWPGALNLYLPQVMWALPGIILLPVTWKAERPWVWLPLCALMWVIGPVMGYNWPLNREKGEVSGTPLRVMTWNIKYGKHDLMPLVEELERSRPDIVLFQDAVRAGAGPLAGYFKDWHLLSQGRYLIASRYPLSAAEVFELPYSGRSKEYLLRCKVRVGSSEISLYDVHFKTPRRSLNAFRKAKQGPWYIPDAVERFEDNVTLRLIQARTVAGYLSREKGPVLVAGDLNSPDSSLVCRTLREAGLADAFAAAGEGYGYTYGHFLLKNRIPLLRVSWMRIDHVMTNSWLTASRCRVGTGRASDHRPVIADFLLKNSP
>NC_011146.1|WP_012528786.1|429913_431143_+|acetate-kinase
MLILTLNCRSFSVQYQLFDWGQNRTLASGNVERIVIGDTFLIHKVPGKEPRQLDADCADHTQALQFVLDTLTDAKDGVLPDVASIRAIGHRVVHGGERFTRSVLIDDDVVAAIKETANLAPLHNTPNLAGIRAAQELLPDLPQVAIFDTAFHQTMPEKAYIYPLPYDWYKQHGIRRYGFHGQSHLHAARRGAALAGVPLERCNLVTVHTGNGVSLCALKNGVSVDTSMGLTPLEGVMMGTRCGDIDAGIVPFMINEAGISATDMDLFLNQKSGLAGIVGRRVSRRTVVDEAVVGDARCQLALDMESYRLRKYIGAYIAVIGKPDAIVFTYGEGWEDWPVRGMALKGMEQFGIEVDLKRDEEALRGEREMLISADSSKVKVFALPSGEEMMLNEDVAAIMGWPVREAGAA
>NC_011146.1|WP_012528787.1|431139_432243_-|homoserine-O-acetyltransferase
MSYGIVTEQIATFDTELRLESGRILGPIDIAYETYGTLNESRSNAILVTHAWTGSAHLAGRYSEDEKRAGWWDEIVGPGALLDTDRYFVICSNVIGSCFGSTGPTSINPKTGKRYNLAFPVITVRDMVKAQALLMDRLGIGKLFCVLGGSMGGMQALEWATQFPERVGSAVVLATTPRPSAQAISLNAVARWAIFNDPNWKKGEYRKNPKDGLALARGIGHITFLSDESMTAKFDRRFSARDGQFDFFGQFEVERYLTYNGYNFVDRFDANSFLYLAKALDLYDVASGCESLEEAFAPVTAPIQFFAFTSDWLYPPAQTEEMVASLKTLGKQVEYHLITSAYGHDAFLLEHQTFTPLVESFLDRVKV
>NC_011146.1|WP_012528788.1|432518_432689_-|hypothetical-protein
MKKLLSLAAVTLLTSAFLDPLIYSGLDKPIPWGRDALMAVGGVVCFYLLVKYRNDL
>NC_011146.1|WP_012528789.1|432685_433549_-|NAD(P)-dependent-oxidoreductase
MEQYGFLGLGIMGSAMAKNLLKAGFKVTVWNRSQEKCAEFAALGATVAATPAEVTSSCSVTIAMLADPAAAHAVCFGPEGALEGIGAGRGYVDMSTVDAATAQEIGAAVTGKGGRFLEAPVSGSKKPAEDGTLIILAAGDRGLFDQALPLFEKMGKKSLYLGEVGRGAQMKLIVNMVMGGMMTIFCEGLALADKAGLECSDLLDVIDAGAMANPMFKLKGAQIGQENFATAFPLKHMQKDMRLAVALGDQLGQPLFSASAANESFKRARSQGFSDQDFSAVFKAIAS
>NC_011146.1|WP_041262526.1|433631_433823_-|hypothetical-protein
MTAVSPAYLHGYSFYAPAGEVYQSRFQAPFPPHDSPFYCGDSRPSVDAAASDRGGAAMRRRSF
>NC_011146.1|WP_012528790.1|433819_434689_-|TIGR02757-family-protein
MRSSLELKTVLDSLYAVRSQEHLANDPLSFCHRYADPRDQEIAGLIASSFAYGNVKIIKKNLAWIFDRMGDSPRRFVERLEPEQGSRLFAGFKHRFNDARDLCALLFACRTMLEQAGSVEGWLLQFHVQGEEDLTGTLSGFSEAVKSLDFTPVFGAATPPADSYFPFFFPSPASGSACKRLCMYLRWMVRPADGIDLGIWKGIRPDQLVIPVDAHIQRICRLLGFTARKQADWRMAREITAALRELDPADPVKYDFSICHLGISEGCDGKDHLKCVACPIAGLCPVGSP

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Crispr_ID: NC_011146_3

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_011146_3

873404-873511

Orphan

Consensus_repeat	Method
CGTTCGAGAGGCATTCCGGCCCGTAGC	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_011146_3

>merge|NC_011146|3|873404-873511|CRISPRCasFinder
CGTTCGAGAGGCATTCCGGCCCGTAGCGCCCGCACCGCGACGGCGCCCAAAGCCGAAAGCCGTTCAATGTTCAACGTTCGGCGTTCGAGAGTCATTCCGGCCCGTAGC

>NC_011146|3|3|873404-873511|CRISPRCasFinder
CGTTCGAGAGGCATTCCGGCCCGTAGC	GCCCGCACCGCGACGGCGCCCAAAGCCGAAAGCCGTTCAATGTTCAACGTTCGG
CGTTCGAGAGTCATTCCGGCCCGTAGC

Protein	Signature genes	Signature genes Name	Protein_function
NC_011146.1\|WP_012529177.1\|877884_878397_+\|purine-binding-chemotaxis-protein-CheW	unknown	unknown	gnl\|CDD\|223905
NC_011146.1\|WP_012529181.1\|882399_883467_+\|chemotaxis-response-regulator-protein-glutamate-methylesterase	unknown	unknown	gnl\|CDD\|234828
NC_011146.1\|WP_083770298.1\|865681_867568_-\|phosphoenolpyruvate-carboxykinase-(GTP)	unknown	unknown	gnl\|CDD\|235256
NC_011146.1\|WP_012529164.1\|862460_863651_+\|SpoIIE-family-protein-phosphatase	unknown	unknown	gnl\|CDD\|225118
NC_011146.1\|WP_012529176.1\|877489_877888_+\|response-regulator	unknown	unknown	gnl\|CDD\|381093
NC_011146.1\|WP_012529175.1\|876639_877467_+\|purine-binding-chemotaxis-protein-CheW	unknown	unknown	gnl\|CDD\|223905
NC_011146.1\|WP_012529170.1\|869831_871154_+\|ribosome-biogenesis-GTPase-Der	unknown	unknown	gnl\|CDD\|234628
NC_011146.1\|WP_012529173.1\|873735_875796_+\|chemotaxis-protein-CheA	unknown	unknown	gnl\|CDD\|223716
NC_011146.1\|WP_012529169.1\|868411_869482_-\|alanine--glyoxylate-aminotransferase-family-protein	unknown	unknown	gnl\|CDD\|223153
NC_011146.1\|WP_041262604.1\|863943_865533_-\|phosphoenolpyruvate-carboxykinase-(ATP)	unknown	unknown	gnl\|CDD\|236471
NC_011146.1\|WP_148212887.1\|861789_862173_-\|hypothetical-protein	unknown	unknown	unknown
NC_011146.1\|WP_012529168.1\|868207_868366_+\|rubredoxin	unknown	unknown	gnl\|CDD\|238372
NC_011146.1\|WP_012529180.1\|881536_882403_+\|protein-glutamate-O-methyltransferase-CheR	unknown	unknown	gnl\|CDD\|224271
NC_011146.1\|WP_012529171.1\|871231_873010_+\|response-regulator	unknown	unknown	gnl\|CDD\|373017
NC_011146.1\|WP_012529178.1\|878390_879518_+\|zinc-ribbon-domain-containing-protein	unknown	unknown	gnl\|CDD\|381093
NC_011146.1\|WP_012529182.1\|883492_884314_+\|GAF-domain-containing-protein	unknown	unknown	gnl\|CDD\|379221
NC_011146.1\|WP_012529165.1\|863700_863892_-\|hypothetical-protein	unknown	unknown	unknown
NC_011146.1\|WP_012529172.1\|873011_873377_+\|response-regulator	unknown	unknown	gnl\|CDD\|381110
NC_011146.1\|WP_012529174.1\|875795_876596_+\|AAA-family-ATPase	unknown	unknown	gnl\|CDD\|132060
NC_011146.1\|WP_012529179.1\|879596_881537_+\|HEAT-repeat-domain-containing-protein	unknown	unknown	gnl\|CDD\|237512

Protein	Function_ID	Function_description	E-value
NC_011146.1\|WP_012529182.1\|883492_884314_+\|GAF-domain-containing-protein	gnl\|CDD\|379221	pfam13492, GAF_3, GAF domain.	1.57444e-18
NC_011146.1\|WP_012529181.1\|882399_883467_+\|chemotaxis-response-regulator-protein-glutamate-methylesterase	gnl\|CDD\|234828	PRK00742, PRK00742, chemotaxis-specific protein-glutamate methyltransferase CheB.	4.40771e-140
NC_011146.1\|WP_083770298.1\|865681_867568_-\|phosphoenolpyruvate-carboxykinase-(GTP)	gnl\|CDD\|235256	PRK04210, PRK04210, phosphoenolpyruvate carboxykinase (GTP).	0
NC_011146.1\|WP_012529164.1\|862460_863651_+\|SpoIIE-family-protein-phosphatase	gnl\|CDD\|225118	COG2208, RsbU, Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription].	9.75002e-50
NC_011146.1\|WP_012529176.1\|877489_877888_+\|response-regulator	gnl\|CDD\|381093	cd17538, REC_D1_PleD-like, first (D1) phosphoacceptor receiver (REC) domain of response regulator PleD and similar domains. PleD contains a REC domain (D1) with the phosphorylatable aspartate, a REC-like adaptor domain (D2), and the enzymatic diguanylate cyclase (DGC) domain, also called the GGDEF domain according to a conserved sequence motif, as its output domain. The GGDEF-containing PleD response regulators are global regulators of cell metabolism in some important human pathogens. This model describes D1 of PleD and similar domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.	4.02169e-39
NC_011146.1\|WP_012529175.1\|876639_877467_+\|purine-binding-chemotaxis-protein-CheW	gnl\|CDD\|223905	COG0835, CheW, Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms].	5.63088e-44
NC_011146.1\|WP_012529170.1\|869831_871154_+\|ribosome-biogenesis-GTPase-Der	gnl\|CDD\|234628	PRK00093, PRK00093, GTP-binding protein Der; Reviewed.	0
NC_011146.1\|WP_012529173.1\|873735_875796_+\|chemotaxis-protein-CheA	gnl\|CDD\|223716	COG0643, CheA, Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms].	0
NC_011146.1\|WP_012529169.1\|868411_869482_-\|alanine--glyoxylate-aminotransferase-family-protein	gnl\|CDD\|223153	COG0075, COG0075, Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism].	6.51012e-119
NC_011146.1\|WP_041262604.1\|863943_865533_-\|phosphoenolpyruvate-carboxykinase-(ATP)	gnl\|CDD\|236471	PRK09344, PRK09344, phosphoenolpyruvate carboxykinase.	0
NC_011146.1\|WP_012529177.1\|877884_878397_+\|purine-binding-chemotaxis-protein-CheW	gnl\|CDD\|223905	COG0835, CheW, Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms].	6.49232e-41
NC_011146.1\|WP_012529168.1\|868207_868366_+\|rubredoxin	gnl\|CDD\|238372	cd00730, rubredoxin, Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.	6.16599e-21
NC_011146.1\|WP_012529180.1\|881536_882403_+\|protein-glutamate-O-methyltransferase-CheR	gnl\|CDD\|224271	COG1352, CheR, Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms].	2.78241e-91
NC_011146.1\|WP_012529171.1\|871231_873010_+\|response-regulator	gnl\|CDD\|373017	pfam14332, DUF4388, Domain of unknown function (DUF4388). This domain family is found in bacteria, and is typically between 102 and 135 amino acids in length.	6.11555e-17
NC_011146.1\|WP_012529178.1\|878390_879518_+\|zinc-ribbon-domain-containing-protein	gnl\|CDD\|381093	cd17538, REC_D1_PleD-like, first (D1) phosphoacceptor receiver (REC) domain of response regulator PleD and similar domains. PleD contains a REC domain (D1) with the phosphorylatable aspartate, a REC-like adaptor domain (D2), and the enzymatic diguanylate cyclase (DGC) domain, also called the GGDEF domain according to a conserved sequence motif, as its output domain. The GGDEF-containing PleD response regulators are global regulators of cell metabolism in some important human pathogens. This model describes D1 of PleD and similar domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.	1.38266e-17
NC_011146.1\|WP_012529172.1\|873011_873377_+\|response-regulator	gnl\|CDD\|381110	cd17562, REC_CheY4-like, phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY4 and similar CheY family proteins. CheY family chemotaxis response regulators (RRs) comprise about 17% of bacterial RRs and almost half of all RRs in archaea. This subfamily contains Vibrio cholerae CheY4 and similar CheY family RRs. CheY proteins control bacterial motility and participate in signaling phosphorelays and in protein-protein interactions. CheY RRs contain only the REC domain with no output/effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.	6.64904e-36
NC_011146.1\|WP_012529174.1\|875795_876596_+\|AAA-family-ATPase	gnl\|CDD\|132060	TIGR03015, pepcterm_ATPase, putative secretion ATPase, PEP-CTERM locus subfamily. Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems. [Protein fate, Protein and peptide secretion and trafficking].	6.52826e-71
NC_011146.1\|WP_012529179.1\|879596_881537_+\|HEAT-repeat-domain-containing-protein	gnl\|CDD\|237512	PRK13800, PRK13800, fumarate reductase/succinate dehydrogenase flavoprotein subunit.	8.06466e-15

>NC_011146.1|WP_012529172.1|873011_873377_+|response-regulator
MKRILIAEDSNTMRSMLVSTIDELEKYSIVEAASGFEALRLLPREQVDLIITDINMPDINGLELISYVRNNPNYQLIPLFIVSTESGEKDLEKGLALGANEYIVKPFDPVRLQELVSKYLD
>NC_011146.1|WP_012529171.1|871231_873010_+|response-regulator
MSLVGNLEDLGLGEILQIVSLSRRSGVLSLESRGREARVIFRNGQVIRATSTTFQQNLGEVLIQQGVIDLAILKRALSIQAEEGYSQLLGGIMIDRFGVSADAIEAVVREQIENVVYSLFAWAEGTFEFELQEVNEADSTRLDPVQFMLKQGLNPQYLAMEGSRIIDEQRHRGESGDEMEAPAAPEETLDLAFDLLQEAPAQAVASAEPIPTPDFPPPQPDEQQDEQLFPAAPFASAAEAEEPAAAEAPSRLVLVDDDPETLAALAGLLEREGYLVDALEKGEDALIRVDSLFREGVQPTVVVDLIMPRMDGTGILGGLELMELVRNNFPEIPLLGLSDFHNDEAQKKLRSMGIPILIKPLKGELEDALDVFAPRLFKALANLSSVEEASFSSVNIGDELRLELGEEPALVAPHGNQSTGISQLRGMLEELNNPQLGGGIILLVLRFAAEFVNRAVVLLVKKESVQGLGQFGLQDKDGSADYRIRNLSIPKGEPSLFTEVLETRFPVKGEVEPSHWSNYFLEQLGGGHPAEAFVGPIVSEGKVVAVLYGDNLPEAKPVGDTDSLEIFLSQAGIAMEKALLQRRLQDQGRGEI
>NC_011146.1|WP_012529170.1|869831_871154_+|ribosome-biogenesis-GTPase-Der
MKPIIAIVGRPNVGKSTLFNRLVGRRKAMVDDMPGVTRDRNYAEVNRFDVPFILVDTGGFEPETSDRLLQQMREQSRFAMDEADLILFIMDARGGLTPADRDVVDMLRRINKPVFYIINKVDGEKQEAEAGDFYSLGVDHIHTISAEHNRGVGDLMDEVLAAIPYDREKELDEEITRIAVVGRPNVGKSTLVNRLLGYERVVANPTAGTTRDAVDTRFTVNKKPYLLIDTAGIRRKGKTVQKVEKYSVMDALRSIERADVVLIVLNAEEGVTEQDSKIAGYAYEAGRGCIFVVNKWDTLAKDNSSIAKFTEEIRRNFKYLPFAPILFVSAETGQRTGKIIAEVDQVMEQYCKRVTTGELNRVFTQAVDENHAPLSAGRRVKFYFATQVAVKPPSFVVFTNCPEGIHFSYERYIMNRFREAFGFNGTPLKLIFRGRDKKDA
>NC_011146.1|WP_012529169.1|868411_869482_-|alanine--glyoxylate-aminotransferase-family-protein
MHKKLFIPGPIEVSPEILKAMGTPMIGHRMPEYAQLHKGVTDKLKQLMFTKERVFLSTSSAFGAMEGAVRNLVGKRCANFCNGAFSDKWHNVTLACGKEADAFKVAWGEPITPELVDSALATGKYDAITLIHNETSTGVMSPLPEIAQVLKKYPEVVSIIDTVSSMSALKLPVDELGIDCCVFGVQKAFALPPGLAVFTASEKALERAKGVPGRGYYFDFLEFLAADEKNNTPSTPCISLIYAMDLQLERIFAEGLEKRWERHAKMAEFMRAWVKEHGFGLFPAEGYRSVTLTCASNDRGVDLGLMKKQLGERGFAFDDGYGKIKGKTFRVAHMGDMQLENLKEITTEMEGILQGL
>NC_011146.1|WP_012529168.1|868207_868366_+|rubredoxin
MEPYICTVCQYVYDPYLGDPDNGVPPGTPFADLPVDWVCPVCGVGKEAFEPE
>NC_011146.1|WP_083770298.1|865681_867568_-|phosphoenolpyruvate-carboxykinase-(GTP)
MESYPKEGVKMSYEVKNKQLLAWVKEVAEMCQPDSIHWCDGSEEEYNSLCDLLVKGGTFRKLNPEKRPNSYLACSDPGDVARVEDRTFICSLAKQDAGPTNNWMPPKEMKKTLTGLFTGCMKGRTMYVIPFSMGPLGSNIAKIGVEISDSAYVAVNMKIMTRMGKKVVDILGENGEFVPCLHSVGAPLAAGQKDVTWPCNKEKYIVHFPEERSIWSFGSGYGGNALLGKKCLALRIASKIAKDEGWLAEHMLILGLENPEGEKTYLGAAFPSACGKTNLSMLVPPDHFKNSGWKVSTVGDDIAWIKPGADGQLYAINPEAGFFGVAPGTSFKSNPNAMHSCAKNTIFTNVALTPDGDVWWEGMTDELPAKLTDWQGNEWTAGCGRNAAHPNSRFTSPANQCPSIDPAWEDPKGVPMKAFVFGGRRNNVIPLVYQSFNWSYGVYLAATMGSETTAAAVGAIGNVRRDPFAMLPFTGYHVADYFNHWLQVGRTTPNPPRIFSVNWFRKDANGKFLWPGFGDNMRILKWIADRANGRGASVESPLGWMPRYEDIDWTGLNSVSREQYHELMSIDRDVWKEEILSHEELFVKMYDRLPKEFLHIREMILSGLWRSPEHWEQFNPLSAEGFND
>NC_011146.1|WP_041262604.1|863943_865533_-|phosphoenolpyruvate-carboxykinase-(ATP)
MRFNDITRGSGLEQHGITNPNLIYWTSPTSVLYEQVVRRGEGLISHLGALTVKTGHYTGRAANDKFIVDEPESSSHINWGKVNRPFPPESFDHLYKKMTNYMQGRDLFVQDCFAGASPEHRIPVRIISERAWHALFARNMFLRATPEELLTHNTEFTVIDLPAFHAQPKADGTNSEAFIIINFARKLVIIGGTSYAGEIKKSIFTVLNYLLPQKGVMSMHCSANAGEKGEVAIFFGLSGTGKTTLSAASNRLLIGDDEHGWDDAGVFNFEGGCYAKVINLSPQSEPEIYQCTRKFGTILENVAIDTISRRIDLDDASFTENTRASYPITHIPNIVGAGAGGHPNHVIMLTCDAFGVLPPIARLTPAQAMYHFLSGYTAKVAGTEAGVTEPQATFSACFGAPFMALRPSLYADLLGKKIASHQVSCWLVNTGWSGGGPGVGERMKIAYSRALVNAALDGTLGAGSFVKDPVFGLDIPTACPGLPADILNPRNVWSDKGAYDATAQKLVEMFRHNFEQFKSTTSPEIASVL
>NC_011146.1|WP_012529165.1|863700_863892_-|hypothetical-protein
MKKVHSEICDTTERKEQRVRVKNTRTGEIGLSYGCTIEGDTVQVELSDGSLDSWPEDDCEMIS
>NC_011146.1|WP_012529164.1|862460_863651_+|SpoIIE-family-protein-phosphatase
MRTTILVVDDSKSMRRIIVDSLKDEGYECRSAEDVDTALIALDGCEFSLVLCDIEMPGRNGIFLLNEIRTTRPDTYVVMLTGVTDPETVMHCIHLGANDYLMKPFTLERLLLTVRNALQQRKLYLEHRSYQETLEQKVLEQTEQIRASLLEKALITKEMEIAGAIHAALVPRFIPSTPRLSFAAHYLSAGPLGGDYFDIFHRGDGLVDVVIADVAGHNIGSALIVAQLRGALRVQASAARLGCAEMLKLINESFYEDLTGAEIFVSMLYLRLDEVSMQLQYACAGHNPGIMLRADGSVLELDAEGMIIGVAREVDFEEKALPLEAGSRLMLYTDGIVEAENGAGELFGLAKFVASLSEAREGEPGVLVEAALSSMKRFTSAAPLKDDLTVVVVGVS
>NC_011146.1|WP_148212887.1|861789_862173_-|hypothetical-protein
MLVTYCDVLATYRDVLVTYCDVLVTYRDVLATYHDVLVTYHDVLVTYHDVLVTYRDVLATYRDVLATYRDVLVTYRDVLVTYRDVLVTYRDMLVTYRDVLATYRDVLVTYRDVLATYRDVLATYHDV
>NC_011146.1|WP_012529173.1|873735_875796_+|chemotaxis-protein-CheA
MSVDESIGKAVKDFLAEAEEILDQLSLDLVSLSDCADGGECSPDLVNSVFRGAHSLKGLAGMFGFTDIAELGHHLENLLDALRLGKVELDQSVVSTLFESTELLGTLVRNAGEAVAEPVDLSAAMQHINDCLSKKPAGAGDSPLAKLNLPERVLSSMTEYEEHRLLENVKKGRRIYSIHISLQLTSFDSDLMELTEQLKLVGEVISTLPSASGGLAGGIDFEILFGCDLEGAELAPLIDRDNLELTEFGKPAAAPAVSGRAAEPGQAPDREPAEEEAHLPAPVEPGAISAKSMSRTVRVDIGKLDLLMNIVGELVLSHSMIAEVAGRMRLNGLLVPSQELGKAAKGLEKKLSELQKGVMEIRMIPVGQLFEKMSRIVRKISREQGKKVELKLFGADTELDKLIIEDISDPVMHIVRNSIDHGIETPEARVAAGKDEKGTITLSSYQKGNHVVIEVDDDGGGIDVSRVKKKALQLGMIGSLDEVSDRDALDFIFRPGFSTTDTVSEISGRGVGMDVVRTNIAALSGMIDLENYPGQGARFIITLPITLAIIKALIITAAGRTYALPITSVLESIIVEQKEIMTVERKEVIQLREATLPLLRLSEFFQLKGGEASPESCYVVVVGVAEKRLGIVVDDLLGQQDIVIKSIGDTFAGFRGISGAADLGDQRTILVLDVGSVIGEATRGSA
>NC_011146.1|WP_012529174.1|875795_876596_+|AAA-family-ATPase
MYKEFYGLAEKPFSKTPDPRFLYMSSGHQEALARLEYAVEESEIALLTGDIGCGKTTISRALMDRMGDRYHFLFVFNPRLTADELLRVIASGLQVESPSLQKDLLLQEITGALYRMHGEGRIPVVVIDEAQLIPDRELFDELRLLTNFQLDDMNLVSVIVMGQPELRGMLASPVYEPFRQRISLNFHLAPLGLEETLEYLDFRIVAAGGEPGLFSPDAVQRIYELSGGVPRRINAVATNALLIGFGRDASWIDASIVEETAAELLS
>NC_011146.1|WP_012529175.1|876639_877467_+|purine-binding-chemotaxis-protein-CheW
MNLAEIRKKALRGETQGTAREEASEPVASWQIPVIDPSPVAAVDDPPQFPAADFGVEEFPAPEFDAPGGEGGAQVPWRAETSRQPAAETNSLQLLALPCDDDPDDFDPATVILRGRETASFEGELSQQEEVAAASVELLCFRVANEEYAISIMDIKEIIKPREVTEVPRVPDFVRGILSLRGNIIPIFDMRVRLGLAGGSRSERERVIVVSRQGGFAGVLVDEVVQVVRIPEEGIEPPPVVLEGIDREFVLGIGRVAGRMLILLDMEKVLDVGLL
>NC_011146.1|WP_012529176.1|877489_877888_+|response-regulator
MEKNRILVVEDEESLLKLESILFTSKGYQVTGVRGGVDALRSISQDRPDLVVLDIMLPDMDGFEVCRSIKEDPETRSIPVVMLTAKKSSRDLEAGRVAGADAYITKPFKSVKVLEVIGGLLKNQATGRGDRS
>NC_011146.1|WP_012529177.1|877884_878397_+|purine-binding-chemotaxis-protein-CheW
MTTQELQEIQVACLKMGDGLYAVDIMRIREIIRVPRLAPLPRALPFVEGVINLRGSVIPVLDLRKRFGLPPAENSENARLLILSISGQPIALMVDEVTEMITIPLRELKAPPRGVRIVGGEYMVGLCLVREVPVMLLNIDALLTFQEKAELGIFSPQTGGTSTNKKSSAC
>NC_011146.1|WP_012529178.1|878390_879518_+|zinc-ribbon-domain-containing-protein
MLIVCPNCKKRFNVDPGTPDQPKKLRCSNCRAVFRLVRKGERSEGAKSKLKVVIANESASFCQAVEKVLSHEPFQLFLCTDGKEALETVQQVTPDVLLLDVALPTMFGFEVCERVRQDPALANVKIVLIASIYDKTRYKRSPNSLYGADDYIEKHHIPDSLVPMIYRLASGSEPQAQSPTESELAEQEETRSEIRQCEVEETSTVEVAAPAAEPAAEPVAEPVAEPVAEPVAEPVAPVQSDQSDQSDQSDQSDQSDQSDQSDQSDQSDRSESDSAPAPAAAPAPTPAPASEEVPPEHVKARRLARIIVSDIVLYNQAKFEQGVREGTFHQLLADDIREGENLYRQRVSQQVRDTTSFLKEAFEEVIAKKRAELNL
>NC_011146.1|WP_012529179.1|879596_881537_+|HEAT-repeat-domain-containing-protein
MLALRDHPFASTMQLLFKAMGDESWRVRKEAVTAVLQAQPLEAPVLEALIAALRASENAGLRNSAVEALELIGAAAVQQLCAHLNDPDPDLRKFVIDILGNIGCEKCLPLLVRALDDDDMNVRVAAAENLGKIGDAGALPHLLTVLEGGEIWLKFTVLDALALIGAPVPLVSLAPLLQESLLRRATYDCLAALGDVQALPILLQGLQEKAKNAREAAAMALMRVRERLPAEKQTSLVDLRLQEMSGGPIAKKLIDSLHSEDPVVLSALVRIVGTIGDTRAALPLLHVCRSERLRDVCIDAFRRIGPKLLPELVDHFPATVPIERAVIAQLLAEFGDTGHEKLLLDGLLDDSAQVRRSCALALGRPKSQGAVTRLAELLDDDEPQVREAALEGLRAFAATEPATLSTLASALTRAQLPAKRRNAALILGALADGERLSPLVKDEDATVRQAAVSSLGRVELPQALSHLALALSDEEPEVRLAAAHALSDRGGPDALAPLLLALNDSDPWVQTAALRGLALLGDSGALPGVIALLDQACGPVLIAALSTVAALGGANALAPVEKALSHSDEEVVEAAIEILSGFGCGWIDGHSATLLAHPHWVVRRSFVRALAKLRGAESMAILDRALASESDQLVRSEIAALLGRLR
>NC_011146.1|WP_012529180.1|881536_882403_+|protein-glutamate-O-methyltransferase-CheR
MPFFEPELHLTEEEFRLIRDLIYHHCGLFFDEDSKYLLDRRLLQRVTLHNLSGFREYYQFLKYDRKKEQEISDIMDLLTTNETYFFREAFQLRAFTDEIVPELMKLKRDRTLRIWSAGCSTGEEPYTIAMLLLEMGGFDGWRIDIVGSDISHRVVQHARKGVYGKASFRATEERYLKRFFTETEGGYRVNDEVRELVTVSQMNLFDQNRLALLGKMDVIFCRNVIIYFDEASKKKVIEAFYNTLRGGGYLLLGHSESLMNITTSFALKHLKNDMVYQKTNSTGGGVVT
>NC_011146.1|WP_012529181.1|882399_883467_+|chemotaxis-response-regulator-protein-glutamate-methylesterase
MKRIRVVVVDDSAYNRRAITRMLEELPGVEVVGYATNGEEGIRRVIDLTPDLVTLDLEMPRMDGFTMLRILMANTPVPVIVISSTSGDEKVFKALELGAVDFIAKPTSVISDELLKIQQDLHEKVLSVFKLNMARVQKRSEPEPPAPEIAIAAPPVGEAGAIDIVAIGASTGGPPALQRIFASFKDAPPFAMVISQHMPAGFTTAFAERLNRSTGFEVRESKDGDEVLPGRALIAPGGKNLVFARMADKVVARVVEPGPKDRYIPSVDVMLRSCAELYRQRMLAVVLTGMGNDGALGVREAKKAGAQIVAESEESAVVFGMPREAIATGLVDKVVPMDDMAREIMHRCGFMPRFG
>NC_011146.1|WP_012529182.1|883492_884314_+|GAF-domain-containing-protein
MQKDDERMVHSRGEEFLQVFKKGAEFTQDLLKENERLRFRVLELEKFQTSGGEAGGGADLRKLTERIADLEAEKQEILDRIKHVEEENQDFAARYLEIEDENNNLANLYIASYQLHSTLDFKEVLQIITEIIINLIGAEEFAIMLLDEKSDEIQAVATEGVERSEIPSVRLDMGVIGEVATSGESHFATDFDAYERDFTTPMVCIPLKIKEHVIGVLAIYKLLMQKKEFAPVDYELFTLLAGHAATAIFSSRLYSDSERKLSTIQGFIDLLTK

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Crispr_ID: NC_011146_4

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_011146_4

1309440-1309586

Orphan

Consensus_repeat	Method
CGATCACTGGAACGGCAAGGCTCTGCGGCGTCGTTGCAACAGTTGCAG	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_011146_4

>merge|NC_011146|4|1309440-1309586|CRISPRCasFinder
CGATCACTGGAACGGCAAGGCTCTGCGGCGTCGTTGCAACAGTTGCAGCCACGGGGGGAGGCTGCACGCTTGATGCAGAGGAGGCAATGCCGGGCGTGGCGATCACTGGAACGGCAAGACTCTGCGGCGTCGTTGCAACAGTTGCAG

>NC_011146|4|4|1309440-1309586|CRISPRCasFinder
CGATCACTGGAACGGCAAGGCTCTGCGGCGTCGTTGCAACAGTTGCAG	CCACGGGGGGAGGCTGCACGCTTGATGCAGAGGAGGCAATGCCGGGCGTGG
CGATCACTGGAACGGCAAGACTCTGCGGCGTCGTTGCAACAGTTGCAG

Protein	Signature genes	Signature genes Name	Protein_function
NC_011146.1\|WP_012529573.1\|1318770_1320333_-\|PAS-domain-containing-sensor-histidine-kinase	unknown	unknown	gnl\|CDD\|226702
NC_011146.1\|WP_012529560.1\|1305771_1306086_+\|hypothetical-protein	unknown	unknown	unknown
NC_011146.1\|WP_012529566.1\|1311629_1312982_-\|phosphomannomutase/phosphoglucomutase	unknown	unknown	gnl\|CDD\|185312
NC_011146.1\|WP_012529558.1\|1303896_1304805_+\|NHL-repeat-containing-protein	unknown	unknown	gnl\|CDD\|271320
NC_011146.1\|WP_148212895.1\|1297598_1298603_+\|hypothetical-protein	unknown	unknown	unknown
NC_011146.1\|WP_012529569.1\|1315828_1316827_-\|hypothetical-protein	unknown	unknown	unknown
NC_011146.1\|WP_083770302.1\|1307239_1308493_-\|hypothetical-protein	unknown	unknown	unknown
NC_011146.1\|WP_012529557.1\|1302610_1303891_+\|cytochrome-c	unknown	unknown	gnl\|CDD\|274618
NC_011146.1\|WP_012529568.1\|1314151_1315291_-\|GDP-mannose-4,6-dehydratase	unknown	unknown	gnl\|CDD\|224014
NC_011146.1\|WP_012529567.1\|1313153_1314128_-\|GDP-L-fucose-synthase	unknown	unknown	gnl\|CDD\|187550
NC_011146.1\|WP_012529570.1\|1317436_1317796_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|237030
NC_011146.1\|WP_041262684.1\|1317986_1318175_-\|hypothetical-protein	unknown	unknown	unknown
NC_011146.1\|WP_049762714.1\|1300683_1302591_+\|cytochrome-c	unknown	unknown	gnl\|CDD\|274618
NC_011146.1\|WP_012529562.1\|1306661_1307117_-\|hypothetical-protein	unknown	unknown	unknown
NC_011146.1\|WP_012529572.1\|1318549_1318726_+\|hypothetical-protein	unknown	unknown	unknown
NC_011146.1\|WP_012529559.1\|1304881_1305700_+\|sel1-repeat-family-protein	unknown	unknown	gnl\|CDD\|276807
NC_011146.1\|WP_012529555.1\|1298729_1300571_+\|peptidyl-prolyl-cis-trans-isomerase	unknown	unknown	gnl\|CDD\|379040
NC_011146.1\|WP_012529574.1\|1320352_1320814_-\|hypothetical-protein	unknown	unknown	unknown
NC_011146.1\|WP_012529561.1\|1306140_1306566_+\|sel1-repeat-family-protein	unknown	unknown	gnl\|CDD\|276807
NC_011146.1\|WP_012529565.1\|1310720_1311452_+\|lipoprotein	unknown	unknown	gnl\|CDD\|234778

