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_022080	Geobacillus genomosp. 3, complete sequence	4 crisprs	cas2,cas1,cas9,cas14j,csa3,DEDDh,c2c10_CAS-V-U3,cas3,DinG,RT	0	6	8	0
NC_022092	Geobacillus genomosp. 3 plasmid pBt40, complete sequence	1 crisprs	NA	0	1	0	0

Results visualization

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CRISPR-Cas detection and classification

Crispr_ID: NC_022080_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_022080_1

301645-302140

TypeII

Consensus_repeat	Method
GTCATAGTTCCCCTGAGATTATCGCTGTGGTATAAT	PILER-CR
GTCATAGTTCCCCTGAGATTATCGCTGTGGTATAAT	CRISPRCasFinder
GTCATAGTTCCCCTGAGATTATCGCTGTGGTATAAT	CRT

7 spacers

cas2,cas1,cas9

The CRISPR arrays of NC_022080_1

>merge|NC_022080|1|301645-302140|PILER-CR,CRISPRCasFinder,CRT
GTCATAGTTCCCCTGAGATTATCGCTGTGGTATAATAAATTCAAAACAGAAATACCGTTTCTTGTAGTCATAGTTCCCCTGAGATTATCGCTGTGGTATAATTCCTGCAACGTGGTAATCTCATCATGCTCGTCATAGTTCCCCTGAGATTATCGCTGTGGTATAATCGGCGTGTTCCTCGAACATGCGCCAGCCGAGTCATAGTTCCCCTGAGATTATCGCTGTGGTATAATCTACGGGCGCGAGAGAGGCCTTCTCGAAGCGTCATAGTTCCCCTGAGATTATCGCTGTGGTATAATTAATACCATGAAGGCATGGCTGAGATCGTGGTCATAGTTCCCCTGAGATTATCGCTGTGGTATAATATAACGAACAGCAAGTGAACAGGAGGACAAGTCATAGTTCCCCTGAGATTATCGCTGTGGTATAATAAATACACGGACTAGGTTATCACCGTACCGTCATAGTTCCCCTGAGATTATCGCTGTGGTATAAT

>NC_022080|1|1|301645-302140|PILER-CR
GTCATAGTTCCCCTGAGATTATCGCTGTGGTATAAT	AAATTCAAAACAGAAATACCGTTTCTTGTA
GTCATAGTTCCCCTGAGATTATCGCTGTGGTATAAT	TCCTGCAACGTGGTAATCTCATCATGCTC
GTCATAGTTCCCCTGAGATTATCGCTGTGGTATAAT	CGGCGTGTTCCTCGAACATGCGCCAGCCGA
GTCATAGTTCCCCTGAGATTATCGCTGTGGTATAAT	CTACGGGCGCGAGAGAGGCCTTCTCGAAGC
GTCATAGTTCCCCTGAGATTATCGCTGTGGTATAAT	TAATACCATGAAGGCATGGCTGAGATCGTG
GTCATAGTTCCCCTGAGATTATCGCTGTGGTATAAT	ATAACGAACAGCAAGTGAACAGGAGGACAA
GTCATAGTTCCCCTGAGATTATCGCTGTGGTATAAT	AAATACACGGACTAGGTTATCACCGTACC
GTCATAGTTCCCCTGAGATTATCGCTGTGGTATAAT

>NC_022080|1|1|301645-302140|CRISPRCasFinder
GTCATAGTTCCCCTGAGATTATCGCTGTGGTATAAT	AAATTCAAAACAGAAATACCGTTTCTTGTA
GTCATAGTTCCCCTGAGATTATCGCTGTGGTATAAT	TCCTGCAACGTGGTAATCTCATCATGCTC
GTCATAGTTCCCCTGAGATTATCGCTGTGGTATAAT	CGGCGTGTTCCTCGAACATGCGCCAGCCGA
GTCATAGTTCCCCTGAGATTATCGCTGTGGTATAAT	CTACGGGCGCGAGAGAGGCCTTCTCGAAGC
GTCATAGTTCCCCTGAGATTATCGCTGTGGTATAAT	TAATACCATGAAGGCATGGCTGAGATCGTG
GTCATAGTTCCCCTGAGATTATCGCTGTGGTATAAT	ATAACGAACAGCAAGTGAACAGGAGGACAA
GTCATAGTTCCCCTGAGATTATCGCTGTGGTATAAT	AAATACACGGACTAGGTTATCACCGTACC
GTCATAGTTCCCCTGAGATTATCGCTGTGGTATAAT

>NC_022080|1|1|301645-302140|CRT
GTCATAGTTCCCCTGAGATTATCGCTGTGGTATAAT	AAATTCAAAACAGAAATACCGTTTCTTGTA
GTCATAGTTCCCCTGAGATTATCGCTGTGGTATAAT	TCCTGCAACGTGGTAATCTCATCATGCTC
GTCATAGTTCCCCTGAGATTATCGCTGTGGTATAAT	CGGCGTGTTCCTCGAACATGCGCCAGCCGA
GTCATAGTTCCCCTGAGATTATCGCTGTGGTATAAT	CTACGGGCGCGAGAGAGGCCTTCTCGAAGC
GTCATAGTTCCCCTGAGATTATCGCTGTGGTATAAT	TAATACCATGAAGGCATGGCTGAGATCGTG
GTCATAGTTCCCCTGAGATTATCGCTGTGGTATAAT	ATAACGAACAGCAAGTGAACAGGAGGACAA
GTCATAGTTCCCCTGAGATTATCGCTGTGGTATAAT	AAATACACGGACTAGGTTATCACCGTACC
GTCATAGTTCCCCTGAGATTATCGCTGTGGTATAAT

Protein	Signature genes	Signature genes Name	Protein_function
NC_022080.4\|WP_020958532.1\|313852_314524_-\|response-regulator-transcription-factor	unknown	unknown	gnl\|CDD\|223816
NC_022080.4\|WP_020958517.1\|293360_294869_+\|TIGR02677-family-protein	unknown	unknown	gnl\|CDD\|131724
NC_022080.4\|WP_020958513.1\|290281_291409_-\|betaine/proline/choline-family-ABC-transporter-ATP-binding-protein	unknown	unknown	gnl\|CDD\|213262
NC_022080.4\|WP_020958510.1\|286280_287711_+\|Asp-tRNA(Asn)/Glu-tRNA(Gln)-amidotransferase-subunit-GatB	unknown	unknown	gnl\|CDD\|235489
NC_022080.4\|WP_041267722.1\|312498_313872_-\|GHKL-domain-containing-protein	unknown	unknown	gnl\|CDD\|380161
NC_022080.4\|WP_020958520.1\|300126_301347_+\|TIGR02679-family-protein	unknown	unknown	gnl\|CDD\|274255
NC_022080.4\|WP_020958527.1\|310688_311342_-\|PspA/IM30-family-protein	unknown	unknown	gnl\|CDD\|224755
NC_022080.4\|WP_020958528.1\|311301_311826_-\|hypothetical-protein	unknown	unknown	unknown
NC_022080.4\|WP_020958522.1\|302553_303453_-\|type-II-CRISPR-associated-endonuclease-Cas1	cas1	cd09720_cas1_CAS-II-A:CAS-II-B:CAS-II-C	gnl\|CDD\|187851
NC_022080.4\|WP_128754814.1\|310344_310635_-\|hypothetical-protein	unknown	unknown	unknown
NC_022080.4\|WP_020958521.1\|302240_302549_-\|CRISPR-associated-endonuclease-Cas2	cas2	COG3512_cas2_CAS-II-A:CAS-II-B:CAS-II-C	gnl\|CDD\|226043
NC_022080.4\|WP_020958514.1\|291425_292328_-\|glycine/betaine-ABC-transporter-substrate-binding-protein	unknown	unknown	gnl\|CDD\|270246
NC_022080.4\|WP_020958526.1\|309062_310304_-\|MFS-transporter	unknown	unknown	gnl\|CDD\|340949
NC_022080.4\|WP_020958516.1\|292781_293219_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|274008
NC_022080.4\|WP_020958511.1\|287897_289202_+\|homocysteine-synthase	unknown	unknown	gnl\|CDD\|236201
NC_022080.4\|WP_041267823.1\|303382_306646_-\|type-II-CRISPR-RNA-guided-endonuclease-Cas9	cas9	COG3513_cas9_CAS-II-A:CAS-II-B:CAS-II-C	gnl\|CDD\|226044
NC_022080.4\|WP_020958518.1\|294852_296049_+\|TIGR02678-family-protein	unknown	unknown	gnl\|CDD\|274254
NC_022080.4\|WP_020958512.1\|289414_290044_-\|ABC-transporter-permease	unknown	unknown	gnl\|CDD\|224095
NC_022080.4\|WP_020958525.1\|307743_308796_+\|P1-family-peptidase	unknown	unknown	gnl\|CDD\|239071
NC_022080.4\|WP_041267822.1\|296008_300130_+\|TIGR02680-family-protein	unknown	unknown	gnl\|CDD\|274256

Protein	Function_ID	Function_description	E-value
NC_022080.4\|WP_020958532.1\|313852_314524_-\|response-regulator-transcription-factor	gnl\|CDD\|223816	COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription].	2.89345e-79
NC_022080.4\|WP_020958517.1\|293360_294869_+\|TIGR02677-family-protein	gnl\|CDD\|131724	TIGR02677, conserved_hypothetical_protein, TIGR02677 family protein. Members of this protein belong to a conserved gene four-gene neighborhood found sporadically in a phylogenetically broad range of bacteria: Nocardia farcinica, Symbiobacterium thermophilum, and Streptomyces avermitilis (Actinobacteria), Geobacillus kaustophilus (Firmicutes), Azoarcus sp. EbN1 and Ralstonia solanacearum (Betaproteobacteria). [Hypothetical proteins, Conserved].	0
NC_022080.4\|WP_020958513.1\|290281_291409_-\|betaine/proline/choline-family-ABC-transporter-ATP-binding-protein	gnl\|CDD\|213262	cd03295, ABC_OpuCA_Osmoprotection, ATP-binding cassette domain of the osmoprotectant transporter. OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment. ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition, to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.	1.48902e-162
NC_022080.4\|WP_020958510.1\|286280_287711_+\|Asp-tRNA(Asn)/Glu-tRNA(Gln)-amidotransferase-subunit-GatB	gnl\|CDD\|235489	PRK05477, gatB, Asp-tRNA(Asn)/Glu-tRNA(Gln) amidotransferase subunit GatB.	0
NC_022080.4\|WP_041267722.1\|312498_313872_-\|GHKL-domain-containing-protein	gnl\|CDD\|380161	NF033092, HK_WalK, cell wall metabolism sensor histidine kinase WalK. This model describes WalK as found in Staphylococcus aureus (sp\|Q2G2U4.1\|WALK_STAA8). A shorter version, as found in Streptococcus pneumoniae, called WalK(Spn) or VicK, is not included. WalK is part of a two-component system and works with partner protein WalR.	2.81954e-71
NC_022080.4\|WP_020958520.1\|300126_301347_+\|TIGR02679-family-protein	gnl\|CDD\|274255	TIGR02679, conserved_hypothetical_protein, TIGR02679 family protein. Members of this protein belong to a conserved gene four-gene neighborhood found sporadically in a phylogenetically broad range of bacteria: Nocardia farcinica, Symbiobacterium thermophilum, and Streptomyces avermitilis (Actinobacteria), Geobacillus kaustophilus (Firmicutes), Azoarcus sp. EbN1 and Ralstonia solanacearum (Betaproteobacteria). [Hypothetical proteins, Conserved].	5.62283e-129
NC_022080.4\|WP_020958527.1\|310688_311342_-\|PspA/IM30-family-protein	gnl\|CDD\|224755	COG1842, PspA, Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms].	2.29105e-24
NC_022080.4\|WP_020958522.1\|302553_303453_-\|type-II-CRISPR-associated-endonuclease-Cas1	gnl\|CDD\|187851	cd09720, Cas1_II, CRISPR/Cas system-associated protein Cas1. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Cas1 is the most universal CRISPR system protein thought to be involved in spacer intergration. Cas1 is metal-dependent deoxyribonuclease, also binds RNA; Shown to possess a unique fold consisting of a N-terminal beta-strand domain and a C-terminal alpha-helical domain.	1.26719e-95
NC_022080.4\|WP_020958521.1\|302240_302549_-\|CRISPR-associated-endonuclease-Cas2	gnl\|CDD\|226043	COG3512, COG3512, CRISPR-associated protein, Cas2 homolog [Defense mechanisms].	1.73149e-41
NC_022080.4\|WP_020958514.1\|291425_292328_-\|glycine/betaine-ABC-transporter-substrate-binding-protein	gnl\|CDD\|270246	cd13528, PBP2_osmoprotectants, Substrate-binding domain of osmoregulatory ABC-type transporters; the type 2 periplasmic-binding protein fold. This family represents the periplasmic substrate-binding component of ABC transport systems that are involved in uptake of osmoprotectants (also termed compatible solutes) such as betaine, choline, proline betaine, carnitine, and L-proline. To counteract the efflux of water, bacteria and archaea accumulate the compatible solutes for a sustained adjustment to high osmolarity surroundings. This substrate-binding domain belongs to the type 2 periplasmic binding fold protein superfamily (PBP2). The PBP2 proteins are typically comprised of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.	2.88163e-141
NC_022080.4\|WP_020958526.1\|309062_310304_-\|MFS-transporter	gnl\|CDD\|340949	cd17391, MFS_MdtG_MDR_like, Multidrug resistance protein MdtG and similar multidrug resistance (MDR) transporters of the Major Facilitator Superfamily. This subfamily is composed of Escherichia coli multidrug resistance protein MdtG, Streptococcus pneumoniae multidrug resistance efflux pump PmrA, and similar multidrug resistance (MDR) transporters from bacteria. MDR transporters are drug/H+ antiporters (DHA) that mediate the efflux of a variety of drugs and toxic compounds, and confer resistance to these compounds. MdtG confers resistance to fosfomycin and deoxycholate. PmrA serves as an efflux pump for various substrates and is associated with fluoroquinolone resistance. MdtG-like MDR transporters belong to the bacterial MdtG-like and eukaryotic solute carrier 18 (SLC18) family of the Major Facilitator Superfamily (MFS) of transporters. MFS proteins are thought to function through a single substrate binding site, alternating-access mechanism involving a rocker-switch type of movement.	3.27207e-110
NC_022080.4\|WP_020958516.1\|292781_293219_-\|hypothetical-protein	gnl\|CDD\|274008	TIGR02168, Chromosome_partition_protein_Smc, chromosome segregation protein SMC, common bacterial type. SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle. [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins].	7.47524e-05
NC_022080.4\|WP_020958511.1\|287897_289202_+\|homocysteine-synthase	gnl\|CDD\|236201	PRK08248, PRK08248, homocysteine synthase.	0
NC_022080.4\|WP_041267823.1\|303382_306646_-\|type-II-CRISPR-RNA-guided-endonuclease-Cas9	gnl\|CDD\|226044	COG3513, COG3513, Predicted CRISPR-associated nuclease, contains McrA/HNH-nuclease and RuvC-like nuclease domain [Defense mechanisms].	0
NC_022080.4\|WP_020958518.1\|294852_296049_+\|TIGR02678-family-protein	gnl\|CDD\|274254	TIGR02678, hypothetical_protein, TIGR02678 family protein. Members of this protein belong to a conserved gene four-gene neighborhood found sporadically in a phylogenetically broad range of bacteria: Nocardia farcinica, Symbiobacterium thermophilum, and Streptomyces avermitilis (Actinobacteria), Geobacillus kaustophilus (Firmicutes), Azoarcus sp. EbN1 and Ralstonia solanacearum (Betaproteobacteria). [Hypothetical proteins, Conserved].	3.74809e-147
NC_022080.4\|WP_020958512.1\|289414_290044_-\|ABC-transporter-permease	gnl\|CDD\|224095	COG1174, OpuBB, ABC-type proline/glycine betaine transport systems, permease component [Amino acid transport and metabolism].	4.09055e-80
NC_022080.4\|WP_020958525.1\|307743_308796_+\|P1-family-peptidase	gnl\|CDD\|239071	cd02253, DmpA, L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active heterodimeric form. The cleavage results in two polypeptide chains, with one chain containing an N-terminal nucleophile. This group represents one of the rare aminopeptidases that are not metalloenzymes. DmpA shows similarity in catalytic mechanism to N-terminal nucleophile (Ntn) hydrolases, which are enzymes that catalyze the cleavage of amide bonds through the nucleophilic attack of the side chain of an N-terminal serine, threonine, or cysteine.	1.61442e-176
NC_022080.4\|WP_041267822.1\|296008_300130_+\|TIGR02680-family-protein	gnl\|CDD\|274256	TIGR02680, conserved_hypothetical_protein, TIGR02680 family protein. Members of this protein family belong to a conserved gene four-gene neighborhood found sporadically in a phylogenetically broad range of bacteria: Nocardia farcinica, Symbiobacterium thermophilum, and Streptomyces avermitilis (Actinobacteria), Geobacillus kaustophilus (Firmicutes), Azoarcus sp. EbN1 and Ralstonia solanacearum (Betaproteobacteria). Proteins in this family average over 1400 amino acids in length. [Hypothetical proteins, Conserved].	0

>NC_022080.4|WP_020958520.1|300126_301347_+|TIGR02679-family-protein
MSIAKEAAAFFRSERAFHRLFVEMKRKYESLGRVGGTVSLQSFSDEEREAIAAFFGKDVARVSLSTFEKQLGQTKFAGVGLVALLEQYFGESLVSKKERLQAEEDERERFFARLVEEHHWFATIRSQRFVQTAYETNRDGLEAAVRLVGEALRRLPLSSYMRLPLFAQQVAGDPHAFDLSTLSGRLLLSALQAAVPGQWDATSVESVNELLQSVGLLREDILNFATCANILAETEEGPHRVFSAAVEGNVALNVPLREVLPLARAHPACGQTVYIVENAGVFSTLLDTRAPLVSTNGQMNLATIKLLDLLAASGAKLYYSGDFDPEGLAMAERLLERYGPAVTLWRFSLDDYMAANPVVDLPPERLAKLASVASEPLRPVKEAIERTKKAGYQEAIIERLARDIKG
>NC_022080.4|WP_041267822.1|296008_300130_+|TIGR02680-family-protein
MMNPWVLHRAGLINFWYYDEQYFHFADGKLLLRGSNGAGKSVTMQSLIPVLLDGKKTPDRLDPFGSRARRMEDYLLGEKDVVNRDERTGYLFLEYKRKQSDQYVTTGIGLRAKRQKSLDFWGFVIFDNRRVGHDIALYKKEKTGEKIPLTKRELAALLGAGGTVVETQKEYMELVNKHVFRFESIEAFQELIELLIQLRSPKLSKDFKPTVIYEILESSLPPLTDEELRHLSDTIENMDQAKQQLEQLERDERALKRLCDQYRLYNEYMIAEKAAEYVKAVKQAEQLAAEQQRLHDEEERARTTLDELEESITRLGREEDVLRSREIDLAGHEVFQQAEKYEQLKAERQRLRERRERHERTIEEKERIERQRRRRLDEAEARLDDLERKLEDELEQLSMDADEGSFSLHETNEGDFHRHRQKEQEFLFAAWKQEADRHIERLEGLARLWRRHDDLQRRYEEASNEAGERQREMDEWRHQQRKWEELLEQEKERFEQEVLAWVERGGVDVSEADIQMFLQQVGGIYEQYSVDDLKRPFVQTYYAAVGKKNDEKWRLEHDIRLLEEKRAEREAELCHWREKRDPEPERDEQTEAARSALERQGIPFVPLYAAVEFADHVPDPVRERIESALSHAGLLDALITAREVDVACDRVLTPNPVHMAHTLADYLRPDEEAPVPAERIDDILRSIVIADVEQQAGMTLDEQGRYALGLVRGHAPKRDKAMFIGRAARERWRLENIAALEAEIAALGQEIERLRREHQAVEAAIEELADWFMAFPSDRDVRTAFEEAQEARRQAESKEREWKRQEEKAILLAREWKQIKQQLRDESAELDLAFSPEGCEQAQFAMKSYVRHLHELEVLYRETRHTEAMIAQQREQLEALREEIDEAKGERNQLRDDEEQLALRMSEMERTLKQMGADDIRAEIARIQERLVFLRGEIPRLVNERARTEQRLMRLVEEREQGERRESFARQLAAMWERSFADEAALGLVDLDRSLPLLEQAKEAKQRYEAALKETRSSLLARLNTVFFQESSNLTEYRAAFEPLMEQREHEWIAAAPDDEMAMKAADWREKQERHVIYLDYKGQRATPFAVLAEVERDIALQHEYMKEQDRELYEDVILKSVGRILRSRIQRAERWVNDMNKLMGGLDTSSGLVLSIQWKPKTAETEAELDTKELVRLLRIDSRLLKEEDLQRVTNHFRSKITRARELLEERGQGNTLHQIIKEVLDYRKWFAFTLYYEKTNEPKRELTNHRFYQFSGGEKAMAMYIPLFAAAYSRYQEAGDDAPYIISLDEAFAGVDENNIRNMFGLVEQLGFNYIMNSQALWGDYDTVPALSICELVRPRNASFVTVIHYRWNGRVKQLVADDKEWERVET
>NC_022080.4|WP_020958518.1|294852_296049_+|TIGR02678-family-protein
METAFDDQAKEALAALFEQFWIVREQEPELYQLVREREHVLKRYVEEKFGYRLIVHRYFAKLEKIPAEPEPWMGIESFQEPLDYALFCCLMAYLEGKAVEEKFLLSDVCEEIRAMYPGDIPVDWTNYSHRRALIRVLKTAEQIGLIRRMDGEVEAFAHHAGEEALYEVPVLARYFMRTYPKDLLRYESLEELLAEEWKAAPQDYRRHRLYRKLFLSPAVYRTEGDEQDFYYLRNFRHRLRDDIEAHTPFRYELYKNAAMLTLPERQAPYTTFPDQKGTSEIILHFAALVRERLEECPPDEYGRLRLTPEQFSAWLADCRRRYGCGWGKTYRDMSAAELVREVLAALSEWCMADVEHDTGMIVLYPLLGRLSGRYPDDFDTKEGEEHHEPVGSSSRRAD
>NC_022080.4|WP_020958517.1|293360_294869_+|TIGR02677-family-protein
MDATWLKPIVEAKYLSTENAHRYRAILRYFYIQHERMRQYLFPEEVYAFLKQHEEFADYTEDDLQQDLDQLVKWNNLIARQETAHVRTIEEFKKKRFRYQCSPYTVEIERMIRTLEQLGDSFGGSLEKTRFDRLYASLSRMETIIASDFQEQRDELHQVWEETFDYFKKIIQNSADYIAYLHSENLEERMTSEAFLVYKEQFTAYLRDFIAALQKTSMQIEQLLEDLPEEGVRQFIEHVVDYERSIPRFAEALPPRPMQIEEKWETWRSLCEWFLGRDGRESELSFLQYQTNEAIRRLTRVVQRLGERHHHFRSRKGDYLHLARWFSRLESIEEAHCLSAVVFGCFHTKHLVADAGATDNIYRDVWDEPPFEWVTKPRVRHYGEKKKPQAIDEKEMEKDEARRRYLEEKEREEAALRQLVTDGKIVLAELPEVSPYVRKTLLGWIAKAMGREGQAVKTENGWVVKVVNKDGTICLRAEDGELVMPNCEIHVLSRGNENGNGV
>NC_022080.4|WP_020958516.1|292781_293219_-|hypothetical-protein
MEALLREILHEVKATRAAVESLEQRVGALEGQVAQLDERTSNLEHQVGQLREQTATLAQRIDLLDERTNETKAIAEALRHGQEVLAAKYEAMAHDLHHMKGDLTHITSILEDKVLPSLAEHEAGLHVLNARVFKTESTLHRLVRA
>NC_022080.4|WP_020958514.1|291425_292328_-|glycine/betaine-ABC-transporter-substrate-binding-protein
MLRKWIMSLLAVGLMFGLAACSGTSDAKGKIVITGKKFTEQVILTHLLAEYVKANTDLDVDVKDSLGGAFMLQQAIENGDVDMYVEYTGTGYLNILKQPYDPAKTPEQIYNETKKLYNEKYNIAWLKPLGFNNTYALAMRRDLAEKLGVKTYSDLVKHSSSLTFGSDAEFFERSDGYDGLVDTYGFQFKKKVTIDPDLQYEAAKNGEIDVITAYTTDARIKKYDLVVLKDDKQYFPPYHAVPIIRQEVLDANPGLEEKLNKLANILTDEKMMELNGEVNLEGKRPREVAIDFLKAEGLID
>NC_022080.4|WP_020958513.1|290281_291409_-|betaine/proline/choline-family-ABC-transporter-ATP-binding-protein
MIRFENVTKQYEDGFVALKNINLDIRKGELVALIGPSGCGKTTTMRMINRLIEPTSGKVYIDGQDISQLDPVDLRRNIGYVIQQIGLFPHMTIAENIALVPKLKKWEKHTYEKRVDELLELVGLDPATFKHRYPSELSGGQQQRVGVVRALAAEPDIILMDEPFSALDPISREQLQDDIVRLQEEIHKTIVFVTHDMDEAIKIADRIALMKDGEIVQFATPDQMLRRPANSFVREFIGEDRLRTRQTAVPTAEDLMSADVATISPRRGLAEAFRLMKAKKVDSLVVVDKKQAFLGIVTLKQIEQRYQEEHLLVADIADYDVTTLAKEADVTNVAALFQDPDVRIIPVLDGDRLVGGITRSSMMRALAEWTFQQHA
>NC_022080.4|WP_020958512.1|289414_290044_-|ABC-transporter-permease
MELLQTLIERKHDIWIAFQEHVLLSAIAMGIAIVIAVPLGVALTRYRKLAEPIIGVAAIIQTIPSLALLGFMLPIFGIGKLPAIIALTLYALLPILRNTYTGILGVDPALVDAGKGMGMTSRQILWMVELPLSLPVIMAGVRTATVLTIGVAALATFIGAGGLGDLIDRGLRIADKNLILAGAIPAAVLAIAFDWLLRKVEKKVTPKGL
>NC_022080.4|WP_020958511.1|287897_289202_+|homocysteine-synthase
MSEERAFRPETLAIHAGQKTDAETGSRAVPIYQTSSYVFRDSEHAANLFGLKEEGYIYTRIMNPTNDVLEKRIAALEGGVGALALSSGQAAVFYSLINIASAGDEIVSSSSIYGGTYNLFAHTLRKFGITVKFVDSSDPENFENAITDKTKALFAETIGNPKNDVLDIEAVAAIAHRHAIPLIVDNTVASPYLLRPIEFGADIVVHSATKFIGGHGNSIGGVIVDSGKFDWKGSGKFPEFTEPDPSYHGLVYVDAVGEAAYITKARIQLLRDLGAALSPFNAFLLLQGLETLHLRMQRHSENALAVAKFLEEEEAVESVNYPGLPSHPSHELAKKYLPNGQGAIVTFEIKGGVEAGKKLIDSVKLFSHLANIGDSKSLIIHPASTTHEQLSPDEQLSAGVTPGLVRLSVGTEAIDDILDDLRHAIRQSQTVEVK
>NC_022080.4|WP_020958510.1|286280_287711_+|Asp-tRNA(Asn)/Glu-tRNA(Gln)-amidotransferase-subunit-GatB
MNFETVIGLEVHVELKTKSKIFSSSPNAFGAPPNTQTNVIDLGYPGVLPVLNRQAVEFAMKAAMALNCEIATETKFDRKNYFYPDNPKAYQISQYDQPLGKNGWIEIEVNGKKKKIGITRIHLEEDAGKLTHTGDGYSLVDFNRQGTPLIEIVSEPDIRSPEEAYAYLEKLKAIIQYTGVSDCKMEEGSLRCDANISLRPIGSDKFGTKTELKNLNSFNFVRMGLEYEAKRQEKILLSGGVIRQETRRFDEATKTTILMRVKEGSEDYRYFPEPDLVMLYIDDEWKERVRASIPELPDARRKRYIEEWGLPEYDAKVLTLTKEMADFFEATVANGADPKLASNWLMVEVSGYLNAEQKELHDIALTPESLAGMIKLIQNGTISSKIAKKVFKELVEKGGDPEQIVKEKGLVQISDEGALRKIVLEVLDANPQSVEDFKNGKDRALGFLVGQVMKATKGQANPPLVNKLLVEEIKKR
>NC_022080.4|WP_020958521.1|302240_302549_-|CRISPR-associated-endonuclease-Cas2
MRLLVFFDLPVVTNREKREYRRFRTFLLNEGYDMLQFSVYSRVCHGHEATDKHLARLKHNLPPQGSIRAMVVTEKQYAKMQLLLGEPTAQEKKITSTQLTLF
>NC_022080.4|WP_020958522.1|302553_303453_-|type-II-CRISPR-associated-endonuclease-Cas1
MGWRHLLIRKPGKLSVRYNQLVIEQEEKVSIPLEDICSIIIEEQAVSITAIALSKMAEHNIALFTCDQKRLPNGLLQPFQKHSRQVGVLHMQYAYSKPFKKRIWQRIVIQKLINQGKCLEFLNKEGANELYRISKTVDSGDSNNREAYGAKKYFQYLFGNEFTRRSDSVVNTSLNYGYAIMRGLVARSLVGYGFFPCLGIYHDNELNKFNLADDFMEVLRPLVDLYVAQHIQPDDEFSPSVRADLYNLTNMDILVNGEKLTVVNAVEEMTKSFVTASRSQDPSLLKLPELLPLQLHVYE
>NC_022080.4|WP_041267823.1|303382_306646_-|type-II-CRISPR-RNA-guided-endonuclease-Cas9
MRYKIGLDIGITSVGWAVVNLDIPRIEDLGVRIFDRAENPQTGESLALPRRLARSARRRLRRRKHRLERIRRLLIREGILMKEELDKLFEERHEIDVWQLRVEALDRKLNSDELARVLLHLAKRRGFKSNRKSEHNSRENSTMLKHIEENRAILSSYRTVAEMIVKDPKFALHKRNKGEHYTNTIARDDLEREIQLIFTKQREFGNMNCTKEFENEYIAIWASQRPFASKDDIEKKVGFCTFEPKEKRAPKATYTFQSFIAWEHINKLRLVSPAGTRGLTDEERRLLYEQAFQKNKITYHDIRTLLRLPDDTYFKGVVYDRNMPLKQNETIRFLELDAYHQIRKVIDKAYGKGKSSSFLPIDFDTFGYALTLFKDDADVRSYLQNEYEQNGKPMPNLANKTYDNELIEELLNLSFTKFGHLSLKALHNILPYMEQGEVYSSACERAGYKFTGPRKKQKTMLLPNIPSIANPVVMRALTQARKVVNAIIKKYGSPVSIHIELARDLSQTFDERRKTKREQDENRKKNETAIRQLMEYGLTLNPTGHDIVKFKLWSEQNGRCAYSLQPIEIERLLEPGYTEVDHVIPYSRSLDDSYTNKVLVLTKENREKGNRTPAEYLGVGTERWHQFETFVLTNKQFSKKKRDRLLRLHYDENEETEFKNRNLNDTRYISRFFANFIREHLKFAESDDKQKVYTVNGRITAHLRSRWEFNKNREESDLHHAVDAAIVACTTPSDIAKITAFYQRREQNKELAKKTEPHFPQPWPHFADELRARLSKHPKESIKALNLGNYDNEKLESLHPVFVSRMPKRSVTGAAHQETLRRYVGIDERSGKIQTVVKTKLSEIKLDASGHFPMYGKESDPRTYEAIRQRLLEHNNDPKKAFQEPLYKPKKNGEPGPIIRTVKIIDTKNQVVPLNDGKTVAYNSNIVRVDVFEKDGKYYCVPVYTMDIMKGVLPNKAIEPNKPYSEWKEMTEDYTFQFSLYPNDLIRIELPREKAIRTSTGEEIKIKDFFAYYKTIHSGTGGMELISHDRSFSLSGVGSRTLKRFEKYQVDVLGNIYKVRGEKRVGLASSAHSKTGKTVRPLQSTRD
>NC_022080.4|WP_020958525.1|307743_308796_+|P1-family-peptidase
MRRKLRDLGFSIGTLPVGRRNQITDVPGVRVGHVTIRKDVDERTVIRTGVTAVLPHGGHLFLEKVPAACFVLNGFGKTTGLVQVEELGTIESPIMLTNTFSVGAVWQGTLEYMLEATPEIGDVTGSVNIVVGECNDSYLNTARVMAVTKEHAKEAIAAARVEMEEGAVGAGTGMMCFGWKGGVGSSSRIAGGMYTVGALVVSNFGRREELRFVPYVPPAFDEREVPPGSIMMIIATDAPLDARQLKRLARRATVGLGRTGSCVHHGSGDIVIAFSNAYTIPHFSDSALQSVPPLVRDDAPLMNELFQAAIEATEEAIWNSLTMAETTTGRNGRIGEAIPYALLERVKRAW
>NC_022080.4|WP_020958526.1|309062_310304_-|MFS-transporter
MNWKRSVRILWLCNFMVSAGMTMVIPFLSLLLWEMGVTERHSLSVWTGLVFSATFLSAAVMAPIWGVFADRYGQRANLIRAGIGMGLITGCMAFAHSPMALLILRFLVGFFSGFITVSFSYLARVVPKEHSGEALGTLQTGSIAGNIVGPLIGGVLSDLFGFRPVFLVTGFCILLTLLPVIVWLEQDPVAPQTKEHHASFKEVFEHRPLIILFVATFLVQIAVLGVNSMMTIFVQSLVGHSSNLAFLAGLASSITGLATMIGAPYLGKLGDRIGQEKMLPILLVLSGLFALPQVWTDHIYELYVWRFLQGLVVGGVWPAIQALINAQSPRRIQGRVFGVTASSRFLGNLTGPTAAGAVAGLFSIAYMFALSGLLLIATGALVGYANRQAAAGAQPFDIKEKLAAWKHRLHSRH
>NC_022080.4|WP_128754814.1|310344_310635_-|hypothetical-protein
MVFVRTYCLSGGPNGRFPSCETFPIPKHQPSITRTSSVFTSRLKQRRLTTIVSQIEQPADTITLLLAGFDKSSEAVVFHQLVQLISKIISFVFPSW
>NC_022080.4|WP_020958527.1|310688_311342_-|PspA/IM30-family-protein
MGIFRRIKTIVLAEVNEQIDQWEDPIAMTKQYLRDLEEQLAQGRQALAGQWVAERRYETLITQTEAAIEKRSRQAKLALERNEESVAKLALRDKLLYEKKLEAYKQQYDAIKAKTAEVAHRLNELRERYDELSAKQLELTARVNAAQALKRIDTALASFSADEALRGFARMEERVIALEAEAAAARFGTNAALSPVPFDEEVERELAKWKEAQANHA
>NC_022080.4|WP_020958528.1|311301_311826_-|hypothetical-protein
MKKAKTFLLLALAVIAGVSVFHGLAPHDVMAHGRPGVPFDGMHGGFGHPHRAFGIGPRGGWMMAGLFMQWLIPLLLAGAGAVWLAATRSKRWIGWVLVALGVVALLPKWVLVLLALAAVYALGRRQARKPAAAKAWMPAPPSVSVDWLDEWEKTIQKEAKPHGHFSPDQNDRSR
>NC_022080.4|WP_041267722.1|312498_313872_-|GHKL-domain-containing-protein
MRNRWTEWRGWLRRLGSADLFRRAHWRLTALYSGIFTLFLALFIMIAAALFYWIATSDQERRITRLAEQEANTIEQFLLKQSNFDLFDDESVVLLSEDQLFFYVISPNGDLLAGDEVHPRLRPYFLNALSHLEFDERAPVYMNVSLPEHMPGLAHEAARNWRVLAAAHPLVLHGDFVGMLYIGIDVTSFFGVFHWLLVVLIGLAVLFLAVGVALSFFMSKRALAPIEEAYERQRQFVADASHELRTPLSVVFSSVEALTLEEDVMNNDFARRLLDRLREELKRITKLMNDLLTLARADAKHAALELAKQTFDFRPHAERTFQLVSELAAKKQIAMHFHAPEQAIVTADPDKLTQLLYILLDNAIKYTPEGGDVTLSIRTEPKQFVLSVKDTGIGIPPADIGRIFDRFYRVDKARSRQQGGHGLGLSIAKWIVEAHGGTIHVQSQPGQGSEFLVRLPA
>NC_022080.4|WP_020958532.1|313852_314524_-|response-regulator-transcription-factor
MKILLAEDDLHLGELIVHLLKKKGIDHIDWVQEGEDAYDYAMAEFYDVVVLDWMLPNGDGVDICRRLRQNGYTGAILMLTAKDAVQDRVTGLEAGADDYLVKPFEIDELVARLKALARRTFIPLQEETVAFHGFTLNRTSHTLHRGNEEIFLTPREFQLLDLLVQNQGQVVPRETILDRVWGWDADVSMKTIDATIKLLRKKLKDDVIQTVRGVGYKIEKSMD