Protein	Function_ID	Function_description	E-value
NC_011146.1\|WP_012529558.1\|1303896_1304805_+\|NHL-repeat-containing-protein	gnl\|CDD\|271320	cd05819, NHL, NHL repeat unit of beta-propeller proteins. The NHL(NCL-1, HT2A and LIN-41)-repeat is found in multiple tandem copies, typically as 6 instances. It is about 40 residues long and resembles the WD repeat and other beta-propeller structures. The repeats have a catalytic activity in Peptidyl-glycine alpha-amidating monooxygenase; proteolysis has shown that the Peptidyl-alpha-hydroxyglycine alpha-amidating lyase (PAL) activity is localized to the repeats. Tripartite motif-containing protein 32 interacts with the activation domain of Tat. This interaction is mediated by the NHL repeats.	1.2335e-24
NC_011146.1\|WP_012529557.1\|1302610_1303891_+\|cytochrome-c	gnl\|CDD\|274618	TIGR03508, decahem_SO, decaheme c-type cytochrome, DmsE family. Members of this family are small, decaheme c-type cytochromes, related DmsE of Shewanella oneidensis MR-1, which has been shown to be part of an anaerobic dimethyl sulfoxide reductase.	1.20299e-18
NC_011146.1\|WP_012529561.1\|1306140_1306566_+\|sel1-repeat-family-protein	gnl\|CDD\|276807	sd00010, SLR, Sel1-like repeat. Sel1-like repeats (SLRs) share similar alpha-helical conformations with Tetratricopeptide repeats (TPRs), but with different consensus sequence lengths and superhelical topologies. SLRs contain 36 to 44 amino acids and are present in bacteria and eukaryotes but not in archaea. SLR proteins are involved in a variety of functions, and many serve as adaptor proteins for the assembly of macromolecular complexes. The SLR family was named after the Caenorhabditis elegans Sel1 protein which is predicted to fold into 11 SLRs, a transmembrane domain, and an N-terminal signal sequence. The human Sel1L protein contains an additional fibronectin type-II domain and an N-terminal PEST sequence. Its downregulation is associated with the development of breast and pancreatic carcinomas.	7.05768e-22
NC_011146.1\|WP_012529566.1\|1311629_1312982_-\|phosphomannomutase/phosphoglucomutase	gnl\|CDD\|185312	PRK15414, PRK15414, phosphomannomutase.	0
NC_011146.1\|WP_012529568.1\|1314151_1315291_-\|GDP-mannose-4,6-dehydratase	gnl\|CDD\|224014	COG1089, Gmd, GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane].	0
NC_011146.1\|WP_012529567.1\|1313153_1314128_-\|GDP-L-fucose-synthase	gnl\|CDD\|187550	cd05239, GDP_FS_SDR_e, GDP-fucose synthetase, extended (e) SDRs. GDP-fucose synthetase (aka 3, 5-epimerase-4-reductase) acts in the NADP-dependent synthesis of GDP-fucose from GDP-mannose. Two activities have been proposed for the same active site: epimerization and reduction. Proteins in this subgroup are extended SDRs, which have a characteristic active site tetrad and an NADP-binding motif, [AT]GXXGXXG, that is a close match to the archetypical form. Extended SDRs are distinct from classical SDRs. In addition to the Rossmann fold (alpha/beta folding pattern with a central beta-sheet) core region typical of all SDRs, extended SDRs have a less conserved C-terminal extension of approximately 100 amino acids. Extended SDRs are a diverse collection of proteins, and include isomerases, epimerases, oxidoreductases, and lyases; they typically have a TGXXGXXG cofactor binding motif. SDRs are a functionally diverse family of oxidoreductases that have a single domain with a structurally conserved Rossmann fold, an NAD(P)(H)-binding region, and a structurally diverse C-terminal region. Sequence identity between different SDR enzymes is typically in the 15-30% range; they catalyze a wide range of activities including the metabolism of steroids, cofactors, carbohydrates, lipids, aromatic compounds, and amino acids, and act in redox sensing. Classical SDRs have an TGXXX[AG]XG cofactor binding motif and a YXXXK active site motif, with the Tyr residue of the active site motif serving as a critical catalytic residue (Tyr-151, human 15-hydroxyprostaglandin dehydrogenase numbering). In addition to the Tyr and Lys, there is often an upstream Ser and/or an Asn, contributing to the active site; while substrate binding is in the C-terminal region, which determines specificity. The standard reaction mechanism is a 4-pro-S hydride transfer and proton relay involving the conserved Tyr and Lys, a water molecule stabilized by Asn, and nicotinamide. Atypical SDRs generally lack the catalytic residues characteristic of the SDRs, and their glycine-rich NAD(P)-binding motif is often different from the forms normally seen in classical or extended SDRs. Complex (multidomain) SDRs such as ketoreductase domains of fatty acid synthase have a GGXGXXG NAD(P)-binding motif and an altered active site motif (YXXXN). Fungal type ketoacyl reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.	0
NC_011146.1\|WP_012529570.1\|1317436_1317796_-\|hypothetical-protein	gnl\|CDD\|237030	PRK12270, kgd, multifunctional oxoglutarate decarboxylase/oxoglutarate dehydrogenase thiamine pyrophosphate-binding subunit/dihydrolipoyllysine-residue succinyltransferase subunit.	0.00471121
NC_011146.1\|WP_049762714.1\|1300683_1302591_+\|cytochrome-c	gnl\|CDD\|274618	TIGR03508, decahem_SO, decaheme c-type cytochrome, DmsE family. Members of this family are small, decaheme c-type cytochromes, related DmsE of Shewanella oneidensis MR-1, which has been shown to be part of an anaerobic dimethyl sulfoxide reductase.	1.77896e-23
NC_011146.1\|WP_012529559.1\|1304881_1305700_+\|sel1-repeat-family-protein	gnl\|CDD\|276807	sd00010, SLR, Sel1-like repeat. Sel1-like repeats (SLRs) share similar alpha-helical conformations with Tetratricopeptide repeats (TPRs), but with different consensus sequence lengths and superhelical topologies. SLRs contain 36 to 44 amino acids and are present in bacteria and eukaryotes but not in archaea. SLR proteins are involved in a variety of functions, and many serve as adaptor proteins for the assembly of macromolecular complexes. The SLR family was named after the Caenorhabditis elegans Sel1 protein which is predicted to fold into 11 SLRs, a transmembrane domain, and an N-terminal signal sequence. The human Sel1L protein contains an additional fibronectin type-II domain and an N-terminal PEST sequence. Its downregulation is associated with the development of breast and pancreatic carcinomas.	1.32512e-29
NC_011146.1\|WP_012529555.1\|1298729_1300571_+\|peptidyl-prolyl-cis-trans-isomerase	gnl\|CDD\|379040	pfam13145, Rotamase_2, PPIC-type PPIASE domain.	2.51762e-08
NC_011146.1\|WP_012529573.1\|1318770_1320333_-\|PAS-domain-containing-sensor-histidine-kinase	gnl\|CDD\|226702	COG4251, COG4251, Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms].	1.27243e-67
NC_011146.1\|WP_012529565.1\|1310720_1311452_+\|lipoprotein	gnl\|CDD\|234778	PRK00484, lysS, lysyl-tRNA synthetase; Reviewed.	8.04735e-05

>NC_011146.1|WP_083770302.1|1307239_1308493_-|hypothetical-protein
MTASIFLWVNNSHAAYLSGNTKPFHNGGTGECNECHSTGAVESGVPRRGNLLGSDSSSTCLRCHQSPEGVQHEPYQVATSGIELVEGVAPRELTPGGDFGWLKKNYRWSGEGRDKEASQGERHGHNIVAADYGYSADTKLSTAPGGNFPANSLSCISCHDPHGNYRRSVDGTISNAGKPIIASGSYNNSPEPDAFSAVSVYRMLAGKGYRATPGVEFTADPPTAVAPSAYNREESSTDTRVAYGSGVSEWCSNCHGSIHDAGSGRATQHPSGKQGKLSAEITYNYNAYLSSGNLNGSAGTAYSSLVPFEMGTDDYAVLKATANSNGSNRSGATMDANVMCLSCHRAHAAGWDSSMRWNPNTTFIVYDGKYPGTDNGAPAAIAQGRTSAEVKMAMYGRRASDFAVYQRSLCNKCHAKD
>NC_011146.1|WP_012529562.1|1306661_1307117_-|hypothetical-protein
MTRFTTALLAITLLLLSINCHAATIPNGYEDIRWGTMFHKIVEAYPKGKMTEYDKQMVYTQEKPDETIASRMFVFKDGLMVSVAVTFEGKYVSKTGVEKLKQKFIQQYGKGKAGKQGSHMSTYVWNGKQTKVSFLYVPNHPEMTVLQFEKI
>NC_011146.1|WP_012529561.1|1306140_1306566_+|sel1-repeat-family-protein
MKRRIFKKCILSTAVIAGVCFLTLPVRADYGKGRELYLMKDYQNAMKQFMFDEDPGSLYMVAYMYEHGEGVTEDGAKASEWYMKAAEKGSVKAMYRLGVMYANGYGVDKDENEAIKWFKKASFKGFAPAKDALKRLTKGTD
>NC_011146.1|WP_012529560.1|1305771_1306086_+|hypothetical-protein
MKRLVVGILVLVSLATVISCSKPESRLIGKWVGKSGSFQFNENKTGVMNPPAGVNLPHDIRFSWALRGDDSIQLSIQPPVAKNVLARFEGKKVLVIEDDKFVKE
>NC_011146.1|WP_012529559.1|1304881_1305700_+|sel1-repeat-family-protein
MKKSLPGFVLLASSLICSLAIAASNLDMAEKALNDGDYEKALQLYRADGGAQALNNIGIMYYRGDGVRQDKAEAVHWLLKAAALGNEDAQVSLGQMYRTGDGVEENPAEAVKWYRKAGAQGNQEAQAELERLYALKEDVETKWYRRDAERGMVRAQVNLGLIYYFGRDLGADKREAALWFSKAAVQGDAQAQYYYGLMLSEGDGIDPDAVEGARLLLSAAKAGHADAQYQISKCYLHGKGVARNADEAVAWLRKAASQGNHNAASELQLLGK
>NC_011146.1|WP_012529558.1|1303896_1304805_+|NHL-repeat-containing-protein
MRALIYANLLLLVLLVPVQSFAAGSLKLRFLTTISADDKEGLIKSPEGVACNDQSDVVVADTGNGRLLRYTFQDRALKGGQEIKLSQVQFPVKVQFGAKNDIFVLDGKQQKVAHLNPDGSFAGFVTPYGVTNPDKYVIKSFKVDGANNIYLLDIGGERVLHVAMDGKLLGQIPFPAGFGFITDLAVTPGADVILLDSVGSRLYVAKKDATQFTPLTKDLRAYMNFASYLTTASRGGELYLLDQDGGAVVTIGPDGSFQGRQLGLGWKAGQLYYPTQVCFDKSGNVFIADRGNSRVQIFESFK
>NC_011146.1|WP_012529557.1|1302610_1303891_+|cytochrome-c
MINRHKVLILFGVIGSLMVGLIANAQDDSAKFRLKPGAFGKLCQDCHTNFEEKLKKTYVHTPVKKGDCTGCHNPHSSNFKKLLSADSSKICSSCHKGLLSANAKSTHKVVVEGNCMKCHDPHASAIKNNLLKGGNELCLECHKALKNAIAKAKFQHAPVTKDCTICHDPHMSVKEDSLLKDKVSALCSGCHKTDKPTFIKRHMNYPMANTHCTSCHDPHGSSVQGILYNNVHKPVASKMCNQCHEDAASPNALKTKRQGGELCKGCHNDMYNSTFGKNKVHSPLFSKKGCLTCHNPHAGKEKGLLKESTLIVCGKCHADTIQRQNKSITKHEPVASGNCTACHDPHSSNYPLLVKQESVIEVCATCHDWMKHSTHPIGDKYKDPRNKNATLNCLSCHRSHGTEYKGLMPFNTVSELCVQCHEKFRR
>NC_011146.1|WP_049762714.1|1300683_1302591_+|cytochrome-c
MVSFTGSRTALAAKAFVRKDCSDCHKKFDDKFSSVKYVHPMVHDKKCEDCHLRHGIIPKLLLKHDGNQLCLNCHPANKIGLNKPKVHTPIAKGKCTTCHNPHGSDSRYFMKSAGNEACFQCHKKSVFEKKVVHKVLTDKGCSACHVAHSSDYNNLLSSEVPKLCLNCHDKGSASFKKAHGNYPVDQKNCTVCHNPHASDQPKLLKGSVHNPVASAGCDGCHNPPNSANPFGVSLKKGALCAQCHESASLKGGGTVEHMPFKEGDCLLCHNPHASEQTKLLVQEGNDLCKICHASETASHLFKHKAVTDGKGCLSCHKPHAAAKKKLLVAEGADLCYTCHAKTKEALKGKDVHEPFSGGECSSCHDAHGSNFPGMMKDRMDTVCFNCHSDAETRFKKNYTHKPVQDSNCAACHKPHSSDQKKLLKGVGAQLCSSCHAELMKPISQGINHQPFTDGDCLGCHDPHASNIQGMITSNQSELCVNCHSDLNKNAKDAKSNHAPFTKGDCTKCHSPHKAKLNKLLLAQSPDLCVNCHKDIKEKIARQRPHPPAQKDCSTCHLPHLSKQKSLLVEPLQTMCSECHEVEKPAFVKAHIGIKAADMDCISCHSPHASNDPKFFKDVVHPPFAGRTCDDCHIKQ
>NC_011146.1|WP_012529555.1|1298729_1300571_+|peptidyl-prolyl-cis-trans-isomerase
MKAKLLTTGTVAIMAGMVLCMEVRGFASEQLAPQAVVQAVQAPAAKGITPEADKTSTAKTEAAGVSSQPVSDQARAEGVYLHLKAPLYSPLFFDVPLASVNDEKITLGDLQKALMSLHEKMTEEKEVSAKKNFMEPLERLINVKLVVQEAKNMELDRQDEIKSNLEKFADQQLRQVLFLERVKDIKPDERKVQKEYRDTIKEMKLKSLIFKKDTVAKAFIEELKHGKKFDELRDKALKDGKAETAGQDEQQYATNAALGPVVSAGLADVKAGGISPIIEIMNGFLVAKVEEIRYVDNPAGLEQARSKVLSQMKLDSLKAYKAELVKKYAKENTKLVKSLDFEAKKPGFEKLLTDKRVVMSIKGEEPIRVSDLAEALNSKFFHGIDNAIKEKKLNREKLLALDELESVRVFKKAALEKGLDKSEEYLKRIEDHKTTVLFGAFIEKVIKPDVTFTVAEIKDYYEKHISEYAAPEKMQIQGIAFTKKDDAQKAIDKLREGVDFAWLRNNADGQVAKNARDLLQFNEEALTLQSMPEPMQKVLKDAHKGDYRLYESPEGYSYALFVKEKEEAKARPLEEVKDEVGQKVAWLNLTQDIEKWFKKLREAYPVKIYLESR
>NC_011146.1|WP_148212895.1|1297598_1298603_+|hypothetical-protein
MKFVVFPVDNLTGAYAPIKAFGKAWLGKLQEFEIAVIDDATREKILAEHRIRSISGVDSISAKAFREEAGAAGIFITSLEYYRDAYPPKLAVFARLVSTEDTPRILWMGSVGMAGDDAPGLLDLGLIKDYEALQELALQHLADSFGRWLDEQRRDVAAGDVERRFRPKLMYNQSPLRDAEKATVAVVPLYNDSQRKRAGELMQLHFISQLLETGSIQPIEPGVVREKMLNSRMIMREGISVRDVDILTYVLGADDVLSGTVFDYYDPQGGNGTPVVDFTTLLMRKSDRRIVFKSKSSNMGTDGVYFFDRGRQNNANVMAEAMTHSVVRNMVRAK
>NC_011146.1|WP_012529565.1|1310720_1311452_+|lipoprotein
MKKMISMLTAVLVTSAPGFGACSDAPPSMGGVMAVNSGVTGKVVETTTAGDYTYINLEKDGKKAWVACPPMANVKLGQQLGFTGCTPMMDFESKALKRTFDLIMFCGAPLSDSQTDLLSKKSTGSSGQVPESKEQIVVEAAKGADAHTIADIYDKIDQLDKQTVSVSGKVIKVTPRIMGRNWLHIQDGSGSAMQKNNDLVVTTNALPNVGDVVTISGTIAKDKDFGSGYKYRAILELGSVKPK
>NC_011146.1|WP_012529566.1|1311629_1312982_-|phosphomannomutase/phosphoglucomutase
MSNMHCFKAYDIRGRVPDELNEDLAYRIGRAYASFLAPKKVIVGRDVRLSSASLCTALANGLTDSGVEVYDIGICGTEQVYFATFSEKMDGGIMVTASHNPMDYNGMKLVREGSRPISGDSGLNAIRDLAEQNRFEEVSAKGSVHPLDIEESYVSHLLGYLDPGTLKPFKIVVNAGNGCAGRTIDRLESRLPFSFVKVHHEPDGTFPNGIPNPLLLENRSATAEAVLAHGADLGLAWDGDFDRCFLFDAKGNFIEGYYIVGLLAAAMLQKHPGARIIHDPRLTWNTVDVVTAAGGVPVMSKTGHAFIKERMRAEDAVYGGEMSAHHYFRDFAYCDSGMVPWLLVLNIMGKTGKTLAELVEERMRLYPASGEINRKLADPLAAIERIGKTYRESALSIDDTDGMSMEFPQWRFNLRCSNTEPVLRLNVESRGDEALMNEKTGELLALVDEV
>NC_011146.1|WP_012529567.1|1313153_1314128_-|GDP-L-fucose-synthase
MNTNAKIFVAGSKGLVGSALTRSLKSAGYRNLLTPEKERLDLTDHIGVKAFFESEKPEYVVLAAAKVGGIHANNTYPADFIYQNLVIQNNVIHQAHLNGVKRLLFLGSSCIYPKHAPQPMREEHLLTGPLEPTNEPYAIAKIAGLKMCEAYNRQYGTKFIAVMPTNLYGPGDNFDLTNSHVLPALIRKFHESREQRLPEVVVWGTGTPRREFLYVDDMADACLHLMNLPDSTITEELTAYPKPCFVNLGTGVDVTIRELAETVREVVGFEGRLAFDTNKPDGTPRKLQEVSRMKALGWEAKVTLKDGIAKSYQWFLENQGNIRK
>NC_011146.1|WP_012529568.1|1314151_1315291_-|GDP-mannose-4,6-dehydratase
MAKVALITGVTGQDGAYLAEFLLKKGYVVHGIKRRASLFNTDRIDHLYQDPHIENRDFILHYGDLTDSTNLIRIIQQVQPDEIYNLAAMSHVAVSFETPEYTANADGLGTLRILEAIRILGLEKKTRFYQASTSELYGLVQEVPQSEKTPFYPRSPYAVAKLYAYWITVNYREAFGMYACNGILFNHESPIRGETFVTRKITRAIARISLGLQSCLYLGNLSALRDWGHARDYVEMQWLMLQQDEPDDFVIATGKQFSVRQMVEEAAKGVGICMRWEGEGVNETGIVASIDSHGTKTEGGAAGHLQVGQAIVKVDPRYFRPTEVETLLGDPSKARQKLGWVPKTTFEELVAEMVHSDLEEARRDELCKHHGFSTYNYHE
>NC_011146.1|WP_012529569.1|1315828_1316827_-|hypothetical-protein
MKKMQMFGSCTALTLMAVAFAGCTTTGQAAKQATAPVTAAAPAVLSGKVLETVDSGGYTYMNLEKDGQKTWVAAPVMKVSVGQEVQLLPGAQMANFSSKTLNRTFEKITFSAGAIAPTAPAAPAAPAAAEPLEEVVMIGKVIETMPAGNYTYIRIEKDSKAAWAAVPKADVVVGDEVELAPGTPMGSFTSKTLNRTFNSIYFAGGITITSRKEGAAPAAPATENGLPSGHPKLDAAAALPSGHPSVDAAAPAAPAPAANISGKVVETINGGGYTYVCLEHDGNKTWVAVPSMKANVGDEIAVLPGNVMANFASKSLNRTFDKIIFSGGPVAK
>NC_011146.1|WP_012529570.1|1317436_1317796_-|hypothetical-protein
MSDTENQMGLFESGELLPEKPLAAPAPPPQPEPRPRPRPAAKQADSPAAARRERPEKRASRKGAQAKVPVKAVSGLVPEGDVRLTANIRQDLHLKLKIASAYRRTTIGEIIEELVEKYV
>NC_011146.1|WP_041262684.1|1317986_1318175_-|hypothetical-protein
MELIWRKKGKWVATTDPRYPVEQFATVENRCWRIGYSGSKGALYIMSGSIWHEGRKAERKRK
>NC_011146.1|WP_012529572.1|1318549_1318726_+|hypothetical-protein
MNPDLAKLTPGQKLMKQAIHEIDDYFGEGVAFKNIEFLGGYMQTLAILELKETLRNKL
>NC_011146.1|WP_012529573.1|1318770_1320333_-|PAS-domain-containing-sensor-histidine-kinase
MTDKDLTTDSGARKQEPGQLQGDLPFRLLVEQVKEYAVALLDPQGNISSWNAGAEQITKYRGSEVIGKHFSLLHPKEELRSGAPERELAIARSLGSLDLQGWRLKKDGSRFWAAITLTALYDQGENLAGFALIAHDNTEKRASDEALVKSRNMLERLFETAPDGIVVVDDNGVIRRTNQQAEITFGYMREEMLGQRIELLVPERYHKHHRQHRRNYFADPRARKMGIGLELYGRHKDGHEIPVDIMLNPIETPDGTWVFAVIRDITSQRQGEAKILELNLALRNQLEQLGASNKELESFSYSVSHDLRAPLRHIIGFVDLLNAKAGNVLDEKSRHYLEVISEAANKMGLLIDDLLAFSRMGRSEMMKGWVDLGLLVREIVNDLESDSKEREIQWDIAPLPIVLGDAAMLRQVLINLIGNAVKFTRSREEAKIAIGAIDQEQETEIFVRDNGVGFDEAYASKLFGLFQRLHANEEFEGTGVGLAIVQRIVLRHGGRVWAEGAVDGGATFRFSLPKGLNPAP
>NC_011146.1|WP_012529574.1|1320352_1320814_-|hypothetical-protein
MRTTIGLILLLGALLGGCATTSTDYRQRMNALPEHYQQFDLVMGWETRVEGDQTVIDGVVRNVRYFVMRDLEIWVALLAPQGKPVRREVSFIIPSDLKLDESAPFSIRLPMAVKAGDRLRFTYKYRGSDGGDGLQRDETPWMQSFERVVVAPR

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Crispr_ID: NC_011146_5

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_011146_5

1857314-1857393

Orphan

Consensus_repeat	Method
TTTAAAGATTTTCTTTGCGGTCTT	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_011146_5

>merge|NC_011146|5|1857314-1857393|CRISPRCasFinder
TTTAAAGATTTTCTTTGCGGTCTTAGCGTCTTTGCGTGAGGCAGAATCTGAAAAGCTTTAAAGATTTTCTCTGCGGTCTT

>NC_011146|5|5|1857314-1857393|CRISPRCasFinder
TTTAAAGATTTTCTTTGCGGTCTT	AGCGTCTTTGCGTGAGGCAGAATCTGAAAAGC
TTTAAAGATTTTCTCTGCGGTCTT

Protein	Signature genes	Signature genes Name	Protein_function
NC_011146.1\|WP_012530045.1\|1869582_1870185_+\|acyltransferase	unknown	unknown	gnl\|CDD\|100053
NC_011146.1\|WP_012530031.1\|1850879_1851950_+\|chemotaxis-response-regulator-protein-glutamate-methylesterase	unknown	unknown	gnl\|CDD\|234828
NC_011146.1\|WP_012530042.1\|1865868_1867482_+\|hypothetical-protein	unknown	unknown	unknown
NC_011146.1\|WP_041263117.1\|1868488_1869586_+\|DegT/DnrJ/EryC1/StrS-family-aminotransferase	unknown	unknown	gnl\|CDD\|99740
NC_011146.1\|WP_012530026.1\|1846593_1846956_+\|STAS-domain-containing-protein	unknown	unknown	gnl\|CDD\|132914
NC_011146.1\|WP_012530037.1\|1858522_1859038_+\|HAD-IIIA-family-hydrolase	unknown	unknown	gnl\|CDD\|224692
NC_011146.1\|WP_012530035.1\|1856323_1857145_+\|3-deoxy-8-phosphooctulonate-synthase	unknown	unknown	gnl\|CDD\|235363
NC_011146.1\|WP_012530027.1\|1846955_1847321_+\|response-regulator	unknown	unknown	gnl\|CDD\|381110
NC_011146.1\|WP_012530029.1\|1849506_1850385_+\|protein-glutamate-O-methyltransferase	unknown	unknown	gnl\|CDD\|214534
NC_011146.1\|WP_012530032.1\|1851985_1853221_+\|EAL-domain-containing-protein	unknown	unknown	gnl\|CDD\|225968
NC_011146.1\|WP_041262700.1\|1853418_1854174_+\|3-deoxy-manno-octulosonate-cytidylyltransferase	unknown	unknown	gnl\|CDD\|133010
NC_011146.1\|WP_012530034.1\|1854339_1855941_+\|CTP-synthase	unknown	unknown	gnl\|CDD\|235437
NC_011146.1\|WP_012530030.1\|1850381_1850879_+\|chemotaxis-protein-CheD	unknown	unknown	gnl\|CDD\|319352
NC_011146.1\|WP_148212953.1\|1860049_1862701_+\|SLBB-domain-containing-protein	unknown	unknown	gnl\|CDD\|224512
NC_011146.1\|WP_012530040.1\|1864071_1865046_+\|glycosyltransferase-family-2-protein	unknown	unknown	gnl\|CDD\|133030
NC_011146.1\|WP_012530043.1\|1867553_1868486_+\|WxcM-like-domain-containing-protein	unknown	unknown	gnl\|CDD\|377522
NC_011146.1\|WP_012530041.1\|1865032_1865749_+\|class-I-SAM-dependent-methyltransferase	unknown	unknown	gnl\|CDD\|369777
NC_011146.1\|WP_012530039.1\|1862810_1863998_+\|LPS-biosynthesis-protein	unknown	unknown	gnl\|CDD\|183173
NC_011146.1\|WP_012530028.1\|1847317_1849408_+\|chemotaxis-protein-CheA	unknown	unknown	gnl\|CDD\|223716
NC_011146.1\|WP_012530036.1\|1857425_1858394_+\|KpsF/GutQ-family-sugar-phosphate-isomerase	unknown	unknown	gnl\|CDD\|182814

Protein	Function_ID	Function_description	E-value
NC_011146.1\|WP_012530045.1\|1869582_1870185_+\|acyltransferase	gnl\|CDD\|100053	cd04647, LbH_MAT_like, Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively while GAT specifically acetylates galactopyranosides. XAT catalyzes the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and streptogramin, among others. XATs are implicated in inactivating xenobiotics leading to xenobiotic resistance in patients. Members of this family contain a a left-handed parallel beta-helix (LbH) domain with at least 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). They are trimeric in their active form.	3.44172e-41
NC_011146.1\|WP_012530031.1\|1850879_1851950_+\|chemotaxis-response-regulator-protein-glutamate-methylesterase	gnl\|CDD\|234828	PRK00742, PRK00742, chemotaxis-specific protein-glutamate methyltransferase CheB.	2.3038e-176
NC_011146.1\|WP_041263117.1\|1868488_1869586_+\|DegT/DnrJ/EryC1/StrS-family-aminotransferase	gnl\|CDD\|99740	cd00616, AHBA_syn, 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary metabolites. Some well studied proteins in this CD are AHBA_synthase, protein product of pleiotropic regulatory gene degT, Arnb aminotransferase and pilin glycosylation protein. The prototype of this family, the AHBA_synthase, is a dimeric PLP dependent enzyme. AHBA_syn is the terminal enzyme of 3-amino-5-hydroxybenzoic acid (AHBA) formation which is involved in the biosynthesis of ansamycin antibiotics, including rifamycin B. Some members of this CD are involved in 4-amino-6-deoxy-monosaccharide D-perosamine synthesis. Perosamine is an important element in the glycosylation of several cell products, such as antibiotics and lipopolysaccharides of gram-positive and gram-negative bacteria. The pilin glycosylation protein encoded by gene pglA, is a galactosyltransferase involved in pilin glycosylation. Additionally, this CD consists of ArnB (PmrH) aminotransferase, a 4-amino-4-deoxy-L-arabinose lipopolysaccharide-modifying enzyme. This CD also consists of several predicted pyridoxal phosphate-dependent enzymes apparently involved in regulation of cell wall biogenesis. The catalytic lysine which is present in all characterized PLP dependent enzymes is replaced by histidine in some members of this CD.	2.6509e-161
NC_011146.1\|WP_012530026.1\|1846593_1846956_+\|STAS-domain-containing-protein	gnl\|CDD\|132914	cd07043, STAS_anti-anti-sigma_factors, Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation. Anti-anti-sigma factors play an important role in the regulation of several sigma factors and their corresponding anti-sigma factors. Upon dephosphorylation they bind the anti-sigma factor and induce the release of the sigma factor from the anti-sigma factor. In a feedback mechanism the anti-anti-sigma factor can be inactivated via phosphorylation by the anti-sigma factor. Well studied examples from Bacillus subtilis are SpoIIAA (regulating sigmaF and sigmaC which play an important role in sporulation) and RsbV (regulating sigmaB involved in the general stress response). The STAS domain is also found in the C- terminal region of sulphate transporters and stressosomes.	4.62888e-09
NC_011146.1\|WP_012530037.1\|1858522_1859038_+\|HAD-IIIA-family-hydrolase	gnl\|CDD\|224692	COG1778, COG1778, Low specificity phosphatase (HAD superfamily) [General function prediction only].	7.97298e-75
NC_011146.1\|WP_012530035.1\|1856323_1857145_+\|3-deoxy-8-phosphooctulonate-synthase	gnl\|CDD\|235363	PRK05198, PRK05198, 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional.	0
NC_011146.1\|WP_012530027.1\|1846955_1847321_+\|response-regulator	gnl\|CDD\|381110	cd17562, REC_CheY4-like, phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY4 and similar CheY family proteins. CheY family chemotaxis response regulators (RRs) comprise about 17% of bacterial RRs and almost half of all RRs in archaea. This subfamily contains Vibrio cholerae CheY4 and similar CheY family RRs. CheY proteins control bacterial motility and participate in signaling phosphorelays and in protein-protein interactions. CheY RRs contain only the REC domain with no output/effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.	1.01993e-65
NC_011146.1\|WP_012530029.1\|1849506_1850385_+\|protein-glutamate-O-methyltransferase	gnl\|CDD\|214534	smart00138, MeTrc, Methyltransferase, chemotaxis proteins. Methylates methyl-accepting chemotaxis proteins to form gamma-glutamyl methyl ester residues.	1.73622e-97
NC_011146.1\|WP_012530032.1\|1851985_1853221_+\|EAL-domain-containing-protein	gnl\|CDD\|225968	COG3434, COG3434, Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms].	2.67998e-85
NC_011146.1\|WP_041262700.1\|1853418_1854174_+\|3-deoxy-manno-octulosonate-cytidylyltransferase	gnl\|CDD\|133010	cd02517, CMP-KDO-Synthetase, CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide. CMP-KDO Synthetase: 3-Deoxy-D-manno-octulosonate cytidylyltransferase (CMP-KDO synthetase) catalyzes the conversion of CTP and 3-deoxy-D-manno-octulosonate into CMP-3-deoxy-D-manno-octulosonate (CMP-KDO) and pyrophosphate. KDO is an essential component of the lipopolysaccharide found in the outer surface of gram-negative eubacteria. It is also a constituent of the capsular polysaccharides of some gram-negative eubacteria. Its presence in the cell wall polysaccharides of green algae and plant were also discovered. However, they have not been found in yeast and animals. The absence of the enzyme in mammalian cells makes it an attractive target molecule for drug design.	3.1126e-140
NC_011146.1\|WP_012530034.1\|1854339_1855941_+\|CTP-synthase	gnl\|CDD\|235437	PRK05380, pyrG, CTP synthetase; Validated.	0
NC_011146.1\|WP_012530030.1\|1850381_1850879_+\|chemotaxis-protein-CheD	gnl\|CDD\|319352	cd16352, CheD, chemotaxis protein CheD stimulates methylation of methyl-accepting chemotaxis proteins. This family contains bacterial chemotaxis protein CheD that stimulates methylation of methyl-accepting chemotaxis proteins (MCPs). The CheD chemotaxis gene is not found in the Escherichia coli genome, but is present in many other organisms, including B. subtilis, where CheD appears to have two separate roles; it binds to chemoreceptors to activate them as part of the CheC/CheD/CheYp adaptation system, and it deamidates selected residues to activate chemoreceptors, enabling them to mediate amino acid chemotaxis. CheD has been shown to catalyze amide hydrolysis of specific glutaminyl side chains of the B. subtilis chemoreceptors McpA, McpB and McpC; deamination by CheD is required for the chemoreceptors to effectively transduce signals to the CheA kinase. CheD's ability to bind the receptors is controlled by CheC via a competitive binding mechanism; substituting Gln into the receptor motif of the signal-terminating phosphatase, CheC, turns the inhibitor into a receptor-modifying deamidase CheD substrate. Also, CheYp increases the affinity of CheD for CheC, controlling CheD binding to the receptors through its interactions with CheC. Thus, high levels of CheYp means CheC is a better binding target for CheD than the receptors, resulting in decreased CheA activity. The CheD structure reveals a distant homology with a class of bacterial toxins represented by the cytotoxic necrotizing factor 1 (CNF1) as well as a class of proteins of unknown function represented by B. subtilis YfiH. An invariant Cys-His pair forming a catalytic dyad is observed, and is required by the toxins for deamidation activity.	5.338e-56
NC_011146.1\|WP_148212953.1\|1860049_1862701_+\|SLBB-domain-containing-protein	gnl\|CDD\|224512	COG1596, Wza, Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis].	2.46758e-24
NC_011146.1\|WP_012530040.1\|1864071_1865046_+\|glycosyltransferase-family-2-protein	gnl\|CDD\|133030	cd04187, DPM1_like_bac, Bacterial DPM1_like enzymes are related to eukaryotic DPM1. A family of bacterial enzymes related to eukaryotic DPM1; Although the mechanism of eukaryotic enzyme is well studied, the mechanism of the bacterial enzymes is not well understood. The eukaryotic DPM1 is the catalytic subunit of eukaryotic Dolichol-phosphate mannose (DPM) synthase. DPM synthase is required for synthesis of the glycosylphosphatidylinositol (GPI) anchor, N-glycan precursor, protein O-mannose, and C-mannose. The enzyme has three subunits, DPM1, DPM2 and DPM3. DPM is synthesized from dolichol phosphate and GDP-Man on the cytosolic surface of the ER membrane by DPM synthase and then is flipped onto the luminal side and used as a donor substrate. This protein family belongs to Glycosyltransferase 2 superfamily.	1.30874e-69
NC_011146.1\|WP_012530043.1\|1867553_1868486_+\|WxcM-like-domain-containing-protein	gnl\|CDD\|377522	pfam05523, FdtA, WxcM-like, C-terminal. This family includes FdtA from Aneurinibacillus thermoaerophilus, which has been characterized as a dtdp-6-deoxy-3,4-keto-hexulose isomerase. It also includes WxcM from Xanthomonas campestris (pv. campestris).	5.37202e-76
NC_011146.1\|WP_012530041.1\|1865032_1865749_+\|class-I-SAM-dependent-methyltransferase	gnl\|CDD\|369777	pfam08241, Methyltransf_11, Methyltransferase domain. Members of this family are SAM dependent methyltransferases.	1.79513e-17
NC_011146.1\|WP_012530039.1\|1862810_1863998_+\|LPS-biosynthesis-protein	gnl\|CDD\|183173	PRK11519, PRK11519, tyrosine-protein kinase Wzc.	1.21338e-14
NC_011146.1\|WP_012530028.1\|1847317_1849408_+\|chemotaxis-protein-CheA	gnl\|CDD\|223716	COG0643, CheA, Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms].	0
NC_011146.1\|WP_012530036.1\|1857425_1858394_+\|KpsF/GutQ-family-sugar-phosphate-isomerase	gnl\|CDD\|182814	PRK10892, PRK10892, arabinose-5-phosphate isomerase KdsD.	9.25909e-129