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Crispr_ID: NC_022080_2

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_022080_2

1885394-1885564

Orphan

Consensus_repeat	Method
GAAGGTTTCAATCCCTCATAGGTACGATAAAAACC	PILER-CR

2 spacers

The CRISPR arrays of NC_022080_2

>merge|NC_022080|2|1885394-1885564|PILER-CR
GTTTCAGTCCCTCATAGGTACGATAAAAACCAATATGTATGTGCGTGGGATTATGGAAGGAAACGAAGGTTTCAATCCCTCATAGGTACGATAAAAACTTGCGAATGTCATAAATATAATATTGTCCGTTGTCATTGCTGGTTTCAATCCCTCATAGGTACGATAAAAACC

>NC_022080|2|2|1885394-1885564|PILER-CR
GTTTCAGTCCCTCATAGGTACGATAAAAACCAATA	TGTATGTGCGTGGGATTATGGAAGGAAACGAAG
GTTTCAATCCCTCATAGGTACGATAAAAACTTGCG	AATGTCATAAATATAATATTGTCCGTTGTCATTGCTG
GTTTCAATCCCTCATAGGTACGATAAAAACC

Protein	Signature genes	Signature genes Name	Protein_function
NC_022080.4\|WP_020960077.1\|1891764_1893228_-\|CoA-acylating-methylmalonate-semialdehyde-dehydrogenase	unknown	unknown	gnl\|CDD\|143404
NC_022080.4\|WP_020960072.1\|1885751_1886915_-\|mannitol-1-phosphate-5-dehydrogenase	unknown	unknown	gnl\|CDD\|235031
NC_022080.4\|WP_020960078.1\|1893329_1894520_-\|iron-containing-alcohol-dehydrogenase	unknown	unknown	gnl\|CDD\|341473
NC_022080.4\|WP_020960079.1\|1894712_1896419_-\|sigma-54-dependent-Fis-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|226350
NC_022080.4\|WP_020960063.1\|1875836_1876853_-\|LacI-family-DNA-binding-transcriptional-regulator	unknown	unknown	gnl\|CDD\|224525
NC_022080.4\|WP_020960076.1\|1889724_1891176_-\|PTS-mannitol-transporter-subunit-IICB	unknown	unknown	gnl\|CDD\|225123
NC_022080.4\|WP_020960069.1\|1882976_1884017_-\|tripartite-tricarboxylate-transporter-substrate-binding-protein	unknown	unknown	gnl\|CDD\|270234
NC_022080.4\|WP_020960071.1\|1884396_1885293_-\|Rpn-family-recombination-promoting-nuclease/putative-transposase	unknown	unknown	gnl\|CDD\|273806
NC_022080.4\|WP_041267927.1\|1877510_1878446_-\|AEC-family-transporter	unknown	unknown	gnl\|CDD\|223751
NC_022080.4\|WP_023817637.1\|1887363_1889454_-\|BglG-family-transcription-antiterminator	unknown	unknown	gnl\|CDD\|226234
NC_022080.4\|WP_020960067.1\|1880925_1882452_-\|tripartite-tricarboxylate-transporter-permease	unknown	unknown	gnl\|CDD\|225870
NC_022080.4\|WP_020960081.1\|1896900_1897902_-\|C-terminal-binding-protein	unknown	unknown	gnl\|CDD\|240624
NC_022080.4\|WP_020960075.1\|1889419_1889722_-\|hypothetical-protein	unknown	unknown	unknown
NC_022080.4\|WP_020960062.1\|1874259_1875819_-\|gluconokinase	unknown	unknown	gnl\|CDD\|130381
NC_022080.4\|WP_020960068.1\|1882465_1882921_-\|tripartite-tricarboxylate-transporter-TctB-family-protein	unknown	unknown	gnl\|CDD\|377815
NC_022080.4\|WP_020960073.1\|1886914_1887358_-\|PTS-sugar-transporter-subunit-IIA	unknown	unknown	gnl\|CDD\|227014
NC_022080.4\|WP_020960082.1\|1897963_1899112_-\|galactonate-dehydratase	unknown	unknown	gnl\|CDD\|184455
NC_022080.4\|WP_020960066.1\|1879244_1880855_-\|sensor-histidine-kinase	unknown	unknown	gnl\|CDD\|225827
NC_022080.4\|WP_020960061.1\|1872790_1874140_-\|GntP-family-permease	unknown	unknown	gnl\|CDD\|308194
NC_022080.4\|WP_020960065.1\|1878538_1879231_-\|response-regulator	unknown	unknown	gnl\|CDD\|226931

Protein	Function_ID	Function_description	E-value
NC_022080.4\|WP_020960077.1\|1891764_1893228_-\|CoA-acylating-methylmalonate-semialdehyde-dehydrogenase	gnl\|CDD\|143404	cd07085, ALDH_F6_MMSDH, Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2. Methylmalonate semialdehyde dehydrogenase (MMSDH, EC=1.2.1.27) [acylating] from Bacillus subtilis is involved in valine metabolism and catalyses the NAD+- and CoA-dependent oxidation of methylmalonate semialdehyde into propionyl-CoA. Mitochondrial human MMSDH ALDH6A1 and Arabidopsis MMSDH ALDH6B2 are also present in this CD.	0
NC_022080.4\|WP_020960072.1\|1885751_1886915_-\|mannitol-1-phosphate-5-dehydrogenase	gnl\|CDD\|235031	PRK02318, PRK02318, mannitol-1-phosphate 5-dehydrogenase; Provisional.	0
NC_022080.4\|WP_020960078.1\|1893329_1894520_-\|iron-containing-alcohol-dehydrogenase	gnl\|CDD\|341473	cd08194, Fe-ADH-like, Iron-containing alcohol dehydrogenases-like. This family contains iron-containing alcohol dehydrogenase (Fe-ADH) most of which have not been characterized. Their specific function is unknown. The protein structure represents a dehydroquinate synthase-like fold and belongs to the alcohol dehydrogenase-like superfamily. It is distinct from other alcohol dehydrogenases which contain different protein domains. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions.	0
NC_022080.4\|WP_020960079.1\|1894712_1896419_-\|sigma-54-dependent-Fis-family-transcriptional-regulator	gnl\|CDD\|226350	COG3829, RocR, Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms].	1.32001e-174
NC_022080.4\|WP_020960063.1\|1875836_1876853_-\|LacI-family-DNA-binding-transcriptional-regulator	gnl\|CDD\|224525	COG1609, PurR, Transcriptional regulators [Transcription].	1.44819e-113
NC_022080.4\|WP_020960076.1\|1889724_1891176_-\|PTS-mannitol-transporter-subunit-IICB	gnl\|CDD\|225123	COG2213, MtlA, Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism].	0
NC_022080.4\|WP_020960069.1\|1882976_1884017_-\|tripartite-tricarboxylate-transporter-substrate-binding-protein	gnl\|CDD\|270234	cd07012, PBP2_Bug_TTT, Bug (Bordetella uptake gene) protein family of periplasmic solute-binding receptors; contains the type 2 periplasmic binding fold. The Bug (Bordetella uptake gene) protein family is a large family of periplasmic solute-binding (PBP) proteins present in a number of bacterial species, but mainly in proteobacteria. In eubacteria, at least three families of periplasmic binding-protein dependent transporters are known: the ATP-binding cassette (ABC) transporters, the tripartite ATP-independent periplasmic transporters, and the tripartite tricarboxylate transporters (TTT). Bug proteins are the PBP components of the TTT. Their expansive expansion in proteobacteria indicates a large functional diversity. The best studied examples are Bordetella pertussis BugD, which is an aspartic acid transporter, and BugE, which is glutamate transporter.	2.69595e-98
NC_022080.4\|WP_020960071.1\|1884396_1885293_-\|Rpn-family-recombination-promoting-nuclease/putative-transposase	gnl\|CDD\|273806	TIGR01784, Uncharacterized_protein_pSLT051, conserved hypothetical protein (putative transposase or invertase). Several lines of evidence suggest that members of this family (loaded as a fragment mode model to find part-length matches) are associated with transposition, inversion, or recombination. Members are found in small numbers of genomes, but in large copy numbers in many of those species, including over 30 full length and fragmentary members in Treponema denticola. The strongest similarities are usually within rather than between species. PSI-BLAST shows similarity to proteins designated as possible transposases, DNA invertases (resolvases), and recombinases. In the oral pathogenic spirochete Treponema denticola, full-length members are often found near transporters or other membrane proteins. This family includes members of the putative transposase family pfam04754.	9.92738e-11
NC_022080.4\|WP_041267927.1\|1877510_1878446_-\|AEC-family-transporter	gnl\|CDD\|223751	COG0679, COG0679, Predicted permeases [General function prediction only].	7.77311e-32
NC_022080.4\|WP_023817637.1\|1887363_1889454_-\|BglG-family-transcription-antiterminator	gnl\|CDD\|226234	COG3711, BglG, Transcriptional antiterminator [Transcription].	4.61271e-65
NC_022080.4\|WP_020960067.1\|1880925_1882452_-\|tripartite-tricarboxylate-transporter-permease	gnl\|CDD\|225870	COG3333, COG3333, Uncharacterized protein conserved in bacteria [Function unknown].	0
NC_022080.4\|WP_020960081.1\|1896900_1897902_-\|C-terminal-binding-protein	gnl\|CDD\|240624	cd05299, CtBP_dh, C-terminal binding protein (CtBP), D-isomer-specific 2-hydroxyacid dehydrogenases related repressor. The transcriptional corepressor CtBP is a dehydrogenase with sequence and structural similarity to the d2-hydroxyacid dehydrogenase family. CtBP was initially identified as a protein that bound the PXDLS sequence at the adenovirus E1A C terminus, causing the loss of CR-1-mediated transactivation. CtBP binds NAD(H) within a deep cleft, undergoes a conformational change upon NAD binding, and has NAD-dependent dehydrogenase activity.	1.08102e-178
NC_022080.4\|WP_020960062.1\|1874259_1875819_-\|gluconokinase	gnl\|CDD\|130381	TIGR01314, gntK_FGGY, gluconate kinase, FGGY type. Gluconate is derived from glucose in two steps. This model describes one form of gluconate kinase, belonging to the FGGY family of carbohydrate kinases. Gluconate kinase phosphoryates gluconate for entry into the Entner-Douderoff pathway. [Energy metabolism, Sugars].	0
NC_022080.4\|WP_020960068.1\|1882465_1882921_-\|tripartite-tricarboxylate-transporter-TctB-family-protein	gnl\|CDD\|377815	pfam07331, TctB, Tripartite tricarboxylate transporter TctB family. This family consists of several hypothetical bacterial proteins of around 150 residues in length. This family was formerly known as DUF1468.	2.70125e-10
NC_022080.4\|WP_020960073.1\|1886914_1887358_-\|PTS-sugar-transporter-subunit-IIA	gnl\|CDD\|227014	COG4668, MtlA, Mannitol/fructose-specific phosphotransferase system, IIA domain [Carbohydrate transport and metabolism].	9.35426e-58
NC_022080.4\|WP_020960082.1\|1897963_1899112_-\|galactonate-dehydratase	gnl\|CDD\|184455	PRK14017, PRK14017, galactonate dehydratase; Provisional.	0
NC_022080.4\|WP_020960066.1\|1879244_1880855_-\|sensor-histidine-kinase	gnl\|CDD\|225827	COG3290, CitA, Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms].	0
NC_022080.4\|WP_020960061.1\|1872790_1874140_-\|GntP-family-permease	gnl\|CDD\|308194	pfam02447, GntP_permease, GntP family permease. This is a family of integral membrane permeases that are involved in gluconate uptake. E. coli contains several members of this family including GntU, a low affinity transporter, and GntT, a high affinity transporter.	3.2011e-173
NC_022080.4\|WP_020960065.1\|1878538_1879231_-\|response-regulator	gnl\|CDD\|226931	COG4565, CitB, Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms].	8.28812e-88

>NC_022080.4|WP_020960071.1|1884396_1885293_-|Rpn-family-recombination-promoting-nuclease/putative-transposase
MAIDHDRLFKELIQTFFEEFLLLFFPDIHEHIDFRHLSFLSEELFTDVTAGEKYRVDLLVETKLKGEDGLIIVHVENQSYVQPSFPERMFVYFSRLFEKYRTRIVPIAVFSHDALRGEPSVFSIEFPFGQVLQFRFFPVELRKKHWRDYIRHDNPIAAALLGKMGYTESEKVELKKEFLRMLVRLELDEARQRLLLGFFETYVKLSEEEEQQLQREVRAMETKEKEQVLELIISYEQKGRKQGLEEGIKQGMKQGMKQGMKQGMKQLIRNMARKGMTVEDIARLVDLPEKDVRGLLEE
>NC_022080.4|WP_020960069.1|1882976_1884017_-|tripartite-tricarboxylate-transporter-substrate-binding-protein
MKKKRWWGLLAAGMMTFALAACGSNESAGSKPSGSNSESSSSNYPTKPITIVAPSGAGGGWDLTARAVAKVLDETGLVKQTMTVENKPGGGGAVFMAEYATQDVKNDYKLFVNSPPIIINNLKKEGNSPFGYKDTTPLAQLTKDFGAIVVKADSKFQSLTQLLDAIKQDPKSVTVAGGSAPGSMDHLIGILPVYKSGIDPKSVKYVSYDGGGEALAALLGGNADVIATDVSSVGEYLKAGKVRVLAVSAPERLGGVLKDVPTMKELGIDAEFTIWRGVFGPKEMSPEAKAFWEETLKKLSENEKWKEELQKQGWEAEYRNTDEFTQFLQEQEQQIGDLLKSLGMHK
>NC_022080.4|WP_020960068.1|1882465_1882921_-|tripartite-tricarboxylate-transporter-TctB-family-protein
MNKTADRIAAVAFLAVGALFMVESLRISKSAYGSAVGPNVFPFLLGLVLVLLSIKLLFETRSYPDAAGGKLQRQYKKFLIILAAAIVYAALLETVGYVIMTFLFLVVGFQTMEKGSLWKSIAIAAGFSLGVYGLYVKLLQGTLPSWPIWFQ
>NC_022080.4|WP_020960067.1|1880925_1882452_-|tripartite-tricarboxylate-transporter-permease
MDTLSFLLEGFQTALQPHNLFFAFLGVLIGTAVGVLPGIGPMSGVALLIPVTASMTSGLSPEQAAASSIILLAGVYYGAMYGGSTTSILLNTPGESSSVVTTLDGYQMARQGRAGAALAIAAIGSFVAGIVALIGLVLLAEPLSNVALKFGPAEYFSLMLLGLAAVSGLAGKSMTKAWMMTVFGLLLSTIGLDNVSGVARFTYNISYLYGGLEFLTVAVGLFALGEVFKAILHRETNEGEIAKIGRILPTKADLKESAGPIARGSLLGFFIGVLPGAGATLASFFSYILEKKVSKHPEKFGQGTIAGVAAPESANNGASGGAMIPLLTLGIPGSGTTAILMGALIMYNVQPGPLLFDEHPDVAWGLIASMFIGNVMLLILNMPLVKIFAKIIQTPTKYLLPLIMAISVFGVYAVQVTTFDVFLLLAFGLFGYWLAEHDYPLAPLVLGLVLGPMIENNMRRALTASNGDYLVFFEKPISLVLLVIAFLWIAVPFIMKLRGKTVIINEDM
>NC_022080.4|WP_020960066.1|1879244_1880855_-|sensor-histidine-kinase
MKLQTRLMVIICSLLLLVIVVLTFLFQHMFAETLKQQIGMRALNVAETVASTPLVREAFRDPNPSKRLQPFAEHIRQKTGAEYVVIGNRQGIRYAHPLPERIGKPMVGGDNGEVIKGKAIISEAVGSLGPAIRGKAPILDENGQVIGIVSVGFLLEDIQRTVWSYSLKIFLFSVLALFLGAAGAVAIARVVKKSIHGLEPEEIGRLYQEKQAILTAIREGIVAINQEGTITMVNQTALKLLGYENERGVLGMPILPLIPHSRLPEVIRTGQAEFDDEMLLGEETVIANRIPIKDKQGRVIGAVSTFRNKSELYRLTKELSQLRSYADALRAQTHEFSNKLYLISGLIQLESYEEALELITKETDLQQNIVRFVMKEIPDPIIGGLLIGKFNRASELKMVFEIDRESSFRDVPPWMDRDHLVTIIGNVVDNAMEAALHNGKEEKRVAIFLTDLGDDLIIEVEDNGLGIDPDVAERIYERGFSTKAAGGRGYGLDLVNRALAMLGGQMTYQSEQGAGTVFTVMIPKRPVHVGRQCRQG
>NC_022080.4|WP_020960065.1|1878538_1879231_-|response-regulator
MLSIRVLIIEDDRRIAEINRRFVEKVEGYEVAGIATNAEEAKELTEVLRPDVLLLDVYFPDMNGLSFLRWVREHFSDIDIIMITAAREVDVLKQALHGGVFDYIIKPILFDRFVETLNRYKEYYDKMQRWGKEKEWIGQEDVDELIGREFTAREQTALPKGIQPLTLEKVLTVVRQCPEGITAEEVGRQIGTSRTTARRYLEYLVSVGQVTADIVYGSVGRPERVYQKKS
>NC_022080.4|WP_041267927.1|1877510_1878446_-|AEC-family-transporter
MAVFSGILLQVMVPMLLIVGLGAWLHRLFRFDMSTLSKLNMYVLLPAVAFINVYDSELNGKVLAAIVGFLLLQNGGLMVLSMVTAKLLKLERSLSAVFQNTIVLNNSGNFGIPVSQLVFHQQPLGAAIQIIVTIFQNFLTNTYGVYQFVSGNGKKGKWAAEIWKNPVLHALLLGVICRWLHLPIPSFLWTPLQRVADAFLAIALFTLGAQIAYARFTALPLLVYASVLGRLVLSPLLAASLIFLLGIDGVTAQALLIASSYPCSRNTALYALEYDCHPDYAAQAVLVSTLLSAITVTGVVYAARLLFPIGG
>NC_022080.4|WP_020960063.1|1875836_1876853_-|LacI-family-DNA-binding-transcriptional-regulator
MKKVTMADVAKLANVSKSTVSQYLNKRYEYMSEETRKRIAEAIEELGYQPNVIARSLKQKTTATIGVIVFNMLHMLTTQVLHAIEEECQKRGFQVIVSNSGDDPEKEKRYVDMLLAKQVDGLIIFPTGKNEEVYRRLTAERFPLVFVDRMVPGVEADSILLDNQKAAEMAVDYLASQGYDRIAIVTPPLVAHNVPRMERLEGFRAAMRKRGLDVEDGNIIAADPDALPEVLKQRFAEPKRPNALFAINDLTLMGVLRFVKDAGVRVPDEVAIINIDDVPFADIYTPALTTIAQPTFAMGKKAAERVFEQMKAKKADGPRVFRFSPTLMERTSIKREKK
>NC_022080.4|WP_020960062.1|1874259_1875819_-|gluconokinase
MAIHEDVVIGIDIGTTSTKAVVFDGRGKVLASHAVDYPIIQPHPGFAEQDPDELFAAVVQAVGAVTVRHGIRPEQVKAMGLSAAMHSIMALDESGRPLTRLLIWADNRSVAQTERLWKEQNGLAIYRRTGTPIHPMSPLSKLLWLKEEQPDVFQQARRFVSVKDYVLHRLYGDYVADHSMASATGLFRLDTLDWDEEALALVGIRRDQLPRLVPATHIMTGMKREWAEKMGVAPDVPVVVGASDGVLANVGVGAVLPGEAAITIGTSGAVRTIAAKPTTDEKGRTFCYALTPGYWVVGGPTNNGGILLRWLRDEFGAHEREVAKKLGMDPYDLLTKYAERVPPGAEGLVFLPFLSGERAPYWNANARGTFFGLGLHHKREHFIRAVMEGVCFSILSVALAIRDVTGPMSEIRVSGGFAKSPFWRQMLSDMLGKPLIVPQTHEASALGAAAVALYALGELPSLETVKTWIDTTARHEPKEEHTLIYAELFDLYARLYERLKEEFDIIAAFQRRSGEREED
>NC_022080.4|WP_020960061.1|1872790_1874140_-|GntP-family-permease
MEIAIVVAAIIVLLLLITMAKMHPFVALILVSVGVGLAMGMPLIAPSPETPGIIDSIKAGLGNTLGFLAIVLALGTMLGKMMAESGGAERIAKTLIDRFGQKRVHWAMMVVAFLVGIPVFFQVGFVLLIPLVFTIAMETGISLVTIGIPLVAGLSVVHGLVPPHPAAMAAVGIFKADVGKTILYSIIVGLPTAIIAGPLYGKWIGSRLHKTVPAEIAEQLVQHKEARELPGFGNTLFTILLPVILMLIASVANVTLDQKSEAAKVLRFIGDPIVALLIATVYSFFSLGYARGFNRDAVLKFANDCLGPVANILLVIGAGGAFNKVLLDSGIGEQIAEVAKHSHFSPLLLGWGIAALIRVATGSATVSMMTAAGIVAPIAATMPGTNMELLVLATGAGSLILSHVNDSGFWMIKEYFGMTVKETLMTWTVMETIISVVAFVFILLLNMVL
>NC_022080.4|WP_020960072.1|1885751_1886915_-|mannitol-1-phosphate-5-dehydrogenase
MRAVHFGAGNIGRGFIGSLLAASNYDVVFVDVNEQIVRLLQERGEYRVIVAGWRQEEQWVRGVSALNSQTEREQVIATIAAADLVTTAVGPHILPAIAPVIAAGLKQRLAARQAPLHVIACENMIGGTEALKTHIFGHLSEDEQRLANQSVGFLNCAVDRIVPNQTNDDPLAVTVEPFFEWAIETRNVIGAVPPIQGAHFVADLGPYIERKLFTVNTGHALAAYLGYLKQYETVQDAMKDSAIRADVEQALSESGAVLVKKHGWEADEHRAYIETTIGRFMNPSLSDDIIRVARSPIRKLGPNDRLVAPATQYSALLGSVPAGLAKGIAALLLFDHPEDSEAAELQQTIRQRGVEEALRQYAGLESAHPLVGPVKEEYEKMAEKKRS
>NC_022080.4|WP_020960073.1|1886914_1887358_-|PTS-sugar-transporter-subunit-IIA
MAAHSILTKENIVLNAQPTTKEDAIRLAGEVLVRQGYVDPSYIDSMLEREELTTTYIGNNVAIPHGTEAAKALVKQSGISIVQVPDGVDFGGGNLATIVIGIAGKDGEHLDILSQLALVCAEADNVAAMANAKTEEDILALLHEVNG
>NC_022080.4|WP_023817637.1|1887363_1889454_-|BglG-family-transcription-antiterminator
MYVSARERKLLERLLPSGRDLTIGELAEELNVSARTVHRDLQGLESMLRRYRLELVKKAGVGIRLVGKEENKQALAAELLRLSHHEYTPEERQLMILIALLEAAEPVKLVSLANDLNVTVATVSLDLDKLEQTVEAYGLSLIRKRGYGVELAGSESAKRRLISDLLFRHVNEHEFLALMKETIQRRADEPLDTMAEKLLEFVDRKKLAIIERQIEQVKETIPFTMADSSYIAFAVHLALAIERIQRGEAIHFDPHDLQALQATKEYEIARVLAESLEKVFGVAIPNEEVGYMTMHLMGAKWRSRQGTMMEETSLAVGMKAQQLIRFVSRELGVDLSADRTLYEDLVVHLKPALYRLEHGMGVSNPLLAQIKRDYAELFAIVAEGAKQLFGDVPMPEEEIGYLVLHFASALLREKQGWRVLVICSSGLGTAKILATRLKKEIPDIVSLEQASVFEWKEKEASAYDLVVSTVPLADEGGPYFTVSPMLTEEEARAIREFLERKSAVRKRTGKEPAARRNRPGLEAMKAVRRISETIVHLLDGFSLEAVTHRSVHELLADACRRLERNGVIVDANVVFEELQRRESLGGLGIPGTTLALYHARSFAVLRPSLTMYRLDAPRPVPGMDGEPMEINTVVLLLGPSDADEEMLAVLSEVSSLLVKDEQSLAVLTHGGEEEVYSLVSAHLEQFFDHYWTSTKE
>NC_022080.4|WP_020960075.1|1889419_1889722_-|hypothetical-protein
MKRRGTARPCVLFYGSLLFRVGFPASTVCFGAEKGTMNVKLKTVNNNNDENETSLHCQIKKKALTIRKEEPVGQFKNCQQYDQRWEVNGDVRIGKGAKIA
>NC_022080.4|WP_020960076.1|1889724_1891176_-|PTS-mannitol-transporter-subunit-IICB
MTHTTGNETDVRVKIQRFGSYLSGMIMPNIGAFIAWGLITALFIPTGWLPNETFAKLVGPMITYLLPLLIGYTGGKMIYDVRGGVVGATATMGVVVGSDIPMFLGAMIMGPLGGYVIKKVDGLFQGKVKQGFEMLVNNFSAGIVGGVLTLLAFKGVGPVVVTISQTLAAGVEKIIDWHLLPLANLFIEPAKVLFLNNAINHGILSPLGVEQAAETGKSILFLLETNPGPGLGILLAYWLFGKGMAKQSAPGAVIIHFLGGIHEIYFPYILMRPILILAAIAGGVSGVFTFTVFHAGLVAVPSPGSIFALLAMTPKGNYLGVLAGVFVAAAVSFLVASVFLKSAKQNEEEEDLAKAAEKMQQLKGKQSQVAAALQPQEEVAAAVAEQAVPVRVKKIVFACDAGMGSSAMGASILRNKVKKAGLDIEVTNTAINQLPADADIVVTHQNLTDRAKAKLPNAYHVSVENFLNSPKYDELIERLKTNA
>NC_022080.4|WP_020960077.1|1891764_1893228_-|CoA-acylating-methylmalonate-semialdehyde-dehydrogenase
MSSVTETKTLKNFIGGQWVASTSGKEEIVPNPATGEVLAKVPLSSREELDAAVAAAKEAFREWRKVPVPRRARILFRYQQLLVEHWEELARLVTLENGKVYEDAYGEVQRGIECVEFAAGIPTLMMGQQLPDIATDIESGMYRYPLGVVAGITPFNFPMMVPCWMFPLAIACGNTFVLKPSERTPMLANRLAELFTEAGLPAGVLNIVHGAHEVVNGILEHQDIKAVSFVGSQPVAEYVYKTAAAHGKRVQALAGAKNHSIVMPDADLDMAVMNIINAAFGSAGERCMACSVVVAVGDIADELVERLKQAADRIQIGNGLDQGVFLGPVIRESHKERTIKYIEIGEKEGALLVRDGRRDSATSGQGYFVGPTIFDHVKPGMTIWTDEIFAPVLSVVRARDLDEAIEIANRSEFANGACLYTDSAKAIRQFREEIDAGMLGINVAVPAPMAFFPFSGYKNSFYGDLHANGRDGVEFYTRKKMVTARYQ
>NC_022080.4|WP_020960078.1|1893329_1894520_-|iron-containing-alcohol-dehydrogenase
MYELLMPSRVVYGRGTLREVGQQAKAFGTKALIVSDPVMENIGVVARCEQYLQEAGLPFAKYTGVDSEPTDVHVKEALDVCQSERCDVVVAIGGGSSIDAAKAVAVMMTNEGEISDYVGNQKRFAEKPLPLIAIPTTAGTGSEVTKVTVIINTKTDVKMMISQPALLPAAAIVDPLLTVSCPPSVTAATGVDALCHAIEAYISRRAHPVTDVLALSAIEAIVDYLRRAYENGEDIEAREKMAIAAMKAGMAFSNASVTLVHGMSRPIGALFHVPHGVSNAMLLPGVLEFTKDSAIERLAVIARIIKPPLKDVSDAEAADALVEEVKQLCRDLRIPNMKTWGIDKTAFDKAVDKMAADALASGSPGNNPKVPTHEEIVALYHYCYDYQYDTNPISHG
>NC_022080.4|WP_020960079.1|1894712_1896419_-|sigma-54-dependent-Fis-family-transcriptional-regulator
MTVGQGTTIVLYCHQTLREAMELFVAHTMDAVDIIDEHSRTIGRCTQRMLLWAAAREMDRTTPIGDVLAAFSSEAGREDSGEEILNIEVDSAAAAELERLRHELEETHRLAETMKTVLDAAYEGVVVVDGNGVIREINRAYCQFLGIRREEAVGKHVTDVIENTRLHICVQSGIPERGYIQKIYGQPMVVHRIPIWRDGKVIGAVGMLIFQGVSEVYEIFRRLQELSRTANRKETNEVEELKRKAVAPAAVGVERIIGRHPAIANVKQMIRRAARVPSTVLITGESGTGKEVVARAIHEAGPHADGPFVSVNCAAIPESLLEAELFGYEDGAFTGAKKGGKPGKFQLAHQGTLFLDEIGDMPLAMQAKILRALEEKKVEKVGGVSETEVDVRIIAATNKPLEDMVRDGTFREDLFYRLNIIRIHLPPLRERKTDIPALLAYHMERMCRQFGVAPKSFAKEAMEVLVGYSWPGNIRELVNVVEWLISMVEGENVEHGHLPPYLSTIRTAAASLPGGVNIADQWKEMVYQSERERIAAALVAAGGNKAEAARRLGIHRSTLYEKLKKYGL
>NC_022080.4|WP_020960081.1|1896900_1897902_-|C-terminal-binding-protein
MEKFKVVVTDYEFQTLAPEQEVLSPLNVEFVAAQCRTEEEVIAVCKDADAIINQYAPISANVIAQLEKCKVISRYGVGVNTVDVDAATEKGIIVANVTDYSVDEVSDHALALLLSLARKIVKLNHEVKNGVWDFNMGKPVYRLRGKTLGLVGLGRIPQALAKKAQSFGLHVIAYDPYVPAEVANELNVQLVGLNDLFRQSDYISVHAPLTKETKGMISDEQFNLAKKELIIVNTARGPVIDEPALIRALQDGKIAGAGLDVTECEPIQPDNPLLQMENVVITPHVAWYSEESERELKRKTAQNVADVLSGHYPNYFVNPRVKEKVQLKEKQLV
>NC_022080.4|WP_020960082.1|1897963_1899112_-|galactonate-dehydratase
MKITRLETFLVPPRWLFLKISTDEGIAGWGEPIVEGRANTVRAAVEELSDYLIGKDPLAIEEHWTVLYRGGFYRGGPILMSAISGIDQALWDIKGKYFNVPIHQLLGGPVRDRIRVYSWIGGDRPSDVAEAAKKAKEAGFTAVKMNATEELQYIDSYKKIEEAVERVAAVRQVAGKEFGIGIDFHGRVHKPMAKMLAKELEPYHPMFIEEPVLPEHNEALREIARHSNIPIATGERMFSRWDFKTVLSEGYVDIIQPDLSHAGGITEVRKIATMAEAYDVALAPHCPLGPIALAASLQVDAVSYNAFIQEQSLGIHYNQGNDLLDYLVDPSVFEYQNGYVKIPQGPGLGIEINEEYVREMEAIGHNWKNPIWRHADGSVAEW