>NC_011146.1|WP_012530035.1|1856323_1857145_+|3-deoxy-8-phosphooctulonate-synthase
MTREITVGGVKIGGGRPLALVAGPCVIENETATLRCAERLMSICNGVGISLIFKASYDKANRTSVTAFRGPGMKEGLRILAKVKEALGVPVLSDIHSIEQVEPAAEVLDVLQIPAFLCRQTDLLVAAGNTGKVINVKKGQFLAPWDMKNVVGKISSCDNDNIILTERGASFGYNNLVVDMRSFPIMRSTGYPVIFDATHSVQLPGGEGTSSGGQREYVEFLSRAAVAAGVDGIFMEVHEEPEQALCDGPNSVRLDDMPALLKKLKAIDAIVNQ
>NC_011146.1|WP_012530034.1|1854339_1855941_+|CTP-synthase
MKTKFIFVTGGVVSSIGKGLAAASLGALLEARGLRVTIQKLDPYINVDPGTMSPFQHGEVFVTDDGAETDLDLGHYERYTSGKLSKKSNFTTGQVYFSVIEKERRGDYLGGTVQVIPHITDQIKLNILENAKGSDIAIVEIGGTVGDIESLPFLEAIRQLKSDRGPGNVLYLHVTLVPYIKTAGELKTKPTQHSVKELREIGIQPDILLCRCEQDVPQDMKAKIALFCNVEEKAVITSQDAEHIYAVPMALNHQGLDDQVVEKLNIWTKAPDLSHWQQVVSKLTNPGSGEVRIAVVGKYVDLKESYKSLSEALTHGGIANDCRVKLVYLDSEKIEEDGGEKALADVDGILVPGGFGERGTEGKIKAIEYARVNKVPFFGICLGMQMAAVEYARNVCRLPEAFSSEFKPDCESPVIHLMEEQKGVENKGGTMRLGAYPCSLTKGTFAQKAYGATEISERHRHRYEFNNLFRSCLEEKGMVISGVYKEGNLVEIIELPDHPWFLGCQFHPEFKSKPLNPHPLFKAFIGATKAKRG
>NC_011146.1|WP_041262700.1|1853418_1854174_+|3-deoxy-manno-octulosonate-cytidylyltransferase
MKITAVIPARYASTRFEGKALADIMGRPMVQHVYERAAKATLVSEVIVATDDERIAAAVRAFGGRVEMTSPTHETGTDRLAEVAARIDADIIVNVQGDEPLIDPAMIDEAIRPLLDDPSIPMATLKCRIKTLHDFLSPNVVKVVSDPTGNVLYFSRSPLPFFRDKWNDLKDDAFVSGKLLCYKHVGLYVYRREFLPVFAGLQPTYLELAEKLEQLRVLENGYRIKIVETEFESIGVDTPADLDKVLERLKG
>NC_011146.1|WP_012530032.1|1851985_1853221_+|EAL-domain-containing-protein
MSEEKFFLGRQPILDRTQKIVGFELLFRSAESLQSANFLDVQVASASVIVGALAEFGIEDVLGRHRGFFNVTREMLMSDAVELLPKDRVVIELLETIVVDRDVVERCRTLKSLGFTLALDDHVYSADFHEIYEAIDIVKVDVLETPAAALPEMLERLNPWPFTLLAEKVETAEQYRFCSQLGFHLFQGYYFARPVVLRQNKIDIAKIAMLRLMQQVMADTELEEIEETFKQNPGLTYNLLRLVNSVAIGLRVRIKTLRHALMVLGMEQLKRWITLALYASNDSNGVHSPLLEMAATRGKLMELLVLALKGRAGRELADQAFMVGILSLIDVLFDDSMNELVGKLNLVENVKSALLSCEGELGGLLLLAQRLEEADFEGVNEQLEESGLDLDQLLSCQLETIAWSDSLSASL
>NC_011146.1|WP_012530031.1|1850879_1851950_+|chemotaxis-response-regulator-protein-glutamate-methylesterase
MVKKKIKVLIVDDSAVVRQTLSEILSSDPQIEVMSTAGDPFIAAERIRHEVPDVITLDVEMPRMDGITFLHKIMSQHPIPVVMCSSLTEMGSETALKALEYGAVEIIQKPRLGTKTFLEESRVRICDVVKAASQARVRKVSAAPHQVAPKLSADVIMEKPKSQAMMQTTEKVVVIGASTGGTEALRTFLESLPADSPGIVIVQHMPEGFTRAFSQRLDGLCRITVKEAENNDTVVRGRALIAAGNHHLLLKRSGARYYVEIKDGPLVSRHRPSVDVLFRSAARYAGKNAVGVIMTGMGDDGAHGMLEMKQAGAVNIAQDEASCIVFGMPNEAIKLGGVDLVRPLDAISREVLRLCA
>NC_011146.1|WP_012530030.1|1850381_1850879_+|chemotaxis-protein-CheD
MSQQVQSLLFLKPGQMMVSSVPTLVTTLLGSCIAVTLFCPRTRFGAICHAQLPSCGSPAGCSHEDPSHAKYVDCAVMMMLKRLRAHGVADKELQAKVFGGADMFEGSVKHPGVGSQNAEMALQVLNREAIRVVRQDLGGERGRKIIFHTDTGEVLLQRLGKSGVS
>NC_011146.1|WP_012530029.1|1849506_1850385_+|protein-glutamate-O-methyltransferase
MFASGALRMEEPGRIDHTAVLSARDFGRLSRFIYDTCGIKMPDVKKTMLEARLQKRLRALGIHSFTDYCDYLFSNEGLEKELVQMLDMVTTNKTDFFREPDHFNYLSHTVLPDWVRKHPGATLAIWSAGCSSGEEPYTLAMVLSEFALNNPGFDFRILATDISTRVLEKAKNAIYQESQVEPVPFELKKKYLLRSKDRSSGMVRIVPELREKVRFRRLNFMDEDFGMREHLDIIFCRNVIIYFDRPTQEKLLQRFHRNMKPGAFIFMGHSETLSGLDVPLVSVYPTVYRRQK
>NC_011146.1|WP_012530028.1|1847317_1849408_+|chemotaxis-protein-CheA
MIDQHRQAFKEEAYELLAELETSLLELEEQPDDVDVIGRVFRAMHTIKGSGSMFGFDDIAAFTHEVETIFDMVRNGKLKVTGRLVNLTLAARDQIRAMLDGADDGGGGVDLKASGEIIMGLRELAGFQPAAAEPPEAAAAAQKPVNLATYRIRFAPSRDIFITGTNPLTLLQELKELGTCSVVAQTGDFPCLEEIDPEACYVYWDLILTTDQGDNAIRDVFIFVEDDCELRIEQVAEHTQFDEPQDYKKLGMILLERGDITTEEMEEILAQQHKFGELAVSNGILDQGKVQSALVEQRHVKEVRQEKQATEAASSIRVPAERLDLLVNLVGEMVTVQARLSQTAAQREDAELVAIAEEVERLTAELRDSALNIRMLPIGSTFSKFKRLVRDLSVELGKQIEITTEGAETELDKTVIEKLNDPLVHLIRNSIDHGIELPEARVEAGKPAHGTVHLAAVHSGDSVVITIDDDGAGLDKEAIRAKAIEKGIIAATAELSDKELFSLIFAPGFSTAKKISSVSGRGVGMDVVKRAIELLRGSIDISSVQGKGTRIAVKIPLTLAIIESLRVQIGEDSFMLPLSLVDECVELTREDVERSHGRNLAHVRAQLIPYIPLREHFRIQGTPPEIQQIVITQMNGSRVGFVVDQVIGEHQTVIKSLGRAYRDVDGISGATILGDGSVALILDVPQLLQAVEAGQA
>NC_011146.1|WP_012530027.1|1846955_1847321_+|response-regulator
MAKVIMTADDSASVRQMVTFTLKQGGYDVVEAVDGKDALQKLSSTKVDMLITDLNMPNLDGIGLIKGARALPSCKFIPIVMLTTESQDSKKQEGKAAGATGWIVKPFKPEQLMAVVKKVLG
>NC_011146.1|WP_012530026.1|1846593_1846956_+|STAS-domain-containing-protein
MDEFKLECRQDPESRGKQILKISGGVTIGDAGGFRQALLAALEAASELQVDLSEMTGIDLTGLQLLCAAHQSAVRGGKWLYITDGGNLTFREMAAGAGFRRHTGCARDTSYSCIWVGGEK
>NC_011146.1|WP_012530036.1|1857425_1858394_+|KpsF/GutQ-family-sugar-phosphate-isomerase
MIIEEAKRVIRVEAEALLNLEASINGAFEQAVQMILNSETGRVVVTGMGKSGLIGQKIASTMASTGTPAFFLHPAEGIHGDLGMIMKGDVVIAISNSGETDEVVKILPIIKRLGASLIAMAGNPTSTLAKSGDIFLDISVKEEACPLGLAPTASTTVTLAMGDAIAVALLVSRGFKAEDFAMFHPGGALGRRLLLRVQDIMHSGEALPLVNEKTLMREALFTITSKGLGITGVTSDDGALIGVITDGDLRRALGKGLDIINLPAAELMKAGAKRINREELAARALQQMEQYSITSLFVFDDDKAKAPVGIVHLHDLLKAGIA
>NC_011146.1|WP_012530037.1|1858522_1859038_+|HAD-IIIA-family-hydrolase
MEERLKKIKLLILDVDGVMTDGRIIFDSNGVESKFFNVKDGHGIKMLQRSGIEVGIISGRESQVVYNRAVELGIGQVYQKSLDKLVPYRQMLEATGLTDEQVAFMGDDVIDIPLLKRVGFAAAPADAVCEVYEFAQFVAKNRGGWGAVREVCDLILKAQGNWETVTSRYYV
>NC_011146.1|WP_148212953.1|1860049_1862701_+|SLBB-domain-containing-protein
MDKGERDSRRQRARGEDVDTSRYDDRQEQSADEISSDDTYDNSYDNSFDNSYDSSYDNSSDSSSDRSYDSSYEKRYEKPYNVNDGEALKEDKEPKKDKDGKELNEEKKRSDIKTGKERVKRSKVARKTRPGQRKAKELSTLERAMSENPVTADKAKPEPYGNKQLIQFGYNFFKSKEDPFASQTDVPVGPDYIIGAGDRLILTVWGSLNGTYKLDVSRSGDIVIPKVGAVKVGGQSYGQLPALLKNHIARIYKDFELNVNMGQLRLVKVYVVGEVASPGDYNISSLSTLIGALSEAGGPTKNGSLRNIQINRNGKLLETVDLYDFFLKGDKGKDIRLQPGDTVLVPVIGKVAGVAGNVRRPGIYELKGQTTLKDLLALAGGINSIGYLQRVQLYRVQAHDKKVVTDVNLDVIGKTSEDITAAVPVQDLDLVKVLSIDRVLRGYVRLEGHVVRPGDYALKPGMKISSLVQKDSLLPEYHAATGQIIRLFAPDLHPEVVPFDVSRAMAGEAGQDLELKEFDRVKIFSKREMEEVPVVKVSGEVKRPGPVRYMENMTVRDLLTQAGNVKLSAYLKNAEITRIKRTGDAVTSFTITVDLEKAMAGGEANIKLSPFDELTVRRIPNWAEAKERYVTLKGEFVFPGTYPISKGERLSSVIARAGGFTDRAYLKGTRFTRESARKLQQQRMDESLAKAQENIIKLQTNMSQTASSAEEVASSKTTLEGLMQSVEILKQKKAEGRVLIEIASLKELEGSNYDVELQGGDKLSIPSDPGGINVIGDVYNQNTIVAQKGRSVEWYLKQVGGATADADTDGIYVVKVDGSVTSQANSTKFLFYNSFWGKPLDSGDTIIVPRQYEKTAYLRNMKDIATIIGNIAVMAGVLVAAGL
>NC_011146.1|WP_012530039.1|1862810_1863998_+|LPS-biosynthesis-protein
MTENQNQADIDVEEQINLLELLQIIAKRKMFIIKMCTFAVVASVAYSFTLPNIYSATAKVLPPQKETAGGLSAMLGQVGGIAGLAPGGLGSGTELYLGLLRSRSVADEVVRRLDLTAYYKTKDAELARRGLEATVRMQTGKDGIINITADDKDPKMAARVANMYVEELGRTSVRLNLSKAGSERAFLEKRLELVKGELKKAEDEIKAFSQQNSIVQVDSQAKASIEGIARLKAELATKEVQLAALRSRQTDESPEVRSLLAGIKRLQAEMDRMSGPGLGGEGIPAIGNVPRLGLEYARKMRELKIQESVFEQLTKQYEMAKLSEAKDSSAFQVLDTAVAPSVKSKPRRSAIVITATMVAVAASLVLIFLQEHLEKMSEADRKILADIKGRLLSLR
>NC_011146.1|WP_012530040.1|1864071_1865046_+|glycosyltransferase-family-2-protein
MNSHSQNADILFATVVVSVFNEEEVLPGFYDELSRVLGQLGAAAEVIFVNDGSNDGSAAVLKELASLDPRVKIINLSRNYGHEAAMIAGIDHSRGNPVICMDADLQHPPAKIGEMLEQYRNGFEIVCMKRVASNNLSRFDKMKSLFFYRLLNQLSPMEFETGASDFFMVSRRVANILKVEFRERIRFLRGYVQTLGFRKSVISYTASERACGKSKYTFSDLCGLSLNAFFSFSNLPLRLGIITGLIVGGFSILVGIYSIVMRFIGNAPSGYTTIVVLVSFLFAIQFFITGIIGEYIGVILIQSRERPIYLVDSMMNIAECHEAE
>NC_011146.1|WP_012530041.1|1865032_1865749_+|class-I-SAM-dependent-methyltransferase
MKLNRDVTVRINWFLDNVVPPFLRDSRMFMGVLFWLLFRDKAARFLDFKEQAPGLGEAGLRALYKELRNSHLERDTDLNRECLQRILSDIVGETVLDVGCGSGYVARRIAELGLKKVAGLDTNLPQEARSDQRVQWLEGSAEFLPFATGAADTVVCSHTLEHVVDIERAVAELRRVAAMRLIVVVPMQREYKYTFDLHLHFFPYPFSLLKLMKNPEAICVVIGNDLYYCEERQGQNAG
>NC_011146.1|WP_012530042.1|1865868_1867482_+|hypothetical-protein
MPVYLDDTGFLELYRKFSWDAFSVFSYNFDTYKFYRVLGFDLNYLYYRFFVEHFDFAILLISVLYFVVLDGYIRTFGRIYTEETGDQKDRSDFQLLCLILMLSFPFSYYLIIFRYSFIGLASYLFNLLAIRYVYECTFRRSGLFPAFLVAVTYVVSLYLYEATLLMPLYYAAASFHLVAANRKYNRNRALACLALVSLCLMAYLLSQVWFIQNQPKLMKGAEIVANGSAVLGLEEQLIRKAMSLIYSFKWAFYYFGVNFRSYGPLQLATILAIPVACTAILWRVLSRLKASVARNTAQQMVDGAIFFGCTFGLWSYYWIFGSRFTTPPLYALFLPALGLSLLAVGLLLRHGMEATRNVLLRGGMCGVILFFFTANLISFLSARMSIEQSLREARTVAARVGEILKSGEGRYDSLVITRRSRRDAYARYIAHFDSHLKYYLSRAASGHPVRIVVDGRVLCNGRSAAEGTGEELVVRLEYDPVHNGLVRQKGDSNFRTPDKSGSDPCQVSMLDYVLYYDATAGGIVFRRVPKQFPEANG
>NC_011146.1|WP_012530043.1|1867553_1868486_+|WxcM-like-domain-containing-protein
MKYFVHDKALVESSKIGNNTRVWAFAHILPGATVGSECNICDNVFIENDVVLGERVTVKCGVQLWDGVVLEDDVFVGPNATFTNDLFPRSKKYPEQFAKTIVRQGASIGANATILAGVCIGKNAMVGAGAVVTKNVPPNAIVVGNPARIHGYVTSKPAAASVPQKSPSQMPEEFKSLTGTTLHRMPIITDMRGSLSSGELAKMLPFIPKRYFLVFDVPNKEVRGEHSHKQLHQFLVCVKGACSLLVDDSVHREEILLNSPNIGAHIPPMVWGVQYNFSPDAVLMVLASDAYDPDDYVRNYDDFLAMRGAV
>NC_011146.1|WP_041263117.1|1868488_1869586_+|DegT/DnrJ/EryC1/StrS-family-aminotransferase
MSIPFLNLRSTYDELSAEIDQAYHRVMDSGWYILGNEVTLFEQEFAAYCGAEHCVGVGNGLDALHLIMRAMGIGEGDEVIVPANTYIATILAVIYTGATPVLVEPSLNTYTLNPALVEKAVTSRTKAILPVHLYGFPADMDPINAIAREHSLKVIEDAAQAHGTSYRGRRAGTLGDAAGFSFYPGKNLGAFGDGGAVVTNDGEIADRVRVLRNYGSRVKYQNETIGYNTRLDEMHAAVLRIKLRKLDEWNDRRRALADYYLNGLKGLDLVLPEVPSFGEHIWHLFVVRSADRDNLQKKLAAAGIGTMIHYPIPPHLQPACAYLGLSQGTFPITEAIHREVLSLPMGPHLLQSEVQSVIDTAGRCL
>NC_011146.1|WP_012530045.1|1869582_1870185_+|acyltransferase
MRALYRLLLVLLTRMRHAWYRLCLRFQTTALRGGLNVGKNVLLQVPLRCDGYGKVSIGDDTAFGSRPAPKAGNGEVLIQARAAEAVIQIGRNVLFSNNISLISTVGITIGDDCLVGDNLLVMDTDFHGIHPAERRTSPGTSRPVTVGKNVWFGSRVIVQKGVTIGDNSVIASQSVVTRDIPPNSVAGGNPAKVLRTLDGC

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Crispr_ID: NC_011146_6

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_011146_6

1909981-1910088

Orphan

Consensus_repeat	Method
CGCCCGCTCGCTGCGCTCACTCAAGCCGCAAA	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_011146_6

>merge|NC_011146|6|1909981-1910088|CRISPRCasFinder
CGCCCGCTCGCTGCGCTCACTCAAGCCGCAAAAACGCAAAGTAGAAGCAAACCCTCAACCCCTTTTAACAGGGTCACGCCCGCTCGCTACGCTCACTCAAGCCGCAAA

>NC_011146|6|6|1909981-1910088|CRISPRCasFinder
CGCCCGCTCGCTGCGCTCACTCAAGCCGCAAA	AACGCAAAGTAGAAGCAAACCCTCAACCCCTTTTAACAGGGTCA
CGCCCGCTCGCTACGCTCACTCAAGCCGCAAA

Protein	Signature genes	Signature genes Name	Protein_function
NC_011146.1\|WP_012530082.1\|1913327_1914293_+\|D-2-hydroxyacid-dehydrogenase	unknown	unknown	gnl\|CDD\|240639
NC_011146.1\|WP_012530085.1\|1917633_1918824_+\|aminopeptidase-P-family-protein	unknown	unknown	gnl\|CDD\|223085
NC_011146.1\|WP_041263133.1\|1900748_1902143_+\|capsule-assembly-Wzi-family-protein	unknown	unknown	gnl\|CDD\|379441
NC_011146.1\|WP_012530088.1\|1921491_1921695_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|237030
NC_011146.1\|WP_012530074.1\|1904593_1904872_+\|YcgN-family-cysteine-cluster-protein	unknown	unknown	gnl\|CDD\|235356
NC_011146.1\|WP_012530081.1\|1912726_1913317_+\|DUF502-domain-containing-protein	unknown	unknown	gnl\|CDD\|225480
NC_011146.1\|WP_012530073.1\|1903790_1904579_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|236138
NC_011146.1\|WP_012530079.1\|1910220_1911141_-\|tRNA-(adenosine(37)-N6)-dimethylallyltransferase-MiaA	unknown	unknown	gnl\|CDD\|234626
NC_011146.1\|WP_012530083.1\|1914463_1915132_-\|hypothetical-protein	unknown	unknown	unknown
NC_011146.1\|WP_012530087.1\|1920473_1921025_-\|AmmeMemoRadiSam-system-protein-A	unknown	unknown	gnl\|CDD\|275134
NC_011146.1\|WP_012530080.1\|1911137_1912514_-\|S41-family-peptidase	unknown	unknown	gnl\|CDD\|223864
NC_011146.1\|WP_012530076.1\|1906512_1907733_+\|response-regulator	unknown	unknown	gnl\|CDD\|226702
NC_011146.1\|WP_012530071.1\|1902336_1902588_+\|hypothetical-protein	unknown	unknown	unknown
NC_011146.1\|WP_012530072.1\|1902890_1903766_+\|AAA-family-ATPase	unknown	unknown	gnl\|CDD\|132060
NC_011146.1\|WP_012530069.1\|1898812_1900444_+\|capsule-assembly-Wzi-family-protein	unknown	unknown	gnl\|CDD\|379441
NC_011146.1\|WP_012530086.1\|1919041_1920367_+\|citrate-(Si)-synthase	unknown	unknown	gnl\|CDD\|181961
NC_011146.1\|WP_012530084.1\|1915786_1917436_+\|AMP-binding-protein	unknown	unknown	gnl\|CDD\|236236
NC_011146.1\|WP_012530075.1\|1904991_1906251_+\|hypothetical-protein	unknown	unknown	unknown
NC_011146.1\|WP_012530077.1\|1907729_1909019_-\|tRNA-(N(6)-L-threonylcarbamoyladenosine(37)-C(2))--methylthiotransferase-MtaB	unknown	unknown	gnl\|CDD\|273704
NC_011146.1\|WP_012530078.1\|1909201_1909870_-\|serine-O-acetyltransferase	unknown	unknown	gnl\|CDD\|200082

Protein	Function_ID	Function_description	E-value
NC_011146.1\|WP_012530082.1\|1913327_1914293_+\|D-2-hydroxyacid-dehydrogenase	gnl\|CDD\|240639	cd12162, 2-Hacid_dh_4, Putative D-isomer specific 2-hydroxyacid dehydrogenases. 2-Hydroxyacid dehydrogenases catalyze the conversion of a wide variety of D-2-hydroxy acids to their corresponding keto acids. The general mechanism is (R)-lactate + acceptor to pyruvate + reduced acceptor. Formate/glycerate and related dehydrogenases of the D-specific 2-hydroxyacid dehydrogenase superfamily include groups such as formate dehydrogenase, glycerate dehydrogenase, L-alanine dehydrogenase, and S-adenosylhomocysteine hydrolase. Despite often low sequence identity, these proteins typically have a characteristic arrangement of 2 similar subdomains of the alpha/beta Rossmann fold NAD+ binding form. The NAD+ binding domain is inserted within the linear sequence of the mostly N-terminal catalytic domain, which has a similar domain structure to the internal NAD binding domain. Structurally, these domains are connected by extended alpha helices and create a cleft in which NAD is bound, primarily to the C-terminal portion of the 2nd (internal) domain. Some related proteins have similar structural subdomain but with a tandem arrangement of the catalytic and NAD-binding subdomains in the linear sequence. While many members of this family are dimeric, alanine DH is hexameric and phosphoglycerate DH is tetrameric.	2.58309e-177
NC_011146.1\|WP_012530085.1\|1917633_1918824_+\|aminopeptidase-P-family-protein	gnl\|CDD\|223085	COG0006, PepP, Xaa-Pro aminopeptidase [Amino acid transport and metabolism].	6.32835e-60
NC_011146.1\|WP_041263133.1\|1900748_1902143_+\|capsule-assembly-Wzi-family-protein	gnl\|CDD\|379441	pfam14052, Caps_assemb_Wzi, Capsule assembly protein Wzi. Many bacteria are covered in a layer of surface-associated polysaccharide called the capsule. These capsules can be divided into four groups depending upon the organisation of genes responsible for capsule assembly, the assembly pathway and regulation. This family plays a role in group 1 capsule biosynthesis. It is likely to be involved in the later stages of capsule assembly. It is likely to consist of a beta-barrel structure.	1.51207e-67
NC_011146.1\|WP_012530088.1\|1921491_1921695_+\|hypothetical-protein	gnl\|CDD\|237030	PRK12270, kgd, multifunctional oxoglutarate decarboxylase/oxoglutarate dehydrogenase thiamine pyrophosphate-binding subunit/dihydrolipoyllysine-residue succinyltransferase subunit.	3.44824e-06
NC_011146.1\|WP_012530074.1\|1904593_1904872_+\|YcgN-family-cysteine-cluster-protein	gnl\|CDD\|235356	PRK05170, PRK05170, YcgN family cysteine cluster protein.	3.37776e-40
NC_011146.1\|WP_012530081.1\|1912726_1913317_+\|DUF502-domain-containing-protein	gnl\|CDD\|225480	COG2928, COG2928, Uncharacterized conserved protein [Function unknown].	3.21362e-59
NC_011146.1\|WP_012530073.1\|1903790_1904579_+\|hypothetical-protein	gnl\|CDD\|236138	PRK07994, PRK07994, DNA polymerase III subunits gamma and tau; Validated.	7.35099e-08
NC_011146.1\|WP_012530079.1\|1910220_1911141_-\|tRNA-(adenosine(37)-N6)-dimethylallyltransferase-MiaA	gnl\|CDD\|234626	PRK00091, miaA, tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed.	1.37619e-111
NC_011146.1\|WP_012530084.1\|1915786_1917436_+\|AMP-binding-protein	gnl\|CDD\|236236	PRK08315, PRK08315, AMP-binding domain protein; Validated.	0
NC_011146.1\|WP_012530087.1\|1920473_1921025_-\|AmmeMemoRadiSam-system-protein-A	gnl\|CDD\|275134	TIGR04335, AMMECR1_domain_protein, AmmeMemoRadiSam system protein A. Members of this protein family belong to the same domain family as AMMECR1, a mammalian protein named for AMME - Alport syndrome, Mental Retardation, Midface hypoplasia, and Elliptocytosis. Members of the present family occur as part of a three gene system with a homolog of the mammalian protein Memo (Mediator of ErbB2-driven cell MOtility), and an uncharacterized radical SAM enzyme.	5.65458e-72
NC_011146.1\|WP_012530080.1\|1911137_1912514_-\|S41-family-peptidase	gnl\|CDD\|223864	COG0793, Prc, Periplasmic protease [Cell envelope biogenesis, outer membrane].	5.24293e-130
NC_011146.1\|WP_012530076.1\|1906512_1907733_+\|response-regulator	gnl\|CDD\|226702	COG4251, COG4251, Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms].	1.04671e-44
NC_011146.1\|WP_012530072.1\|1902890_1903766_+\|AAA-family-ATPase	gnl\|CDD\|132060	TIGR03015, pepcterm_ATPase, putative secretion ATPase, PEP-CTERM locus subfamily. Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems. [Protein fate, Protein and peptide secretion and trafficking].	7.23051e-93
NC_011146.1\|WP_012530069.1\|1898812_1900444_+\|capsule-assembly-Wzi-family-protein	gnl\|CDD\|379441	pfam14052, Caps_assemb_Wzi, Capsule assembly protein Wzi. Many bacteria are covered in a layer of surface-associated polysaccharide called the capsule. These capsules can be divided into four groups depending upon the organisation of genes responsible for capsule assembly, the assembly pathway and regulation. This family plays a role in group 1 capsule biosynthesis. It is likely to be involved in the later stages of capsule assembly. It is likely to consist of a beta-barrel structure.	9.82612e-130
NC_011146.1\|WP_012530086.1\|1919041_1920367_+\|citrate-(Si)-synthase	gnl\|CDD\|181961	PRK09569, PRK09569, citrate (Si)-synthase.	0
NC_011146.1\|WP_012530077.1\|1907729_1909019_-\|tRNA-(N(6)-L-threonylcarbamoyladenosine(37)-C(2))--methylthiotransferase-MtaB	gnl\|CDD\|273704	TIGR01579, MiaB-like-C, MiaB-like tRNA modifying enzyme. This clade of sequences is closely related to MiaB, a modifier of isopentenylated adenosine-37 of certain eukaryotic and bacterial tRNAs (see TIGR01574). Sequence alignments suggest that this equivalog performs the same chemical transformation as MiaB, perhaps on a different (or differently modified) tRNA base substrate. This clade is a member of a subfamily (TIGR00089) and spans low GC Gram positive bacteria, alpha and epsilon proteobacteria, Campylobacter, Porphyromonas, Aquifex, Thermotoga, Chlamydia, Treponema and Fusobacterium. [Protein synthesis, tRNA and rRNA base modification].	7.21222e-156
NC_011146.1\|WP_012530078.1\|1909201_1909870_-\|serine-O-acetyltransferase	gnl\|CDD\|200082	TIGR01172, Serine_acetyltransferase, serine O-acetyltransferase. Cysteine biosynthesis [Amino acid biosynthesis, Serine family].	5.01793e-97

>NC_011146.1|WP_012530078.1|1909201_1909870_-|serine-O-acetyltransferase
MFSRLKSDIQAVFDRDPAARSVLEVIFCYPGLHAIWFHRISHWFWKHEFWFLGRFTSHIGRFMTGVEIHPGATIGQGFFIDHGMGVVIGETAEIGENVTLYHGVTLGGVSWEKVKRHPTLMDNVVIGSGAKILGPFTVGKDSKVGSNSVVVKEVPPNSTVVGIPGRVVMATEKPQERLDLEHGKMPDPEAKAISCLFDQIRELERKYAALAAEHEQLKKRLG
>NC_011146.1|WP_012530077.1|1907729_1909019_-|tRNA-(N(6)-L-threonylcarbamoyladenosine(37)-C(2))--methylthiotransferase-MtaB
MSKTIAITTLGCKINQFESAAMTQALEQNGYSMVPFSDKADIYVINSCTVTAKTDAESRRLIRRATRLNPEARVVVTGCYAQMNAEELLKLAGVNLILGNSEKKDIVGFLEGMDDQPRAVVSDISLEKTGDTAPLETFAEHTRAFLQVQNGCDARCAYCIVPYARGASRSVAVQEALDGMAAFAAQGFQEIVLTGIHLGAYGLDLAPATDLLGLMQKAQEQGVVRRLRIGSVEPTEVSKQLIDFMARSPMVCPHLHLPLQSGSDSVLSRMNRGYDTALFREVVQSLASAMPEVCIGSDVIAGFPGESDQEFDETYRFIDSLPLAYLHVFPFSQRPGTPAATMTPQVHPKVIKERAEALRVLSERKKSDYAAGFVGRELRVLVQKGEKGLSRNYLTVLIEESKGLVNREVTVQVTGAKDGELVGRVLKES
>NC_011146.1|WP_012530076.1|1906512_1907733_+|response-regulator
MKVLVVDDSRNDRKIIRYNFEWHGCEVLEASNGKQGLELAAAEKPDLIISDCLMPVMDGFQFLHEIKKFQDTKTIPFIFYSAVYTGSREAELAASLGARAFLAKPMRPEELWDEVGRLMAAEPAGEVVEQKPWPEEEFLKNYSQLVAGKLEEKVRELTETNESLLRLNSELERRVVERTSQLEAANRELDMFSYSISHDLRAPLRHLEGFSQALIDEYATKLNHTGKEYLERLRKSARRLTDMIDALLELSRHTRGKLVKESVDITSIAKEVAAQLARSQPERKVSIEVAEGMMVRGDTRLLKVVLEQVIGNAWKFTEPRGDEALVEVFPTELEGRPAYAVRDNGVGFQMEYADKLFSPFQRLHAQDEFPGRGIGLAIARRIITRHGGKIEAQAELGKGATFTFSV
>NC_011146.1|WP_012530075.1|1904991_1906251_+|hypothetical-protein
MASVENRQVAAARLSQGDFQALPLDEKGKYLKTAPAREKMELIIADPNAKRVAATLEPQEFFWLVKEVGEADAVELLQLASADQCIFILDMEAWEGWTFSEEQVCHWLEKFMEGGEPRVHELLQHLDFDLLQLFLSREIEVGGGVGDQSNDQERLAEYDHTFDGVFMINFKNPKHSQLVGSFLSMLIKLDNSLYTALMEGAKGEVDLELEEQCQRFRTGRLQDLGFPPLDEALSIYARVNPEHFQLEGGKELSPAGEGGELVPVSADEGTFFSRALALAATPTLYQELNYLVNSALVAEGNAFHEPEAMLAILRRVSGYLNIALERLAPADEQRAARILVSEELKRLFHLGYSIVLQLKFKAREVETTDYASGKLLSGLKAKRPRFYRGLDPDGVDGYREFRDLSDVERVAGLLAQLKP
>NC_011146.1|WP_012530074.1|1904593_1904872_+|YcgN-family-cysteine-cluster-protein
MSGVKLNREQWEGLCEQCGLCCFEKIEDEDGRILFTSTPCRYLDIDTRRCKIYQKRFKIFPECVELTPELVKELKWLHRSCGYKKAMKKGII
>NC_011146.1|WP_012530073.1|1903790_1904579_+|hypothetical-protein
MSSILKALEKVEDAQNQKRNPGAGGLGRKRERRPAWLIPAWSLGGAAVATLVTYAIMGGFGKSAPPAAQVVATAPQPPAQPVAPVAKAAVSATPATTALVTTAPATAPAAPVKPVAAPVAVKPQQTRHEVKTPVRKQQVASVPKHAATLAAKPAAKQQRSAKVPVPQVPARPAAVYAAPALAAPVAAQPPRAVSSEKTHQEIRVTGIAWQNDSQSSFAMVNGRPVRQGAVVDGYKVEQIFEDSVRFSGSKGPVTIPLGASEQ
>NC_011146.1|WP_012530072.1|1902890_1903766_+|AAA-family-ATPase
MYCEFYGFRESPFTITPNPRFLFLSDHHREALAHLLYAVENRVGFVELTGEVGTGKTTVLRTFLNRLDGRGHRTALIFNPCLSSLELLKSVNREFGLSCDSESRVDLLQVLNEFLLEQKRAGHSVVLVMDEAQNLSPEVLEQIRLISNLETETDKLIQIVLSGQPELLTVLAREELRQLNQRITVRYHLLPMDFENTRRYIDHRMELAGCHRAADFSVPAMKRIFRFSGGVPRLVNVVCDRALLIGFTQESRIISGSMAVQAVSEVAGRAPYGIIARILRRVLGRVPRWLN
>NC_011146.1|WP_012530071.1|1902336_1902588_+|hypothetical-protein
MKKDNLEVILEQMNSKFDLVLEGHAVLRNEIRDLSRKTDERFDMVDFKIETLNKKIDAVACDLSAHRADTEAHHGVYRVMESE
>NC_011146.1|WP_041263133.1|1900748_1902143_+|capsule-assembly-Wzi-family-protein
MSLFFLLLLSKVALADSYLPLDSRLYGDLRFLEANGGITTAQLSTLPISRREAARLTSEAIHNVAADDSFRVQAALARLKREFRRELEGDTSPEFVMDTVDLQYMYSDDKGFFWQKNRDGVEVRGGHNLFLNATGRFDSKYVGAVVRPEADLYEADAGLRLKKAYLLANLGREEFVLGKESQWWGTGINGSPLLSNNADPLTIFKISNSVPYFPFGIGVRGSFFISRLEEERTDVDRPILYGLRLDLKPFPWLELGLAKTALLGGEGRNAGIRTFGNSLLGRGENEEGEAGDQRAGLDAKVVIPWRVQPITLSVEMTGEDQRNNFPEKWFGVYGIYLPRVLSLERLEVSAEYADNVDATYKGFWYTHHIYSQGYTYHGRIIGHYIGGDARDLFLRGQYHFDPLILSLSYENLRKGYPERFRWESFEASALTELSNQTDLTISAGYAREAEKNFIMRIGLRHYFM
>NC_011146.1|WP_012530069.1|1898812_1900444_+|capsule-assembly-Wzi-family-protein
MRFFLVALVVGITSFASSAFALSSANIPLDSPIYLYLEKLSGYGLVSGDVKGIRPFSKAEAVRLLREAETRLASGDPPPLADEMVQRLRELLPREAALYADEGKAKTLDFEPVAAARLRYVYLDGKPRSYFRAVQDGGNEGVFGIGSGLRPATPYPNPVQQRGFEGTPLFENNDGVVYHSGSNLDLRGSGEAYWGAKAALLVEPMLLWSEKTDEATLRLNRGYIKFGGKGLELEAGRDENWLGPGYRGAITLTNNARNMDLVKLSSPELVSTKYLWDLKYTLIFSQLEKTVTDGQEREPWFFAGKLSMKPTQNIEFGINLGRQLGGPGVSNSLGDNARGLIGGWNHDNSNTLAGVDLRFRLPWLRNSELYGEFSGEDAAAFWPIVESYVAGFFIPTLTESGRDDLRFEYFRGNEILYTNGTFPEGYLSHGLPIGHSQGGAAEEWFLRYSHWFSVRNNLALEGMHSTRGDYGRMTVDAMGKFDAAGVMQAVERRNALRAFWSFPVQGEWNALLMYGHEWIDNLELRQGESRKNQLLRAELTYRY
>NC_011146.1|WP_012530079.1|1910220_1911141_-|tRNA-(adenosine(37)-N6)-dimethylallyltransferase-MiaA
MTDETETPERIPNLLVILGATASGKTRLGVQLAGRLNGEIISADSRQVYCGMDIGTGKDLHEYQGIPYHLIDVAPAGHEFNLFQFQRLFLAAFTDICSRGAFPVLVGGSGMYLDCVLRGYRLTEVPQDPALREELAPLSMDELASRLVRSNPRLHNSTDLTERARLIRAIEIAEYRGEAGDDWPELTPLTIGIRWERAQLRERITKRLKERMEQGMVEEVERLHAMGTSWEQLEFYGLEYRYLARYLKGELSRNDMFQKLNSAIHDFAKKQENWFRKMQTNGIAINWVEGNSDPLAQALELLAKNR
>NC_011146.1|WP_012530080.1|1911137_1912514_-|S41-family-peptidase
MSKKVFAAFAVIFLLLSLVLMLPLMDREERAKRSEAEYLEMFRDVVNIVKQSYVDKVDDKKLMAVAINGMLATLDPHSNYLPATDYTEMKVHMAGAFGGLGIELEMRNGKLMVNAPIEDTPAFRAGIQSGDHIWTIDGKPTADLNINQCVSRMRGTPGTSVTLGILREGKSSPLTFRLVRAIIKTKSLKGRLLEPGYGYIRIGEFQERTGEDFEKALKTLAADNGQPLSGLVLDLRFNPGGLVDQACRVANRFIGEGLSSGVIVTTKGREAAMDRSLTATVGDKEPRYPIVVLINGGSASASEIVAGALQDHKRAVIMGTQSFGKGSVQSVMTLDNGDGLKLTTARYYTPSGRSIQAKGITPDIVVEFAKPAPAKDKQKDAKELEIREQDLDGHMDQAPAPPRPASPAKPHSAPPAKPQQKPSSKELKEQDLLKADNQLARALDLLKGVNLLKASGRR
>NC_011146.1|WP_012530081.1|1912726_1913317_+|DUF502-domain-containing-protein
MEKMIRHFKARFITGLFVVVPLGITIFILKFLFNFADGILGTYLDALLSAFLDNPYHIPGLGMLTGAIVIYVSGVLATNVMGTRIIRWWDQLLSRIPLVKSIYGSSKQLTQVFKEGKSSYRRAVFVEWPRPGVRAVGFVTAEVVREGQKLVVVYVPTMPNPTSGFALFFKEAEVHDCGMSVEDAVKFVVSGGAVVQ
>NC_011146.1|WP_012530082.1|1913327_1914293_+|D-2-hydroxyacid-dehydrogenase
MKIVVLDGYTLNPGDNPWDEVASFGDLTLYDRTPAEMVVERSRGAQVLLTNKTVLSAATLAALPELRLVCVLATGYNVVDLEKSAQLGIPVVNVPEYGSDSVAQHAIALLLELTNRVAQYHQAVARGDWSASPDFTLVGEPLTELCGRSIGIVGLGRIGARVARIAQALGMEVLAYNPRHRVAPEGISLRWLSLDQLFSQADVVSLHCPLNDENEGMVNQRTLSLMKPQALLINTSRGGLVVERDLAEALNRGSIAGAAVDVAAREPIPADSPLLLAKNCIVTPHIAWATLAARRRLMAATAANIASFLAGKPQNVVNGVQ
>NC_011146.1|WP_012530083.1|1914463_1915132_-|hypothetical-protein
MIKEAITATLMLSLGVAGVSEAGENNKRSSGKKTSAPGYTVISPIFSQLVSFTLPAGFTTVWEDGNKTSYLREAVPTGETVESWTQMVTVTGAKGLAGNPDVTPRSFAGAVAGGFEKSCPDTYSGKILKEGKNERGYDHIVAVVSCGATPGGSGMSSESALVVVIKGDRDYYTLQWAERGSPSGKAIPVNPQKWKGRLAKLAPINLSPIVPGAPQPSPSRSK
>NC_011146.1|WP_012530084.1|1915786_1917436_+|AMP-binding-protein
MSQQIELTVGALLDDIAGKFPDNEALIYVERGLRYSYREFNERCRQVAKGLLRMGVKKGDHLAIWAYNVPEWVVLQFATAKIGAVLVTVNTSYKSAELEYIMKQSDSKFLFLVQGFKDTDYIRTLAAVVPELAESEPGKLESRDLPFLKHVVFLGEGAPAGTINFEKIVELGREVPDAELHAVEKTLSVHDVINMQYTSGTTGFPKGVMLTHHNLVNNGFNIGECMRFTEKDRLCIPVPFFHCFGCVLAVMACVTHGSTMVPVEIFDPLKVLQAVEKERCTALHGVPTMFIAELEHPRFPEFDLTSLRTGIMAGSNCPIEVMRRVIRDMHASEITIAYGQTESSPVITQTRTDDPIELKVSTVGRVLPNVELKIVDIESGAELPPGKQGELCTRGYLVMKGYYKMPEETAKAIDADGWLHTGDLAVMDENGYCKITGRIKNMIIRGGENIYPREIEEFLYTHPNISDVQVYGVPDRKYGEQVMAAVVLKQGSEMSEAEVKEFCRGRIANYKIPKYVRFVDSYPMTASGKIQKFKLREMAIRELQLEENI
>NC_011146.1|WP_012530085.1|1917633_1918824_+|aminopeptidase-P-family-protein
MRLTPKNELEYRYRKLQSEMAGAGIDAVIMVQNADLFYFTGTAQAGNLYVPASGRPIYLVRRDYLRARMESALAEVLPSSSLNDLPGLVSDHGHSAPKRLGLELDVLPVNLYLKYRALYPDAELVDASPLIRRVRMVKSHYEIHIMQDAGNQADKVYKKAAETIREGICEVELAAELERFSRLEGHQGHVRMRAFNGEVGGAQVLAGPDAAAPAAGNTALGGMGLTPAFGHGASYNRIRRGEPVVVDFASCFDGYLVDQTRVFAIGSVSDRMRRGYQDMLRIEELMMEMAEVGTSWGGIYHACLDLACEMGYADNFMGTPGSQVPFIGHGLGIEIDEYPFIARGFESETLQVGMAFAFEPKLVFPGEGAVGIENSFYLSEQGLKRLTFSRQELVLL
>NC_011146.1|WP_012530086.1|1919041_1920367_+|citrate-(Si)-synthase
MTQLKEKLFEKIQAHRPRITRLTKEFGSVIIDKVDIGQCIGGARDIRSLVTDISYLDPQEGIRFRGKTIPETFEALPKAAGSEYPTVESFWYFLLTGEVPTAAQVSAVEAEFKTRQVVPEYVYTAVRALPKESHPMVMLSVGIMAMQKDSKFAAFYSGGKFNKMDAWESVYEDASDIVARIPVLAAFIYNLKYRGDKQIAIDPKLDMGANFAHMIGQSEQYKDVARMYFILHSDHESGNVSAHTTHLVHSALSDPYYAYSAGLNGLAGPLHGLANQEVLGWIMEFQKKLNGAEPTKENVTKALWDTLNAGQVVPGYGHAVLRKTDPRYTAQREFCLKTPGLKDDQLFKLVAMIFETAPGVLTEHGKTKNPWPNVDAQSGVIQWYYGLKEWDFYTVLFGVGRALGCMANITWDRGLGYAIERPKSVTTDMLEKWAAEGGRKM
>NC_011146.1|WP_012530087.1|1920473_1921025_-|AmmeMemoRadiSam-system-protein-A
MNETLNSADKKLLLHLAREAVTAAVETGKVNVRQVTEAHLQATKGCFVTIKRLGALRGCIGNFSSEKPLYLLVQEMAASAATRDPRFYPMKEEDLADFELEISVISPLQKIATPEEVVVGRHGLYLEKNFSRGVLLPQVAVEQGWDRETFLGQTALKAGLKKEDWKEGADLYVFTAEILAERH
>NC_011146.1|WP_012530088.1|1921491_1921695_+|hypothetical-protein
MKKLISLALCLALALSFAAGCKKKEEAPAPAAEQAAPAAPAAPAQAPMSSATAPAAPAAPAAPAEHK