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Crispr_ID: NC_022080_3

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_022080_3

1985340-1985438

Orphan

Consensus_repeat	Method
TAAACGAGGCCCATTTCTATCAAG	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_022080_3

>merge|NC_022080|3|1985340-1985438|CRISPRCasFinder
TAAACGAGGCCCATTTCTATCAAGGGAAACAACAGCCGAAATTGATGGTGCACTCAAAACCTGTTTCAATCCTCATAAACGAGGCCCGTTTCTATCAAG

>NC_022080|3|2|1985340-1985438|CRISPRCasFinder
TAAACGAGGCCCATTTCTATCAAG	GGAAACAACAGCCGAAATTGATGGTGCACTCAAAACCTGTTTCAATCCTCA
TAAACGAGGCCCGTTTCTATCAAG

Protein	Signature genes	Signature genes Name	Protein_function
NC_022080.4\|WP_020960180.1\|1992434_1992917_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|379334
NC_022080.4\|WP_020960167.1\|1980926_1981493_-\|shikimate-kinase	unknown	unknown	gnl\|CDD\|234654
NC_022080.4\|WP_020960179.1\|1992054_1992420_-\|rhodanese-like-domain-containing-protein	unknown	unknown	gnl\|CDD\|238089
NC_022080.4\|WP_020960170.1\|1984161_1985145_-\|alcohol-dehydrogenase-catalytic-domain-containing-protein	unknown	unknown	gnl\|CDD\|176222
NC_022080.4\|WP_020960169.1\|1982662_1983970_+\|MFS-transporter	unknown	unknown	gnl\|CDD\|340877
NC_022080.4\|WP_020960175.1\|1989110_1989893_-\|sulfite-exporter-TauE/SafE-family-protein	unknown	unknown	gnl\|CDD\|376667
NC_022080.4\|WP_020960173.1\|1987333_1988452_+\|fatty-acid-desaturase	unknown	unknown	gnl\|CDD\|239583
NC_022080.4\|WP_023817650.1\|1985664_1986513_-\|Cof-type-HAD-IIB-family-hydrolase	unknown	unknown	gnl\|CDD\|319818
NC_022080.4\|WP_020960166.1\|1979649_1980054_-\|GtrA-family-protein	unknown	unknown	gnl\|CDD\|377229
NC_022080.4\|WP_020960174.1\|1988581_1988968_-\|DUF302-domain-containing-protein	unknown	unknown	gnl\|CDD\|269820
NC_022080.4\|WP_020960163.1\|1976846_1977971_+\|glutamate-5-kinase	unknown	unknown	gnl\|CDD\|235460
NC_022080.4\|WP_020960176.1\|1989965_1991102_-\|MBL-fold-metallo-hydrolase	unknown	unknown	gnl\|CDD\|293810
NC_022080.4\|WP_020960178.1\|1991718_1992042_-\|rhodanese-like-domain-containing-protein	unknown	unknown	gnl\|CDD\|238089
NC_022080.4\|WP_020960177.1\|1991152_1991722_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|238089
NC_022080.4\|WP_020960165.1\|1979309_1979603_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|366516
NC_022080.4\|WP_023817652.1\|1986662_1987076_+\|EamA-family-transporter	unknown	unknown	gnl\|CDD\|225308
NC_022080.4\|WP_020960160.1\|1972562_1973894_-\|AMP-binding-protein	unknown	unknown	gnl\|CDD\|341239
NC_022080.4\|WP_020960168.1\|1981563_1982331_-\|type-I-3-dehydroquinate-dehydratase	unknown	unknown	gnl\|CDD\|235036
NC_022080.4\|WP_020960164.1\|1977967_1979209_+\|glutamate-5-semialdehyde-dehydrogenase	unknown	unknown	gnl\|CDD\|234685
NC_022080.4\|WP_020960162.1\|1974670_1976350_-\|dihydroxy-acid-dehydratase	unknown	unknown	gnl\|CDD\|234861

Protein	Function_ID	Function_description	E-value
NC_022080.4\|WP_020960180.1\|1992434_1992917_-\|hypothetical-protein	gnl\|CDD\|379334	pfam13686, DrsE_2, DsrE/DsrF/DrsH-like family. DsrE is a small soluble protein involved in intracellular sulfur reduction. The family also includes YrkE proteins.	2.55099e-79
NC_022080.4\|WP_020960167.1\|1980926_1981493_-\|shikimate-kinase	gnl\|CDD\|234654	PRK00131, aroK, shikimate kinase; Reviewed.	5.94239e-68
NC_022080.4\|WP_020960179.1\|1992054_1992420_-\|rhodanese-like-domain-containing-protein	gnl\|CDD\|238089	cd00158, RHOD, Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins such as sulfide dehydrogenases and certain stress proteins such as senesence specific protein 1 in plants, PspE and GlpE in bacteria and cyanide and arsenate resistance proteins. Inactive versions (no active site cysteine) are also seen in dual specificity phosphatases, ubiquitin hydrolases from yeast and in sulfuryltransferases, where they are believed to play a regulatory role in multidomain proteins.	1.88965e-34
NC_022080.4\|WP_020960170.1\|1984161_1985145_-\|alcohol-dehydrogenase-catalytic-domain-containing-protein	gnl\|CDD\|176222	cd08261, Zn_ADH7, Alcohol dehydrogenases of the MDR family. This group contains members identified as related to zinc-dependent alcohol dehydrogenase and other members of the MDR family. The medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family, which contains the zinc-dependent alcohol dehydrogenase (ADH-Zn) and related proteins, is a diverse group of proteins related to the first identified member, class I mammalian ADH. MDRs display a broad range of activities and are distinguished from the smaller short chain dehydrogenases (~ 250 amino acids vs. the ~ 350 amino acids of the MDR). The MDR proteins have 2 domains: a C-terminal NAD(P)-binding Rossmann fold domain of a beta-alpha form and an N-terminal catalytic domain with distant homology to GroES. The MDR group includes various activities, including the founding alcohol dehydrogenase (ADH), quinone reductase, sorbitol dehydrogenase, formaldehyde dehydrogenase, butanediol DH, ketose reductase, cinnamyl reductase, and numerous others. The zinc-dependent alcohol dehydrogenases (ADHs) catalyze the NAD(P)(H)-dependent interconversion of alcohols to aldehydes or ketones. Active site zinc has a catalytic role, while structural zinc aids in stability. ADH-like proteins typically form dimers (typically higher plants, mammals) or tetramers (yeast, bacteria), and generally have 2 tightly bound zinc atoms per subunit. The active site zinc is coordinated by a histidine, two cysteines, and a water molecule. The second zinc seems to play a structural role, affects subunit interactions, and is typically coordinated by 4 cysteines.	5.03074e-72
NC_022080.4\|WP_020960169.1\|1982662_1983970_+\|MFS-transporter	gnl\|CDD\|340877	cd17319, MFS_ExuT_GudP_like, Hexuronate transporter, Glucarate transporter, and similar transporters of the Major Facilitator Superfamily. This family is composed of predominantly bacterial transporters for hexuronate (ExuT), glucarate (GudP), galactarate (GarP), and galactonate (DgoT). They mediate the uptake of these compounds into the cell. They belong to the Major Facilitator Superfamily (MFS) of membrane transport proteins, which are thought to function through a single substrate binding site, alternating-access mechanism involving a rocker-switch type of movement.	2.35323e-92
NC_022080.4\|WP_020960175.1\|1989110_1989893_-\|sulfite-exporter-TauE/SafE-family-protein	gnl\|CDD\|376667	pfam01925, TauE, Sulfite exporter TauE/SafE. This is a family of integral membrane proteins where the alignment appears to contain two duplicated modules of three transmembrane helices. The proteins are involved in the transport of anions across the cytoplasmic membrane during taurine metabolism as an exporter of sulfoacetate. This family used to be known as DUF81.	1.79102e-30
NC_022080.4\|WP_020960173.1\|1987333_1988452_+\|fatty-acid-desaturase	gnl\|CDD\|239583	cd03506, Delta6-FADS-like, The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases are required for the synthesis of highly unsaturated fatty acids (HUFAs), which are mainly esterified into phospholipids and contribute to maintaining membrane fluidity. While HUFAs may be required for cold tolerance in bacteria, plants and fish, the primary role of HUFAs in mammals is cell signaling. These enzymes are described as front-end desaturases because they introduce a double bond between the pre-exiting double bond and the carboxyl (front) end of the fatty acid. Various substrates are involved, with both acyl-coenzyme A (CoA) and acyl-lipid desaturases present in this CD. Acyl-lipid desaturases are localized in the membranes of cyanobacterial thylakoid, plant endoplasmic reticulum (ER), and plastid; and acyl-CoA desaturases are present in ER membrane. ER-bound plant acyl-lipid desaturases and acyl-CoA desaturases require cytochrome b5 as an electron donor. Most of the eukaryotic desaturase domains have an adjacent N-terminal cytochrome b5-like domain. This domain family has extensive hydrophobic regions that would be capable of spanning the membrane bilayer at least twice. Comparison of sequences also reveals the existence of three regions of conserved histidine cluster motifs that contain the residues: HXXXH, HXX(X)HH, and Q/HXXHH. These histidine residues are reported to be catalytically essential and proposed to be the ligands for the iron atoms contained within the homolog, stearoyl CoA desaturase.	5.25928e-38
NC_022080.4\|WP_023817650.1\|1985664_1986513_-\|Cof-type-HAD-IIB-family-hydrolase	gnl\|CDD\|319818	cd07516, HAD_Pase, phosphatase, similar to Escherichia coli Cof and Thermotoga maritima TM0651; belongs to the haloacid dehalogenase-like superfamily. Escherichia coli Cof is involved in the hydrolysis of HMP-PP (4-amino-2-methyl-5-hydroxymethylpyrimidine pyrophosphate, an intermediate in thiamin biosynthesis), Cof also has phosphatase activity against the coenzymes pyridoxal phosphate (PLP) and FMN. Thermotoga maritima TM0651 acts as a phosphatase with a phosphorylated carbohydrate molecule as a possible substrate. Escherichia coli YbhA is also a member of this family and catalyzes the dephosphorylation of PLP, YbhA can also hydrolyze erythrose-4-phosphate and fructose-1,6-bis-phosphate. Members of this family belong to the haloacid dehalogenase-like (HAD) hydrolases, a large superfamily of diverse enzymes that catalyze carbon or phosphoryl group transfer reactions on a range of substrates, using an active site aspartate in nucleophilic catalysis. Members of this superfamily include 2-L-haloalkanoic acid dehalogenase, azetidine hydrolase, phosphonoacetaldehyde hydrolase, phosphoserine phosphatase, phosphomannomutase, P-type ATPases and many others. HAD hydrolases are found in all three kingdoms of life, and most genomes are predicted to contain multiple HAD-like proteins. Members possess a highly conserved alpha/beta core domain, and many also possess a small cap domain, the fold and function of which is variable. HAD hydrolases are sometimes referred to as belonging to the DDDD superfamily of phosphohydrolases.	3.19941e-71
NC_022080.4\|WP_020960166.1\|1979649_1980054_-\|GtrA-family-protein	gnl\|CDD\|377229	pfam04138, GtrA, GtrA-like protein. Members of this family are predicted to be integral membrane proteins with three or four transmembrane spans. They are involved in the synthesis of cell surface polysaccharides. The GtrA family are a subset of this family. GtrA is predicted to be an integral membrane protein with 4 transmembrane spans. It is involved is in O antigen modification by Shigella flexneri bacteriophage X (SfX), but does not determine the specificity of glucosylation. Its function remains unknown, but it may play a role in translocation of undecaprenyl phosphate linked glucose (UndP-Glc) across the cytoplasmic membrane. Another member of this family is a DTDP-glucose-4-keto-6-deoxy-D-glucose reductase, which catalyzes the conversion of dTDP-4-keto-6-deoxy-D-glucose to dTDP-D-fucose, which is involved in the biosynthesis of the serotype-specific polysaccharide antigen of Actinobacillus actinomycetemcomitans Y4 (serotype b). This family also includes the teichoic acid glycosylation protein, GtcA, which is a serotype-specific protein in some Listeria innocua and monocytogenes strains. Its exact function is not known, but it is essential for decoration of cell wall teichoic acids with glucose and galactose.	1.3012e-22
NC_022080.4\|WP_020960174.1\|1988581_1988968_-\|DUF302-domain-containing-protein	gnl\|CDD\|269820	cd14797, DUF302, Uncharacterized domain family DUF302. These domains are mostly found in bacterial single-domain proteins and have been shown to form homodimers; they may also bind zinc. Also characterized as COG3439.	2.65496e-44
NC_022080.4\|WP_020960163.1\|1976846_1977971_+\|glutamate-5-kinase	gnl\|CDD\|235460	PRK05429, PRK05429, gamma-glutamyl kinase; Provisional.	0
NC_022080.4\|WP_020960176.1\|1989965_1991102_-\|MBL-fold-metallo-hydrolase	gnl\|CDD\|293810	cd07724, POD-like_MBL-fold, ETHE1 (PDO type I), persulfide dioxygenase A (PDOA, PDO type II) and related proteins; MBL-fold metallo-hydrolase domain. Persulfide dioxygenase (PDO, also known as sulfur dioxygenase, SDO, EC 1.13.11.18) is a non-heme iron-dependent oxygenase which catalyzes the oxidation of glutathione persulfide to glutathione and persulfite in the mitochondria. Mutations in ethe1 (the human PDO gene) are responsible for a rare autosomal recessive metabolic disorder called ethylmalonic encephalopathy. Arabidopsis thaliana ETHE1 is essential for embryo and endosperm development. Bacterial ETHE1-type PDOs are also called Type 1 PDOs. Type II PDOs (also called PDOAs), are mainly proteobacterial. These enzymes belong to the MBL-fold metallo-hydrolase superfamily which is comprised mainly of hydrolytic enzymes which carry out a variety of biological functions.	4.23905e-73
NC_022080.4\|WP_020960178.1\|1991718_1992042_-\|rhodanese-like-domain-containing-protein	gnl\|CDD\|238089	cd00158, RHOD, Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins such as sulfide dehydrogenases and certain stress proteins such as senesence specific protein 1 in plants, PspE and GlpE in bacteria and cyanide and arsenate resistance proteins. Inactive versions (no active site cysteine) are also seen in dual specificity phosphatases, ubiquitin hydrolases from yeast and in sulfuryltransferases, where they are believed to play a regulatory role in multidomain proteins.	7.13179e-32
NC_022080.4\|WP_020960177.1\|1991152_1991722_-\|hypothetical-protein	gnl\|CDD\|238089	cd00158, RHOD, Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins such as sulfide dehydrogenases and certain stress proteins such as senesence specific protein 1 in plants, PspE and GlpE in bacteria and cyanide and arsenate resistance proteins. Inactive versions (no active site cysteine) are also seen in dual specificity phosphatases, ubiquitin hydrolases from yeast and in sulfuryltransferases, where they are believed to play a regulatory role in multidomain proteins.	8.88959e-36
NC_022080.4\|WP_020960165.1\|1979309_1979603_+\|hypothetical-protein	gnl\|CDD\|366516	pfam01212, Beta_elim_lyase, Beta-eliminating lyase.	2.56705e-08
NC_022080.4\|WP_023817652.1\|1986662_1987076_+\|EamA-family-transporter	gnl\|CDD\|225308	COG2510, COG2510, Predicted membrane protein [Function unknown].	3.90693e-36
NC_022080.4\|WP_020960160.1\|1972562_1973894_-\|AMP-binding-protein	gnl\|CDD\|341239	cd05913, PaaK, Phenylacetate-CoA ligase (also known as PaaK). PaaK catalyzes the first step in the aromatic degradation pathway, by converting phenylacetic acid (PA) into phenylacetyl-CoA (PA-CoA). Phenylacetate-CoA ligase has been found in proteobacteria as well as gram positive prokaryotes. The enzyme is specifically induced after aerobic growth in a chemically defined medium containing PA or phenylalanine (Phe) as the sole carbon source. PaaKs are members of the adenylate-forming enzyme (AFE) family. However, sequence comparison reveals divergent features of PaaK with respect to the superfamily, including a novel N-terminal sequence.	0
NC_022080.4\|WP_020960168.1\|1981563_1982331_-\|type-I-3-dehydroquinate-dehydratase	gnl\|CDD\|235036	PRK02412, aroD, type I 3-dehydroquinate dehydratase.	2.31557e-127
NC_022080.4\|WP_020960164.1\|1977967_1979209_+\|glutamate-5-semialdehyde-dehydrogenase	gnl\|CDD\|234685	PRK00197, proA, gamma-glutamyl phosphate reductase; Provisional.	0
NC_022080.4\|WP_020960162.1\|1974670_1976350_-\|dihydroxy-acid-dehydratase	gnl\|CDD\|234861	PRK00911, PRK00911, dihydroxy-acid dehydratase; Provisional.	0

>NC_022080.4|WP_020960170.1|1984161_1985145_-|alcohol-dehydrogenase-catalytic-domain-containing-protein
MFALYVTNPHKLQWRYVGEAGHPVGEEVKVRPTYGGICGSDISVWKGKLPHADYPVRAGHELVGVVVEKGERARYDVGTRVVVLPNTYCGECEFCRKGQTNICEKKRSLGVNMDGVFSSEFVISSRYVLPVPDDLADERAVLVEPFAVVVHALGKVGIDKGTKVAVVGCGNEGMMAAVLARYLGADVTAIDVNPLKLETVKTIVDVRTFTYDTLPEEKYDVVIEAAGAASAAKQAVELARPGGHVVLLGLVNEATFPVVRIVRHELIIHGSIIYQFPGDYMKAIHYLRMMPFPVEQIIAKTFPIAEYEKAYEAAASGQPGKVVLQFG
>NC_022080.4|WP_020960169.1|1982662_1983970_+|MFS-transporter
MVKKRRWAVASLIAVGVIVNYFDRINMSVGIQPLSEEFNLTPGQLGILLSAFAWSYALLQIPAGVILDKIGVKWVTRVGTIIWTVACFLTAIASGQGLVMLSRVLLGIGEAPYFPAAAKAVGQWFPRHERATAISLYDAQSKLSNAIGTPIIAWIITEWGWRAGFYTTAVLSLVYAVMFWVTYRDPHEDKQLSKEEYDYIVQGGAQKSDETSGNVWKTIRYLLTKKKVWATLIGFAAYGYSWFLFLTWLPGYLATEMHMSVLKSGWYAAIPWIVGTISEIVIGGWLVDRLINKGGRATRVRKTFLVIGMLLGLSVIGAAFTTNPNIAILCISIALGGLVITSSIAYSIPTFIAPPGTVGTLTGLLTFGNNSMAIVAPIVTGFIVQATGSFMYAFLVAALILLAGIFSYLFLLTDLEPIEPMPESANNMRIHTKTH
>NC_022080.4|WP_020960168.1|1981563_1982331_-|type-I-3-dehydroquinate-dehydratase
MQRKAIKVRHIWIGGEEPCICAPIVGADDEQVLREAEEVCRKRPDLLEWRADFFRMIDDQDRVLATARALRSVAGDIPILFTIRSEREGGQPIPLDENERERLLAAVCESRTVDLVDYELAYGDRIADVRRMAEQCGIRLIVSRHYFDGTPSKETIVADMRAAERYGADIAKVAVMPKSPGDVLVLLQATEEARCELSIPLITMAMGGLGAITRLAGWLFGSAVTFAVGNQSSAPGQIPIEDVRAVLSVLQTYSR
>NC_022080.4|WP_020960167.1|1980926_1981493_-|shikimate-kinase
MNRQTAIPLRERNIILIGFMGAGKTTIGQLVAKKLYRDFIDVDAEIERRHGMSIPEMFAQKGEAYFRQVERELIVDLCTNTRLKILSLGGGAYLQEEVRRACLAHGIVFFLDLSWEHWKEERLPLIVDSRPVLKNKTLEEVEQLFFQRQSAYALHHSRVVINELEAEQAAEQIVESIKWTWDVYEPNR
>NC_022080.4|WP_020960166.1|1979649_1980054_-|GtrA-family-protein
MNENLHTFRKEKQAVWRFAVVGVGNTAIDFVVFFVLAALSVPAAAAQMASYGAGMANSYIWNRRWTFEVKRKANIGEFLRFLAVNGLSLGASLAVLLAAERLAPLWLTKMAATMAGMAVNFVGSRVWVFAETGK
>NC_022080.4|WP_020960165.1|1979309_1979603_+|hypothetical-protein
MDFRSDTVTKPAPEMCRAMFDAEVGDDVYDVAGVETNIVLCDIHGTGLSNDEFVARLKEAGILASPFDAGVIRFVTHREITADSMQTASERMRRMLS
>NC_022080.4|WP_020960164.1|1977967_1979209_+|glutamate-5-semialdehyde-dehydrogenase
MTELLEKAERLKTAAQTLAMLSTEEKNAALAKIAEALDRERAFILQENEKDMAQGREQGLSPALLDRLQLTDERMDQIIGGVHQVASLLDPVGEIVSEWTRPNGLRIQTVRVPLGVVGMVYEARPNVTVDAASLCLKTGNAVLLRGSSSALHSNKALVSVMKGALRTTAVPDAAIELLEDTSRETAQQMFRLNNYLDVLIPRGGAGLIRSVIENATVPVLETGVGNCHIVIDESAERQMAIEIVLNAKLQRPSVCNAVETVLIHETWPHTSDLLETLHARGVELRGDDRLASSHPFIKPATEDDWHAEYLAPILAVKLVADVDEAIAHIRRYGTKHSEAIITENETNVRRFFQAVDAAVLYHNASTRFTDGEQFGYGAEIGISTQKLHARGPMGLVAITTTKSLVYGTGQIRK
>NC_022080.4|WP_020960163.1|1976846_1977971_+|glutamate-5-kinase
MKRQRVVVKIGSSSLTDPKGGLCRDKLLNHVEAIAHLKQLGHDVILITSGAVAAGFGPLGYPARPTTIAGKQAAAAVGQSLLMQAYSSAFARFGFTAAQLLLTRSDFYSRERFRNLFATMTTLLEHGAIPVINENDSVSVEELTFGDNDMLSALVAGFLHADALILLTDINGLYDANPKTNPQAKKYAFLPHITDEMVEAAGGSGSAVGTGGMRSKLSAAQKALSFGVSVFIGTGRGKETLADILAGKGDGTYIGAPFPKQMQMHKQWIAYHAPVAGTITVDSGAEEALLARGKSLLPAGVTAVSGDFHAMDVVDVVNEKGITIGRGQVYYAAADLEKVKGLPSDEARQYSYLHRPEVIHRDNWVTLRKESVFK
>NC_022080.4|WP_020960162.1|1974670_1976350_-|dihydroxy-acid-dehydratase
MKTRRSDMIKKGFDRAPHRSLLRAAGVKEEDFDKPFIAVVNSYIDIIPGHVHLQEFGKIVKEAIREAGGVPFEMNTIGVDDGIAMGHIGMRYSLPSREIIADSIETVVSAHWFDGMVCIPNCDKITPGMMMAAMRLNIPTIFVSGGPMKAGVTKDGRKISLSSVFEGVGAYLGGTLDEKGLEELERYGCPTCGSCSGMFTANSMNCLAEALGLALPGNGTILAIDPARKEFVRESAKQLMYLIEHDIKPRDIVTEKAIDNAFALDMALGGSTNTVLHTLAIANEAGIEYSLERINEVAARVPHLAKLAPASDVHYIEDLHEAGGVSAVLNELAKKEGALHLDTLTVTGKTLGENIAGCEVKNYDVIRPIDNPYSETGGLAILFGNLAPDGAVIKTGAVQGGITRHEGPAIVFDSQEEALEGIASGKIQPGHVVVIRYEGPKGGPGMPEMLAPTSQIVGMGLGTKVALVTDGRFSGASRGLSIGHVSPEAAEGGPIAFIEDGDIIEIDTVKRTINVKLSDEELERRKANWKGFEPKVKTGYLARYSKHVTSASTGGIMKI
>NC_022080.4|WP_020960160.1|1972562_1973894_-|AMP-binding-protein
MILHDIETAERSELEALQLGRLQATVERVYKRVPFYREQFDQAGVKPEDVRTLDDVRRLPFTTKSDLRAHYPFGLLAVDTTQCVRLHASSGTSGKPTVVAYTRQDIDHWADIVARAFAIAGGKPGDIVHNAYGYGLFTGGLGIHYGSERLGAVTIPVSGGNTDRQVMIIEDFQPTIICGTPSYVLNIAERMRELGKDPRRTSLKYGIFGAEPWSEEMRRTLEEEFGIKACDIYGLSEVIGPGVAMECHEAQNGLHIAEDHFFVEVINPKTLEPVAEGEEGELVFTSLTKEAFPVIRYRTGDIASVTRERCVCGRTTVRMSRVKGRVDDMIIIRGVNVFPSEIEHHLLRVSELAPHYQLHRLLKGHLEALELHAEVTEYFYNRIGGDLQSGAALELVRRVQSLLKTHCLISIGVRLHPPKTLPRSEGKAVRVIDQRKLEAKQLI
>NC_022080.4|WP_023817650.1|1985664_1986513_-|Cof-type-HAD-IIB-family-hydrolase
MLIALDMDGTLLNGEGSISERNRAAIAAAQAQGHIVVVITGRARKDALAPLREAGLVCPIASLNGAIVTLADGTVINEAPLERAAVRPTLEWVRKQPDLYCETYTGDAVYVGLHNRAQWEALASGMADAAPDVKWLVNKQFQQARVTYVDDIGTVWDDPKLTLYKLLIFALDRERLRDAASRFAALPGVTVTSSHPHNIEMNSERATKGEALKRLAAHYGIDLRDTVAFGDSHNDLSMFEVAGYRVAMDNAEPALKAKADIVTRSHEEDGVAAGLERVLGKR
>NC_022080.4|WP_023817652.1|1986662_1987076_+|EamA-family-transporter
MWIVYAVLAAVFAALTSVLAKIGIENVNSHLATAIRTVVVLALAWMIVWMTGAHHGLKAISAKSWWFLCLSGAATGLSWLCFYRAIQLGDVSRVSAIDKSSLVLTILFAAMFLGEPLSAKVVIGVLLITAGTLIMMF
>NC_022080.4|WP_020960173.1|1987333_1988452_+|fatty-acid-desaturase
MNDFHPFGWYAAKISPHLPKKAFQPVKSRLFGGLAYLLVVIGGILAVSLFDFHPVWNVLISVVLGFSFAALGFLGHEMLHGTVVKTPWLRDLLGAIAFWPLCTGPKLWRKWHNATHHVHTQHEEKDPDAWPSMERLAKSRLLRWVYRIPFPIRAFFAFSSLSVMFTLHSIRMLFYFFQDFHRKNRAVVLFQFFLPWATWLGLLWLVGWEKWVFAFLLPLLVANTIVMSYIATNHRLNPLVPVNDPLANSLSVTVPKWLDVLHFNFSYHTEHHLFPAMSSKYYPLVKTHIKRMWPDRYHEMPMGKALAALWKTPRVYYEHDGLIEPKQGHVYGTLGNGLDPDRITPRGLEAETPPRAAKKHGKAKKAAGEGNG
>NC_022080.4|WP_020960174.1|1988581_1988968_-|DUF302-domain-containing-protein
MFHYTVDVATDLNETIERLEESLKQEGFGVLWRFSVTEKLQEKGLEFSTPMVILEVCNPQEAARVLNENVLVGYFLPCKIVVYQENGTTKIGMPKPTMLVGMVNDPALKELAADIEKRLAACIDQCRQ
>NC_022080.4|WP_020960175.1|1989110_1989893_-|sulfite-exporter-TauE/SafE-family-protein
MDSSLVFLIVIFLIGFIGSFISGMVGIGGSIIKYPMLLYLPPLFGLAAFSAHEVSGISAVQVFFATIGGVWAYRKSGYLNKSLILYMGISILVGSFVGGYGSKLMSEGTINVVYGILAALAAIMMFVPKKGIDDIPLDQVVFNKWLAAALAFLIGVGSGIVGAAGAFLLVPVMLVVLKIPTRMTIATSLAVTFISSIGSTFGKIATGQVDYIPALIMVVASLLASPLGAKAGQKMNTKVLQVILAVLILATAVKIWADIL
>NC_022080.4|WP_020960176.1|1989965_1991102_-|MBL-fold-metallo-hydrolase
MVKEMNVQQMTEKVLNKEALFILDVRNESDFRDWKIEGENFSYLNVPYFELIDGVDAIVDRLPKDKDIVVVCAKGGSAAFVAEQLAEAGFDNVYTLAGGMQAWSEHLHQTKVYEDDQLKIYQFIRVGKGCLSYMVVSGNEALVVDPLRFVDVYEQAAKQEGVTITHIVDSHLHADHLSGGKELAERTGAAYYLMKSEGAVFDFEPLEQHDTIDFANVHLEVLAVKTPGHTPGSVSFFVNGKWLFSGDTIFVGGLGRPDLGGKVAEWAADLYDTVYEKVAAMADEVIVLPAHYANLDEEINAEGYVGDTLGRIRARNEMMQNKPKDEFIDLVIQSANTETPPNFEDIVAINRGLKTVDGETQRELEIGPNRCALHHTHA
>NC_022080.4|WP_020960177.1|1991152_1991722_-|hypothetical-protein
MIKVDLTVDAKGLSCPMPIVRTKKAINDLQPGQVLEVQATDKGSKADIKAWAESTGHQYVGTIEENGVLKHYIRKATENETRKETTFPHVVSNEELQEKLDDPDSFVLDVREPAEYAFGHIPGAVSIPLGELDNRMTELPKDKTIYVVCRTGTRSDLAAQKLAENGFDRVRNVVPGMSQWNGPLDSAQS
>NC_022080.4|WP_020960178.1|1991718_1992042_-|rhodanese-like-domain-containing-protein
MKTITPKEVEERLRAGEALHIIDVREPDEVAAGKIPGAVNIPLGLIEFRMHELDKNEEYILVCRSGGRSGRAAEFLDRRGYRVINMTGGMLAWEGPIESTIKEGTCQ
>NC_022080.4|WP_020960179.1|1992054_1992420_-|rhodanese-like-domain-containing-protein
MSQTIINIMLLVLLAWFLASRFIPPKGVRMITTAELKRRLREPGVQYIDVRTPMEFRSYHLPGFRNIPLHELATRAHELSKDKEVVVICQSGMRSQKASKRLKKMGFQHVTNVKGGLNAWQ
>NC_022080.4|WP_020960180.1|1992434_1992917_-|hypothetical-protein
MTQPKKRTTIILFSGDYDKAMAAYIIANGAAAYDHDVTIFHTFWGLNALRKEAPVPVQKGFLEKMFAKMMPRGADRMGLSRMNFAGIGPTLIKKVIKKHNAMPLPQLIEMAKEQGVKLVACQMTVDLLGLKPEELIDGIEFAGVAAYLADASEGNVNLFI

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Crispr_ID: NC_022080_4

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_022080_4

3406240-3406389

Orphan

Consensus_repeat	Method
TTATTTACGGAGTTAGGTTCGTTA	CRISPRCasFinder

3 spacers

The CRISPR arrays of NC_022080_4

>merge|NC_022080|4|3406240-3406389|CRISPRCasFinder
TTATTTACGGAGTTAGGTTCGTTATTTATGGAGTTAAGGGATTTAGTTACGAAGTTCGCATCCTTTTTTACGGAGTTCGGGCTGTTGTTTACGGAGTTAGGTTCGTTAATAACGGAGCTTTTGTTTATATTTATGGAGTTAAGTTCGTTA

>NC_022080|4|3|3406240-3406389|CRISPRCasFinder
TTATTTACGGAGTTAGGTTCGTTA	TTTATGGAGTTAAGGGAT
TTAGTTACGAAGTTCGCATCCTTT	TTTACGGAGTTCGGGCTG
TTGTTTACGGAGTTAGGTTCGTTA	ATAACGGAGCTTTTGTTT
ATATTTATGGAGTTAAGTTCGTTA