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Crispr_ID: NC_011146_7

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_011146_7

2215037-2215116

Unclear

Consensus_repeat	Method
GGCGGGGTCGGACCAAGGTAACG	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_011146_7

>merge|NC_011146|7|2215037-2215116|CRISPRCasFinder
GGCGGGGTCGGACCAAGGTAACGTGTTATGATTACACGATAAAAACCAAACGGGTGTGGCGGGGTCGGACCAAGGGAACG

>NC_011146|7|7|2215037-2215116|CRISPRCasFinder
GGCGGGGTCGGACCAAGGTAACG	TGTTATGATTACACGATAAAAACCAAACGGGTGT
GGCGGGGTCGGACCAAGGGAACG

Protein	Signature genes	Signature genes Name	Protein_function
NC_011146.1\|WP_012530352.1\|2217671_2219141_+\|PAS-domain-containing-protein	unknown	unknown	gnl\|CDD\|226951
NC_011146.1\|WP_012530354.1\|2219852_2220464_+\|hypothetical-protein	unknown	unknown	unknown
NC_011146.1\|WP_012530350.1\|2216791_2217193_-\|type-II-toxin-antitoxin-system-VapC-family-toxin	unknown	unknown	gnl\|CDD\|350250
NC_011146.1\|WP_174263187.1\|2216035_2216320_-\|twitching-motility-protein-PilT	unknown	unknown	gnl\|CDD\|350305
NC_011146.1\|WP_012530337.1\|2208045_2208348_-\|HigA-family-addiction-module-antidote-protein	unknown	unknown	gnl\|CDD\|274228
NC_011146.1\|WP_012530357.1\|2226899_2227304_+\|GNAT-family-N-acetyltransferase	unknown	unknown	gnl\|CDD\|379228
NC_011146.1\|WP_148212904.1\|2211148_2211532_+\|hypothetical-protein	unknown	unknown	unknown
NC_011146.1\|WP_012530343.1\|2211745_2212711_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|376162
NC_011146.1\|WP_012530346.1\|2214008_2214812_+\|hypothetical-protein	unknown	unknown	unknown
NC_011146.1\|WP_012530351.1\|2217189_2217441_-\|AbrB/MazE/SpoVT-family-DNA-binding-domain-containing-protein	unknown	unknown	gnl\|CDD\|198034
NC_011146.1\|WP_012530336.1\|2207034_2207646_-\|fibronectin-type-III-domain-containing-protein	unknown	unknown	gnl\|CDD\|214495
NC_011146.1\|WP_041262716.1\|2210023_2210212_+\|hypothetical-protein	unknown	unknown	unknown
NC_011146.1\|WP_083770243.1\|2220942_2224611_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|227511
NC_011146.1\|WP_012530339.1\|2209149_2209968_+\|hypothetical-protein	unknown	unknown	unknown
NC_011146.1\|WP_012530347.1\|2215232_2216021_+\|transposase	unknown	unknown	gnl\|CDD\|224854
NC_011146.1\|WP_012530340.1\|2210357_2211074_+\|hypothetical-protein	unknown	unknown	unknown
NC_011146.1\|WP_012530353.1\|2219278_2219794_+\|hypothetical-protein	unknown	unknown	unknown
NC_011146.1\|WP_012530338.1\|2208358_2208640_-\|type-II-toxin-antitoxin-system-RelE/ParE-family-toxin	unknown	unknown	gnl\|CDD\|226079
NC_011146.1\|WP_083770245.1\|2224540_2226697_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|227511
NC_011146.1\|WP_012530344.1\|2212807_2213182_+\|hypothetical-protein	unknown	unknown	unknown

Protein	Function_ID	Function_description	E-value
NC_011146.1\|WP_012530352.1\|2217671_2219141_+\|PAS-domain-containing-protein	gnl\|CDD\|226951	COG4585, COG4585, Signal transduction histidine kinase [Signal transduction mechanisms].	9.42714e-40
NC_011146.1\|WP_174263187.1\|2216035_2216320_-\|twitching-motility-protein-PilT	gnl\|CDD\|350305	cd18738, PIN_VapC4-5_FitB-like, uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily. The PIN_VapC4-5_FitB-like subfamily includes the Virulence associated protein C (VapC)-like PIN (PilT N terminus) domain of Mycobacterium tuberculosis VapC4 and VapC5 ribonuclease toxins of the VapBC toxin/antitoxin (TA) system, and Neisseria gonorrhoeae FitB toxin of the FitAB TA system. This subfamily belongs to the VapC-like family of the PIN domain nuclease superfamily. VapC is the PIN-domain ribonuclease toxin from prokaryotic VapBC toxin-antitoxin (TA) systems. VapB is a transcription factor-like protein antitoxin acting as an inhibitor. Other members of the VapC-like nuclease family include eukaryotic ribonucleases such as Smg6, ribosome assembly factor NOB1, exosome subunit Rrp44 endoribonuclease and rRNA-processing protein Fcf1. The structural properties of the PIN (PilT N terminus) domain indicate its active center, consisting of three highly conserved catalytic residues which coordinate metal ions, in some members, additional metal coordinating residues can be found. Some members of the superfamily lack several of these key catalytic residues. The PIN active site is geometrically similar in the active center of structure-specific 5' nucleases, PIN-domain ribonucleases of eukaryotic rRNA editing proteins, and bacterial toxins of toxin-antitoxin (TA) operons.	8.34911e-10
NC_011146.1\|WP_012530337.1\|2208045_2208348_-\|HigA-family-addiction-module-antidote-protein	gnl\|CDD\|274228	TIGR02607, Virulence-associated_protein_I, addiction module antidote protein, HigA family. Members of this family form a distinct clade within the larger family HTH_3 of helix-turn-helix proteins, described by pfam01381. Members of this clade are strictly bacterial and nearly always shorter than 110 amino acids. This family includes the characterized member HigA, without which the killer protein HigB cannot be cloned. The hig (host inhibition of growth) system is noted to be unusual in that killer protein is uncoded by the upstream member of the gene pair. [Regulatory functions, DNA interactions, Regulatory functions, Protein interactions, Mobile and extrachromosomal element functions, Other].	2.6905e-25
NC_011146.1\|WP_012530357.1\|2226899_2227304_+\|GNAT-family-N-acetyltransferase	gnl\|CDD\|379228	pfam13508, Acetyltransf_7, Acetyltransferase (GNAT) domain. This domain catalyzes N-acetyltransferase reactions.	8.91678e-10
NC_011146.1\|WP_083770245.1\|2224540_2226697_+\|hypothetical-protein	gnl\|CDD\|227511	COG5184, ATS1, Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton].	4.41865e-29
NC_011146.1\|WP_012530350.1\|2216791_2217193_-\|type-II-toxin-antitoxin-system-VapC-family-toxin	gnl\|CDD\|350250	cd18683, PIN_VapC-like, Uncharacterized subfamily of the VapC (virulence-associated protein C)-like family of the PIN domain superfamily. VapC is the PIN-domain ribonuclease toxin from prokaryotic VapBC toxin-antitoxin (TA) systems. VapB is a transcription factor-like protein antitoxin acting as an inhibitor. Other members of the VapC-like nuclease family include FitB toxin of the FitAB TA system, eukaryotic ribonucleases such as Smg6, ribosome assembly factor NOB1, exosome subunit Rrp44 endoribonuclease and rRNA-processing protein Fcf1. The PIN domain belongs to a large nuclease superfamily. The structural properties of the PIN (PilT N terminus) domain indicate its active center, consisting of three highly conserved catalytic residues which coordinate metal ions, in some members, additional metal coordinating residues can be found. Some members of the superfamily lack several of these key catalytic residues. The PIN active site is geometrically similar in the active center of structure-specific 5' nucleases, PIN-domain ribonucleases of eukaryotic rRNA editing proteins, and bacterial toxins of toxin-antitoxin (TA) operons.	2.44384e-48
NC_011146.1\|WP_012530336.1\|2207034_2207646_-\|fibronectin-type-III-domain-containing-protein	gnl\|CDD\|214495	smart00060, FN3, Fibronectin type 3 domain. One of three types of internal repeat within the plasma protein, fibronectin. The tenth fibronectin type III repeat contains a RGD cell recognition sequence in a flexible loop between 2 strands. Type III modules are present in both extracellular and intracellular proteins.	0.000389468
NC_011146.1\|WP_083770243.1\|2220942_2224611_+\|hypothetical-protein	gnl\|CDD\|227511	COG5184, ATS1, Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton].	2.77878e-27
NC_011146.1\|WP_012530343.1\|2211745_2212711_+\|hypothetical-protein	gnl\|CDD\|376162	pfam18739, HEPN_Apea, Apea-like HEPN. Apea-like HEPN nuclease. In epsilonproteobacteria embedded in R-M operons.	0.0021793
NC_011146.1\|WP_012530347.1\|2215232_2216021_+\|transposase	gnl\|CDD\|224854	COG1943, COG1943, Transposase and inactivated derivatives [DNA replication, recombination, and repair].	4.20319e-08
NC_011146.1\|WP_012530338.1\|2208358_2208640_-\|type-II-toxin-antitoxin-system-RelE/ParE-family-toxin	gnl\|CDD\|226079	COG3549, HigB, Plasmid maintenance system killer protein [General function prediction only].	1.71169e-32
NC_011146.1\|WP_012530351.1\|2217189_2217441_-\|AbrB/MazE/SpoVT-family-DNA-binding-domain-containing-protein	gnl\|CDD\|198034	smart00966, SpoVT_AbrB, SpoVT / AbrB like domain. This domain is found in AbrB from Bacillus subtilis. The product of the abrB gene is an ambiactive repressor and activator of the transcription of genes expressed during the transition state between vegetative growth and the onset of stationary phase and sporulation. AbrB is thought to interact directly with the transcription initiation regions of genes under its control. AbrB contains a helix-turn-helix structure, but this domain ends before the helix-turn-helix begins. The product of the B. subtilis gene spoVT is another member of this family and is also a transcriptional regulator. DNA-binding activity in this AbrB homologue requires hexamerisation. Another family member has been isolated from the Sulfolobus solfataricus and has been identified as a homologue of bacterial repressor-like proteins. The Escherichia coli family member SohA or Prl1F appears to be bifunctional and is able to regulate its own expression as well as relieve the export block imposed by high-level synthesis of beta-galactosidase hybrid proteins.	5.0287e-08

>NC_011146.1|WP_012530346.1|2214008_2214812_+|hypothetical-protein
MSFGFLEGFNNKLRNIFRSDWLGIYLTSDYKIFLCGTPFDKPAPFQLQDANFASQQYDVLVNSVITEVQKKCKRWPPPHIFFCNSLDAPSLSTDFFKKITAQQSVNMYPTDCKMPAAIGAGMNVTDFSKQLVIAMVENTIHSYLVFASCIYYYESAPISSSDSLQEALNAQIARIDAGIEPDLPTHFKNINLGEDEINQINSGWAKPCSEQLFLIGSPSVLIDIDKEIRGYKIVSCEGLDECIVSGMDTIIKGVSQLPAGTRIGKKD
>NC_011146.1|WP_012530344.1|2212807_2213182_+|hypothetical-protein
MTESDLFDEFERLWRCYRVCCEVAVTLKTPNAEDDEFIRMAIVGFSYHDRTENWNHDHYKIAKNYLDECAGLGDSAQEKKFNLLVIGALLGLYSSGKIDEKIYRIGYILLPGFVMAKGGAVNEL
>NC_011146.1|WP_012530343.1|2211745_2212711_+|hypothetical-protein
MKRRINPEKFTLSGVCLNGDFNLHHVCPQYLKKITESFGCVTLASGNCKAIIEVEWAELLPGNPTTITIIASGCTKKSIKDDTIRTRHYSHLIDAYIHYVFLAANIASPGCISFYSSELKHSSLAEINNKFMLSGDTYGLMIATKNSNWPEICNLDINDVKVWLEKVGYGIKQIATTRTDKTLFSFLYLSTTNEWLLDGVLWISYALEGLYDTPAFNIKSAITKRIALLHGMPTAAVKKKLSRFYDIRSSFFHGRMKIPHPMHNEVLDQSLWDWDESDDVDCVALAGRVVIASIQQLVKNNFSHLTFTESLNGTPSGLDGS
>NC_011146.1|WP_148212904.1|2211148_2211532_+|hypothetical-protein
MIENKRTMKNSIIPRILIISVAALFGASIGKVADFDQRYSAAFGGIIAAIAVGIGALLNTKTKELENTTPPKKLLGLRIGVIGFCVAASGCIVAVYTSQSAGFILAATGIGTGFVGMGIHFVNMFRK
>NC_011146.1|WP_012530340.1|2210357_2211074_+|hypothetical-protein
MEPNEKKPYNDGIETIFPTLQKEYEGEENRNKHLETKVQVLLAVSGVLASALMLLLKAIVDSAGPKATILIILSHSFLFLIAAIISFLLAFRIKTFKQIAHNALLSDKAFQMDKQEVMYNLSHDYYECIKYNAEAAGSKVRLIKFGSVLMIISIIFLVIAFGHISYNIINKERSNFMAKDNENKTGNTGSNQTGTNSEHSESVIRGGRVYDSERGGYNKGPGFGTQPLEKSESGLKEK
>NC_011146.1|WP_041262716.1|2210023_2210212_+|hypothetical-protein
MNYIVECFVRKPTDRKATGTVKLLIQTDDEGQIYEIAKKEVAKNGYMLVRLGRILENETVSF
>NC_011146.1|WP_012530339.1|2209149_2209968_+|hypothetical-protein
MRLDREVLKILSVRLGDLIQSSRSEIEVEAAQIYNDFARRNIVSPMALRMVAEMCCKHIKNRGQKICDLFSDLAERGVLSFIPETRDEFFGIARDHMKSDLQRLKTVTDRPMIGKFDPTSMLEVAISDGLDQIDAQIGILTLTKKVPSNSTSQTLTLYNYGTIGAIQSGSNMTAQISQNGVGSKEDLLKALENLKSVLTGEDIANKLDIIDTIDEGIKELDQESVNVFKLQGYIMMLVAALQTLPTLKPAVVVLAQAYDFYFGTTVSDVLVQ
>NC_011146.1|WP_012530338.1|2208358_2208640_-|type-II-toxin-antitoxin-system-RelE/ParE-family-toxin
MIVSFGNKETERLYTTGKSKKLPPDILARAAMRLTQLDSAREVTDLLMPPSNRLEALSGNRARQWSIRINDQWRICFSFADGDATLVEITDYH
>NC_011146.1|WP_012530337.1|2208045_2208348_-|HigA-family-addiction-module-antidote-protein
MSYTNNLPPIHPGVFLKEILDDLTVTQTAFAKAIGVSPMRVSHVIKGTRPVTAELALLFGKAFSQTPTYWMNLQTSFDLKTAEKELAQKVRQVHPLSQAA
>NC_011146.1|WP_012530336.1|2207034_2207646_-|fibronectin-type-III-domain-containing-protein
MKNLFGGGSDEEVIRLAGEFLTKDAVVESIFTVLPNLQKLKFSHDRHLGLFNEVLGGNREKEGELQAVRQEVSAQLGLFRGMALLAGTQDPTIPQKLGLQQQQPITKRTAGILTAPENSRMVYDGHTIVARANAVKGAKSYEVWGCDGDPMTESNWRHLTTSCRVNRIEIAGLTPGKMFYFRIRAIAPSGPGSWTNFMSMMAI
>NC_011146.1|WP_012530347.1|2215232_2216021_+|transposase
MARANRHHIPGQVWHITHRCHKKEFLLKFAKDRQRWRYWLFEARKRFGLQVLNYTATSNHIHLLVVDNHMDTIPKSLQLIAGRTAQEYNQRKERNGAFWEDRYHATAIDHDEHLLRCLVYIDLNMIRAGVVSHPSEWDMNGYNEIQKPPIRYGVIDHQELQRLCGISDPQKFKEQYKQWVEVALTGGSVERESSWTESVAVGNRKFIEEVKARLGIQAIGKKIREQGGTLLTLREESAAYNADYGVKKGALSLQNTYFWDIS
>NC_011146.1|WP_174263187.1|2216035_2216320_-|twitching-motility-protein-PilT
MSGNRRFLLDTNAVVSLLAGNRDLADKLETAEYVGISVITYLEFLAFDSLSESDRDCFVRFVELVEVVPLAHDDSGLISKALVPSPASPGVGPS
>NC_011146.1|WP_012530350.1|2216791_2217193_-|type-II-toxin-antitoxin-system-VapC-family-toxin
MIALDTNILVRYLIKDDPDQAVLATNFLANNRCFLHKSVLLELVWVLASPAGYKLSRETVHERLLHVLGLSCIESEDPTIVSQALTWYAEGMDFGDALHLASSSELAGLATFDKKFASTAEKLDAKPPITLIS
>NC_011146.1|WP_012530351.1|2217189_2217441_-|AbrB/MazE/SpoVT-family-DNA-binding-domain-containing-protein
METVKLSSKGQFILPKAIRDRHHWDAGTEFVIIDRGAELVIKPTKVFPPTQLEAPDTPSVYRGKRLSLEDMEQAILSEAGKHL
>NC_011146.1|WP_012530352.1|2217671_2219141_+|PAS-domain-containing-protein
MIFSRLRHANYALALLATGAAFSLRQLVQYLTGADLPLYIAFFPIVLIVLLAIGRTPAILVAAAAAAYSAYWHLSPTGSNNVANSSDGVGLALFVLSGACLCLLSEIVRQKVDAYQSANEQLVREISLRRQTEEYLASRERDLSQTQMATHLGSWKWDIVNDKVTWSKELYRIFGVDPQTFIPTNTRANELIHPDDRDMHNNFVAMALTGVSVGPFECRLCPPGGEERIVLASGFDVEFDSFGNPVSLLGTVIDLTEQKLAERKISEYQQKLQSMVIELSMAEERERCRIAGELHDQVGQNLILCKMKLDALMELLQCGEPFDVAAGLETIIDQAIQDIRSLTFQMRPSILVTGGLGPALHWLSEELHATSGLKVELKADYSHKPLRHDVNQTVFQAARELMLNVAKHAGTNACRVTLNFDDDFLTLCVEDDGIGLQARSSQGTNTMKGGFGLFNVQQRIEHLGGRFSIEDKVAGGVLATIMVPTGACG
>NC_011146.1|WP_012530353.1|2219278_2219794_+|hypothetical-protein
MPNFFCSVTLTFILTIVTGCAIGVPQNRGEFVDMYKDAHVFGKAEHVTINRPAKAVAADIKAFSQNCLNIRVVNPPNYALKEAGGSTTFRTKIEKVGNNQTTLSLQEEYNDRPMSGAPQDGLYTLVAEIRAAGKTKTELDIYHARRGKIADPLKQWAAGDKCACPSLDRGW
>NC_011146.1|WP_012530354.1|2219852_2220464_+|hypothetical-protein
MHVKIYAALLVSVLLAACATQSVAPSPPQGANADALYITDGNKAGFSIYQKGRLVNAPWENGYLTYRLTNGDFTIRTRYKSLRIYLAEKDAGEFRQSKDTKLNVLSSVLSGASESDSDTLFVADHTDPLSSNNSIDSYSGLKKTTKSENSYEVRNLYFLKTSKEISVSRYAGTLYAYAWVDLNGDHKIGLDEVSRIKLLINTK
>NC_011146.1|WP_083770243.1|2220942_2224611_+|hypothetical-protein
METSKPRLLHCVLLLNVFFAAIFLLLAGSHHEAFAGPVVTIVDPAAGSSGIPSSSKVHATFTESLNPQTVNKCNASLTRASKVTNISTFGDHILSITSDGAIWGWGGSTYGETIAPVGLSAVASVSIGGSHSLALKSDGTVAAWGSNAYGQSSVPSGLSNVVAIAAGERHSAALKSDGTVIEWGDNSYGQSSVPAGLSGVVAIAAGDLHTLALKSDGTVVAWGYNYDGQVTVPTGLAGVTAIAAGANNSAAVKTDGTVVVWGMNYTNNNNVPAGLTGVAAIAVGGHVVALKSDGSVVAWGNNNYGQARVPAGLSDVIAVSAGGTDTIVLKSDGTIVAWGYNSHSQDNIPQKPGCFSAVSVGGYHSTAINPDGTITAWGSNLYGQANVPTGLNNVSAVGIGEGVTVALKSDGTVVTWGHNSKTPPAVSGVTAIAVGGFHALALKPDATVVSWGTDYYGETMVPAGLNGVSAIAAGFYHSLALKADGSLVAWGNNGYGQVSIPAGLNNVTSIAAGMDHNVAVRSDGTVAAWGSNSSGQATVPAGLSGVRQVAAGDLHSVALKTDGTVIAWGDSTYGQTAVPAGLTDVVAVAAGNGYTLALKSGGTVVGWGDNRFGQATLPKSPYGTPLNASVSWDPATLTVTLLPEQPFPLGATVNAALSGAIENVSGERIAPYNWSFSVADSYRITSSVSGGAGGSINCTPGSPAPGQDATCGMSPDAGYALSGLTDNSTDVLGAVTAGSYLIPAVSGDHTLSATFVEIGFPMTVSLSGTGGGVVHSSPAPDLACAAGSCGQKYLVGTTAILTAMPNSNSFFVGWGGDCAGAGDCSVAINAPHSVTATFELKSGVPAVAITSPAAGPTNNRTPVLQYSVNNGSVVVTVDGIVVAKAPGDTLGPLADGAHTVRVESTAGDKSNFAEVIFTVDTIPPVVFIDPVAPTKTNSQIVTGTRETNAAVSISVTAPATVGAVTYPTATTWNCLVNSLAEGDHTVTLTASDAASNSATTAIAITRDTVVPIVAIASPTAGPTSSHTPLLAYTASDGNVAISMDGVVANKVSGDYLDTLADGIHTVRVESRDTAGNVGFAVVTFVVDTTPPQQTVFSKVSAGTRHTIALKSDGTLWSWGYNAFGQLGDGTTVNRYVPVQIGDDNKWISISAGVDFTLALKSDGTLWGWGRNDLGQLGDGTTTFRYSPVQIGNSTDWISIHAGGYHAAALKSDGTLWAWGGQL
>NC_011146.1|WP_083770245.1|2224540_2226697_+|hypothetical-protein
MQEATTPQRSNLTVHCGHGGGNYNGQVGNGSTLNQLFPLQIGTDRSWTAISAGGAHTLALKANGTLWGWGSNSSGQVGLGYGSLAQYTSPTRIGTAGNWKLISAGTYHSMALQTDNTLWGWGSNQYGQLGNGTTSSYGQLSFPVKIGSVSNWSSVSAAYGHTVALDLNGALWAWGRNSSGELGDATSVDKVYPVRIGTNATWTTMETGDSYTVASKSDGTLWAWGNNWYGGLGDGTASERDGATTATKYVPTHINRILSINNGGIYTKNSSVSLRVLAADANGIAATQFSNDGSTWTNPEPYATTRTWTLEPGDGTKTVFAKLKDNVGNWSGAFSSTIIVDTTAPTVSVASPIAVVTNDNMPLLIYAVSDGNVTVLVDNAPVTTVSGQRLAALTDGTHTVRVESRDAVWNTGFDEVTFTVDLPPAVSITSPASGSTNNTTPLLTYTASNGTVVVKVDGVIVNKVSGNSLDALANGTHIVRVEATDAGGTGYAERTFAIDTVAATVTISSPTTGTTTDNPPLLTYTVSDGTVTVKVDGVSVAKVSGSRLSTLANGAHTVRVESRDAAGNIGFAEVTFTVNAPLTNLTEDFESGTITRLPWVTSGNGTWSAKTTTKRGGLYAAEAPVSIVDNQSATLEVPVACAAGNITFWYSVSSEANFDFLHFYIDGVEQNKWSGTVAWNQASFPVTAGNHTFRWSYTKDSSVSSGSDVAWIDDIAVP
>NC_011146.1|WP_012530357.1|2226899_2227304_+|GNAT-family-N-acetyltransferase
MDIEYRYTQDFEQRQLQDLFLSVQWSSGQYPDKLQVAMKNSDCVISAWHGDTLVGLINALSDGVMTAYFHYLLVHPEYQAKGVGKQLASLALDKYNDYARKVLIAYDKEVGFYQGLGFEIGTGKTPMFVTFLTT

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Crispr_ID: NC_011146_8

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_011146_8

2669414-2669520

Orphan

Consensus_repeat	Method
GTGCCGTCAAGATGCCGCCCCTTTGAAG	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_011146_8

>merge|NC_011146|8|2669414-2669520|CRISPRCasFinder
GTGCCGTCAAGATGCCGCCCCTTTGAAGCGAGCTGAAAGTCGAACCTTGAACGTTGAACCTTGAACGGCAGTTCGACCGGTGCCGTCAAGATGCCGCCCCCTTGAAG

>NC_011146|8|8|2669414-2669520|CRISPRCasFinder
GTGCCGTCAAGATGCCGCCCCTTTGAAG	CGAGCTGAAAGTCGAACCTTGAACGTTGAACCTTGAACGGCAGTTCGACCG
GTGCCGTCAAGATGCCGCCCCCTTGAAG

Protein	Signature genes	Signature genes Name	Protein_function
NC_011146.1\|WP_012530725.1\|2661233_2662376_-\|aminotransferase-class-V-fold-PLP-dependent-enzyme	unknown	unknown	gnl\|CDD\|131032
NC_011146.1\|WP_012530733.1\|2670599_2671280_-\|site-2-protease-family-protein	unknown	unknown	gnl\|CDD\|100079
NC_011146.1\|WP_012530730.1\|2667818_2668397_-\|SMC-Scp-complex-subunit-ScpB	unknown	unknown	gnl\|CDD\|377219
NC_011146.1\|WP_012530734.1\|2671514_2672411_-\|DMT-family-transporter	unknown	unknown	gnl\|CDD\|273359
NC_011146.1\|WP_012530727.1\|2663676_2664060_-\|hypothetical-protein	unknown	unknown	unknown
NC_011146.1\|WP_012530738.1\|2677945_2678611_+\|hypothetical-protein	unknown	unknown	unknown
NC_011146.1\|WP_041262736.1\|2658658_2659687_-\|tRNA-(adenosine(37)-N6)-threonylcarbamoyltransferase-complex-transferase-subunit-TsaD	unknown	unknown	gnl\|CDD\|236585
NC_011146.1\|WP_012530741.1\|2679698_2681498_-\|ATP-dependent-zinc-metalloprotease-FtsH	unknown	unknown	gnl\|CDD\|273520
NC_011146.1\|WP_012530737.1\|2676963_2677758_-\|dienelactone-hydrolase-family-protein	unknown	unknown	gnl\|CDD\|223489
NC_011146.1\|WP_012530728.1\|2664328_2666956_-\|CBS-domain-containing-protein	unknown	unknown	gnl\|CDD\|223690
NC_011146.1\|WP_012530740.1\|2679027_2679504_-\|DUF1456-family-protein	unknown	unknown	gnl\|CDD\|227144
NC_011146.1\|WP_012530736.1\|2675378_2676644_-\|exonuclease-SbcCD-subunit-D	unknown	unknown	gnl\|CDD\|223497
NC_011146.1\|WP_012530739.1\|2678607_2678988_-\|hypothetical-protein	unknown	unknown	unknown
NC_011146.1\|WP_174263188.1\|2657831_2658665_-\|16S-rRNA-(adenine(1518)-N(6)/adenine(1519)-N(6))--dimethyltransferase-RsmA	unknown	unknown	gnl\|CDD\|234708
NC_011146.1\|WP_012530732.1\|2669572_2670556_-\|tryptophan--tRNA-ligase	unknown	unknown	gnl\|CDD\|234866
NC_011146.1\|WP_012530731.1\|2668386_2669244_-\|segregation/condensation-protein-A	unknown	unknown	gnl\|CDD\|234635
NC_011146.1\|WP_012530726.1\|2662429_2663470_-\|DHH-family-phosphoesterase	unknown	unknown	gnl\|CDD\|223691
NC_011146.1\|WP_012530724.1\|2659764_2661087_-\|PhoH-family-protein	unknown	unknown	gnl\|CDD\|224787
NC_011146.1\|WP_012530729.1\|2666955_2667756_-\|AmmeMemoRadiSam-system-protein-B	unknown	unknown	gnl\|CDD\|275135
NC_011146.1\|WP_012530735.1\|2672424_2675388_-\|SMC-family-ATPase	unknown	unknown	gnl\|CDD\|223496

Protein	Function_ID	Function_description	E-value
NC_011146.1\|WP_012530725.1\|2661233_2662376_-\|aminotransferase-class-V-fold-PLP-dependent-enzyme	gnl\|CDD\|131032	TIGR01977, am_tr_V_EF2568, cysteine desulfurase family protein. This model describes a subfamily of probable pyridoxal phosphate-dependent enzymes in the aminotransferase class V family. Related families contain members active as cysteine desulfurases, selenocysteine lyases, or both. The members of this family form a distinct clade and all are shorter at the N-terminus. The function of this subfamily is unknown. [Unknown function, Enzymes of unknown specificity].	1.9614e-165
NC_011146.1\|WP_012530733.1\|2670599_2671280_-\|site-2-protease-family-protein	gnl\|CDD\|100079	cd06158, S2P-M50_like_1, Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the S2P/M50 family of RIP proteases use proteolytic activity within the membrane to transfer information across membranes to integrate gene expression with physiologic stresses occurring in another cellular compartment. In eukaryotic cells they regulate such processes as sterol and lipid metabolism, and endoplasmic reticulum stress responses. In prokaryotes they regulate such processes as sporulation, cell division, stress response, and cell differentiation. This group includes bacterial, eukaryotic, and Archaeal S2P/M50s homologs with a minimal core protein and no PDZ domains.	7.76004e-63
NC_011146.1\|WP_012530730.1\|2667818_2668397_-\|SMC-Scp-complex-subunit-ScpB	gnl\|CDD\|377219	pfam04079, SMC_ScpB, Segregation and condensation complex subunit ScpB. This is a family of prokaryotic proteins that form one of the subunits, ScpB, of the segregation and condensation complex, condensin, that plays a key role in the maintenance of the chromosome. In prokaryotes the complex consists of three proteins, SMC, ScpA (kleisin) and ScpB. ScpB dimerizes and binds to ScpA. As originally predicted, ScpB is structurally a winged-helix at both its N- and C-terminal halves. IN Bacillus subtilis,one Smc dimer is bridged by a single ScpAB to generate asymmetric tripartite rings analogous to eukaryotic SMC complex ring-shaped assemblies.	6.63172e-65
NC_011146.1\|WP_012530734.1\|2671514_2672411_-\|DMT-family-transporter	gnl\|CDD\|273359	TIGR00950, Uncharacterized_inner_membrane_transporter_YicL, Carboxylate/Amino Acid/Amine Transporter. [Transport and binding proteins, Amino acids, peptides and amines].	2.34078e-16
NC_011146.1\|WP_041262736.1\|2658658_2659687_-\|tRNA-(adenosine(37)-N6)-threonylcarbamoyltransferase-complex-transferase-subunit-TsaD	gnl\|CDD\|236585	PRK09604, PRK09604, tRNA (adenosine(37)-N6)-threonylcarbamoyltransferase complex transferase subunit TsaD.	0
NC_011146.1\|WP_012530741.1\|2679698_2681498_-\|ATP-dependent-zinc-metalloprotease-FtsH	gnl\|CDD\|273520	TIGR01241, ATP-dependent_zinc_metalloprotease_FtsH, ATP-dependent metalloprotease FtsH. HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH. [Cellular processes, Cell division, Protein fate, Degradation of proteins, peptides, and glycopeptides].	0
NC_011146.1\|WP_012530737.1\|2676963_2677758_-\|dienelactone-hydrolase-family-protein	gnl\|CDD\|223489	COG0412, COG0412, Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism].	6.74977e-56
NC_011146.1\|WP_012530728.1\|2664328_2666956_-\|CBS-domain-containing-protein	gnl\|CDD\|223690	COG0617, PcnB, tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis].	1.05497e-48
NC_011146.1\|WP_012530740.1\|2679027_2679504_-\|DUF1456-family-protein	gnl\|CDD\|227144	COG4807, COG4807, Uncharacterized protein conserved in bacteria [Function unknown].	2.82374e-55
NC_011146.1\|WP_012530736.1\|2675378_2676644_-\|exonuclease-SbcCD-subunit-D	gnl\|CDD\|223497	COG0420, SbcD, DNA repair exonuclease [DNA replication, recombination, and repair].	6.28352e-44
NC_011146.1\|WP_174263188.1\|2657831_2658665_-\|16S-rRNA-(adenine(1518)-N(6)/adenine(1519)-N(6))--dimethyltransferase-RsmA	gnl\|CDD\|234708	PRK00274, ksgA, 16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))-dimethyltransferase RsmA.	7.78348e-121
NC_011146.1\|WP_012530732.1\|2669572_2670556_-\|tryptophan--tRNA-ligase	gnl\|CDD\|234866	PRK00927, PRK00927, tryptophanyl-tRNA synthetase; Reviewed.	1.33072e-175
NC_011146.1\|WP_012530731.1\|2668386_2669244_-\|segregation/condensation-protein-A	gnl\|CDD\|234635	PRK00104, scpA, segregation and condensation protein A; Reviewed.	3.0883e-70
NC_011146.1\|WP_012530726.1\|2662429_2663470_-\|DHH-family-phosphoesterase	gnl\|CDD\|223691	COG0618, COG0618, Exopolyphosphatase-related proteins [General function prediction only].	5.25868e-41
NC_011146.1\|WP_012530724.1\|2659764_2661087_-\|PhoH-family-protein	gnl\|CDD\|224787	COG1875, COG1875, NYN ribonuclease and ATPase of PhoH family domains [General function prediction only].	0
NC_011146.1\|WP_012530729.1\|2666955_2667756_-\|AmmeMemoRadiSam-system-protein-B	gnl\|CDD\|275135	TIGR04336, hypothetical_protein, AmmeMemoRadiSam system protein B. Members of this protein family belong to the same domain family as the mammalian protein Memo (Mediator of ErbB2-driven cell MOtility). Members of the present family occur as part of a three gene system with an uncharacterized radical SAM enzyme and a homolog of the mammalian protein AMMECR1, a mammalian protein named for AMME - Alport syndrome, Mental Retardation, Midface hypoplasia, and Elliptocytosis. Memo in humans has protein-protein interaction activity with binding of phosphorylated Try, but members of this family may be active as enzymes, as suggested by homology to a class of nonheme iron dioxygenases.	3.80235e-122
NC_011146.1\|WP_012530735.1\|2672424_2675388_-\|SMC-family-ATPase	gnl\|CDD\|223496	COG0419, SbcC, ATPase involved in DNA repair [DNA replication, recombination, and repair].	4.35362e-36

>NC_011146.1|WP_012530731.1|2668386_2669244_-|segregation/condensation-protein-A
MSLDTMQSNLFSDALEQSYRVQIEEFEGPLDLLLHLIKKNEVDIYNIPIAAITRQYLEYMELMKELNLDIAGEFLVMAATLLQIKSRMLLPATQEEDGEAEVEDPRAELVRRLLEYQRYRDASQLLSARNLLGRDVFARTFDSPELAEMEPQEEPADVELFELIEAFQRVLARVSVDTFHDVVADGISIADRIGVVLSVLHAEKTVCFDALFTTGMTRDLLVVTFLSILELAKMKLIRVVQVESLGSIWLTLSADQQESGLEQEGGEPQVENQNSLESAEDAVVG
>NC_011146.1|WP_012530730.1|2667818_2668397_-|SMC-Scp-complex-subunit-ScpB
MSGKPLKSIVESLLFVYDQPLSLDRLALILEEFERSDLRAALDELMEEYAGAERGIVLSYVGGGYQLRSRPEHADYIRRLTKSKGVKFSQSALETLSIVAYRQPITRAEVEYLRGVDSGGVMKSLLEKKLLRILGKKDVPGKPLIYGTSREFLELFGLKDLNALPTLKEIQELVPPDPFADQPALPLGSVEG
>NC_011146.1|WP_012530729.1|2666955_2667756_-|AmmeMemoRadiSam-system-protein-B
MIRQPAVAGKFYSADPEQLREELSRMIPREEPAKAIGVVAPHAGYVYSGGAAGKVYAAVEVPDAVIVLGPNHTGMGAAAALAPSGEWLTPLGPVPVNDRLSQLIMKYAPLVREDSAAHRFEHSLEVQVPFLQYRNPQVSIAALCLSLPDFDSISRVGTGIAHAIAEYGSEVLIVASSDMTHYQSAAEAKAKDELALERLANMDPEGLLRVCRDKDISMCGVIPATAMLVAAKTLGATSSRLICYTNSGEVNGDLKAVVAYAAITVS
>NC_011146.1|WP_012530728.1|2664328_2666956_-|CBS-domain-containing-protein
MDVITTHLNADFDCIGSMVAAKKLYPEALLVFSGAQEKSVRDFFQKGHPQDLEFARIKEIDFSAITRLIVVDCQHSSRIGKFGELAKSGSVELHIYDHHPTSSGDMEPTGGVIRPCGSTTTILAGMLIERDVQVTPFEATVMMLGIHEDTGNLTFPSSTAEDYTVAAWLLERGAYLNEVADSIGRELTVEQVSLLNDLLVSLKTTTLKGVDVSIAHASVDRYIGDIATLAHMIRDMENLQALFLVVGMEDRVFVIARSRVPEVRVGEILHELGGGGHATAASATVRGLTLIQVLERLDAVLRRRVDPRRVARDIMSSPVKTISPDCSIEEARERLVRYNVSAMPVISEEGVLGIISRKTVEKALYHNLNQVPVSDYMHSEFHVASPDTPITEIQSYMVGGDARLVPVVSELGLIGVITRTDLLRYSLGGEALYDLSRDALQVKSREVEALMNKHLPQRTTVILHDLGRVGDQLDLTVYAVGGFVRDLLLDIQNMDIDVTVDGDGILFAETFASQFGCRVKSHQKFGTAVIVFPDGFKIDVASTRLEYYVSPGALPTVERSSLKMDLYRRDFTVNTLAIALNGDSFGKLIDYFGAYRDLQSRVIRVLHNLSFVEDPTRVFRAIRFEQRLNFKIAKHTEDLIKNAVKMEFLEKLGGRRLLAELVQILREKEPLKGVGRMASLGLLRFIHPGVELTPAMQVALEETRYVVSWFDLLYLERPYESWSVYFLTLCEGLTEEQFWGTCTRLAVAEHYKERLVEMRRQSEELIGNLERKLARSEKVDNSEIYFTLRGLPVEVLLYHMAKSRSAEVKRCISLYFTKLDGMHPQIGGEDLKELGVEPGPLYRELLDLVLSARLNGKVASREDEIQLVREVLEGV
>NC_011146.1|WP_012530727.1|2663676_2664060_-|hypothetical-protein
MNKLKRCIAVVLTLVFMATPCLAAENAFKTVFEDSMYGGLAGGLVGAALVVFAKKPADHLDYIAYGAASGVLVGAAYGVLTTSRSFAEIENGKVKFAIPTIKPEFREGNVKGQTTLVAVAELIRGKF
>NC_011146.1|WP_012530726.1|2662429_2663470_-|DHH-family-phosphoesterase
METSTKPPDLLAYTDSLLTWVSGRGRILIVVHDNPDPDSLASAMALRHFFAVKLNREAVIAFSGMIGRSENLAMAKLLQIPLTPLPLIDLKCFQVVCLLDTQPGTGNNSLPAGMRTDIVIDHHPMRESSAACRWVDIRPDYGTTATILFEYLKVQGVSIGTKMATALFYAIKSETQDLGREARRADRDAYLDLFPLANKTLLNSITRPSLPREYFISLHNALEHAALYGKVLVASLKGIQFPEVVAELADLLVRLEGTDTVLCLGHYSAELVLSIRTSNEEINAGELIRKLVAGIGAAGGHGMMAGGKIDLSDNSEQAIHELENLLTERLLAELKISDLKPVPLVP
>NC_011146.1|WP_012530725.1|2661233_2662376_-|aminotransferase-class-V-fold-PLP-dependent-enzyme
MPVFLDNAATSFPKPETVYLAMDAALREVGVAPGRGGYRQSLAAARIVYEARSALARFFGVSDSSRLIFTHSATESINIAVNGLLKPGDHVVSTRVEHNALLRPLHLAASRGVEVTYVPSDRFGVVSEREIERAMRPGTRLVALAHCSNVTGAVQPIEAIARVARQNGAVFLVDAAQSAGFFPIEAERTGIDLLAAPGHKGLYGPPGTGVLTIAEGLNLEPLLVGGTGGSASSPEQPDQLPERLESGTINTPAIAGLKAGVEFVLTTGIDVIRAKEELLVNQLLEGLRATPHVEVYGPLEGARGAAVSFNAAGHDPAALSFLLDSDYDISVRAGLHCAPDTHRSIGTYPTGTVRVSPGFFNTEADIDFFLKALHEIAARG
>NC_011146.1|WP_012530724.1|2659764_2661087_-|PhoH-family-protein
MKKIYVLDTNVLLYDPQALTKFEDNSIVVPITVIEEIDRFKKDMNETGRNARQVSRLMDAFRKEGSLSQGLALESGGTLKIEIYEEKVMKRLPPELREERGDNRILAVAVDLMESQSEMPVILVTKDTNLRIKADALGLDAQDYESDKVAIDDLFDGFVSLEVGAEVVDRFYSQGWLDTELELQPNEYVLLAQAGNPSHSAIGRFDRVSHRIVPLGKLDKEGVWSVFPRNLEQSFALDALLDDNIKIVTLVGKAGTGKTLLAIAAGLQKTAEENVYNRLLVSRPVFPMGRDLGFLPGDIEEKLTPWMQPIFDNVELLLSGHEGEKRQHNKGYKELMAMGILEIEPLTYIRGRSIPNQYMIVDEAQNLTPHEIKTIVTRAGEGTKIVLTGDPYQIDNPYVDAESNGLTYVVERLKEQAISGHVTMTKGERSELAELAANLL
>NC_011146.1|WP_041262736.1|2658658_2659687_-|tRNA-(adenosine(37)-N6)-threonylcarbamoyltransferase-complex-transferase-subunit-TsaD
MLVLALESSCDETAAAVVKDGRTVLSSIVASQISVHAEYGGVVPEIASRKHLESVSFVVEQALAEAGVGLDRIEGIAVTQGPGLAGALLVGISVAKGLAFGRSLPLVGVNHIEGHLLAVFLEAPVQFPFIALAVSGGHSHLYRVDGIGRYQTLGQTVDDAAGEAFDKVAKLIGLPYPGGVAIDRLAVSGDPRAIKFPRPLLHDGTFNFSFSGLKTAVLTHVGKHPEAKEAGINDLAASFQAAVCEVLTKKTAAAIAATGIKRLVVAGGVACNSALRRSMGEYAAANGVELSIPSPPLCADNAAMIAVPGDYYLGLGMKSGFDLDALPVWPLDKLAARLKEHC
>NC_011146.1|WP_174263188.1|2657831_2658665_-|16S-rRNA-(adenine(1518)-N(6)/adenine(1519)-N(6))--dimethyltransferase-RsmA
MLMEKIRAKKEFGQNFLVDDSVLTRIVACVAPTKDDCILEVGPGRGALSRLLAESGARFLAVEWDRELLPLLKAEFATNPNVEIGHGDILRVDLPLLLGSRAEGKKWKVAANLPYNISSQVLFRFMEHSELFEKLVLMLQKEVGDRLTAPPACKEYGALTVLLRLHFDIRREFIVKPGSFRPVPKVDSAVLSFLPLSGPRVEVGDEELFRRVVKGAFLQRRKTLLNSLRSSGFDDADGFLSAALSRSGIDGGRRGETLSLEEFACLTRELSAGKTLA
>NC_011146.1|WP_012530732.1|2669572_2670556_-|tryptophan--tRNA-ligase
MSNNRIVSGMRPTGKLHLGHYHGVLSNWLELQRNFECFFFAADWHSLTTEYATTDGIKDNIKEMVLDWLAFGIDPEQSVIFEQSRVPQHAELNLILGMITPVSWLERNPTYKEMQENLTTKDLSTFGFLGYPVLMASDIIVYKASRVPVGQDQIPHLEITREIARRFNYLYGEVFPEPAALLTETPKVLGTDGRKMSKSYGNAIFLSDDAEETRKKVMSYVTDTQRPFKKDPGEPDRCVAFTLHSLYVDQAKREEIVVGCRGAQLGCVDCKKILAQAMVDTLAPLRAKRAELAEKPGLVSEVLAEGSRKAEVVARQTMEEARAALKV
>NC_011146.1|WP_012530733.1|2670599_2671280_-|site-2-protease-family-protein
MEQFFLKLSIMLVPALMAITCHEVSHGYIADRRGDNTARYLGRLTLNPLKHLDLFGTLMIFIVGIGWAKPVPVNFNNLRHPKTDMIWVAAAGPITNFLLATFSAFAMRALIGATQGLPDASPLAAFVDPVTLMLAFSVYINLLLGIFNLIPVPPLDGGRVAVGLLPLRPSMALARLEPFGMIIIIVLVFFTNAFSYVISPALSFGVNLLAGPHSNLVFGVTRLMLK
>NC_011146.1|WP_012530734.1|2671514_2672411_-|DMT-family-transporter
MSPKHYGAWLIAASAAGFATLGILIKSAFSGGANITTVLAGRFLVASFFLFIYLRVRKTPLVIGRKSSLQLLLMGMIGYGGMSMLYANAIHYLPASLTGMLLYTYPALVTVIALIVGEERFNAAKGVALVVCSAGLVLLLGASFDGARLEGVLCTLGAAGIYSCYIIIGNRILKDIDPLVTSLWVCASAGFTFLFYGVATGGLTLDLAPVGWLSILGIALFPTLIAVVGFFAGLRYVGATNASIISMLEPLITVLLSALLLGERITALQGFGGAVLLFGGLILQLWGNEARRETVIEV
>NC_011146.1|WP_012530735.1|2672424_2675388_-|SMC-family-ATPase
MRIISVQLKNIKSHRDKEIAFSPGINVLSGANGSGKSTIFEAIGYALFGVSAQDFVSKADRFLTIGAKKGEISVVFEPASGETYRVTRTVGGAGKWLLAKDNGCGFEIEEHANIQETEQRIASLLGLATGRPLAEQFKLVIGPFQNDFLGPFVIKQPTKRQDAFDEILGIDTWRKTFDGTKSLASAIIAKTETIQAEVAAKMEQVSVLPAKEQELRDLREQGVAKEAQLRQKLAEQEQVNQLFAGLEARKERIDAVGREVQALEDRSVSGKEYISTQLLLVEQSKTAAALVAEAAQGKHAYDAAEAKLKRLRDEEQQKLALERKLGELDKEQAALQSTLAIENRELAETRATMDTERERLALEKAALADALIELKSAEAATGEALAVVNRSCAQFRELPVHRIDQALPYLFVALDRMAAIDEQSLERKKLISAGAALKTEAAELVARQALLEKVQAERSELAGRRLSLVEGQEKLGAGDCPFFHEPCRNLASGDASGVFEARIQRIDAEISRLDQQAVELAAQVAAAQAAARELAGVEQVASELEKAGRERQKLEQDFTNGFSEIAPALLVPSLRTWLDSAELGIDLAAELPGLQVELAAAPLQQRAALSEASDAWRRVVVLIEEGLDARLKKAQEPVQECALKLVQLAEKGESLAAKERELAAYAEKLAFRERAIAEHGKRLAALVEAIGAVKKDLAIHAGLDQAIKEAGEELVRFQADRDRYIANEKAAQELEKRQETLAKYQAKLKEIEGSLAAKREELRQSVEGYDQAQHEAVKQQQVELVSAVATLTSEIGAVGEGISRLEGETAALREIAAEIEKKLSAIEALKEQGILVKFLRNQVFKNVSTQLSERFREEISFRADRIYRSICASDEELVWGENYQVVLKDMAEGQVRERSDDQLSGGQMMSAVVALRLALLQTIGARIAFFDEPTSNLDAERRENLARAFRAIDVGQEEVTEHWYDQLFLVSHDVSFTEITDQTIQLD
>NC_011146.1|WP_012530736.1|2675378_2676644_-|exonuclease-SbcCD-subunit-D
MPVRFIHTSDIHLGKTYRCLGGDAERYQDFFTTFANIIADAVKEQVDFVLIGGDLFHTGQILPKTFAKTIEILQPLKDAGIPCLAVEGNHDWIHRRDSVSWMEALSQLGYIRLLRPSRTGEGDYLFEPFDLEQGAGGHIEIGGVNIYGLGYIGSQAANHVARICEAVDTRRNILLFHVGVWSYSPVEIGNIRPEEALPLSECFDYVALGHGHKPYVVSTPDGRPYAFNPGSPDCVNFGEERYDKGYYLVSLENDGEVRHEFRRCSPRPMLVLTVNLEGANNADEALQRFAAGVAEKLAGGSDPRSPLIEVRLCGKVGFHPFELSRDRLRLALFEVCQPLHLEIKNHLSQVSGGGGEEKVKKSLAEIERDVLAELVGANSQYQGREEELVRLSLALRDLVLKGEVEGEELLALLPSGGAGCA
>NC_011146.1|WP_012530737.1|2676963_2677758_-|dienelactone-hydrolase-family-protein
MKQYLFALMIGMVAQNAFAGVVGKTVDYRQGDTVLEGYVAYDDSVKGKRPGVLVIHEWTGLGAYEKWRADQLAKLGYVAFAADIYGKGVRPATQELAAKEAAKYRGNDRSLIRARSAAGLEALSKLPQVDPKRLAVIGYCFGGTAALELARSGAAVLGTVSFHGGLSTPVPADAKNIKGKVLALHGADDPYVKPPEVEAFQQEMRQAKVDWQMNYYGSAVHSFTNPKSGNDPSKGVAYNEKADHRSWEAMKIFFDEIFGQKQKH
>NC_011146.1|WP_012530738.1|2677945_2678611_+|hypothetical-protein
MRQPNPIHLVLVVGFVFSSLCLAGCAGGRFTFRANNSASLQTVEADLEYARLQAENTREALDELVFANPPDLERAYRDFADKAMSMNLVGERLVRHADSMEYQGSSYLVEPEKSATECQFPRLSNTGRTKPLELGPAFDPIAAKAISVRRAYRAYESDLSNIRSILSTHQTTKGIEVVDIFIKKAAVDEESLTEALEQAQALVQDAEKAAATPLPDGGETR
>NC_011146.1|WP_012530739.1|2678607_2678988_-|hypothetical-protein
MEKEKLQESGSEMAEAPVDVVEAEIDPAVISAGLSKVRRRRWVVWSVMIVYLPTMWTTQKITHSFSGSMPVFFIWFLLLLAAMGYSAVARCPRCGNYYHVHGMILLYLRRCLHCQLPLNDDQKPRF
>NC_011146.1|WP_012530740.1|2679027_2679504_-|DUF1456-family-protein
MTNNDVFRRLRYAMNMNTQAVVETFRLSGMKMGQADITSLVKKEDEEGYKECSDEVLEAFLDGFIALKRGKREGEPETRKDEVLLTNNDILKKIRIALALKEDEMLMLFKLAHFPVSKSELSAVFRAKGQENYKPCGDQMLRNFLKGLTVKYRETPAK
>NC_011146.1|WP_012530741.1|2679698_2681498_-|ATP-dependent-zinc-metalloprotease-FtsH
MTSTSKKKLLIIVAALGIVAGSCYGIYAWKDAHSDQGKQISYTAFMEKVNAGGIAKVKIAGDQINAVGKSGEKFQLFLPAGAELADTLVAKKIDFSSNPAASEPKWFEISIILLVALFLVMVLKRYGGVGRSKARIIDCSESLTRFNDVAGAEEAKAELLDTVEFLKDPAKFSALGGKMPTGVLLVGPPGTGKTLLARAVAGEADVPFFSISGSEFVEMYVGVGASRVRDLFAQAKKAAPCIVFIDEIDAVGRKRDAAVGGGASDERDQTLNQLLVEMDGFAVNSGIVVLAATNRPEILDAALLRSGRFDREVTVGAPDIRGREAILKVHSKNVPLSPEVDLMVIARGTPGMSGADLANVVNEAAILAARSNKDFVEMLDFDNAKDKVLMGAEKKSMVLSDKSKLSTAYHEAGHVLVAKLVPGCDPVHKVSIIPRGRAMGVTLQIPEEDIYCYTKEMLLAHLKVLMGGRAAEEIIFHTTTTGAGNDLARATDTARKMVSEWGMSRAFGPVAFGHQENTDGGGKKGFSDSTALEMDNEIRSIVTTCYADVRTLLEENLDALERLTQELVVKETLDAAEIDTILGLTTADDAANASCCAAA

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Crispr_ID: NC_011146_9

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_011146_9

3058303-3058402

Orphan

Consensus_repeat	Method
GCAGATGACAACGTCGAACGTTGAACATCGAAC	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_011146_9

>merge|NC_011146|9|3058303-3058402|CRISPRCasFinder
GCAGATGACAACGTCGAACGTTGAACATCGAACCGGTGTTGTAGCCGTCGAGACGCGTGAGCCAAAAGCAGATGACAACGTCGAACGTTGAACGTCGAAC

>NC_011146|9|9|3058303-3058402|CRISPRCasFinder
GCAGATGACAACGTCGAACGTTGAACATCGAAC	CGGTGTTGTAGCCGTCGAGACGCGTGAGCCAAAA
GCAGATGACAACGTCGAACGTTGAACGTCGAAC

Protein	Signature genes	Signature genes Name	Protein_function
NC_011146.1\|WP_012531073.1\|3059262_3060243_-\|ABC-transporter-permease	unknown	unknown	gnl\|CDD\|223674
NC_011146.1\|WP_012531074.1\|3060435_3062037_-\|peptide-binding-protein	unknown	unknown	gnl\|CDD\|173879
NC_011146.1\|WP_012531072.1\|3058416_3059259_-\|ABC-transporter-permease	unknown	unknown	gnl\|CDD\|224094
NC_011146.1\|WP_012531080.1\|3069471_3069897_+\|ATP-binding-protein	unknown	unknown	gnl\|CDD\|379279
NC_011146.1\|WP_012531078.1\|3065768_3069032_+\|SpoIIE-family-protein-phosphatase	unknown	unknown	gnl\|CDD\|223664
NC_011146.1\|WP_012531068.1\|3053180_3054017_-\|dihydropteroate-synthase	unknown	unknown	gnl\|CDD\|238380
NC_011146.1\|WP_012531070.1\|3056033_3057407_-\|tRNA-lysidine(34)-synthetase-TilS	unknown	unknown	gnl\|CDD\|274129
NC_011146.1\|WP_012531077.1\|3065520_3065769_+\|hypothetical-protein	unknown	unknown	unknown
NC_011146.1\|WP_012531076.1\|3063967_3065524_+\|bifunctional-aminoglycoside-phosphotransferase/ATP-binding-protein	unknown	unknown	gnl\|CDD\|225098
NC_011146.1\|WP_012531063.1\|3049441_3049723_-\|peptidylprolyl-isomerase	unknown	unknown	gnl\|CDD\|185338
NC_011146.1\|WP_012531069.1\|3054016_3055855_-\|ATP-dependent-zinc-metalloprotease-FtsH	unknown	unknown	gnl\|CDD\|273520
NC_011146.1\|WP_012531064.1\|3049763_3050483_-\|pyridoxine-5'-phosphate-synthase	unknown	unknown	gnl\|CDD\|235380
NC_011146.1\|WP_012531071.1\|3057672_3058185_-\|hypothetical-protein	unknown	unknown	unknown
NC_011146.1\|WP_012531066.1\|3051994_3052378_-\|hypothetical-protein	unknown	unknown	unknown
NC_011146.1\|WP_012531075.1\|3062033_3063752_-\|tetratricopeptide-repeat-protein	unknown	unknown	gnl\|CDD\|274350
NC_011146.1\|WP_012531062.1\|3049133_3049403_-\|hypothetical-protein	unknown	unknown	unknown
NC_011146.1\|WP_012531079.1\|3069099_3069441_+\|STAS-domain-containing-protein	unknown	unknown	gnl\|CDD\|132914
NC_011146.1\|WP_012531081.1\|3069910_3070684_-\|prolipoprotein-diacylglyceryl-transferase	unknown	unknown	gnl\|CDD\|234599
NC_011146.1\|WP_012531067.1\|3052374_3053133_-\|TIGR00159-family-protein	unknown	unknown	gnl\|CDD\|224539
NC_011146.1\|WP_012531065.1\|3050475_3051840_-\|phosphoglucosamine-mutase	unknown	unknown	gnl\|CDD\|184614

Protein	Function_ID	Function_description	E-value
NC_011146.1\|WP_012531073.1\|3059262_3060243_-\|ABC-transporter-permease	gnl\|CDD\|223674	COG0601, DppB, ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism].	4.79282e-127
NC_011146.1\|WP_012531074.1\|3060435_3062037_-\|peptide-binding-protein	gnl\|CDD\|173879	cd08514, PBP2_AppA_like, The substrate-binding component of the oligopeptide-binding protein, AppA, from Bacillus subtilis contains the type 2 periplasmic-binding fold. This family represents the substrate-binding domain of the oligopeptide-binding protein, AppA, from Bacillus subtilis and its closest homologs from other bacteria and archaea. Bacillus subtilis has three ABC-type peptide transport systems, a dipeptide-binding protein (DppA) and two oligopeptide-binding proteins (OppA and AppA) with overlapping specificity. The dipeptide (DppA) and oligopeptide (OppA) binding proteins differ in several ways. The DppA binds dipeptides and some tripeptides and also is involved in chemotaxis toward dipeptides, whereas the OppA binds peptides of a wide range of lengths (2-35 amino acid residues) and plays a role in recycling of cell wall peptides, which precludes any involvement in chemotaxis. Most of other periplasmic binding proteins are comprised of only two globular subdomains corresponding to domains I and III of the dipeptide/oligopeptide binding proteins. The structural topology of these domains is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase domains. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis. Besides transport proteins, the PBP2 superfamily includes the ligand-binding domains from ionotropic glutamate receptors, LysR-type transcriptional regulators, and unorthodox sensor proteins involved in signal transduction.	0
NC_011146.1\|WP_012531065.1\|3050475_3051840_-\|phosphoglucosamine-mutase	gnl\|CDD\|184614	PRK14314, glmM, phosphoglucosamine mutase; Provisional.	0
NC_011146.1\|WP_012531080.1\|3069471_3069897_+\|ATP-binding-protein	gnl\|CDD\|379279	pfam13581, HATPase_c_2, Histidine kinase-like ATPase domain.	1.18958e-27
NC_011146.1\|WP_012531078.1\|3065768_3069032_+\|SpoIIE-family-protein-phosphatase	gnl\|CDD\|223664	COG0591, PutP, Na+/proline symporter [Amino acid transport and metabolism / General function prediction only].	1.5494e-66
NC_011146.1\|WP_012531068.1\|3053180_3054017_-\|dihydropteroate-synthase	gnl\|CDD\|238380	cd00739, DHPS, DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and protein biosynthesis. Prokaryotes (and some lower eukaryotes) must synthesize folate de novo, while higher eukaryotes are able to utilize dietary folate and therefore lack DHPS. Sulfonamide drugs, which are substrate analogs of pABA, target DHPS.	2.76079e-125
NC_011146.1\|WP_012531070.1\|3056033_3057407_-\|tRNA-lysidine(34)-synthetase-TilS	gnl\|CDD\|274129	TIGR02432, tRNAIle-lysidine_synthase, tRNA(Ile)-lysidine synthetase, N-terminal domain. The only examples in which the wobble position of a tRNA must discriminate between G and A of mRNA are AUA (Ile) vs. AUG (Met) and UGA (stop) vs. UGG (Trp). In all bacteria, the wobble position of the tRNA(Ile) recognizing AUA is lysidine, a lysine derivative of cytidine. This family describes a protein domain found, apparently, in all bacteria in a single copy. Eukaryotic sequences appear to be organellar. The domain archictecture of this protein family is variable; some, including characterized proteins of E. coli and B. subtilis known to be tRNA(Ile)-lysidine synthetase, include a conserved 50-residue domain that many other members lack. This protein belongs to the ATP-binding PP-loop family ( pfam01171). It appears in the literature and protein databases as TilS, YacA, and putative cell cycle protein MesJ (a misnomer). [Protein synthesis, tRNA and rRNA base modification].	1.27518e-71
NC_011146.1\|WP_012531076.1\|3063967_3065524_+\|bifunctional-aminoglycoside-phosphotransferase/ATP-binding-protein	gnl\|CDD\|225098	COG2187, COG2187, Uncharacterized protein conserved in bacteria [Function unknown].	1.17274e-114
NC_011146.1\|WP_012531063.1\|3049441_3049723_-\|peptidylprolyl-isomerase	gnl\|CDD\|185338	PRK15441, PRK15441, peptidyl-prolyl cis-trans isomerase C; Provisional.	2.73187e-28
NC_011146.1\|WP_012531069.1\|3054016_3055855_-\|ATP-dependent-zinc-metalloprotease-FtsH	gnl\|CDD\|273520	TIGR01241, ATP-dependent_zinc_metalloprotease_FtsH, ATP-dependent metalloprotease FtsH. HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH. [Cellular processes, Cell division, Protein fate, Degradation of proteins, peptides, and glycopeptides].	0
NC_011146.1\|WP_012531064.1\|3049763_3050483_-\|pyridoxine-5'-phosphate-synthase	gnl\|CDD\|235380	PRK05265, PRK05265, pyridoxine 5'-phosphate synthase; Provisional.	1.28131e-146
NC_011146.1\|WP_012531072.1\|3058416_3059259_-\|ABC-transporter-permease	gnl\|CDD\|224094	COG1173, DppC, ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism].	1.05956e-113
NC_011146.1\|WP_012531075.1\|3062033_3063752_-\|tetratricopeptide-repeat-protein	gnl\|CDD\|274350	TIGR02917, TPR_domain_protein, putative PEP-CTERM system TPR-repeat lipoprotein. This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.	2.26032e-35
NC_011146.1\|WP_012531079.1\|3069099_3069441_+\|STAS-domain-containing-protein	gnl\|CDD\|132914	cd07043, STAS_anti-anti-sigma_factors, Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation. Anti-anti-sigma factors play an important role in the regulation of several sigma factors and their corresponding anti-sigma factors. Upon dephosphorylation they bind the anti-sigma factor and induce the release of the sigma factor from the anti-sigma factor. In a feedback mechanism the anti-anti-sigma factor can be inactivated via phosphorylation by the anti-sigma factor. Well studied examples from Bacillus subtilis are SpoIIAA (regulating sigmaF and sigmaC which play an important role in sporulation) and RsbV (regulating sigmaB involved in the general stress response). The STAS domain is also found in the C- terminal region of sulphate transporters and stressosomes.	5.89062e-29
NC_011146.1\|WP_012531081.1\|3069910_3070684_-\|prolipoprotein-diacylglyceryl-transferase	gnl\|CDD\|234599	PRK00052, PRK00052, prolipoprotein diacylglyceryl transferase; Reviewed.	2.46416e-103
NC_011146.1\|WP_012531067.1\|3052374_3053133_-\|TIGR00159-family-protein	gnl\|CDD\|224539	COG1624, COG1624, Uncharacterized conserved protein [Function unknown].	5.85752e-56