Protein	Signature genes	Signature genes Name	Protein_function
NC_022080.4\|WP_020961618.1\|3401852_3403799_-\|cytochrome-aa3-quinol-oxidase-subunit-I	unknown	unknown	gnl\|CDD\|131928
NC_022080.4\|WP_020961619.1\|3403816_3404725_-\|cytochrome-aa3-quinol-oxidase-subunit-II	unknown	unknown	gnl\|CDD\|273621
NC_022080.4\|WP_020961616.1\|3400933_3401233_-\|cytochrome-aa3-quinol-oxidase-subunit-IV	unknown	unknown	gnl\|CDD\|200218
NC_022080.4\|WP_020961611.1\|3395507_3396368_+\|carbon-nitrogen-hydrolase-family-protein	unknown	unknown	gnl\|CDD\|143598
NC_022080.4\|WP_020961615.1\|3400108_3400831_+\|amino-acid-ABC-transporter-ATP-binding-protein	unknown	unknown	gnl\|CDD\|224051
NC_022080.4\|WP_020961630.1\|3416198_3417416_-\|PDZ-domain-containing-protein	unknown	unknown	gnl\|CDD\|273938
NC_022080.4\|WP_020961622.1\|3407461_3408988_+\|FAD-dependent-oxidoreductase	unknown	unknown	gnl\|CDD\|223737
NC_022080.4\|WP_020961623.1\|3409163_3410126_+\|mannose-6-phosphate-isomerase,-class-I	unknown	unknown	gnl\|CDD\|224399
NC_022080.4\|WP_023817796.1\|3417517_3418312_-\|MBL-fold-metallo-hydrolase	unknown	unknown	gnl\|CDD\|293819
NC_022080.4\|WP_020961612.1\|3396702_3398160_-\|sodium/proline-symporter-PutP	unknown	unknown	gnl\|CDD\|273981
NC_022080.4\|WP_020961628.1\|3415422_3415902_-\|23S-rRNA-(pseudouridine(1915)-N(3))-methyltransferase-RlmH	unknown	unknown	gnl\|CDD\|376840
NC_022080.4\|WP_020961624.1\|3410170_3411325_-\|glycerate-kinase	unknown	unknown	gnl\|CDD\|376844
NC_022080.4\|WP_020961626.1\|3413352_3414282_+\|NAD-dependent-epimerase/dehydratase-family-protein	unknown	unknown	gnl\|CDD\|187566
NC_022080.4\|WP_020961625.1\|3411934_3413173_+\|GGDEF-domain-containing-protein	unknown	unknown	gnl\|CDD\|143635
NC_022080.4\|WP_020961629.1\|3415985_3416135_-\|CxxH/CxxC-protein	unknown	unknown	gnl\|CDD\|372916
NC_022080.4\|WP_020961617.1\|3401234_3401849_-\|cytochrome-aa3-quinol-oxidase-subunit-III	unknown	unknown	gnl\|CDD\|239214
NC_022080.4\|WP_020961613.1\|3398565_3399387_+\|basic-amino-acid-ABC-transporter-substrate-binding-protein	unknown	unknown	gnl\|CDD\|270342
NC_022080.4\|WP_020961620.1\|3404994_3405720_-\|RNA-methyltransferase	unknown	unknown	gnl\|CDD\|349965
NC_022080.4\|WP_020961614.1\|3399455_3400112_+\|amino-acid-ABC-transporter-permease	unknown	unknown	gnl\|CDD\|223836
NC_022080.4\|WP_020961627.1\|3414501_3415266_+\|glycosyltransferase-family-8-protein	unknown	unknown	gnl\|CDD\|133037

Protein	Function_ID	Function_description	E-value
NC_022080.4\|WP_020961618.1\|3401852_3403799_-\|cytochrome-aa3-quinol-oxidase-subunit-I	gnl\|CDD\|131928	TIGR02882, cytochrome_aa3_quinol_oxidase_subunit_I, cytochrome aa3 quinol oxidase, subunit I. This family (QoxB) encodes subunit I of the aa3-type quinone oxidase, one of several bacterial terminal oxidases. This complex couples oxidation of reduced quinones with the reduction of molecular oxygen to water and the pumping of protons to form a proton gradient utilized for ATP production. aa3-type oxidases contain two heme a cofactors as well as copper atoms in the active site. [Energy metabolism, Electron transport].	0
NC_022080.4\|WP_020961619.1\|3403816_3404725_-\|cytochrome-aa3-quinol-oxidase-subunit-II	gnl\|CDD\|273621	TIGR01432, AA3-600_quinol_oxidase_subunit_II, cytochrome aa3 quinol oxidase, subunit II. This enzyme catalyzes the oxidation of quinol with the concomitant reduction of molecular oxygen to water. This acts as the terminal electron acceptor in the respiratory chain. This subunit contains two transmembrane helices and a large external domain responsible for the binding and oxidation of quinol. QuoX is (presently) only found in gram positive bacteria of the Bacillus/Staphylococcus group. Like CyoA, the ubiquinol oxidase found in proteobacteria, the residues responsible for the ligation of Cu(a) and cytochrome c (found in the related cyt. c oxidases) are absent. Unlike CyoA, QoxA is in complex with a subunit I which contains cytochromes a similar to the cyt. c oxidases (as opposed to cytochromes b). [Energy metabolism, Electron transport].	7.55411e-97
NC_022080.4\|WP_020961616.1\|3400933_3401233_-\|cytochrome-aa3-quinol-oxidase-subunit-IV	gnl\|CDD\|200218	TIGR02901, cytochrome_aa3_quinol_oxidase_subunit_IV, cytochrome aa3 quinol oxidase, subunit IV. This family (QoxD) encodes subunit IV of the aa3-type quinone oxidase, one of several bacterial terminal oxidases. This complex couples oxidation of reduced quinones with the reduction of molecular oxygen to water and the pumping of protons to form a proton gradient utilized for ATP production. aa3-type oxidases contain two heme a cofactors as well as copper atoms in the active site. [Energy metabolism, Electron transport].	4.65522e-34
NC_022080.4\|WP_020961611.1\|3395507_3396368_+\|carbon-nitrogen-hydrolase-family-protein	gnl\|CDD\|143598	cd07574, nitrilase_Rim1_like, Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases). Some members of this subgroup are implicated in post-translational modification, as they contain an N-terminal GCN5-related N-acetyltransferase (GNAT) protein RimI family domain. The nitrilase superfamily is comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13), this subgroup corresponds to class 12. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer.	5.87405e-144
NC_022080.4\|WP_020961615.1\|3400108_3400831_+\|amino-acid-ABC-transporter-ATP-binding-protein	gnl\|CDD\|224051	COG1126, GlnQ, ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism].	1.68848e-161
NC_022080.4\|WP_020961630.1\|3416198_3417416_-\|PDZ-domain-containing-protein	gnl\|CDD\|273938	TIGR02037, Probable_periplasmic_serine_protease_do/HhoA-like, periplasmic serine protease, Do/DeqQ family. This family consists of a set proteins various designated DegP, heat shock protein HtrA, and protease DO. The ortholog in Pseudomonas aeruginosa is designated MucD and is found in an operon that controls mucoid phenotype. This family also includes the DegQ (HhoA) paralog in E. coli which can rescue a DegP mutant, but not the smaller DegS paralog, which cannot. Members of this family are located in the periplasm and have separable functions as both protease and chaperone. Members have a trypsin domain and two copies of a PDZ domain. This protein protects bacteria from thermal and other stresses and may be important for the survival of bacterial pathogens.// The chaperone function is dominant at low temperatures, whereas the proteolytic activity is turned on at elevated temperatures. [Protein fate, Protein folding and stabilization, Protein fate, Degradation of proteins, peptides, and glycopeptides].	2.60641e-87
NC_022080.4\|WP_020961622.1\|3407461_3408988_+\|FAD-dependent-oxidoreductase	gnl\|CDD\|223737	COG0665, DadA, Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism].	6.14704e-52
NC_022080.4\|WP_020961623.1\|3409163_3410126_+\|mannose-6-phosphate-isomerase,-class-I	gnl\|CDD\|224399	COG1482, ManA, Phosphomannose isomerase [Carbohydrate transport and metabolism].	1.2245e-134
NC_022080.4\|WP_023817796.1\|3417517_3418312_-\|MBL-fold-metallo-hydrolase	gnl\|CDD\|293819	cd07733, YycJ-like_MBL-fold, uncharacterized subgroup which includes Bacillus subtilis YycJ and related proteins; MBL-fold metallo hydrolase domain. Includes the uncharacterized Bacillus subtilis YycJ protein. Members of this subgroup belong to the MBL-fold metallo-hydrolase superfamily which is comprised mainly of hydrolytic enzymes which carry out a variety of biological functions. The class B metal beta-lactamases (MBLs) from which this fold was named are only a small fraction of the activities which are included in this superfamily. Activities carried out by superfamily members include class B beta-lactamases, hydroxyacylglutathione hydrolases, AHL (acyl homoserine lactone) lactonases, persulfide dioxygenases, flavodiiron proteins, cleavage and polyadenylation specificity factors such as the Int9 and Int11 subunits of Integrator, Sdsa1-like and AtsA-like arylsulfatases, 5'-exonucleases human SNM1A and yeast Pso2p, ribonuclease J and ribonuclease Z, cyclic nucleotide phosphodiesterases, insecticide hydrolases, and proteins required for natural transformation competence. Classical members of the superfamily are di-, or less commonly mono-, zinc-ion-dependent hydrolases, however the diversity of biological roles is reflected in variations in the active site metallo-chemistry.	1.14141e-75
NC_022080.4\|WP_020961612.1\|3396702_3398160_-\|sodium/proline-symporter-PutP	gnl\|CDD\|273981	TIGR02121, Osmoregulated_proline_transporter, sodium/proline symporter. This family consists of the sodium/proline symporter (proline permease) from a number of Gram-negative and Gram-positive bacteria and from the archaeal genus Methanosarcina. Using the related pantothenate permease as an outgroup, candidate sequences from Bifidobacterium longum and several from archaea are found to be outside the clade defined by known proline permeases. These sequences, scoring between 570 and -40, define the range between trusted and noise cutoff scores. [Transport and binding proteins, Amino acids, peptides and amines].	0
NC_022080.4\|WP_020961628.1\|3415422_3415902_-\|23S-rRNA-(pseudouridine(1915)-N(3))-methyltransferase-RlmH	gnl\|CDD\|376840	pfam02590, SPOUT_MTase, Predicted SPOUT methyltransferase. This family of proteins are predicted to be SPOUT methyltransferases.	3.70125e-88
NC_022080.4\|WP_020961624.1\|3410170_3411325_-\|glycerate-kinase	gnl\|CDD\|376844	pfam02595, Gly_kinase, Glycerate kinase family. This is family of Glycerate kinases.	0
NC_022080.4\|WP_020961626.1\|3413352_3414282_+\|NAD-dependent-epimerase/dehydratase-family-protein	gnl\|CDD\|187566	cd05256, UDP_AE_SDR_e, UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs. This subgroup contains UDP-N-acetylglucosamine 4-epimerase of Pseudomonas aeruginosa, WbpP, an extended SDR, that catalyzes the NAD+ dependent conversion of UDP-GlcNAc and UDPGalNA to UDP-Glc and UDP-Gal. This subgroup has the characteristic active site tetrad and NAD-binding motif of the extended SDRs. 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.	1.45102e-118
NC_022080.4\|WP_020961625.1\|3411934_3413173_+\|GGDEF-domain-containing-protein	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.	1.31681e-41
NC_022080.4\|WP_020961629.1\|3415985_3416135_-\|CxxH/CxxC-protein	gnl\|CDD\|372916	pfam14116, YyzF, YyzF-like protein. The YyzF-like protein family includes the B. subtilis YyzF protein, which is functionally uncharacterized. This family of proteins is found in bacteria. Proteins in this family are approximately 60 amino acids in length.	2.67346e-13
NC_022080.4\|WP_020961617.1\|3401234_3401849_-\|cytochrome-aa3-quinol-oxidase-subunit-III	gnl\|CDD\|239214	cd02863, Ubiquinol_oxidase_III, Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. Ubiquinol oxidases feature four subunits in contrast to the 13 subunit bovine cytochrome c oxidase (CcO). Subunits I, II, and III of bovine CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Subunits I, II and III of ubiquinol oxidase are homologous to the corresponding subunits in bovine CcO. Although not required for catalytic activity, subunit III appears to be involved in assembly of the multimer complex.	1.63703e-82
NC_022080.4\|WP_020961613.1\|3398565_3399387_+\|basic-amino-acid-ABC-transporter-substrate-binding-protein	gnl\|CDD\|270342	cd13624, PBP2_Arg_Lys_His, Substrate binding domain of the arginine-, lysine-, histidine-binding protein ArtJ; the type 2 periplasmic binding protein fold. This group includes the periplasmic substrate-binding protein ArtJ of the ATP-binding cassette (ABC) transport system from the thermophilic bacterium Geobacillus stearothermophilus, which is specific for arginine, lysine, and histidine. ArtJ belongs to the type 2 periplasmic-binding fold protein (PBP2) superfamily, whose members are involved in chemotaxis and uptake of nutrients and other small molecules from the extracellular space as a primary receptor. PBP2 typically comprises of two globular subdomains connected by a flexible hinge and 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 receptor cytoplasmically-located ATPase domains. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis.	4.63785e-104
NC_022080.4\|WP_020961620.1\|3404994_3405720_-\|RNA-methyltransferase	gnl\|CDD\|349965	cd18092, SpoU-like_TrmH, SAM-dependent tRNA methylase related to TrmH. TrmH catalyzes the transfer of the methyl group from S-adenosyl-L-methionine (AdoMet) to the 2'-OH group of the ribose of the universally conserved guanosine 18 (G18) position in tRNA. It is part of the SpoU family of MTases, a subfamily of the SPOUT methyltransferase superfamily. The SPOUT methyltransferase superfamily is a large class of S-adenosyl-L-methionine (AdoMet or SAM)-dependent RNA MTases which are structurally characterized by a deep trefoil knot.	8.27921e-81
NC_022080.4\|WP_020961614.1\|3399455_3400112_+\|amino-acid-ABC-transporter-permease	gnl\|CDD\|223836	COG0765, HisM, ABC-type amino acid transport system, permease component [Amino acid transport and metabolism].	4.79181e-82
NC_022080.4\|WP_020961627.1\|3414501_3415266_+\|glycosyltransferase-family-8-protein	gnl\|CDD\|133037	cd04194, GT8_A4GalT_like, A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface. The members of this family of glycosyltransferases catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface. The enzymes exhibit broad substrate specificities. The known functions found in this family include: Alpha-1,4-galactosyltransferase, LOS-alpha-1,3-D-galactosyltransferase, UDP-glucose:(galactosyl) LPS alpha1,2-glucosyltransferase, UDP-galactose: (glucosyl) LPS alpha1,2-galactosyltransferase, and UDP-glucose:(glucosyl) LPS alpha1,2-glucosyltransferase. Alpha-1,4-galactosyltransferase from N. meningitidis adds an alpha-galactose from UDP-Gal (the donor) to a terminal lactose (the acceptor) of the LOS structure of outer membrane. LOSs are virulence factors that enable the organism to evade the immune system of host cells. In E. coli, the three alpha-1,2-glycosyltransferases, that are involved in the synthesis of the outer core region of the LPS, are all members of this family. The three enzymes share 40 % of sequence identity, but have different sugar donor or acceptor specificities, representing the structural diversity of LPS.	2.29845e-83

>NC_022080.4|WP_020961620.1|3404994_3405720_-|RNA-methyltransferase
MEERDMKAFLAQLQQEGLLTEQTRPVWEMILPKRLKRMYDVLNERTRYITVLIEAVDDPHNQAAVLRTAEAFGVQDVHIVTGRAPFSPNRLVTRYADQWLTLHRKPNIETAIGDLKRQGYQVYASYLGEGTIPLSDIDVSKPTVLLFGNEHSGVSDEALKLADGTFVIPMHGFVQSFNISVAAALALYDVTERARRQVGKQYYLSPEEKKELYKQWMWQTLQPRIRKQLEQQGYIGQKGGK
>NC_022080.4|WP_020961619.1|3403816_3404725_-|cytochrome-aa3-quinol-oxidase-subunit-II
MKRAIWRIILALPFLLLLSGCVERTAVLNPQGPVARTQYDLIMWSVGFMLFIIVVVFALFAFVLIRYREKPENADYEPPEEEGNTLLEIVWTAIPILIVIALAVPTVKATFALEKPPTDKVEPITIHVTAANWKWIFSYPEENIETVNYVHIPAGVPVKFKLTSVGPMNSFWVPELGGQKYAMDGMETELILQADKPGSYMGRSANFSGEKFAHMEFEVIAQTSRDFKQWVDEVKATAPKLNEDKYAQILEPGLVGRMTFSNTHLEWIDHAEQNSHHANGESAGDDDGQDHNMATDSHHHTE
>NC_022080.4|WP_020961618.1|3401852_3403799_-|cytochrome-aa3-quinol-oxidase-subunit-I
MKWSEFFVTGEPLIYAADVAIVLTIIGIVFILTYFKKWKWLWNEWLTTVDHKKIGVMYIICAVLMLFRGGVDALLMRAQLTAPNMEFLDAQHYNEIFTTHGTIMILFMAMPFIIGLMNIVVPLQIGARDVAFPYLNALSFWLFFFGAMLFNISFVIGGSPDAGWTAYFPLAGNEFSHGVGNNYYAVALQISGIGTLMTGINFLVTILKMRAPGMTLMRMPMFTWTILITSVLIVFAFPVLTVALALMTFDRLFDTQFFTMANGGMSMLWANLFWIWGHPEVYIVILPAFGIFSEVVSTFARKRLFGYKAMVGSIVGIAFLSFIVWVHHFFTMGAGPAVNSVFSITTMAIAIPTGVKIFNWLFTLRKGKIRFTTAMLWSLAFIPNFVIGGVTGVMLAMAAADYQYHNSYFLVAHFHYVLIAGTVFACFAGLHYWYPKMFGHMLNERLGKWTFWLFMIGFNVCFFPMYFLGLMGMTRRMYTYSADLGWTPLNVVATVGAVLMGIGFIVLCYNIYYSARYGERDMTGDPWNGRTLEWATASPPVHYNFPVTPVVEDLDAYWVMKKKYGGLQVKEEELKPIHMPSNSGRPFWMSVAFFIAGFGLVFKWFALAIVGALFIVLGLILRSFENDDGYYMSVEEIKRTERSARKGA
>NC_022080.4|WP_020961617.1|3401234_3401849_-|cytochrome-aa3-quinol-oxidase-subunit-III
MGEAAHRYDETLPLEYRTEESRLNILGFWIFLGAEVVLFATLFATYLVLFQRTGSGLTAQELFQVKDVLIETLLLLTSSFTCGLAIFEMRRGRMSGLIAWLLVTLLLGAGFITVEIREFIHYVHEGATMQTSAFLSSFFVLVGTHGAHVSLGIGWMILIIIQLLQRGLTAKTARKVFIVSLYWHFLDVVWIFIFTLVYLLGMVI
>NC_022080.4|WP_020961616.1|3400933_3401233_-|cytochrome-aa3-quinol-oxidase-subunit-IV
MGANSHHESFPWKHIIGFVLSLVLTFAALWVALSSGLPLKAVIVIIVLFAIIQASLQLFMFMHVAESDSGKVQTFNMVYSFFIAVVIVAGSIWVMQFVL
>NC_022080.4|WP_020961615.1|3400108_3400831_+|amino-acid-ABC-transporter-ATP-binding-protein
MIDVRQLKKSFGSLQVLKGIDAHIREGEVVVVIGPSGSGKSTFLRCLNLLEDFDEGEIIIDGINLKAKDTDLNKVREEVGMVFQRFNLFPHMTVLNNITLAPMKVRKWPREKAEAKAIELLAKVGLQDKAHVYPDSLSGGQAQRVAIARALAMEPKIMLFDEPTSALDPEMVGEVLSVMKQLANEGMTMVVVTHEMGFAREVGDRVLFMDGGYIVEEGKPEELFDRPQHERTKAFLSKVL
>NC_022080.4|WP_020961614.1|3399455_3400112_+|amino-acid-ABC-transporter-permease
MDFRFDIIVEYAPYFFQGLLITIGVSLAGIMFGLILGLFIGLGKMSSNPIVRLPFSWYINFFRGTPLVVQILLVHFGAMPLFFGQPNAIASLAVSLSLNSAAYVAEIFRAGIQSIDKGQMEAARSLGMTHVQAMRYIILPQALKRMIPPFANEFIVLIKDSSLGMVIAAPEIMYWGKAAAGEYYRVWEPYLTVAFIYLILTLSLSKLSHYLERKYSTQ
>NC_022080.4|WP_020961613.1|3398565_3399387_+|basic-amino-acid-ABC-transporter-substrate-binding-protein
MLNMKKGLIVAVVAALFMALAACGKSTETSSPSGSKEEGNQKITVGTDAAFAPFEYMEKGKIVGFDVDLLDAVMKEAGLDYELKNVGWDPLFAALQSKEIDMGISGITITDERKQTYDFSAPYFEATQVILVKEGNPVKNALDLKGKTIGVQNATTGQEAAEKLLGKGNHIKKFETSVVAIMELLNGGVDAVVTDNAVANEYVKNNPDKKLQVIEDPQNFASEYYGMIFPKDSELKAKVDEALQNVIDSGKYAEIYKKWFGKEPNIEGLKQQQ
>NC_022080.4|WP_020961612.1|3396702_3398160_-|sodium/proline-symporter-PutP
MVLFSVIVYLVGMLWIGYWAYKRTANLSDYMLGGRTLGPAVTALSAGASDMSGWLLMGLPGAMFVDGVSAAWIAIGLTLGAYANWLYVAPRLRVYTEVANDSITIPEFLENRFGDASKLLRMVSGIVIMIFFTFYVSSGLVSGGVLFENSFGVSYHTGLWIVGGVVVAYTLFGGFLAVSWTDFVQGTIMFIALILVPVVTLFHTGGPVETVGTIRDIDPNLLNLWKGTSFLGIISLFAWGLGYFGQPHIIVRFMAIKSVKEMKSARRIGMGWMIFSVVGAMLTGLFGIAYFSQHGTKLDDPETVFIQLGEILFHPIITGFLLAAILAAIMSTISSQLLVTSSSLTEDLYKVLFRRSASDKELVFVGRLSVLIVAIVATALAYTKNDTILNLVGYAWAGFGASFGPVILLSLFWRRMTKWGALAGMVAGALTVILWTQSEYLKGLLYEMIPGFAASLVAIVVVSLLTKAPEGKVAEQFDQFKRSLS
>NC_022080.4|WP_020961611.1|3395507_3396368_+|carbon-nitrogen-hydrolase-family-protein
MRVSAVQYHLHTIGSFDEFAAQVTHYVKTAQEFDAEFVLFPEFLTTQLLSIPLDGGRRATINDLPDYTEKYTELFTSLAKDTGMYLIGGTHVIRQNGKLYNVAHLFTPDGTVHRQAKLHITPTEVNEWNIAPGDGLHVFETDKATIAILTCYDIEFPEIVRLARAKGADVIFCPSCTDDRHGFYRVRYCCHARAVENEVYVVTTGTVGSLPTVDFMRANFGQAAVITPNDIPFPQGGVLASGEINGDMVVTADLDLSLLRKVREKGSVTTWRDRRTDLYPDWNTMA
>NC_022080.4|WP_020961622.1|3407461_3408988_+|FAD-dependent-oxidoreductase
MSFLPSTFEPYWRDSVPLPSFPKLEEDIAVDVAVVGGGISGITTAYLLATQGVRVALLEADRLLNGTTGHTTAKLTAQHDLVYDEFLNHFGTEKARLYYDACMDALGFIRRTVEQHRIDCDFCEQDAYIYTTSSSSFQKLVKEWEAYERLGIDGAFVESIPLPLPVKAAVVMKRQAQFHPLKYLVKLVDALVQAGSAIYEYTPVADIEQGERLSVVTRDKKRVECSHVAVCSHFPFYDGGFYFSRMYAERSYVLGVTTAEPYPGGMYLSADDPKRSVRSAAANGETLILIGGENHKTGQGVPTMRHYEALSSFASQLFTVKDIRYRWSAQDLTTLDKMPYIGPMTADTPHIYVATGYRKWGMTNGTAAGMLLSDLILGRDNRYRDLYSPSRFYADPSVRQFFTTNLDVAKHLVAGKIEAAGRRPQDLARGEGAVVSVNGKRAGAYKDEAGTLHVVDTTCTHMGCELEWNSGDKTWDCPCHGSRFSIDGDVVEGPAKQPLKRLELDESP
>NC_022080.4|WP_020961623.1|3409163_3410126_+|mannose-6-phosphate-isomerase,-class-I
MYQEPIFLTPVFQERIWGGTKLAERFGYDIPSAQTGECWAVSAHPHGQTIVARGPFQGMTLGQLWEERRDLFGHFPSDRFPLLTKILDANADLSVQVHPDDEYAKTHEGGELGKTECWYIIDCKPGAELIYGHHAETKGQLRAMMEAGEWERLLRKVPIRPGDFFYVPSGTIHALCEGTLVLETQQSSDTTYRVYDYDRVDSQGRKRELHLEKAIDVTTVPHRDTDVRPHVAEVPGATVTTFVEGDYFGVQKWEIRDVLESEQTKPFLIISILEGEGELVHEGRIYPLRKGDHFILPHQFGLFAIRGVLEAIASWPRTGK
>NC_022080.4|WP_020961624.1|3410170_3411325_-|glycerate-kinase
MKIVIAPDSFKESLSALEVAEAVERGFQAVFPQAEYVKVPMADGGEGTVQSLVDATGGRVVETEVTGPLGEPVRAFFGLLGDGKTAVIEMAAASGLHLVPRDRRNPLVTTTRGTGELIRAALDAGATHLIIGLGGSATNDGGAGMVQALGGRLLDRDGRDIGPGGGALAHLQSIDLSGLDPRLEGVRIDVACDVDNPLTGPKGASAIFGPQKGATPDMVAVLDQNLAHYADVISRELGKQIGAIPGAGAAGGLGAGLLAFLPAELKRGVEIVIETVQLAERIKGADLVITGEGRIDGQTIFGKTPIGVAKTAKRFGVPVIGIAGSLGDDSAVVLDHGIDALFTIVPGVIPLEKAFEQAEQYVTQTARHIASVYRLGQIGKDSSR
>NC_022080.4|WP_020961625.1|3411934_3413173_+|GGDEF-domain-containing-protein
MLLRARPIIFAVFFLSITVAFVSKPTFFDRPYMTALLFYWLFSSLYSHLRVVDKTKNNIPVDYGINYSLSFALFAGPLGLLIFETLFRLTEHMTKKYLKTAESDEWLHTLYNIGSFVTFNSLAFALYDFLHPLFRPIPFIGFWLLIFLLVIIVSFLTDCCLIMIFYITGDIRTQREALDFIKTRSWTDMGKTALTNGLLFLFLQEQRWDMLLSLFLLNYFVSRSFFSKSQSIQHKLERDHFERMAYTDFLTGVHNRAYMDQTIAKLNKTGEWIGVVVADIDNFKAINDTYNHAVGDEVIRHFALTLKQFLNEDDFLFRSGGEEFTMFLRHRTFEESVQLVEGIRETVRHSTVLVDDGAAKRPVAYTSSFGLYFFQTGEAISIEKAYVYADHLLLHSKESGKNKVSAQCGGVA
>NC_022080.4|WP_020961626.1|3413352_3414282_+|NAD-dependent-epimerase/dehydratase-family-protein
MKVLVTGGCGFIGSHIVDLLVESGYDSAVIDNLSTGSAAFLHPEAKWHHVDLLSQTDVDAVFAHEKPDYVIHQAAQTSVPASIADPSADALINIFGTLTVLHCCVKYNVKKIIFASSCAVYGDAGDTSITESSPVRPTSFYAASKQMGELYIRLFHRYYGLTYTILRYANVYGPRQSAKNEGGVVAALIRKQLAKEPPVIFGDGNQTRDFVFVKDVAWANVLSLTKGDNDTFNIGTNQGTTINELAALIASFFPSPTRCLYHPERPGDIRHSRLNAEQANRQLGWLPKYDLETGLAETVRFYRSNNFTK
>NC_022080.4|WP_020961627.1|3414501_3415266_+|glycosyltransferase-family-8-protein
MIHLVTATNDAYALPLGVMLTSLFVNKTSEYPVIVYILYETLSDKNKQNIEKIVNSYKQQSIFLPITDPIFTQLKETNYITKEMYYRIAIPDLLGPEVKKVLYLDCDLIVKKDISELWETNIDDCFVAAVESVDAQGRKNDLLIPDGYHYFNSGVLLINVEKWREHHISSKVFEFIQTHPEKLVHPDQDALNAVLYDKWLPLHPKWNYTTGHIKLPRLHTKPVIIHFTGRKKPWDTGHPLAKQYFKYRKKVDWE
>NC_022080.4|WP_020961628.1|3415422_3415902_-|23S-rRNA-(pseudouridine(1915)-N(3))-methyltransferase-RlmH
MHICIAAVGKLKEKYLIQGVNEYTKRLSAYAKIEIIEVADEKTSERASELEEEQVKQREGERLLAKIPHDAYVIALAIEGKMRSSEQFAARLDELATYGKSKIVFVIGGSLGLSKQVMARANEALSFSKMTFPHQLMRLILLEQIYRAFRINRGEPYHK
>NC_022080.4|WP_020961629.1|3415985_3416135_-|CxxH/CxxC-protein
MIFTCEEHIDVAIDEYVEETEQAPDISPVDNNERPCWFCGKKAVYVVGN
>NC_022080.4|WP_020961630.1|3416198_3417416_-|PDZ-domain-containing-protein
MGYYDDHYESREQMKRKRRSGSFVSALVGAILGGLLVLMSIPALSRWDVLPYDVVPPQGREEERGGENGAPPIRQSVSVDVTTAVTTAINQVSEAVVGVVNIQQAGFWSQGGEEGVGSGVIYKKAGGRAFIVTNHHVVENASQLEVSLKDGTRVPAKLLGSDVLMDLAVLEIDAKHVKKVAEFGDSDAVKPGEPVIAIGNPLGLQFAGSVTQGIISGTNRTVEVDLDQDGAPDWNAEVLQTDAAINPGNSGGALVNIKGQVIGINSMKIAQEAVEGIGFAIPINAAIPIISDLEKYGQVRRPYMGVELRSLSDIPSYHLQATLHLPLNVTEGVAVIQVVPMSPAAQAGLQQFDVIVALDGEKIRNVLDLRKYLYTEKSIGDRMEVTFYRDGEKRTVTMKLARESY
>NC_022080.4|WP_023817796.1|3417517_3418312_-|MBL-fold-metallo-hydrolase
MTMRFSVLASGSTGNAFYVETNRQRLLVDAGLSGKQLEQLFAEIDRHPKQLDALLVTHEHSDHIKGLGVLARKYRLPVYANEKTWQAMGQAIGDIPSEQKFVFPLGAVRTFGDVDVESFGVSHDAAEPMFYVFHYGGKKLALLTDTGYVSERMKKTIENADVFVFESNHDVGMLRMGRYPWNVKRRILSDVGHISNEEAGLALADVIGERTKQIYLAHLSQDNNMKELARMTVAQTLEQRGLAVGAGFRLYDTDPRKATALAYV

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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
NC_022080_1	1.2\|301747\|29\|NC_022080\|PILER-CR,CRISPRCasFinder,CRT	301747-301775	29	NZ_AP022559	Geobacillus subterraneus strain E55-1 plasmid pGspE55-2, complete sequence	2942-2970	0	1.0
NC_022080_1	1.4\|301878\|30\|NC_022080\|PILER-CR,CRISPRCasFinder,CRT	301878-301907	30	NZ_AP022559	Geobacillus subterraneus strain E55-1 plasmid pGspE55-2, complete sequence	27096-27125	1	0.967
NC_022080_1	1.5\|301944\|30\|NC_022080\|PILER-CR,CRISPRCasFinder,CRT	301944-301973	30	NC_009552	Geobacillus virus E2, complete genome	37407-37436	1	0.967
NC_022080_1	1.3\|301812\|30\|NC_022080\|PILER-CR,CRISPRCasFinder,CRT	301812-301841	30	NC_007974	Cupriavidus metallidurans CH34 megaplasmid, complete sequence	2559981-2560010	5	0.833
NC_022080_1	1.3\|301812\|30\|NC_022080\|PILER-CR,CRISPRCasFinder,CRT	301812-301841	30	NZ_CP046333	Cupriavidus metallidurans strain FDAARGOS_675 plasmid unnamed3	1067325-1067354	5	0.833
NC_022080_1	1.3\|301812\|30\|NC_022080\|PILER-CR,CRISPRCasFinder,CRT	301812-301841	30	KY940711	Bradyrhizobium phage BDU-MI-1, complete genome	111867-111896	5	0.833
NC_022080_1	1.6\|302010\|30\|NC_022080\|PILER-CR,CRISPRCasFinder,CRT	302010-302039	30	NC_012109	Desulfobacterium autotrophicum HRM2 plasmid pHRM2a, complete sequence	1258-1287	7	0.767
NC_022080_1	1.6\|302010\|30\|NC_022080\|PILER-CR,CRISPRCasFinder,CRT	302010-302039	30	MT700412	Bacillus phage 1_ICo-2020, complete genome	25789-25818	7	0.767
NC_022080_1	1.1\|301681\|30\|NC_022080\|PILER-CR,CRISPRCasFinder,CRT	301681-301710	30	NZ_CP051164	Geobacillus subterraneus strain CPW16 plasmid pBsrF30, complete sequence	4757-4786	8	0.733
NC_022080_1	1.5\|301944\|30\|NC_022080\|PILER-CR,CRISPRCasFinder,CRT	301944-301973	30	MN694548	Marine virus AFVG_250M139, complete genome	6291-6320	8	0.733

1. spacer 1.2|301747|29|NC_022080|PILER-CR,CRISPRCasFinder,CRT matches to NZ_AP022559 (Geobacillus subterraneus strain E55-1 plasmid pGspE55-2, complete sequence) position: , mismatch: 0, identity: 1.0

tcctgcaacgtggtaatctcatcatgctc	CRISPR spacer
tcctgcaacgtggtaatctcatcatgctc	Protospacer
*****************************

2. spacer 1.4|301878|30|NC_022080|PILER-CR,CRISPRCasFinder,CRT matches to NZ_AP022559 (Geobacillus subterraneus strain E55-1 plasmid pGspE55-2, complete sequence) position: , mismatch: 1, identity: 0.967

ctacgggcgcgagagaggccttctcgaagc	CRISPR spacer
atacgggcgcgagagaggccttctcgaagc	Protospacer
 *****************************

3. spacer 1.5|301944|30|NC_022080|PILER-CR,CRISPRCasFinder,CRT matches to NC_009552 (Geobacillus virus E2, complete genome) position: , mismatch: 1, identity: 0.967

taataccatgaaggcatggctgagatcgtg	CRISPR spacer
aaataccatgaaggcatggctgagatcgtg	Protospacer
 *****************************