>NC_011146.1|WP_012531071.1|3057672_3058185_-|hypothetical-protein
MAELCEEAFDVLKIDKKDYVPTTLEDEVRVDKLCSDLLHRFYAESQMAGLSPEDATALAGAADYFVRDFVVSIKGRSLFDERSGIVRQFAGNWYIVNTMEPLATEIEGYLAGIREFYRFLYGHQLISLKFLQAIEAECSQLDYYAQRIESFWDITGDGYFDWEKECTLKD
>NC_011146.1|WP_012531070.1|3056033_3057407_-|tRNA-lysidine(34)-synthetase-TilS
MKTLVTKVRNQNLFQPGETVVVAVSGGADSVALLDIMTRLECGLRLVVAHLNHCLRGAESDADQAFVASLADNYHLPFVSQSCDVADLARRERLSLEDAGRRARYAFLEQTAEQYGAFSIALAHHQDDQAETVLIRLLRGSGGTGLSAMAGTAGDKLKRPLLQVSRVKLEQYLKQRELSYRTDSTNADTAILRNSIRHELIPLLRRYNPKVSERLAATAEILAGDEELLEGLTQAAYQRLASAEGGQVRFQVEPLMKEPRALRLRLYRRALTELRGDLMRIGLAHLEAIDLLAASPRPNAEATLPGACRVSRCYGSLSLGHAAAQAPPLWEQVVAGEGRYPLPGGGVLLVERLPRPDSLDTGSRWSAFLSPETVPFPWLLRGFRPGDRFTPLGMSGAQKIKDAFINEKVPPQLRRRIPLLLSEGEIAWVPGVRLAERGRVTPRIDAVLRVEILEITP
>NC_011146.1|WP_012531069.1|3054016_3055855_-|ATP-dependent-zinc-metalloprotease-FtsH
MNQFYKNLALWLVISLMMILLFNLFNKPKPTQEKLDFSEFISAVETGKVKNVNRPVQSVVIQGNEIIGKFSDGKEFRSYKPADANLTDKLIAKGIAVSARPEEERFSWFSLLVSWFPIIFLVAVWIFFMRQMQGGGGKAMAFGKSRAKLLTEAQGRVTFEDVAGIEEAKDELEEIINFLKDPKKFTKLGGRIPKGVLLMGPPGTGKTLLARAIAGEAGVPFFSISGSDFVEMFVGVGASRVRDLFVQGKKSAPCIIFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFESNEGVILIAATNRPDVLDPALLRPGRFDRQVVVPRPDVKGREMILKVHTKKTPLSPDVDLGVIARGTPGFSGADLSNVVNEAALIAARKEKSMVEMIDFDDAKDKVLMGVERRSMVISDEEKKNTAYHEAGHTLVAKLIPGTDPVHKVSIIPRGRALGVTMQLPIEDKHSYSRESLLDRIAVLLGGRVAEEVIFNSMTTGAGNDIERATEIARKMVCEWGMSEKLGPVSFGKKDEQIFLGRDMAHQKNYSEATAIEIDHEIRLIVEQNYARVQELLKGNLDSLHKISLALIERENLSGEEVDRIIAGEQLAPEPAAAE
>NC_011146.1|WP_012531068.1|3053180_3054017_-|dihydropteroate-synthase
MAVPETWQLSRRALSLERPLIMGILNVTPDSFSDGGRFFSLDAAIERAQEMEREGADIIDIGGESTRPNAPAVGAAQELDRVVPVIEALSHRIQLPISIDTYKAEVARAACAAGAEIVNDVTGLMFDPDMARVTAEADAGVVVMHTRGMPDTMQAETGYDDLMAEVKRYLEQSVALAREAGIADGRIVVDPGLGFGKSVQGNLELIKRLAEFRELGFPILVGPSRKSFVGAVTGRGGGERIFGTAVAVAMSVAHGASIIRVHDVAAMKDVAVMARALM
>NC_011146.1|WP_012531067.1|3052374_3053133_-|TIGR00159-family-protein
MNLFLQNIAVLRDLLDLSLTILIVTRLSRLLKGVLALRILAVLSALVAGHLLARFFSLHTVRLLIDLFLASSVVMLAVVFQTDIRKAFATLTRSRTEKDVEMSDVIDELVFAVAGLAQKRIGALIVIERAIQVDSYLAVGTDIDAKVTSELISSIFLPYSPIHDGAVIIQHGKLTKAGCFLPLTQNLEVSKSLGTRHRAAMGLSELVDAVVVVVSEETGTASIVVGGKKTDVVDMPSLGKTLRRLVEPRWLK
>NC_011146.1|WP_012531066.1|3051994_3052378_-|hypothetical-protein
MTQAKSHEWSKGVKALSVLLAVLIWSCVILERPAEMKLNVPVSLERLPSGVWADSPPPENLQVIVSGPQILLLLLPLRPVSCEIDLSTAGPGELVVAPTQGSFGLDPELKVVRIFPETFTVVLAKKE
>NC_011146.1|WP_012531065.1|3050475_3051840_-|phosphoglucosamine-mutase
MKKLFGTDGVRGVANVYPMTAEMAMQIGRAAAYIFKNGKKRHRIVIGKDTRLSGYMLESALMAGICSMGVDVLLVGPLPTPGIANITSSMRADAGVVISASHNPFEDNGIKFFSRDGFKLPDETELMMEELIFSKRIDSLRPTAKEVGKAYRIDDAQGRFVVFLKSTFPKDLDLSGLKIVLDCANGAAYKVAPAVFEELGAEVISIGVKPNGTNINADCGSLHPEVMSQAVKEHGADLGVALDGDADRVIFVDEYGNVVDGDRIMAICATEMIRQGILKQNTLVATVMSNMGLDIAMKRAGGQVIKTAVGDRYVVEEMLKGGYNLGGEQSGHMIFLDHNTTGDGVLSALQVLAIMQRHQKRLSELALVMEPLPQVLVNVRLAEKSDIMQVPEIAKLINDVEEKLKGEGRVLIRYSGTEPLLRIMLEGSDEGDIRCWANDIASIVAQKLGGEARG
>NC_011146.1|WP_012531064.1|3049763_3050483_-|pyridoxine-5'-phosphate-synthase
MARLGVNIDHVATLRQARGGTEPDPVAAAAIAEFAGADGITIHLREDRRHIQDRDLKILRQTVQTRLNLEMAATDEMVAIALAVKPEACTLVPEKRAELTTEGGLDVRIHQEALKVAIEKLQAGGIIVSLFIDPDPDQIKVANKIGADYIEIHTGSFAEAKSWKEEELELIKIENAVKLARKLDLGVNAGHGLSYSNVKKVAAIGGIEEFNIGHSIMSRAILVGLDRAVRDMSELVRYA
>NC_011146.1|WP_012531063.1|3049441_3049723_-|peptidylprolyl-isomerase
MTKASARHILVATEQECVALKTKIESGADFGDCARESSLCPSGNQGGRLGEFRPGQMVREFDEVVFSGEVGKVLGPVKTQFGYHLIEIMSRTA
>NC_011146.1|WP_012531062.1|3049133_3049403_-|hypothetical-protein
MAETQEKQSVVDLIFSAPFLLGLVGVGCMVYGVADGFRVMQFFFGVCIVVGSVMLHLIRKKDWDAHWAAMDQAREAHEKRAAEEAEKKK
>NC_011146.1|WP_012531072.1|3058416_3059259_-|ABC-transporter-permease
MNGPFREFWERFSANRFALAGLWVIALLFLLSFAASFITPYDPDAIDAWHVLLPPSAAHWFGTDELGRDVLTRVIFGARVSLKVGFVAVGIAVAVGTVVGLFAGFYGGWVDSVLMRIVDIMLCFPTFFLILAVIAMLEPSIWYIMVIIGLTGWMGVARLVRAEVLSLKSRDFVSAARVLGASDRRIIFRHILPNALSPVLVSATLGVAGAILTESALSFLGIGVQPPTPSWGNILTSGKDYIEFAWWLSLFPGVAILVTVLSYNLVGEGIRDALDPRRQR
>NC_011146.1|WP_012531073.1|3059262_3060243_-|ABC-transporter-permease
MTNYLIKRILMLFPLLLGITLITFTVIHLAPGEPVEMQTAMSPKVSAQARARLREFYGLDKPLHVQYGMWLSNLAHLDFGRSFAPDNRPVLDKIKERIPITISLNVIALILEFGLALPIGILAAVHRDTLLDRAISVFVFAGFAVPTFWLALLCMYFFGVKLNWLPISGIHSLGSDALPTLARFWDLAKHLLLPISIATFGSLAGLSRYMRSTMLEVLSQDYITTARAKGVKERVVIYRHALKNALLPVITLLGFSLPALIGGSVIFETIFSIPGMGQLFYQGVMARDYPLVMGILVIGAGLTLVGNLLADLCYAFADPRIRHGRG
>NC_011146.1|WP_012531074.1|3060435_3062037_-|peptide-binding-protein
MTFSRCLPLLLALLVFAGCAKGAPEDKARAQGGAASRGSSFVTGSIGEPSNLIPILSADSASSDVAGLVYNGLVRYDKNLKLEGDLAQSWEVSPDGLGITFHLRRGVKWHDGHDFTSRDVLYTYKVTIDPKTPTAYAEDFKQVQTAEAVDTYTFKVRYAKPFAPALASWGMPVLPAHLLEGKDITKSPLSRKPVGTGPYIFKEWVPGQRLILEANPHYYEGAPHLSPYVYRIIPDNSTMYMELKAGGIDMMGLSPVQYQRQTGSREFLSRFNKYRYPASAYTYLGYNLRLPMFQDVRVRRALTCAINKEEIIQGVLLGMGQIAHGPYKPGTWAWKPKIEADPGYDPARAAALLKEAGYVMGSDGILVKDGKPLSFTIMTNQGNDQRLKCAQIIQRRLKRVGIDVKIRVMEWASFLTNFIDKGRFEAVLLGWTISQDPDLYDVWHSSKTGPKELNFIGYKNPDLDRLIVEGRGTFDMGKRRESYYRIQEILAQDQPYTFLYVPDALPVVASRIKGIEPAPAGISYNLIKWYVEQ
>NC_011146.1|WP_012531075.1|3062033_3063752_-|tetratricopeptide-repeat-protein
MTKKCLALLSLTLLINACASEHAAGTIPSAGLEAVAAPSAGPGEGRTMYLFALARLRATEGDQDAALVLLRQAMESDPAAAYLHTAAAQILLQQNKPEEALVESQTAINTDPAFLQAQLLSGNILMTMQREKEAIPYYKKVMELDPTKEEVYLHVAIYYLKSFEYEQAVDTLKALVKASPDSALGYYYLAKTYEQMRLPREALGYYKKALDLKPDFEQALIEMGISQETQGLIPDAIESYKGLLDINPANANVVQHLAQLYIQQKRLSEALALLQEKGGKTLENSRKIGLLFLELERYDDAVKTFQEILEVEPASQQVRFYLATAYEEKDAADLAIAEFLKVPKESPYYPDAVGHLAYLYKEKGTPEKGIALLKEEVKDQPSRVEPYLHLAGLYESMERYREGVDTLNSMDDKLQNDPRVLFRLGILYDKLGQKEQSVAMMKRVIAATPDDANALNYLGYTYAEMGVNLEEALSYLKKAVELKPDDGFIMDSLGWTYFKLKRYNEAVAQLERAAELSDEDATVLGHLADAYCAARSYKKALPLYRKLQKLEPEQNAELAEKIRHCRQESGEK
>NC_011146.1|WP_012531076.1|3063967_3065524_+|bifunctional-aminoglycoside-phosphotransferase/ATP-binding-protein
MVRKLIKSLLEAKAYPEPTAGVRLIETHVSFIFVTDSFVYKVKKSVDYGFLDFTTLERRRFYCEEEVRLNRRLCPDLYLGVVELRRNSQGASFAGGGELLDYAVKMKRLPEERMLVHLLERGEAGVADMDRIARVVADFHAKALRSAQIDACGQTAVIRRNWEENFRQAAPFAGVTISACELADIRRWAERFLEQNEEQFRLRVAKGYIRECDGDLHSGNICLTDKVCIFDCIEFNERFRYIDTAADLSFLLMDLEYAGRPDLSEALLSAYQKAAGDREIGNLLPFYKTYRAFVRGKVTSFLLNDPDLPSTELAVKRETARRYFRLARGYTLRDRLKPSLVITCGLMGSGKSTLARELALELGFQLRRSDVLRKEVAGLPLQPVAEEYRGGIYNADMDRATYAALLAEAEEALKAGKGVVADATFRRAADREAFRALAAQLGVPCYTVETRCPELIIRQRLEARRGDASEVSDARWEHFHRQQAEFEAPQAGESIPVDSTLPLSTEADLVLRAMGLLP
>NC_011146.1|WP_012531077.1|3065520_3065769_+|hypothetical-protein
MKTTIRELLVKRLKLKDTWVICFVLGMIMMNYPFISIFNKPVFPFGIPLLYLYLLWGWMFSIFIVYLFSRAARRDTDGKGRP
>NC_011146.1|WP_012531078.1|3065768_3069032_+|SpoIIE-family-protein-phosphatase
MLDVNWVWGTALLYIVILFLVAYYADQRQREGRSITANPVVYALSIAVYSTSWTFYGSVGKAATTGIDFLPIYLGPTLTAFTWWFLLKKIVRISKENNITSIADFISSRYGSSQWLGAMITVITLMGIMPYIALQLKAVSTAFTIITGYHDFHVGVMERVYTPSPHPGLFTSALLALFSVVFGAKHLASTERHDGLVAAIALESLVKLVAMLVVGITITYFVFDGMGDIFTRMYGKDPALLTRLVTLGGTGENSYSSMFSLLTLSMSAVMLLPRQFQVMVLENADETHLNAASWRFPAYMFLMNLFVMPIALAGVLLTGSNVGADFFVLTLPMQQGYPWLALLAFLGGFSASAGMVMVESIAVSTMLLNHVLMPVVIRFKPQWWFPKLLINLKRFGIVLVILLGYLYQSVVGESYMLANMGLISFSAAVQFAPALIGGLYWPRGNKTGAIAGLSCGFAVWFYTLLLPSLLQAGGWQDDLLLQGPFGIEFLKPQALFWLTGLDPYSHTLFWSMFMNILAYLSLSILLGQGEKESEQMNRFVRVFSPENLEPQWETKRLSKPVTIVQFVNLMSKFIGEQQAHTAITDYLGNREIDSKGGVSEFELPNLKRFVEKTLAGSLGGAAAGAVVESFLSDIGSRMEPVFDIFSTVRTSRDQSREALSVRLRASEIMNRSLELDIIMGDLLELILREFKLDLCVIRLLNDEGMLEVRCHRGYGGERIISEGRTLEIDTHVGEAFLGRRTEFVNDTAFLTKAIAKEIANREGIRSFAHIPIASAGAPPVGVLSVFSRSIVGLFTEQFVELLESLAGQLAQAVNIVEEREARERERRQKEAALLENARVTRDLEIAKQIQLSLLPESAPRLKGLSIASRCIPAAHVGGDYYDFFERGEGRVDVIMADVSGHSVGAALIMVETRSVLRAQMKETHSAKDVLRLLNELLYDDLSGAELFITMFCAKYDGTTRTLSYANAGHSRPILFRAGGWEELDAEGLILGVEQSVAFEEKKVTLEAGDLLLIYTDGIIEAEHETGELFGVERLCRLVSGLADQEPETVIERVLSEVNTYSWPHPLQDDISMVVMKVLKNETETASC
>NC_011146.1|WP_012531079.1|3069099_3069441_+|STAS-domain-containing-protein
MNLASETRKDVVILYVKEERLDAHNSTELKSAVQKLFEDGKKNVLVDLKDVRFIDSSGLGAPVSGFKNAISHQGNLKLSSLQSQVKSMFELTRLHRVFEIFPSTVEAIENFQS
>NC_011146.1|WP_012531080.1|3069471_3069897_+|ATP-binding-protein
MEGNTIEVDIKVPNKTRYLSLIGKIGEDIARELERYSGDKEVLAYHLNLVLTEAMVNAIKHAGPKEPEKLVRIVITLHMDDLTIRVYDDGQGFDINSIPAPNFEELEDRGRGIFLIRTLMDSVCYRKNCKENILEMKKKLS
>NC_011146.1|WP_012531081.1|3069910_3070684_-|prolipoprotein-diacylglyceryl-transferase
MTFPNIDPVFLRLGPLEFRWYGLMYIIGFISAYFIILSGVRRKGLSLTKDDVADLIFTVAVGVILGGRFGYILFYNLAYYIANPLKLFAVWEGGMSFHGGLIGAVLASIFYIRRHKLRFYRLADIGFLAAPVGLGCGRIGNFINGELYGRVSDVPWAMIFPGGGPLPRHPSQLYEALLEGPVMFLILYAISRKVNRDGVVVWSFIALYGLFRFLLENFREPDQQIGYLFGGLSMGQLLSLPMLLVGGLMALYRLRRG

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Crispr_ID: NC_011146_10

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_011146_10

3235704-3235818

Orphan

Consensus_repeat	Method
TCGAACGTTGAACCTGGAACGTTGAACGGT	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_011146_10

>merge|NC_011146|10|3235704-3235818|CRISPRCasFinder
TCGAACGTTGAACCTGGAACGTTGAACGGTCTTTATCGCTGCAGGTCAAAGTCAGGGTAATTGCGCCGTCAACGGGCAAGGCCACTCGAACGTTGAACCTGGAACGTTGAACGGT

>NC_011146|10|10|3235704-3235818|CRISPRCasFinder
TCGAACGTTGAACCTGGAACGTTGAACGGT	CTTTATCGCTGCAGGTCAAAGTCAGGGTAATTGCGCCGTCAACGGGCAAGGCCAC
TCGAACGTTGAACCTGGAACGTTGAACGGT

Protein	Signature genes	Signature genes Name	Protein_function
NC_011146.1\|WP_012531246.1\|3242014_3243688_+\|GTPase-HflX	unknown	unknown	gnl\|CDD\|274455
NC_011146.1\|WP_012531245.1\|3241199_3241970_+\|enoyl-ACP-reductase	unknown	unknown	gnl\|CDD\|223696
NC_011146.1\|WP_012531228.1\|3224503_3225691_+\|cardiolipin-synthase-B	unknown	unknown	gnl\|CDD\|234967
NC_011146.1\|WP_012531229.1\|3225721_3228073_+\|endonuclease-MutS2	unknown	unknown	gnl\|CDD\|234750
NC_011146.1\|WP_012531238.1\|3236903_3237869_-\|tRNA-dihydrouridine-synthase-DusB	unknown	unknown	gnl\|CDD\|129820
NC_011146.1\|WP_012531242.1\|3239854_3240364_+\|YkgJ-family-cysteine-cluster-protein	unknown	unknown	gnl\|CDD\|223799
NC_011146.1\|WP_012531240.1\|3238829_3239312_-\|Cys-tRNA(Pro)-deacylase	unknown	unknown	gnl\|CDD\|237976
NC_011146.1\|WP_012531241.1\|3239439_3239853_+\|response-regulator	unknown	unknown	gnl\|CDD\|223855
NC_011146.1\|WP_012531232.1\|3229868_3231218_+\|replicative-DNA-helicase	unknown	unknown	gnl\|CDD\|273206
NC_011146.1\|WP_012531239.1\|3237978_3238821_-\|NAD-dependent-protein-deacetylase	unknown	unknown	gnl\|CDD\|223915
NC_011146.1\|WP_012531236.1\|3234129_3235566_-\|sigma-54-dependent-Fis-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|225114
NC_011146.1\|WP_012531234.1\|3232836_3233550_+\|response-regulator	unknown	unknown	gnl\|CDD\|381099
NC_011146.1\|WP_012531244.1\|3240833_3241076_+\|hypothetical-protein	unknown	unknown	unknown
NC_011146.1\|WP_012531235.1\|3233533_3234097_-\|hydrolase	unknown	unknown	gnl\|CDD\|238494
NC_011146.1\|WP_012531237.1\|3235825_3236911_-\|PAS-domain-S-box-protein	unknown	unknown	gnl\|CDD\|236901
NC_011146.1\|WP_012531233.1\|3231433_3232717_+\|hypothetical-protein	unknown	unknown	unknown
NC_011146.1\|WP_012531231.1\|3229088_3229742_+\|DNA-repair-protein-RecO	unknown	unknown	gnl\|CDD\|273175
NC_011146.1\|WP_041263289.1\|3240564_3240822_+\|TIGR03905-family-TSCPD-domain-containing-protein	unknown	unknown	gnl\|CDD\|378896
NC_011146.1\|WP_012531227.1\|3224182_3224404_+\|NifU-family-protein	unknown	unknown	gnl\|CDD\|376458
NC_011146.1\|WP_012531230.1\|3228119_3229040_+\|dihydrofolate-reductase	unknown	unknown	gnl\|CDD\|365932

Protein	Function_ID	Function_description	E-value
NC_011146.1\|WP_012531245.1\|3241199_3241970_+\|enoyl-ACP-reductase	gnl\|CDD\|223696	COG0623, FabI, Enoyl-[acyl-carrier-protein].	7.10385e-135
NC_011146.1\|WP_012531228.1\|3224503_3225691_+\|cardiolipin-synthase-B	gnl\|CDD\|234967	PRK01642, cls, cardiolipin synthetase; Reviewed.	3.899e-100
NC_011146.1\|WP_012531229.1\|3225721_3228073_+\|endonuclease-MutS2	gnl\|CDD\|234750	PRK00409, PRK00409, recombination and DNA strand exchange inhibitor protein; Reviewed.	1.3433e-178
NC_011146.1\|WP_012531238.1\|3236903_3237869_-\|tRNA-dihydrouridine-synthase-DusB	gnl\|CDD\|129820	TIGR00737, Probable_tRNA-dihydrouridine_synthase, putative TIM-barrel protein, nifR3 family. This model represents one branch of COG0042 (Predicted TIM-barrel enzymes, possibly dehydrogenases, nifR3 family). This branch includes NifR3 itself, from Rhodobacter capsulatus. It excludes a broadly distributed but more sparsely populated subfamily that contains sll0926 from Synechocystis PCC6803, HI0634 from Haemophilus influenzae, and BB0225 from Borrelia burgdorferi. It also excludes a shorter and more distant archaeal subfamily.The function of nifR3, a member of this family, is unknown, but it is found in an operon with nitrogen-sensing two component regulators in Rhodobacter capsulatus.Members of this family show a distant relationship to alpha/beta (TIM) barrel enzymes such as dihydroorotate dehydrogenase and glycolate oxidase. [Unknown function, General].	2.37631e-128
NC_011146.1\|WP_012531242.1\|3239854_3240364_+\|YkgJ-family-cysteine-cluster-protein	gnl\|CDD\|223799	COG0727, COG0727, Predicted Fe-S-cluster oxidoreductase [General function prediction only].	5.73107e-05
NC_011146.1\|WP_012531240.1\|3238829_3239312_-\|Cys-tRNA(Pro)-deacylase	gnl\|CDD\|237976	cd00002, YbaK_deacylase, This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS) inserted (INS) editing domain. The bacterial amino acid trans-editing enzyme YbaK is a deacylase that hydrolyzes cysteinyl-tRNA(Pro)'s mischarged by prolyl-tRNA synthetase. YbaK also hydrolyzes glycyl-tRNA's, alanyl-tRNA's, seryl-tRNA's, and prolyl-tRNA's. YbaK is homologous to the INS domain of prolyl-tRNA synthetase (ProRS) as well as the trans-editing enzyme ProX of Aeropyrum pernix which hydrolyzes alanyl-tRNA's and glycyl-tRNA's.	2.05615e-59
NC_011146.1\|WP_012531241.1\|3239439_3239853_+\|response-regulator	gnl\|CDD\|223855	COG0784, CheY, FOG: CheY-like receiver [Signal transduction mechanisms].	4.07971e-15
NC_011146.1\|WP_012531232.1\|3229868_3231218_+\|replicative-DNA-helicase	gnl\|CDD\|273206	TIGR00665, DnaB, replicative DNA helicase. This model describes the helicase DnaB, a homohexameric protein required for DNA replication. The homohexamer can form a ring around a single strand of DNA near a replication fork. An intein of > 400 residues is found at a conserved location in DnaB of Synechocystis PCC6803, Rhodothermus marinus (both experimentally confirmed), and Mycobacterium tuberculosis. The intein removes itself by a self-splicing reaction. The seed alignment contains inteins so that the model built from the seed alignment will model a low cost at common intein insertion sites. [DNA metabolism, DNA replication, recombination, and repair].	0
NC_011146.1\|WP_012531239.1\|3237978_3238821_-\|NAD-dependent-protein-deacetylase	gnl\|CDD\|223915	COG0846, SIR2, NAD-dependent protein deacetylases, SIR2 family [Transcription].	1.6165e-36
NC_011146.1\|WP_012531246.1\|3242014_3243688_+\|GTPase-HflX	gnl\|CDD\|274455	TIGR03156, GTP_HflX, GTP-binding protein HflX. This protein family is one of a number of homologous small, well-conserved GTP-binding proteins with pleiotropic effects. Bacterial members are designated HflX, following the naming convention in Escherichia coli where HflX is encoded immediately downstream of the RNA chaperone Hfq, and immediately upstream of HflKC, a membrane-associated protease pair with an important housekeeping function. Over large numbers of other bacterial genomes, the pairing with hfq is more significant than with hflK and hlfC. The gene from Homo sapiens in this family has been named PGPL (pseudoautosomal GTP-binding protein-like). [Unknown function, General].	2.07315e-167
NC_011146.1\|WP_012531234.1\|3232836_3233550_+\|response-regulator	gnl\|CDD\|381099	cd17546, REC_hyHK_CKI1_RcsC-like, phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinases/response regulators similar to Arabidopsis thaliana CKI1 and Escherichia coli RcsC. This family is composed of hybrid sensor histidine kinases/response regulators that are sensor histidine kinases (HKs) fused with a REC domain, similar to the sensor histidine kinase CKI1 from Arabidopsis thaliana, which is involved in multi-step phosphorelay (MSP) signaling that mediates responses to a variety of important stimuli in plants. MSP involves a signal being transferred from HKs via histidine phosphotransfer proteins (AHP1-AHP5) to nuclear response regulators. The CKI1 REC domain specifically interacts with the downstream signaling protein AHP2, AHP3 and AHP5. The plant MSP system has evolved from the prokaryotic two-component system (TCS), which allows organisms to sense and respond to changes in environmental conditions. This family also includes bacterial hybrid sensor HKs such as Escherichia coli RcsC, which is a component of the Rcs signalling pathway that controls a variety of physiological functions like capsule synthesis, cell division, and motility. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.	6.06745e-29
NC_011146.1\|WP_012531235.1\|3233533_3234097_-\|hydrolase	gnl\|CDD\|238494	cd01012, YcaC_related, YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them. Multimerisation interface seems not to be conserved in all members.	3.72037e-57
NC_011146.1\|WP_012531237.1\|3235825_3236911_-\|PAS-domain-S-box-protein	gnl\|CDD\|236901	PRK11360, PRK11360, two-component system sensor histidine kinase AtoS.	5.27633e-93
NC_011146.1\|WP_012531236.1\|3234129_3235566_-\|sigma-54-dependent-Fis-family-transcriptional-regulator	gnl\|CDD\|225114	COG2204, AtoC, Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms].	0
NC_011146.1\|WP_012531231.1\|3229088_3229742_+\|DNA-repair-protein-RecO	gnl\|CDD\|273175	TIGR00613, DNA_repair_protein_RecO, DNA repair protein RecO. All proteins in this family for which functions are known are DNA binding proteins that are involved in the initiation of recombination or recombinational repair. [DNA metabolism, DNA replication, recombination, and repair].	1.85814e-48
NC_011146.1\|WP_041263289.1\|3240564_3240822_+\|TIGR03905-family-TSCPD-domain-containing-protein	gnl\|CDD\|378896	pfam12637, TSCPD, TSCPD domain. This family of proteins is found in bacteria, archaea and viruses. The domain is found in isolation in many proteins where it has a conserved C-terminal motif TSCPD after which the domain is named. Most copies of the domain possess 4 conserved cysteines that may be part of an Iron-sulfur cluster. This domain is found at the C-terminus of some ribonucleoside-diphosphate reductase enzymes.	7.25489e-36
NC_011146.1\|WP_012531227.1\|3224182_3224404_+\|NifU-family-protein	gnl\|CDD\|376458	pfam01106, NifU, NifU-like domain. This is an alignment of the carboxy-terminal domain. This is the only common region between the NifU protein from nitrogen-fixing bacteria and rhodobacterial species. The biochemical function of NifU is unknown.	4.78914e-30
NC_011146.1\|WP_012531230.1\|3228119_3229040_+\|dihydrofolate-reductase	gnl\|CDD\|365932	pfam00186, DHFR_1, Dihydrofolate reductase.	5.56027e-68

>NC_011146.1|WP_012531236.1|3234129_3235566_-|sigma-54-dependent-Fis-family-transcriptional-regulator
MSINNILVADDEESMRWVLSKALRKKGFNVELARDGNEALRLIKENVYDLALLDIKMPGMTGLELLDRVKEERSDLFVVIMTAEASMKNAVEAMKRGAYDYLTKPFDLGVIDAVVEKVSRAREMTSQVSLLKEELKDRYQLEKTIIGNSPAMREVYKTIGKVAPSDVTVLVQGESGTGKELIARAIHYNSKRLGKPFIPLNCAAIPKELLESELFGFEKGAFTGATERKLGKFEQANGGTIFLDEIGDMPLDLQAKILRVLQEREITRTGGNQSIPVDVRVVAATNQDLEESVHNKQFREDLYYRLNVIPIHLVPLRDRKEDVPLLVQYFLTKICAELEVPQKRCSADAIKLLTNYSWPGNIRELENTIKRGVILSPDPLLVASDFPGLRNRQSEGKGEELSLEGIVDLKLRGCFSNMEKMESGDVHAMVLEQVERPLIRFVLEKTRGNQVRAADILGINRNTLRKKITELGIELRKE
>NC_011146.1|WP_012531235.1|3233533_3234097_-|hydrolase
MSLLERFFLERENAQLVVVDVQEKLCRAMDEKVLAKLTGNISILLDAAAELGIPALATEQYVKGLGETLPVLKEKLQAASLEKMTFSCCGGEGFMEALEKNGRRQVILVGMETHVCVLQTALELLSRGYVVHLVCDAAMSRRKQNWEIAIKTMTAAGVVMTSTESVLFQLLRVAGTEEFKKLSKLVR
>NC_011146.1|WP_012531234.1|3232836_3233550_+|response-regulator
MASKVLLVDDVSMFIELERDYLQLSAVTVLTARDGEEAFRICRLQRPDLVFMDLHMPIMNGADCCREIKRDNRLSTAVILITTEGKEEDRQLCLQAGCDGFLTKPLDRHAFLEAARKLLPAIDRRDRRVNSRLNVKFRAFGLTLSGFASNLSQNGMYVAADVELEEDATVEIIFALPDPFGAIIQTRARVAWLNSSKTRKKPALPPGFGIEFLSIAEGEREQIGRFVDSLEQTSARV
>NC_011146.1|WP_012531233.1|3231433_3232717_+|hypothetical-protein
MSRYNAMREIPATAGFKEGDVFFLCGELFGRGYANGIVDEARAKGMTIIGATVGRRDNDGTLRPLNAEELAAAEENLGGKIINIPLEAGFDMEPGSDGIAPVDRFKGVKPDEWASVKLDQAEVEFSKKRGTERFCKNLAAVVAEVEKMLPAKGRLLVVHTMAGGIPRARVFMPILNKLFKGQGDRFLSSEAFWNSDMGRLCDASFNEVTADTFRYLIDATAGLREKLEVTYAAYGYHGTGVLIDGVVTWQSYTPYLQGWAKIRLEDIAIEAWEKGIKATVYNCPEILTNSSALFLGVENSLYPLMDALRAEGEQKIVKECAALLKEGATVDTLLGIANTYLTSELVTSTRDFDSWPQHNKPQQQEYMLNVSAELISLNADPKEIVCAVLSKGVFQGVGKLMFDSSWEPKAPVFWLNHDVIAKTLVKM
>NC_011146.1|WP_012531232.1|3229868_3231218_+|replicative-DNA-helicase
MNATDMRKLPPQSIEAEMSILGGILVDNEAINRVLEILVPDDMYRESHRKILRAMIDLNERGEPCDLITMTTILKKKGELEEVGGGAYLATLVDFVPMAANISYYCKIVKEKWLTRKLISAATDIVSKGFEDKIDTEELLDAAQKVIFEISENKIRPAYYQVSDILKDTIKNIELLYEKKELVTGVPTGYTDLDKLTAGFHAGDLVIIAGRPAMGKTTFALNVAQYAAIDADKAYPAAVFSLEMPKEQLVERLLCSVAKVDLSRLRSGHLVENDWPKLIKAGGKLHDAKIFIDDTPSITIMELRSKARRLKAEHNIGLIVIDYLQLMRGGANPESRQQEISEISRSLKGLAKELSIPVIALSQLNRGLEQRSDKRPMMSDLRESGAIEQDADIIMFVYREEVYEKDKEDLKGKAEVIIGKHRSGPTGTVHLAFRGEFTRFENLSGRDDY
>NC_011146.1|WP_012531231.1|3229088_3229742_+|DNA-repair-protein-RecO
MYLRPMRKTEAEAIVLRFTDFGEADRIVTFFTLEQGKLQGVARGAKRSKKRFAGALEQFAHLKLQLQQGNSLATLSSADIVSIFPGIRGDLVKIGCAAYACELVERLTPDEEPAPRLFRLLYCYLERLNEAPPSPSDRRFFAVNLLKILGYQPDLQVRGISEQTARLLALAMQTGRFGAISFPEPELREADLLLNPAIDLHLDRELRSLAFLKEVGG
>NC_011146.1|WP_012531230.1|3228119_3229040_+|dihydrofolate-reductase
MIISTIAALSDNRVIGADGGLPWDIPSDLTRFRSITMGHTVIMGRKTYESIGHPLLGRRNIVLTRKGSQIEGCEIARNVPAAIAAAEGEEEVFICGGGEVFQEALPLCQRLYLTVVHGNYRGDAFLPELPEGFVELHREEFPDTTPPSSFVVLEKVERVETGADAEQLRRKGREALNRQLYFLARRCFEQAQALEENPETASDLAYSLIKSGATGRQARDMAERALLQQPKNLRILLNAGRVLILSGEKSKGLDTLRRGVQAGGGPEFVAELARCGTRKLQPIKSLPRSHPLNRYLGLLLHRMNLK
>NC_011146.1|WP_012531229.1|3225721_3228073_+|endonuclease-MutS2
MISTDTLKRLEFDKILDTVASYAHCDASHFGALSITPLSARDEIELRLGLVDEVRKLTRFGISLKLSEFEDITPQVRAVRPTGAVISPLELQRFIPTLRVMSAISAQLGFRTDVPLLTSQAGSITGFPDLLNPLEHTVNEEGEILDTASRLLADIRGRKKGFTARIKKRLEEIVRERHTAIFLQDDFITQRSGRWVIPVRMDSKGMVPGVVHDVSNSGETAFMEPLEIIGLANELENLVADERAEEIRIVRQICNWIREDAEQILEQFEALVRLDILNCIATLSDKLRSETPVISPTPAILLKSARHPILTLMGKEVVPLDLELAADNRVMVVTGPNTGGKTIAIKSAGLLCVMALCGMPVPALPGTVLPLVESILVDIGDEQSIEESLSTFSAHIFKISSIIEEAGQGALVLLDELGTGTEPGQGAAIACAVLKELQNKGALVVATTHLTEIIGFVQREEGMVNAAMAFDRDKLAPLYRLVVGEPGESHALEIASRYGLPDRVVRFARGMLGTMEADFHSLLRDLKGKRAQLERALADMAEREEKVAFAERNLVDRRDEAAQLVKDAKEKGLLEAQQIIWKAKREVATLLDEAKREKTKTREAKEKLDQAANELEQALEELHPEENVDPEKVSVGDVLFVKPLNCDATILAIDTRSGKARVRAGSMEMEVQVNSLLKPKGKEPKKVQKRREKQQAQEQERAEPASTINLLGMRVEEAVGVLEPFLNHAALDRIPEVHIVHGKGTGALMKGVRSYLADHPLVASFRTGERYEGGDGVTVVTLR
>NC_011146.1|WP_012531228.1|3224503_3225691_+|cardiolipin-synthase-B
MIRMRRKRKQLLFQTKKFFDFFRRNTEAVSFAGNRATLFRYGSDFFPALFDAIPKATTSICLEFYTVADDETGRLMADALMAAAARGVRVYLLYDYIGCFDTPAAFFKRLSKGGVCCRAFNPPPFRKGIAWFDKRDHRKLAVMDGWRVFTGGMNIANVYSGLGKKRTKWRDVGLKIEGEVGLELLRLFQETWTGECGTPPIGCDPGPPPDIVGDANVMVINGGPHHERSFIRSAFRLAIAGASESVTIASPYFVPGPRVIRSLLRAAGRGVRVRLLLPHKSDVPLVRLVSRTYYAQLLRNGIEICEMNSAVLHAKVLLIDGNWTMVGSANMDLRSFHRNYELNVVVDSQIFGAQVEQMLEFDLAGARRIVLHEHERRGWSIRFLERLFSPVAWFL
>NC_011146.1|WP_012531227.1|3224182_3224404_+|NifU-family-protein
MTEEVKAILEQIRPALQADGGDVELVEVTDDGIVKVRLVGACGHCPMSTMTLKMGIERTIKEKVPGIKEVVAV
>NC_011146.1|WP_012531237.1|3235825_3236911_-|PAS-domain-S-box-protein
MPEKLESYYANVIDSVGDGVIVLDNAGAVTLVNPAAEELAGVSRRQAMGVLFSEIFKGEGPLNEMVAKTVETGMSVSDHENIVVKRAGKLIPVGASTSPLLSAGGERIGTILLLRDLTNVRELESAVRQADRLSALGGLAAGLAHEIKNPLGGIKGAAQLLELEFPDNEDLREYIRVMLKEVQRVNVIVEELLALASPGRLKLSKVNLHRVLSDIVLLQKNASEGKEVYLQQYFDPSIPPILGDEALLTQLFLNLIKNALEAVEAGGVVKVTSRVLSDYAMTQKGERRARMVAIDIADNGPGIEAEVLENMFTPFFTTKSQGTGLGLAICQKIVSEHRGMIKVDSDAKRGTVFTVMLPLVQ
>NC_011146.1|WP_012531238.1|3236903_3237869_-|tRNA-dihydrouridine-synthase-DusB
MQKTVALGPLVLKNQLFLAPMAGITNLPMRIISREGGASFAFTEMVSVNGLTREGQKSFDLLKSSPEDRPIGMQLFGDDPEMLAEAARLVEEYGELIDINMGCPVRKVVGTGAGSALMKDPQKVGRIVRSVRAATKLPLTIKIRTGWVCGDDTFLEVGRIAQEEGCDAVTLHPRSRAQMFEGKADWSRIGELKSALSIPVIGSGDLFSAADAVGMLAETGCDSVMVARGAMGNPWIFREALSLLAGEEPAPPTVQERLAVSRRHLELFAEFAGGRVALMEMRKHLSWYSKGLPGAAQFRAAVNRIESAPELIRAMEEFFDA
>NC_011146.1|WP_012531239.1|3237978_3238821_-|NAD-dependent-protein-deacetylase
MDLSRSFEQAAELVAQAKALVVTAGAGMGVDSGLPDFRGDQGFWTAYPLYQRLGISFVDAANPEHFERDPRFGWGFYGHRTNLYRETVPHPGFQLLLDWAKRCRLDCFVATSNVDGQFQKAGFAADAVLEFHGSIHHLQCTRPCSSAIWENREEFRIDTETMRADHVPLCPRCGSSARPNILMFGDYCWIDDRTMRQQERFRQFLSRQGAGRIVVVEMGAGTAIPTVRAASERIGALAHGRVIRINPREPQISKPHLSLPCGALEGLNGIEEMLRLRSRP
>NC_011146.1|WP_012531240.1|3238829_3239312_-|Cys-tRNA(Pro)-deacylase
MAKFKSPVTAAVRVLRQAGVSYGEHPYQYEEKGGTAVSARELGVDESCVIKTLIMEDEAKSPLVVLMHGDLQVSTKELARVIGVKSVAPCTPDTANRHSGYMVGGTSPFGTRKQMPVYLEESILELPLIYINGGSRGFLVSMPPSELVRVLQPVLVKVGI
>NC_011146.1|WP_012531241.1|3239439_3239853_+|response-regulator
MQNDNDRVVAKVLVMDDDEMVRFVAGETLKRYGFEVEFAIDGSEAVELYRERHQAGLTFAAVILDLNIPGGMGGQEAMKRLLEIDPGAKGYVSSGRTDDPVMVNFKTFGFAGTIEKPYFYLNKQLMEDFSKSLRENG
>NC_011146.1|WP_012531242.1|3239854_3240364_+|YkgJ-family-cysteine-cluster-protein
MAGLENYHALVERIDDLCARTVDQFPENIACRAGCDACCRHLSIFAVEAAAVREALKSRSADEADLIRGLAASAEPVRCPLLHDGLCLLYEARPVICRTHGLPLMLECDGEKSIDFCPENFKGLPSIPGSAVIDLERLNTMLTAINALYLQEFPGPERLTMAQALALAD
>NC_011146.1|WP_041263289.1|3240564_3240822_+|TIGR03905-family-TSCPD-domain-containing-protein
MKISYKTSGSCASRIEIEIDNGLIVDTTFVDGCAGNTKAVAALVRGMEVSEAVRRLKGIACQGDTSCPDQLAQALEKAQSDALAS
>NC_011146.1|WP_012531244.1|3240833_3241076_+|hypothetical-protein
MEIFGGFMMMMSILGFFLVVIWFLVPFLILSIKGKVDRTLVVLEEMEKRIAVIERTLEIPRSAAPADPQNHPQQPVAPET
>NC_011146.1|WP_012531245.1|3241199_3241970_+|enoyl-ACP-reductase
MGLLEGKKALIFGVANDKSIAWAVAEAFRREGAEIALAYAGESVAKRVIPLGESIGASMILPCDVRSDEDIARLFSDVAKQWGGLDLLVHSVAFANKDELKGSFLNTTREGFATALDISAYSLIALAKEAAPLMQGREGSIIAMTYYGAQKVFPNYNVMGVAKAALEASVRYLAEAMGPEGTRVNAISAGPLRTLASAGIGGFGQIAGHVAGKAPLRRNITQEDVANSALYLASPLAGGVSGEIHFVDSGYNIIGL
>NC_011146.1|WP_012531246.1|3242014_3243688_+|GTPase-HflX
MKSSQVKRLERLYRRRVKPGEVISLELAREMADISLEIRRQLGILVSRIGEIAYVVVGDERALMIPALEDYPLGRRLLRGIRLVHTHLKGEPLSDDDLTDLSLLRLDMVAALQLTQNPDRFSIQTAELVPPEGHNLPYQVEPSVPFAKFDLDFRSFVETLEQTLERGLKEGTLVATGQERGILISVTQRPMEEAVDSMEELKELARTAGVGVLDTVIQRPKEFNPRYLLGEGKIREVLIKALQFGATMLVFDQELSPAQVRSISELTELKVIDRSQLILDIFARRATSQDGKVQVELAQLKYLLPRLIGRGVQMSRLMGGIGGRGPGETKLEVDRRRIRDRIAHLERELKELSNGRYQRRQKRVKAGIPIISIVGYTNAGKSTLLNTLTRSEVFTEDLLFATLDTSSRRLRFPMDREVIITDTVGFIRSLPKSLLGAFKATLEELKDADLLIHLVDCSNPRFEEQIIQVDAILGELELSQKPKLLVFNKADLLPELKKGDPLAFMKVRQLTRRYGAVTISAADRKTLEPLLKELQHRFWHDVEDYRAPGQNHDEFEE

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Crispr_ID: NC_011146_11

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_011146_11

4508200-4508307

Orphan

Consensus_repeat	Method
TGTAGGTGGCTCATTTCTCCTGGCTTG	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_011146_11

>merge|NC_011146|11|4508200-4508307|CRISPRCasFinder
TGTAGGTGGCTCATTTCTCCTGGCTTGCGACTTCAAATTCGACGTTCAACGTTCAACGTTCAACGTTCGATGCTGGACGTCTGTAGGTAGCTCATTTCTCCTGGCTTG

>NC_011146|11|11|4508200-4508307|CRISPRCasFinder
TGTAGGTGGCTCATTTCTCCTGGCTTG	CGACTTCAAATTCGACGTTCAACGTTCAACGTTCAACGTTCGATGCTGGACGTC
TGTAGGTAGCTCATTTCTCCTGGCTTG

Protein	Signature genes	Signature genes Name	Protein_function
NC_011146.1\|WP_012532393.1\|4503759_4504476_-\|cytochrome-c-biogenesis-protein-CcsA	unknown	unknown	gnl\|CDD\|274447
NC_011146.1\|WP_012532404.1\|4513807_4514383_+\|hypothetical-protein	unknown	unknown	unknown
NC_011146.1\|WP_012532402.1\|4512557_4512989_+\|hypothetical-protein	unknown	unknown	unknown
NC_011146.1\|WP_012532391.1\|4502428_4503007_+\|peptidylprolyl-isomerase	unknown	unknown	gnl\|CDD\|182824
NC_011146.1\|WP_012532392.1\|4503044_4503716_-\|cytochrome-c-biogenesis-protein-ResB	unknown	unknown	gnl\|CDD\|377471
NC_011146.1\|WP_012532396.1\|4505820_4508145_-\|DNA-translocase-FtsK	unknown	unknown	gnl\|CDD\|236669
NC_011146.1\|WP_012532406.1\|4515591_4516068_+\|WbuC-family-cupin-fold-metalloprotein	unknown	unknown	gnl\|CDD\|275159
NC_011146.1\|WP_012532395.1\|4505214_4505781_-\|amino-acid-binding-protein	unknown	unknown	gnl\|CDD\|225337
NC_011146.1\|WP_012532388.1\|4499620_4500208_-\|cell-polarity-determinant-GTPase-MglA	unknown	unknown	gnl\|CDD\|225138
NC_011146.1\|WP_012532400.1\|4510732_4511428_-\|1-acyl-sn-glycerol-3-phosphate-acyltransferase	unknown	unknown	gnl\|CDD\|153251
NC_011146.1\|WP_012532399.1\|4510549_4510732_-\|hypothetical-protein	unknown	unknown	unknown
NC_011146.1\|WP_012532398.1\|4510116_4510518_-\|hypothetical-protein	unknown	unknown	unknown
NC_011146.1\|WP_026841103.1\|4504703_4505210_-\|peptide-deformylase	unknown	unknown	gnl\|CDD\|223320
NC_011146.1\|WP_012532405.1\|4514678_4515287_-\|YajG-family-lipoprotein	unknown	unknown	gnl\|CDD\|367729
NC_011146.1\|WP_012532389.1\|4500268_4500760_-\|roadblock/LC7-domain-containing-protein	unknown	unknown	gnl\|CDD\|214939
NC_011146.1\|WP_012532401.1\|4511902_4512343_+\|single-stranded-DNA-binding-protein	unknown	unknown	gnl\|CDD\|273179
NC_011146.1\|WP_012532403.1\|4513137_4513494_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|184599
NC_011146.1\|WP_012532397.1\|4508384_4510061_-\|ribonuclease-J	unknown	unknown	gnl\|CDD\|223668
NC_011146.1\|WP_012532387.1\|4497670_4499542_+\|excinuclease-ABC-subunit-UvrC	unknown	unknown	gnl\|CDD\|234792
NC_011146.1\|WP_012532390.1\|4500860_4502270_-\|phosphoglucomutase/phosphomannomutase-family-protein	unknown	unknown	gnl\|CDD\|100093

Protein	Function_ID	Function_description	E-value
NC_011146.1\|WP_012532393.1\|4503759_4504476_-\|cytochrome-c-biogenesis-protein-CcsA	gnl\|CDD\|274447	TIGR03144, cytochrome_c_biogenesis_protein_chloroplast, cytochrome c-type biogenesis protein CcsB. Members of this protein family represent one of two essential proteins of system II for c-type cytochrome biogenesis. Additional proteins tend to be part of the system but can be replaced by chemical reductants such as dithiothreitol. This protein is designated CcsB in Bordetella pertussis and some other bacteria, resC in Bacillus (where there is additional N-terminal sequence), and CcsA in chloroplast. We use the CcsB designation here. Member sequences show regions of strong sequence conservation and variable-length, poorly conserved regions in between; sparsely filled columns were removed from the seed alignment prior to model construction. [Energy metabolism, Electron transport, Protein fate, Protein modification and repair].	3.22075e-31
NC_011146.1\|WP_012532405.1\|4514678_4515287_-\|YajG-family-lipoprotein	gnl\|CDD\|367729	pfam03923, Lipoprotein_16, Uncharacterized lipoprotein. The function of this presumed lipoprotein is unknown. The family includes E. coli YajG.	1.25968e-32
NC_011146.1\|WP_012532391.1\|4502428_4503007_+\|peptidylprolyl-isomerase	gnl\|CDD\|182824	PRK10903, PRK10903, peptidylprolyl isomerase A.	8.55989e-82
NC_011146.1\|WP_012532392.1\|4503044_4503716_-\|cytochrome-c-biogenesis-protein-ResB	gnl\|CDD\|377471	pfam05140, ResB, ResB-like family. This family includes both ResB and cytochrome c biogenesis proteins. Mutations in ResB indicate that they are essential for growth. ResB is predicted to be a transmembrane protein.	0.000183905
NC_011146.1\|WP_012532396.1\|4505820_4508145_-\|DNA-translocase-FtsK	gnl\|CDD\|236669	PRK10263, PRK10263, DNA translocase FtsK; Provisional.	1.71038e-165
NC_011146.1\|WP_012532406.1\|4515591_4516068_+\|WbuC-family-cupin-fold-metalloprotein	gnl\|CDD\|275159	TIGR04366, hypothetical_protein, cupin fold metalloprotein, WbuC family. Members of this family show sequence similarity to cupin fold proteins (see pfam07883), including conserved His residues likely to serve as metal-binding ligands. Many members occur in bacterial O-antigen biosynthesis regions. Some members have acquired the gene symbol wbuC (e.g. Jarvis, et al, 2011), but publications using this term do not ascribe a function.	9.16663e-58
NC_011146.1\|WP_012532395.1\|4505214_4505781_-\|amino-acid-binding-protein	gnl\|CDD\|225337	COG2716, GcvR, Glycine cleavage system regulatory protein [Amino acid transport and metabolism].	2.20125e-16
NC_011146.1\|WP_012532388.1\|4499620_4500208_-\|cell-polarity-determinant-GTPase-MglA	gnl\|CDD\|225138	COG2229, COG2229, Predicted GTPase [General function prediction only].	4.98519e-19
NC_011146.1\|WP_012532400.1\|4510732_4511428_-\|1-acyl-sn-glycerol-3-phosphate-acyltransferase	gnl\|CDD\|153251	cd07989, LPLAT_AGPAT-like, Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like. Lysophospholipid acyltransferase (LPLAT) superfamily member: acyltransferases of de novo and remodeling pathways of glycerophospholipid biosynthesis which catalyze the incorporation of an acyl group from either acylCoAs or acyl-acyl carrier proteins (acylACPs) into acceptors such as glycerol 3-phosphate, dihydroxyacetone phosphate or lyso-phosphatidic acid. Included in this subgroup are such LPLATs as 1-acyl-sn-glycerol-3-phosphate acyltransferase (AGPAT, PlsC), Tafazzin (product of Barth syndrome gene), and similar proteins.	3.02463e-67
NC_011146.1\|WP_026841103.1\|4504703_4505210_-\|peptide-deformylase	gnl\|CDD\|223320	COG0242, Def, N-formylmethionyl-tRNA deformylase [Translation, ribosomal structure and biogenesis].	2.20728e-61
NC_011146.1\|WP_012532389.1\|4500268_4500760_-\|roadblock/LC7-domain-containing-protein	gnl\|CDD\|214939	smart00960, Robl_LC7, Roadblock/LC7 domain. This family includes proteins that are about 100 amino acids long and have been shown to be related. Members of this family of proteins are associated with both flagellar outer arm dynein and Drosophila and rat brain cytoplasmic dynein. It is proposed that roadblock/LC7 family members may modulate specific dynein functions. This family also includes Golgi-associated MP1 adapter protein and MglB from Myxococcus xanthus, a protein involved in gliding motility. However the family also includes members from non-motile bacteria such as Streptomyces coelicolor, suggesting that the protein may play a structural or regulatory role.	1.5445e-11
NC_011146.1\|WP_012532401.1\|4511902_4512343_+\|single-stranded-DNA-binding-protein	gnl\|CDD\|273179	TIGR00621, Single-stranded_DNA-binding_protein, single stranded DNA-binding protein (ssb). All proteins in this family for which functions are known are single-stranded DNA binding proteins that function in many processes including transcription, repair, replication and recombination. Members encoded between genes for ribosomal proteins S6 and S18 should be annotated as primosomal protein N (PriB). Forms in gamma-protoeobacteria are much shorter and poorly recognized by this model. Additional members of this family include phage proteins. Eukaryotic members are organellar proteins. [DNA metabolism, DNA replication, recombination, and repair].	1.35646e-57
NC_011146.1\|WP_012532403.1\|4513137_4513494_+\|hypothetical-protein	gnl\|CDD\|184599	PRK14277, PRK14277, chaperone protein DnaJ; Provisional.	0.000221229
NC_011146.1\|WP_012532397.1\|4508384_4510061_-\|ribonuclease-J	gnl\|CDD\|223668	COG0595, COG0595, mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair].	0
NC_011146.1\|WP_012532387.1\|4497670_4499542_+\|excinuclease-ABC-subunit-UvrC	gnl\|CDD\|234792	PRK00558, uvrC, excinuclease ABC subunit UvrC.	0
NC_011146.1\|WP_012532390.1\|4500860_4502270_-\|phosphoglucomutase/phosphomannomutase-family-protein	gnl\|CDD\|100093	cd05800, PGM_like2, This PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily and is found in both archaea and bacteria. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Other members of this superfamily include phosphoglucosamine mutase (PNGM), phosphoacetylglucosamine mutase (PAGM), the bacterial phosphomannomutase ManB, the bacterial phosphoglucosamine mutase GlmM, and the bifunctional phosphomannomutase/phosphoglucomutase (PMM/PGM). Each of these enzymes has four structural domains (subdomains) with a centrally located active site formed by four loops, one from each subdomain. All four subdomains are included in this alignment model.	0

>NC_011146.1|WP_012532396.1|4505820_4508145_-|DNA-translocase-FtsK
MATDEKIEKKEKVTKEMKGMAFAVAGIFLSVALASFNGEDLSFNSVSTSMQTHNLGGRFGAQLADVFLQLFGLASYIFPCTLIYLTYRAFGPDPIRWRRYKGVGFVLLVVSVSGLFAFNLQFTEFLGQRVPSGGFVGYQSADLLKRGFGKFGALLILLPMLAASAMLLSRFSFVLFANWWVTALKERWAKHKQRQALNKELAAEKKEKGEKAKPHAAPVIKPAVVAPPVPAPNVKKEKKQDEKKTAPVQEAFEFIKVEGNFRTPPLSLLDPVPEAGKRQDRETLTMNAKLMEKKLKDFGVEGEVVEICPGPVITMYEFSPGPGIKVSRIAGLQDDLTMALQAHSIRIVAPIPGKGVVGIELPNREREMVSLKEIFNSEEFHKGKMKLPLALGKDIAGNPLVTDLAKMPHLLVAGATGSGKSVAINTMILSLLYTSTPTDVRIIMVDPKMLELSVYEGIPHLLLPVVTNPKKAALALKWAVEEMGRRYRLMADKGVRNIDSYNRELEREEKEVAENKARETVVVEEIEEADHLEDPEDMEAREAAIQAFLAKEDQLEHGHLPYIVVIVDELADLMMVAGREIEESIARLAQMARAAGIHLILATQRPSVDVITGLIKANFPARISFQVSSKIDSRTILDGNGAESLLGAGDMLFLPPGTSKMLRSHGAFVSDAEVQRVVEFLKKQGKPVYEKSILEMKASDEKGGGDDEEELDERYDDALALVAEAKQASISMIQRRLRIGYNRAARIIEKMEQEGVIGPSDGTSKPREVFINKI
>NC_011146.1|WP_012532395.1|4505214_4505781_-|amino-acid-binding-protein
MNLCRKPNLAHFAVTIIGKDRTGIVADTAEVLYRLGCNVEDSSCTMLGGEFAMILIVSHEKPFSKKQLEAEFATKNANTGLSAFIRNLKDDEVCYRGPEGELCLISVYGSDKSGIVYRVTRELADRGVSIADLNTKLIGTPADPVYVLVLEAALPTGMAVEDVTNLLEKLKKELSVEISVRLITPVSL
>NC_011146.1|WP_026841103.1|4504703_4505210_-|peptide-deformylase
MAVRNIVTYPNQILKTPCQVVEQIDDWVRQLVDDLVDTMHAGPGSVGVASPQIGVSLRVCVIDVSKNRHGKDNNHGLLLMINPEILARSGAAVMREGCMSVPDYTGDVERSTELTLRFTEPDGTVREFEASGFEAVAIQHELDHLDGLLFLDRIASLKTGLFRRKSYK
>NC_011146.1|WP_012532393.1|4503759_4504476_-|cytochrome-c-biogenesis-protein-CcsA
MKWLLISSAVLYLVSFKRPVFLAALAAGLVYLGSRGLALGRLPLIGPQDTLAFFSSSIGLMALPFVYARAAANERFFTWGAGVFAGLFALLATPFPTLNMPLPPVLDTYWFELHVALAFFAYALFGIAALFGGVFLMQGKRQVLDLQYRAALVGYTFFSLSMISGGIWGYYAWGTYWLWTAKEFWTSILWVYYSLYLHLRLKGQSWDRGFAWMGIVGFFVTLFTYLGVSLLMRSSHSF
>NC_011146.1|WP_012532392.1|4503044_4503716_-|cytochrome-c-biogenesis-protein-ResB
MLKKLYATFCSLNLGLWLMTGVMATLALGSFTRASESGINEMPLLFWLQRAPLSLSWWLWLCIALLAVLFLNALICSIDALRKKGRSIAPHLMHAGFLLVVIAHLFSSYGGYKQQMQLTEGGTIGFPDGDQVLLERISGEVGQMGMLSSYRAQLRVKGKVAEVQPNHPVFHQGYGIYLKEVALSPVPMALVEIHREPGAWAALLGALFFMAGNVMLLAQRKGR
>NC_011146.1|WP_012532391.1|4502428_4503007_+|peptidylprolyl-isomerase
MLKRIMLVAVLLLCFAGSAFAAETKNPVVVIETSQGNVKVELFEKEAPLSVKNFLEYAKSGFYEGTTFHRVIPGFMIQGGGLTKDIAPKATRAPIKNEANNGLKNDRGTLAMARTGMVDSATSQFFINVVNNGFLNHNPAGGQRTFGYAVFGKVLEGMDVVDKIAATPTGFKNGMPDVPATPVVIQSVKVVK
>NC_011146.1|WP_012532390.1|4500860_4502270_-|phosphoglucomutase/phosphomannomutase-family-protein
MQIQFGTDGWRGVIADTFTFENLSLVAQATMDYLHEQGVAQKGLVIGYDRRFLSREFAERVAGIAAANGIATRLSESYAPTPAVSWAVHEGGAGAGIMITASHNPPCYNGFKVKEGFGGSARPSTTKVLEQMVARNMAEKRPVQAVTLAEGLESGKIAYFDACAPYLAQLARYVDLELIRSSGIKAVVDPMFGAGCGLLPRLLPGVVEIHGSENPAFGGHPPEPIAEHLGELSQVVADGFFQVGLALDGDADRIGAVDERGKYFSSHRIFTVLLRHLYERKGLRGGVVKTVSTTQMIDRLAEKYGLQIFETPIGFKHICEVMLEHDILMGGEESGGLGVKGHIPERDGILMALLLLEAMAMSGKGLRALLEETMEEIGHFHYRRIDVPISAAAKQQLLERLRGDAVDVIAGHRVAATNFSDGFKYILEDGAWLLIRLSGTEPVLRLYSEAREPDLVARLLEAAKRVAGV
>NC_011146.1|WP_012532389.1|4500268_4500760_-|roadblock/LC7-domain-containing-protein
MANPQLIMYDEEFKQINAVIEKLLREANAKVIFLVDKNGQLITGCGETERFDTTSLASLTAGNIAATGGLAKLIGEKEFSILFHEGEKDNLHISIVAGRVILVVLFDARSSLGLVRLRVKKSSEELSAIFGRLMQKSEEKEKSGDSEFPFAEITDDDIDNLFS
>NC_011146.1|WP_012532388.1|4499620_4500208_-|cell-polarity-determinant-GTPase-MglA
MSFINYASREINCKIVYYGPGLCGKTTNLQFVYQKTAPDAKGKMISLATETERTLFFDFLPLALGEIRGFKTRFHLYTVPGQVFYDASRKLILKGVDGVVFVADSQEERMDANVESVENLRINLIEQGYDLDKIPYVVQYNKRDLPNILSVEELRRELNPTNVPEFEACATTGEGVFETLKAVAKLILFDLKKGK
>NC_011146.1|WP_012532387.1|4497670_4499542_+|excinuclease-ABC-subunit-UvrC
MITQAMIENFPPSPGVYLMKSADDTVIYVGKARNLKKRVRSYAGDTRDSRIHIRFMVQLVHSVDYLVTDTEKEALILENTLIKQHRPKYNINLRDDKTYFSLRMDMKEQFPRLSIVRKIPSDGARYFGPYASATAAKEVLKQLYKMFPLRHYPLATCMARKRPCLYHQIKQCSAPCCGLISAAEYAALAHGAALFLEGKNTEVARLYRSKMNLAAEQMRYEDAARYRDLLRAIEVTVERQKMVAQSDDSDVFGLHREADRMQIALLHIRGGTLTGGRSFLFDWELETEEGLASFLNEYYDLDAPIPPQVLIPVPIAEPAALEELLSEKAGKKVTIAVPQRGPKLEMVKLAGKNAETAAQERLARESSSATLLTELAEKLNLPHPPRRIECYDISNIQGEMAVGSRVVFIDGRADKSLYRRYRIKGVLQSDDFAMMREVLSRRFKAESSEEKPDLIVVDGGLGQLGVLNAVLDELEVTGVEAAGLAKSRVARDMESEEIERSDERVFRPGRKNAIALRQSSAPLLLLVRIRDEAHRFAVTYHKDVRSKVLTGSELDGVAGIGEKRKKALLKHFGSLKRVKEATLEELKGAPGMTESAAKALVERLHGSPLPNPPPPGEGAMDRK
>NC_011146.1|WP_012532397.1|4508384_4510061_-|ribonuclease-J
MEETSTESTGLKFVALGGLGEIGLNMAAFEYGDDIVIVDCGLMFPEPYMLGIDVVIPDIGYLIERADRIRAILLTHGHEDHIGALPYVLRDINPPIYGTALTLGFVKEKLKEFELDQKVDLRVVKPRDTVQLGSFEVEFIRVAHSIVDGCALALSCPEGVVIHTGDFKLDQTPVDGELTDLATFSRYGEKGVLALFADSTNIEREGYTLSERLVGDAFEEIFPACAGRVIVAAFSSNIHRVQQVVRAAEKSGRKVLLNGRSMIGNVQIARELGYLKIPDDILIDLKELPRLPKEQVCMITTGSQGEPRSSLIRIAMDDHKQIKLERGDTVILSSRFIPGNEKTISDLMNHLYRRGAEVIHEKVSEVHVSGHASQEELKLLHNLVKPRFFVPVHGEYRHLVKHSQLAQKVGTPEERCILAVNGDVILFAGDEACIVDQVSTGRVFVDGKGVGDVGNVVLKDRKHLSEDGMVVVIIGINQTTGEIIYGPDIVSRGFVFEDDSQEYLEEAKKVVLDTLALVTPEVMTDWNEVKLEVRRVLRRLFNKTLERRPVILPLVLEM
>NC_011146.1|WP_012532398.1|4510116_4510518_-|hypothetical-protein
MEKVKTVAVNIAAIALISLVLIWGNTLYRQHAQFKKGEQAAAKGNFTAAVAGYEAAIHMYTPWSSVVEKSAQKLWAIGDAAERSNDIPRALIAYRALRSSFLATAGIYSPGEDWIKRCDTRIAQLVQLQPAQR
>NC_011146.1|WP_012532399.1|4510549_4510732_-|hypothetical-protein
MVMAYLALAAAGIALVCWGFPASHRLRKPFDILAALAVLAGVASFLLGTLLTVAPHFFQG
>NC_011146.1|WP_012532400.1|4510732_4511428_-|1-acyl-sn-glycerol-3-phosphate-acyltransferase
MLRACIYLLFFVPYTLLCSLAAVIGGLFDGSGRAGHACARIWSLGSLSAARIRLEVNGLNHVPPEGPVIYMGNHQGNFDIFALTLAVPRLFSWVAKEELFKVPVFGAAMRRAGYIPLDRSGGRKALKSMKQAAERIASGASVVIFPEGTRTQDGLLLPFKRGAFMLAGMAGVPIVPFTINGSRAINPRNQLELRPGTISVTFGAPIEVKRGAEGELMEQVREAIAAKLEVD
>NC_011146.1|WP_012532401.1|4511902_4512343_+|single-stranded-DNA-binding-protein
MASLNKVMLIGNLGKDPEVRYTAGGTAVASFSVATTEKFKGKDGNWEEKTEWHNITLWARLAEIAGEYLSKGKTVYIEGRLQTRKWTDKEGKDRYTTEIVGEKMQMLSAKGEGGGGGQRQSRPQQDYNQGGGYEEPVFNPDDEIPF
>NC_011146.1|WP_012532402.1|4512557_4512989_+|hypothetical-protein
MENGSELSRSSQWWRWPILPLAAVLGALVGAFLLTLLQWIGMKMQGGFREDGWYFRYILPVISSAVFGWLYALITLNVAPRGKVIASVVMTTILGVLALLGLIFTWFYKLDDIGTAVQSTVGSIASLVAAIATIVSLKDEYTE
>NC_011146.1|WP_012532403.1|4513137_4513494_+|hypothetical-protein
MNDANGFVKCAHCAGTGTCKNGQNETSCLVCIKEQKVKIIDSTFGIVCSVCHGVGITEPKSVRLHNRIVPVLAMMIVYVALFLVMILSTREHFSEVLAFAATLIGSVTGYYFGGKAKK
>NC_011146.1|WP_012532404.1|4513807_4514383_+|hypothetical-protein
MAFSSIQSASHLLPVFKLFLLPVGGGIPAGVLLARTQGLAWPVTAGLYLVSDVVLALMFEPVLRLFAAVIGNIPFLARFSAALKAATARSVAHVSGTSTGPLALVMIAFGVDPMTGRATALASGHGFLAGWAFAIAGDMLYFAVIALTTLRLNSYFKDPNTTMLIVLAAMFLVPVLVRKLRDHRERWRAGS
>NC_011146.1|WP_012532405.1|4514678_4515287_-|YajG-family-lipoprotein
MGKSKSIVLAVVALSSLMFGGCALTTATVDINYTPQTGVAAVENAKSVICNVQVSDSRNEKVKVSSKKNGFGMEMAQIVPAENVAVTFQKAIECELKARGFGLGRENSLVTIDADLVKYYNDFKVGFFAGDAVAELNMGVTIKNKKGDLLYSHQFVAEGIERNIQLMTGENAELALEKALNEGMQKMFADKTFIAALLKANN
>NC_011146.1|WP_012532406.1|4515591_4516068_+|WbuC-family-cupin-fold-metalloprotein
MKKLGFDDLSSLSTQAQQSPRKRMNHNLHSELSDPIQRLVIAMEPDTYIRPHHHRHTWELLTPLRGRFVVLTFDDDGVVIGRAVLGEDVSIAETPVAGWHAVLSLDTGGVIFEVKHGPYSPFKEEDFAPWSPSAEDDKHKELMRWFRNAEVGQRWPGC

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Crispr_ID: NC_011146_12

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_011146_12

4552608-4552710

Orphan

Consensus_repeat	Method
GTGAAGAAAGAAGAAAAAGCTCCGG	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_011146_12

>merge|NC_011146|12|4552608-4552710|CRISPRCasFinder
GTGAAGAAAGAAGAAAAAGCTCCGGTTAAGAAAGCAGCCAAGAAGAAACATGCTAAGAAGCACGCTAAGAAAGCTGCTGTGAAAAAAGAAGAAAAAGCTCCGG

>NC_011146|12|12|4552608-4552710|CRISPRCasFinder
GTGAAGAAAGAAGAAAAAGCTCCGG	TTAAGAAAGCAGCCAAGAAGAAACATGCTAAGAAGCACGCTAAGAAAGCTGCT
GTGAAAAAAGAAGAAAAAGCTCCGG

Protein	Signature genes	Signature genes Name	Protein_function
NC_011146.1\|WP_012532442.1\|4555928_4557260_+\|membrane-protein	unknown	unknown	gnl\|CDD\|239274
NC_011146.1\|WP_012532429.1\|4538510_4539869_+\|DNA-repair-protein-RadA	unknown	unknown	gnl\|CDD\|236994
NC_011146.1\|WP_012532439.1\|4553369_4553873_+\|thiol-peroxidase	unknown	unknown	gnl\|CDD\|179055
NC_011146.1\|WP_012532447.1\|4562685_4563759_+\|galactokinase	unknown	unknown	gnl\|CDD\|223231
NC_011146.1\|WP_012532428.1\|4536761_4538330_-\|HEAT-repeat-domain-containing-protein	unknown	unknown	gnl\|CDD\|224331
NC_011146.1\|WP_012532430.1\|4540017_4540374_+\|RNA-polymerase-binding-protein-DksA	unknown	unknown	gnl\|CDD\|274124
NC_011146.1\|WP_012532435.1\|4548674_4549283_-\|TetR/AcrR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|224228
NC_011146.1\|WP_012532427.1\|4535458_4536769_-\|HD-GYP-domain-containing-protein	unknown	unknown	gnl\|CDD\|225116
NC_011146.1\|WP_012532433.1\|4543049_4547462_-\|efflux-RND-transporter-permease-subunit	unknown	unknown	gnl\|CDD\|223911
NC_011146.1\|WP_012532441.1\|4554896_4555883_+\|AI-2E-family-transporter	unknown	unknown	gnl\|CDD\|223701
NC_011146.1\|WP_012532436.1\|4549721_4552061_-\|multicopper-oxidase-domain-containing-protein	unknown	unknown	gnl\|CDD\|259936
NC_011146.1\|WP_012532443.1\|4557415_4558546_+\|UDP-galactopyranose-mutase	unknown	unknown	gnl\|CDD\|223636
NC_011146.1\|WP_012532448.1\|4563781_4565974_+\|sugar-nucleotide-binding-protein	unknown	unknown	gnl\|CDD\|187564
NC_011146.1\|WP_012532434.1\|4547485_4548649_-\|efflux-RND-transporter-periplasmic-adaptor-subunit	unknown	unknown	gnl\|CDD\|273776
NC_011146.1\|WP_012532446.1\|4561585_4562677_+\|M24-family-metallopeptidase	unknown	unknown	gnl\|CDD\|238514
NC_011146.1\|WP_012532445.1\|4560503_4561589_+\|galactose-1-phosphate-uridylyltransferase	unknown	unknown	gnl\|CDD\|238341
NC_011146.1\|WP_012532438.1\|4552883_4553285_+\|hemerythrin-family-protein	unknown	unknown	gnl\|CDD\|274154
NC_011146.1\|WP_012532432.1\|4542817_4543006_+\|hypothetical-protein	unknown	unknown	unknown
NC_011146.1\|WP_012532431.1\|4540416_4542714_+\|GAF-domain-containing-protein	unknown	unknown	gnl\|CDD\|236901
NC_011146.1\|WP_012532440.1\|4553953_4554559_-\|PEP-CTERM-sorting-domain-containing-protein	unknown	unknown	unknown

Protein	Function_ID	Function_description	E-value
NC_011146.1\|WP_012532442.1\|4555928_4557260_+\|membrane-protein	gnl\|CDD\|239274	cd02976, NrdH, NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase activity that is dependent on TRX reductase, not glutathione (GSH). It is part of the NrdHIEF operon, where NrdEF codes for class Ib ribonucleotide reductase (RNR-Ib), an efficient enzyme at low oxygen levels. Under these conditions when GSH is mostly conjugated to spermidine, NrdH can still function and act as a hydrogen donor for RNR-Ib. It has been suggested that the NrdHEF system may be the oldest RNR reducing system, capable of functioning in a microaerophilic environment, where GSH was not yet available. NrdH from Corynebacterium ammoniagenes can form domain-swapped dimers, although it is unknown if this happens in vivo. Domain-swapped dimerization, which results in the blocking of the TRX reductase binding site, could be a mechanism for regulating the oxidation state of the protein.	9.72033e-06
NC_011146.1\|WP_012532429.1\|4538510_4539869_+\|DNA-repair-protein-RadA	gnl\|CDD\|236994	PRK11823, PRK11823, DNA repair protein RadA; Provisional.	0
NC_011146.1\|WP_012532447.1\|4562685_4563759_+\|galactokinase	gnl\|CDD\|223231	COG0153, GalK, Galactokinase [Carbohydrate transport and metabolism].	5.36126e-114
NC_011146.1\|WP_012532428.1\|4536761_4538330_-\|HEAT-repeat-domain-containing-protein	gnl\|CDD\|224331	COG1413, COG1413, FOG: HEAT repeat [Energy production and conversion].	8.00085e-14
NC_011146.1\|WP_012532430.1\|4540017_4540374_+\|RNA-polymerase-binding-protein-DksA	gnl\|CDD\|274124	TIGR02420, RNA_polymerase-binding_transcription_factor_DksA, RNA polymerase-binding protein DksA. The model that is the basis for this family describes a small, pleiotropic protein, DksA (DnaK suppressor A), originally named as a multicopy suppressor of temperature sensitivity of dnaKJ mutants. DksA mutants are defective in quorum sensing, virulence, etc. DksA is now understood to bind RNA polymerase directly and modulate its response to small molecules to control the level of transcription of rRNA. Nearly all members of this family are in the Proteobacteria. Whether the closest homologs outside the Proteobacteria function equivalently is unknown. The low value set for the noise cutoff allows identification of possible DksA proteins from outside the proteobacteria. TIGR02419 describes a closely related family of short sequences usually found in prophage regions of proteobacterial genomes or in known phage. [Transcription, Transcription factors, Regulatory functions, Small molecule interactions].	3.39957e-46
NC_011146.1\|WP_012532435.1\|4548674_4549283_-\|TetR/AcrR-family-transcriptional-regulator	gnl\|CDD\|224228	COG1309, AcrR, Transcriptional regulator [Transcription].	1.93624e-17
NC_011146.1\|WP_012532427.1\|4535458_4536769_-\|HD-GYP-domain-containing-protein	gnl\|CDD\|225116	COG2206, COG2206, c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms].	1.1598e-55
NC_011146.1\|WP_012532433.1\|4543049_4547462_-\|efflux-RND-transporter-permease-subunit	gnl\|CDD\|223911	COG0841, AcrB, Cation/multidrug efflux pump [Defense mechanisms].	0
NC_011146.1\|WP_012532446.1\|4561585_4562677_+\|M24-family-metallopeptidase	gnl\|CDD\|238514	cd01066, APP_MetAP, A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity compared to other metallo-aminopeptidases, suggesting they play roles in regulation of biological processes rather than general protein degradation.	2.36372e-22
NC_011146.1\|WP_012532436.1\|4549721_4552061_-\|multicopper-oxidase-domain-containing-protein	gnl\|CDD\|259936	cd13868, CuRO_2_CotA_like, The second Cupredoxin domain of bacterial laccases including CotA, a bacterial endospore coat component. CotA protein is an abundant component of the outer coat layer in bacterial endospore coat and it is required for spore resistance against hydrogen peroxide and UV light. Laccase is composed of three cupredoxin-like domains and includes one mononuclear and one trinuclear copper center. It is a member of the multicopper oxidase (MCO) family, which couples the oxidation of a substrate with a four-electron reduction of molecular oxygen to water. MCOs oxidize their substrate by accepting electrons at a mononuclear copper center and transferring them to the active site trinuclear copper center. The cupredoxin domain 2 of 3-domain MCOs has lost the ability to bind copper.	8.98542e-59
NC_011146.1\|WP_012532443.1\|4557415_4558546_+\|UDP-galactopyranose-mutase	gnl\|CDD\|223636	COG0562, Glf, UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane].	2.09779e-153
NC_011146.1\|WP_012532448.1\|4563781_4565974_+\|sugar-nucleotide-binding-protein	gnl\|CDD\|187564	cd05254, dTDP_HR_like_SDR_e, dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs. dTDP-6-deoxy-L-lyxo-4-hexulose reductase, an extended SDR, synthesizes dTDP-L-rhamnose from alpha-D-glucose-1-phosphate, providing the precursor of L-rhamnose, an essential cell wall component of many pathogenic bacteria. This subgroup has the characteristic active site tetrad and NADP-binding motif. This subgroup also contains human MAT2B, the regulatory subunit of methionine adenosyltransferase (MAT); MAT catalyzes S-adenosylmethionine synthesis. The human gene encoding MAT2B encodes two major splicing variants which are induced in human cell liver cancer and regulate HuR, an mRNA-binding protein which stabilizes the mRNA of several cyclins, to affect cell proliferation. Both MAT2B variants include this extended SDR domain. Extended SDRs are distinct from classical SDRs. In addition to the Rossmann fold (alpha/beta folding pattern with a central beta-sheet) core region typical of all SDRs, extended SDRs have a less conserved C-terminal extension of approximately 100 amino acids. Extended SDRs are a diverse collection of proteins, and include isomerases, epimerases, oxidoreductases, and lyases; they typically have a TGXXGXXG cofactor binding motif. SDRs are a functionally diverse family of oxidoreductases that have a single domain with a structurally conserved Rossmann fold, an NAD(P)(H)-binding region, and a structurally diverse C-terminal region. Sequence identity between different SDR enzymes is typically in the 15-30% range; they catalyze a wide range of activities including the metabolism of steroids, cofactors, carbohydrates, lipids, aromatic compounds, and amino acids, and act in redox sensing. Classical SDRs have an TGXXX[AG]XG cofactor binding motif and a YXXXK active site motif, with the Tyr residue of the active site motif serving as a critical catalytic residue (Tyr-151, human 15-hydroxyprostaglandin dehydrogenase numbering). In addition to the Tyr and Lys, there is often an upstream Ser and/or an Asn, contributing to the active site; while substrate binding is in the C-terminal region, which determines specificity. The standard reaction mechanism is a 4-pro-S hydride transfer and proton relay involving the conserved Tyr and Lys, a water molecule stabilized by Asn, and nicotinamide. Atypical SDRs generally lack the catalytic residues characteristic of the SDRs, and their glycine-rich NAD(P)-binding motif is often different from the forms normally seen in classical or extended SDRs. Complex (multidomain) SDRs such as ketoreductase domains of fatty acid synthase have a GGXGXXG NAD(P)-binding motif and an altered active site motif (YXXXN). Fungal type ketoacyl reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.	3.95839e-69
NC_011146.1\|WP_012532434.1\|4547485_4548649_-\|efflux-RND-transporter-periplasmic-adaptor-subunit	gnl\|CDD\|273776	TIGR01730, COG0845:_Membrane-fusion_protein, RND family efflux transporter, MFP subunit. This model represents the MFP (membrane fusion protein) component of the RND family of transporters. RND refers to Resistance, Nodulation, and cell Division. It is, in part, a subfamily of pfam00529 (Pfam release 7.5) but hits substantial numbers of proteins missed by that model. The related HlyD secretion protein, for which pfam00529 is named, is outside the scope of this model. Attributed functions imply outward transport. These functions include nodulation, acriflavin resistance, heavy metal efflux, and multidrug resistance proteins. Most members of this family are found in Gram-negative bacteria. The proposed function of MFP proteins is to bring the inner and outer membranes together and enable transport to the outside of the outer membrane. Note, however, that a few members of this family are found in Gram-positive bacteria, where there is no outer membrane. [Transport and binding proteins, Unknown substrate].	2.20992e-58
NC_011146.1\|WP_012532445.1\|4560503_4561589_+\|galactose-1-phosphate-uridylyltransferase	gnl\|CDD\|238341	cd00608, GalT, Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme contains two identical subunits. It also demonstrates that the active site is formed by amino acid residues from both subunits of the dimer.	4.33213e-121
NC_011146.1\|WP_012532438.1\|4552883_4553285_+\|hemerythrin-family-protein	gnl\|CDD\|274154	TIGR02481, hemeryth_dom, hemerythrin-like metal-binding domain. This model describes both members of the hemerythrin (TIGR00058) family of marine invertebrates and a broader collection of bacterial and archaeal homologs. Many of the latter group are multidomain proteins with signal-transducing domains such as the GGDEF diguanylate cyclase domain (TIGR00254, pfam00990) and methyl-accepting chemotaxis protein signaling domain (pfam00015). Most hemerythrins are oxygen-carriers with a bound non-heme iron, but at least one example is a cadmium-binding protein, apparently with a role in sequestering toxic metals rather than in binding oxygen. Patterns of conserved residues suggest that all prokaryotic instances of this domain bind iron or another heavy metal, but the exact function is unknown. Not surprisingly, the prokaryote with the most instances of this domain is Magnetococcus sp. MC-1, a magnetotactic bacterium.	1.82562e-38
NC_011146.1\|WP_012532439.1\|4553369_4553873_+\|thiol-peroxidase	gnl\|CDD\|179055	PRK00522, tpx, thiol peroxidase.	1.24398e-91
NC_011146.1\|WP_012532431.1\|4540416_4542714_+\|GAF-domain-containing-protein	gnl\|CDD\|236901	PRK11360, PRK11360, two-component system sensor histidine kinase AtoS.	3.38779e-53
NC_011146.1\|WP_012532441.1\|4554896_4555883_+\|AI-2E-family-transporter	gnl\|CDD\|223701	COG0628, yhhT, Predicted permease, member of the PurR regulon [General function prediction only].	1.29158e-10

>NC_011146.1|WP_012532436.1|4549721_4552061_-|multicopper-oxidase-domain-containing-protein
MKKGRLLGAVGTVALIASLLTTAWAGVPNQVQLPGSAIPQFVDPLPDLDLVPAGAGQIELRMKEFKSMILPANTVPGYTGTWVWGYLQPGQVANQLPDGSVPGRQSYIGPVIAATRGVATEMKFVNELPTVNATKVLAYKYSTDQTMHWADPLNMGMSMCSHMSMPPAFGSACSFNYGEFAAGQFGEVQIPAAVHLHGGEVPPQLDGGPDSWFTNNGSTGVLKGASYYSRDGAAATNYAIYRYPNTQETAPIWFHDHTLGATRLNVYAGLAGAYLVADPAKDPANLPELVPLVLQDRMFDTSGQLFFSAGGAGGLLWALNPEHPYWNPEFLGDVMVVNGKSWPYKNVQAKRYTFLFLNGSNARTYEMFLTDPVSKNPGPALWVIGTDGGYLDKPVPATKGKLVIMPGERYQVIVDFAGFQAGRIGPNGLAYSGKWLLKNTAKAPYPSGESPDGNTEGRIMQFLIGAAPATDASFNPALAGATLRQPMVRLVNPATGTVAVPVQKTRQLTLNEVMGMPQMTTDPITGLPVSYPGGPLEILVNNTKWNGKRINGVNAATGHYTFEPIPGLTLDAKGTNYISERPNEGETEVWEIVNLTADAHPIHLHLVQFQLINRQNFDVNGYSAAYSKAFPGGGFDPMTMKPYPAGAYIPGFGPPLSYDGNPANVRAVGGNPDVAALVKGKPLYLQGPAAPALPHEAGWKDTVMALPGQVTRIAVRWAPTDLAATTPAASAFFPFDPNGGDGYVWHCHIIDHEDNEMMRPDEVTPNPNGVRSFVKGVDF
>NC_011146.1|WP_012532435.1|4548674_4549283_-|TetR/AcrR-family-transcriptional-regulator
MTVVTTEIEPEPGARERLLFSALTLFNEKGYAAASVREIVEKAGVTKPVLYYYFGSKEGIYLELMETSYQILDSMAARAFSLAGFAQEKIIQFCGDLFDISIESLPMVRLINSIYFGPPQGTPKFDLDVFPARLTEVLQQLVSSGMRESELKEGSVEDVAGAVMAIVTSTINEQICCRENKPDRDTMVRMLRLLMTGIAPTQ
>NC_011146.1|WP_012532434.1|4547485_4548649_-|efflux-RND-transporter-periplasmic-adaptor-subunit
MKTSNLVLAALGATLLLGGGTGCSGKSEAKVPAGAPLIAVEVLPVKGSDLIDGIDVTGTLAAKNEAEVKTEIPGLVKELYVTEWVRVRKGQPLARIGLAETEALVKRAEANVQNARASLIQVKVAADRSEREKERQIKLKQAGLATQQSVDDAVSDSEAAKARIEAARAQIRAGEEELSQLRVRLSKGMVRSPIDGVVAFKDVNVGSLTSDAAAAKPIFKIVDNRLMNLTVTVPSSQMAAVKLGQPLQFVTDGVPGKTFTGKVMFINPSVEEADRSLKVIAEVPNVPEVLKGGLFVKGKIVTGSRKDVLQVPRATLAALDLDRRSGYLFVVENGVARRREVATGAVSGELVEILSGVKGGEQVIGRGGFNVKDGDRVQVANLPSSRP
>NC_011146.1|WP_012532433.1|4543049_4547462_-|efflux-RND-transporter-permease-subunit
MILSDLSIKRPVFAAVLMLALVTLGLFSYRRLSVEMFPSVEIPVISVVTKFPGASPESIEREVSKKIEEAVNQIAGVKHVMSYSREGVSTVVVEFRLEEKINEASQEARAKIAGIRGNLPTGIEDPIIQKLDFNALPVVSLAVKGRGLDTKELTTLVDKQIKRRLENVSGVGKVDVVGSAKREVTVTIDPVRLEALGLGVDAVVAGLKSENVNTPLGRLTHGGNEYPIRISGKPGQVEGFRNMVIAQRGGRGITLSEVAEVTDGAKEQRSLALINGEPAVALDVLKQSGANMVEVVDGVKKSVEKLRKELPPGVEVTVVRDASIPTRESLADVKETMLIGGLLTVIIVFCFINSWRSTVITGLTLPISVVSSFIVMNAMGMTLNIMTMMALSLAIGLLIDDAIVVRENIVRHLEHGEDHLTAARIGTSEIGLAVFATSMSIVAVFVPVAFMRGIVGRFFFQFGMTVAFAVLVSLFVSFTLDPMLSSRWHDPAIELKGRRKGIARLLDRFNDRFDAWADSYRKAISWALNHRKTVLAAAFLSFAAGIAIFGTLESSFMTNDDKGEFQVVFKTAPDASIAESTDRLKAVLAVIKGVPEVEHTYASIGAGDSGTVQSGALYVKLKEKAHRKRSQEEVQQAFREKLKAIPGITTSIERVGDVGGAQKPLQVNLKGEDIPTLKRYAAQLKQEIYKIPGVVDLEVTLDHDIPEYRMTVDRARAQDAGVNTNDIASTVSRLVGGEAVTTYEDEDGDAVDLRVRLPEALRRDPGQVRDLKLAVAKGDETALVPLANLVSYEVSNTPSEINRRDLSRLVTISANLDGLPIGTAVEKVKEAAARVPMQPGYSVGFSGEAEDMAESFGYMAESLIIAIIFVYLILAAQFESFLEPLAIMLSLPLSVVGMAGMLKLTGDTVNIMSLIGLIMLMGLVTKNAILLVDYAKVLQGRGMDRFQAVVEAGRTRLRPIVMTTLAMIFGMLPLFFALGSGAEMRAPMARAVVGGLLTSTLLTLLVVPVMYTVLDDLEEWLRRKWKGKKARGAGQAAVLLLGLSLTLALTPGLCLAGEARTLTLDDALSIAMEQNRDIQKARAYAQLVQGKYLEERAAALPSLALNASADYVRDNSQSAFTGGISSSRQRLADLRLTQTLFSWGKIGAAIRGAKEGMKTAEDQLRLFQQAARRDVTVSFYDVLLAKELRALALSNLQQKERHLAEAVKRLAAGVATDYDVLAARVGVDNARPELIRRENAIKTAKERLRLVLALEPGELEVTGVLQAVPVPIPAFEESLTLARRMRPELSDLKHRVGISRELVEIAAAENKPQLDLRGGFGYHQLEAAGRDWQGTAYDVGLFLTFPFFDGFKTKGKVEQAKSDLRTRELEQAQQLDAVSLEVRDAGFNVTEAAEILKALSGTVTQAERLLGMAEQGYQLGVKTRLEVEDAEANLVQARSNLAQARRDYQVSLVNLTWATGVLGEVPLSAL
>NC_011146.1|WP_012532432.1|4542817_4543006_+|hypothetical-protein
MRKRMKLLLAFAVVPILLSGCIVAPWYPYYDDDGGYYHHDRGGWHDRGYGGRGYDDRGYGRR
>NC_011146.1|WP_012532431.1|4540416_4542714_+|GAF-domain-containing-protein
MAGRKGQNLLEQALTIAQAPGRSHQVRLNSLLRLAARWHSLASATIYLPDPKGVVLQRRFSTLATPSGHNCHIPYGVGLAGRTAATLSPQSASADLLHPDEPCSGNGSIAALPLLDGDRLFAVLALESGAAEVAREAVDAAGTLAPVFSLTVARMAAAEEAEEAQRNLSLLSALAKLLSSPQPRGVLLHRLMQLCTSSGLSSCAIVRLKQRNSGKERVIRSCRRGMGDKLPDLLEKEAALAVHVCATETTCAEELGDDSSYRYALCTPLGSNGAALGTMTLFGGPELTAPKQIELAETVARLLSGAMAEAICKEQIKTYDSENEKKLKELSLLYRMSNTMLSTIQLNKLIHLTLTALTSGPTPFFDRAMLFLTNERSGMLLGMLGVTTETSPSLSSQNGGSDDLLSSRWDISDEEMAAQRNSEFCRQVQGRRLELDGTLNIASQAVLEKRLIYIPEEGGIGGPLHSRRSALAASPLIAHGQAVGAVLVDNALTHKPINQEHLRFLQLFTNQAGMAIENSMLYNKIEDANHQLSEAQENLLQKERLAAIGEMAAGIAHELKGPLVSIGGFAGRLARKLPQDTSEWAHADLIVREVLRLEGILSEILLFSKKTTICYTRCDLSEVVKESLAVVTPPLEEKQISVNAKFPRHKLLLLGDGQQLKQVFINIILNALDAMGTGGALNIQVSAAEMDDKEAVQVKISDTGGGIPLESLNSIFTPFFTTKGSGTGLGLPIANRIITNHGGKIQVTNNPGLGVEFRVILPKHW
>NC_011146.1|WP_012532430.1|4540017_4540374_+|RNA-polymerase-binding-protein-DksA
MNTEKLEYFRGILQEEKRSLLEEAGRTVSEMTSDTTNFPDPTDRATQESDRTFELRIRDRERKLIVKIQEALARIEAGTFGICEVCEEDISEARLKARPVTTLCIDCKMEQEKKERFR
>NC_011146.1|WP_012532429.1|4538510_4539869_+|DNA-repair-protein-RadA
MAKVKVKTGFVCSDCGADYPKWQGHCTACDAWSTIKEVRLGSERAARRDGFAGATSSVTLLSQVECTEQSRFSSGSEEFDRVLGGGFVPGSVILIGGDPGAGKSTILLQTMCYAAASKEVLYVSGEESLQQIAGRARRLQLPLDRVKMLAESSVEGVLEAAKSERPEVVVIDSIQVMQSAALEAAPGGVSQVRECAAALTCYAKTSGVVLIMVGHVTKDQSLAGPMTLSHMVDTQVMLSSTEDSRYRLMRTTKNRFGPVNELGVFAMTEAGLREVKNPSAIFLSRSEKAAPGSLISVLWEGTRPLLVEIQSLVVGAQYGSPRRLGIGLDQNRIAMILAVITKHGGLVLSDQDVFVNVVGGIRVLETSADLAVALAIVSSFRNTVLPQDLLVFGEVGLSGEIRPVSNGEMRLKEGVKHGFTRAIVPKGNAPRKGIPGLEVVAVTSLPEALEAI
>NC_011146.1|WP_012532428.1|4536761_4538330_-|HEAT-repeat-domain-containing-protein
MPVVKKKMLKLVPPAENRGFLVQALVELHKAVKGAGFYPKGHPYRTETLQRAYDCLKKLLSDRELVLGVNRHGFLLTGEPVEGNNMVQQLAHECFIRRIANISFMQDLIPGDLGIFVQLLNCDPQKGAAAGGLAKELEDRGVRTVWVNEKDLASIWAKRPGYHEGVQEGWDSIPSLGMPATPVNQQRGIGELLVLMAGEPSDARYQELGRELMAGYQVDPQQVPVLTILEELLRQHQEPERSLPQREYALFTLDHLADGAADQLLNALEGRECEERESIHRVLAALGGKGAYWVIQRICLAEGLFERKSLAAALVALGQAAIAPLIAMLKDERWYVVRNMVAIIGELRSADCVLALKRPLYHHDVRVRKEAIRALMKIGGEASVLLLLPLLDEEDEGVVRHAILSLGLMRSREAVPALLKLLDRRDIFLKELGVKKEVVTALGRIGDRRVTPQLLKMLGTRGWPVLGRWLELKVAVASTLGMLGDETAIAALTSLARGSGALAEACREALDAIERISGGTHD
>NC_011146.1|WP_012532427.1|4535458_4536769_-|HD-GYP-domain-containing-protein
MIDGLQHAQRLATLLSGAIKGAGLYPPGHPASLQPFREMEALMLMLQRNGGDLRLAVVDGVLSVGEHLFFAPPAPLQELINRLEEKKIAGLILKPGVLTPDLTVLTRLMAEGSDEAGDLTRGLKEAGVKLIEVMEENSLSHTYNEAVSAVRDIFEEIGKGRIPNSRRMLTVVSSLASAAIKEPAALLGLALIKDYDNYTFQHSVNVGVLSMALSASMGHGEIEVEECGLAGFLHDIGKTRVDKDILNKPGKLSSDEFLEMRKHPEFGAAIVREMEGVPEGVAEAVLGHHIRYDRAGYPEWAREKEFGTTSKIVAVADFYDATTTLRSYQRPMLPDQAMKEIRKAVGGSLDGAIVERFMELTGKYPTGSLVRLDSNEIAVVFSPSSQPCGAAVVKVVMDPHGSLLENPELRSLITSGDNIVDLVDPLVKGIDVAQYF
>NC_011146.1|WP_012532438.1|4552883_4553285_+|hemerythrin-family-protein
MPIVAWDVSLSVGNNVIDEHHRHLVGLLNKAYDEFCDSNSTIAMESLLEELIDYATYHFAHEEKLMTATGYPETLQHLEEHERFVKRVTEMQKDVVTGDVPFSLEILSFLRNWLVNHISKVDTKLGAYAGTRH
>NC_011146.1|WP_012532439.1|4553369_4553873_+|thiol-peroxidase
MAQVTFKGNPVTLVGSQVKVGDAAPDFSVVDNSMGAVSLANYQGMVKIVSAVPSLDTPVCDTETRRFNQEAAKLPGDVVVLTISADLPFAQKRWCGAAGIDKVVTLSDYRDRSFALAYGVLIDELKLLSRSIFVIDKQNVIRYIQHVPEVTQEPDYEAALRAARELA
>NC_011146.1|WP_012532440.1|4553953_4554559_-|PEP-CTERM-sorting-domain-containing-protein
MKNLIRCLFLLSLLASPNPAQATMINVLQAGGTVEWSTASSGGLVASEIFAGQYNPDPLISPMGAAQFNTLVPARGGFATAVQDWIAMLEGSFTPHRYGSEIDYYNELNAMYFQNAFWGLLLWFGEENGISGGYHAPIPDFSGYDVHGLYIYNGVDFGVGTMTYDFHVFADVTPVPEPSTVFLLVMGLAGTFGLNVLREKN
>NC_011146.1|WP_012532441.1|4554896_4555883_+|AI-2E-family-transporter
MNTLQISYLLAALSVPVVLQFHLLPAAFAGLAVYVLTAKLAPMLPLRWGSLTQKVALAGIILFVIALVSSICLGLWSFLRGHHGMANLLNMAAETLENLKRTLPEDLTAALPDTVDELREQITNMLREHGKNISSVGISGVKTFAHLILGMVVGSLAVLHRFNKENGFPPLASDLHARLINLADSFDKVVFAQVKISALNTVLTAIYLAVVLPIFGVYLPMVTLLVLLTFVAGLLPVVGNLISNFTIVLISLGVSPMVGIASLAFLIVIHKLEYFTNARIVGGQVKASVWELLCAMLFMEAIFGMAGLVAAPVVYAWLKTELKAKRLV
>NC_011146.1|WP_012532442.1|4555928_4557260_+|membrane-protein
MQATNFTSTIIPSRRGRDSRSAAAPLPPLPHRLRCLARFWLAACLALLLLLPPGARAAASELSATLYFFWGVGCPHCTKAKPFLEELKRKYPTLRIESYEVLEKRENIPLLVAMARARHKEATGVPVFIIGQEMFSGFSAETAAEVEQAVRLALQPVAPQKQAAPKPAPPVRLPLLGPVDAQSLSLPVFTVAVALLDSLNPCAFFVLFFLLSLLIHAHSRRRMLLIGGLFVFFSGLVYFVFMAAWLNLFLITGGLPAITFAAGIVALFVGAVNVKEFFYFGQGVSLSIPEQQKPKLFARMRRLLRADSLPSLLAGTTVLALAANSYELLCTAGFPMVFTRMLTLRELPTYSYYAYLAFYCTIYALPLAVIVALFTVKLGERKLTQWQGRVLKLVSGLMMLGLGLVLLIDPALLNKPLASAGLLAGTLAAAALLAAFARKRGAG
>NC_011146.1|WP_012532443.1|4557415_4558546_+|UDP-galactopyranose-mutase
MSRFDIVVVGAGISGATLAERYASLGKKVLVLEKRNHIGGNCYDFHNEHGILVSKYGAHLFHTEFEDVWQYVNRFSRWYPYEHHVLAKVDGKLVPIPVNISTVNTIFNLRIRTETEMQRFLSEVQVKPPHEEPRNGEEAALARVGLVLYEKMFKHYTKKQWDKYPHELDASVLLRIPVRTNFDDRYFNDPYQALPLNGYTRLFEEMLRHPNITVRLSTDYFDVKESPEVRECSKVFYAGPIDRYFDYRHSRERKLQWRSIRFEWITLDQEFFQQNSVVNYPDPKDGDFTRIVEYKHFTRQKHPKTTISREYTTDEGDPYYPVPNSENEAISQRYREEAEKLSDVYFVGRLANYKYFNMDQAFKNALDLFHRIEGKH
>NC_011146.1|WP_012532445.1|4560503_4561589_+|galactose-1-phosphate-uridylyltransferase
MLYRREMLKTDGRSLTLYGRGPIEVLGEAPSPNREPLAANPHLRWHPLRGEWVAYASYRQGRTFMPPPEYNPLAPTTDPDNPTELPQGNYQVAVFDNRFPSLSPVAHHPPQSYVPTAPGRGKCEVVVFGKDPARSLSGLPLDHIELLMEVWGDRVERLGEDPDINYVLPFENKGIEVGVTLHHPHGQIYAYPFVPPVPQRMQVQELSYFQVQGAPLLEGLIAAETVSGERILYLGEHAISFLPPWARYPYEVWVAPRRAVPGFPQLTPEVRADLARALKTTLLKYDGLWQRPFPYLMAWYGAPTDGEPHPECHLHAEFYPPYRSSDRLKYLAGTELAAGMFANDALPEQKAKELQEVEVTL
>NC_011146.1|WP_012532446.1|4561585_4562677_+|M24-family-metallopeptidase
MNGTARAEEMAVKIRLVRELLGEGRVLRLKGIDWFSWITAGGSNEVLLAAETGIAEFVVTERGAFVVTNEIEAQRLIDEELPPGCEVRILPWAYPSQLEVVMRELAEGTPVYSDRPAEAERELPLPLLAAKRTLSLPELHRYREVGLLASQAMTETLQQANPDWSEYRLAAAGASALLSRGLAPCLVMAAGDRRRRLYRHPISGKDPLGASAMLVFCARGYGLYANLTRFIAFEPLTDEEEQKHAQVREIEAHALLLSRPGVLLHEVYRELASAYAAAGYEHAIKEHHQGGITGYLSREVIANPEAREHLSAGMAVAWNPSLPGAKIEDTFLVTETGVENLTLDPAWPTVLAAGLERPLVLRR
>NC_011146.1|WP_012532447.1|4562685_4563759_+|galactokinase
MSAATDFEKTFESPCEVTARAPGRVNLLGEHTDYNDGFVLPIAVPLETTVELARSRDGRNHYYAEELQERAWSETGGAVPSGFAAYLHGCLALLRLSGHHVDPVSVRVTSQVPMGSGLSSSAALEVAFLRGMRELFRLDLDDVEIALMAQQAEIRYAGVNCGIMDQMAASLADSTHMLFIDTRSLERKLLPLPPRSELLVIDCGIPRKLGESMYNLRRQECEEAVELLGIASLRELSDLGQLIKLPRNLAQRARHVLTENERVLEAVKGVHGCRFGELMNASHMSLRDDFQVSIPELDLLARLLQEQVDVYGARLTGAGFGGACVALVREGKAAEVASNVLALYREQGQQGKLLVPQ
>NC_011146.1|WP_012532448.1|4563781_4565974_+|sugar-nucleotide-binding-protein
MSNDRHKERVPELWGGMECTLNRVGKHFHSQLALNGHLSRPKDLELFAGLGIRTLRYPVLWEMVAPQRLDAPDWRWTDERLNRLLELGLEPVAGLLHHGSGPAYTSLVDPDFPALLARYARLVARRYPWIRYFTPVNEPLTTARFSGLYGHWYPHGTDDRTFVRTLLSQCRGIVEAMRGIREVTPEAKLVMAEDMGKTFSTDLLRYQADYENHRRWLSLDLLAGKVDRCHPLRLWLEQNGTDDAEFDYFLQSGMAPDVVGLNYYLTSDRFLDHRLDRYPEWTHGGNHQHRYADVEAVRACPEGILGHEEVLRSAWQRYAKEVALTEVHLGSTREEQLRWFHEAWQAGVKLCREGVPVRAVTAWSLLGSFDWCGLFTSITGSYEPGVFDIRGPSPRPTLLAGGLRQIVREGELSHPTVRSPGWWRRPDRFLPGLNPDLPSTGDECAEERGRILIVGKTGTLGQSFSRLCRHRGIPCHLLSRGEIDIASAASVATAFDRYEPWAVVNGAGFVRIDDAEGDASTCFRENTVGPAVLAAECARRGVPLMTFSSDMVFNGSKRTAYQERDPVSPINIYGQSKAEAERQVLKLYPGALVLRTSAFFGPWDRYNFVTVTLRRLAAGETVEAASDLVVSPTYIPDLVHAGLDLLLDGESGIWHLSNAGAVSWAELARCCAKMAGLDSSRVIPRPAASLGYLAPRPPFSVLGSERGVVLPELENALSRYFFDTVPPENE

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Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

3459585 : 3516903

Staphylococcus_phage(20.0%)

plate,integrase

attL 3451943:3451959|attR 3507938:3507954

The bacterium proteins that are colored denote the protein is present at specific phage-related keywords (such as 'capsid', 'head', 'integrase', 'plate', 'tail', 'fiber', 'coat', 'transposase', 'portal', 'terminase', 'protease' or 'lysin' and 'tRNA')

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
3451943:3451959	attL	NA	NA	NA	NA
WP_012531422.1\|3459585_3460821_-\|integrase	integrase arm-type DNA-binding domain-containing protein	B7SYF8	Stenotrophomonas_phage	2.0e-125	55.0
WP_148212920.1\|3461687_3461993_-	hypothetical protein	NA	NA	NA	NA
WP_012531423.1\|3461964_3463047_-	hypothetical protein	NA	NA	NA	NA
WP_012531424.1\|3463050_3465174_-	N-6 DNA methylase	A0A142K7G3	Mycobacterium_phage	3.8e-31	26.0
WP_012531425.1\|3465329_3465995_-	recombinase family protein	A0A0F7L6S1	uncultured_marine_virus	1.7e-38	44.5
WP_012531426.1\|3466311_3466464_+	hypothetical protein	NA	NA	NA	NA
WP_012531428.1\|3466803_3467178_+	hypothetical protein	NA	NA	NA	NA
WP_012531429.1\|3467286_3467736_+	hypothetical protein	NA	NA	NA	NA
WP_012531430.1\|3467800_3468217_+	hypothetical protein	NA	NA	NA	NA
WP_012531431.1\|3468213_3468807_+	recombinase family protein	A0A1B1IWV2	uncultured_Mediterranean_phage	7.8e-27	51.0
WP_012531432.1\|3468920_3469313_-	hypothetical protein	NA	NA	NA	NA
WP_012531433.1\|3469309_3469888_-	hypothetical protein	NA	NA	NA	NA
WP_083770273.1\|3470659_3470836_-	PEP-CTERM sorting domain-containing protein	NA	NA	NA	NA
WP_041262804.1\|3470957_3471311_-	hypothetical protein	NA	NA	NA	NA
WP_012531438.1\|3471955_3473422_-	hypothetical protein	A0A1C9LW19	Vibrio_phage	5.1e-11	26.3
WP_041262807.1\|3474032_3474365_-	hypothetical protein	NA	NA	NA	NA
WP_169308690.1\|3474591_3475521_-\|integrase	tyrosine-type recombinase/integrase	A0A059XK29	uncultured_phage	1.6e-34	46.9
WP_012531441.1\|3476518_3476998_-	SsrA-binding protein SmpB	W5RAM5	Staphylococcus_phage	1.1e-42	59.0
WP_012531442.1\|3477343_3478588_-	amidohydrolase family protein	NA	NA	NA	NA
WP_012531443.1\|3478870_3479275_-	aspartate 1-decarboxylase	NA	NA	NA	NA
WP_012531444.1\|3479280_3480120_-	pantoate--beta-alanine ligase	NA	NA	NA	NA
WP_012531445.1\|3480116_3480920_-	3-methyl-2-oxobutanoate hydroxymethyltransferase	A0A0P0BXC9	Ostreococcus_lucimarinus_virus	3.2e-47	38.6
WP_041263329.1\|3481261_3483253_-	GAF domain-containing protein	NA	NA	NA	NA
WP_012531447.1\|3483368_3484448_-	6-phosphofructokinase	H8ZJH0	Ostreococcus_tauri_virus	1.5e-07	24.6
WP_012531448.1\|3484801_3485455_-	AhpC/TSA family protein	NA	NA	NA	NA
WP_012531449.1\|3485639_3485864_+	hypothetical protein	NA	NA	NA	NA
WP_012531450.1\|3485950_3486409_+	hypothetical protein	NA	NA	NA	NA
WP_012531451.1\|3486410_3486962_+	hemerythrin domain-containing protein	NA	NA	NA	NA
WP_012531452.1\|3487226_3488537_-	homoserine dehydrogenase	NA	NA	NA	NA
WP_012531453.1\|3488620_3489058_-	transcription antitermination factor NusB	NA	NA	NA	NA
WP_012531454.1\|3489058_3489526_-	6,7-dimethyl-8-ribityllumazine synthase	A0A2H4PQS3	Staphylococcus_phage	1.7e-37	54.0
WP_012531455.1\|3489666_3490869_-	bifunctional 3,4-dihydroxy-2-butanone-4-phosphate synthase/GTP cyclohydrolase II	A0A2H4PQS2	Staphylococcus_phage	1.7e-100	48.9
WP_012531456.1\|3490976_3491621_-	riboflavin synthase	A0A2I2L4R9	Orpheovirus	2.5e-18	34.2
WP_012531457.1\|3491760_3492870_-	bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase RibD	A0A1V0SE20	Indivirus	6.3e-46	36.8
WP_012531458.1\|3492879_3493332_-	transcriptional repressor NrdR	NA	NA	NA	NA
WP_012531459.1\|3493328_3493784_-	cytidine/deoxycytidylate deaminase family protein	A0A249XXA3	Clostridium_phage	1.2e-22	42.1
WP_012531461.1\|3494089_3496354_+	RNA-binding transcriptional accessory protein	NA	NA	NA	NA
WP_012531462.1\|3496438_3496885_-	hypothetical protein	NA	NA	NA	NA
WP_012531463.1\|3497139_3497796_-	phosphatase PAP2 family protein	NA	NA	NA	NA
WP_012531464.1\|3497898_3498189_-	DUF2325 domain-containing protein	NA	NA	NA	NA
WP_012531465.1\|3498242_3498986_-	DUF3793 family protein	NA	NA	NA	NA
WP_012531466.1\|3499163_3499562_-	hypothetical protein	NA	NA	NA	NA
WP_012531467.1\|3499582_3500116_-	DUF4123 domain-containing protein	NA	NA	NA	NA
WP_012531468.1\|3500151_3502203_-	type VI secretion system tip protein VgrG	A0A077K8Q4	Ralstonia_phage	7.1e-51	27.6
WP_041262811.1\|3502249_3503080_-	ankyrin repeat domain-containing protein	NA	NA	NA	NA
WP_012531470.1\|3503081_3504188_-	hypothetical protein	NA	NA	NA	NA
WP_012531471.1\|3504209_3505241_-\|plate	type VI secretion system baseplate subunit TssG	NA	NA	NA	NA
WP_012531472.1\|3505255_3507028_-\|plate	type VI secretion system baseplate subunit TssF	NA	NA	NA	NA
WP_148212968.1\|3507035_3507473_-\|plate	type VI secretion system baseplate subunit TssE	NA	NA	NA	NA
WP_012531474.1\|3507517_3508015_-	type VI secretion system tube protein Hcp	NA	NA	NA	NA
3507938:3507954	attR	NA	NA	NA	NA
WP_012531475.1\|3508027_3509515_-	type VI secretion system contractile sheath large subunit	NA	NA	NA	NA
WP_012531476.1\|3509526_3510057_-	type VI secretion system contractile sheath small subunit	NA	NA	NA	NA
WP_012531477.1\|3510081_3511401_-	type VI secretion system protein TssA	NA	NA	NA	NA
WP_012531478.1\|3511411_3514813_-	type VI secretion system protein ImpL	NA	NA	NA	NA
WP_012531479.1\|3514828_3515488_-	DotU family type IV/VI secretion system protein	NA	NA	NA	NA
WP_012531480.1\|3515508_3516903_-\|plate	type VI secretion system baseplate subunit TssK	NA	NA	NA	NA

Anti-CRISPR protein detection

Acr ID	Acr position	Acr size	Homology with known anti	Neighbor HTH/AcRanker	Neighbor Aca	In prophage	Protospacer in prophage

Overview of predicted results

Overview of the results

Cas Category Instructions

Results visualization

1. NC_011146

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CRISPR-Cas detection and classification

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Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection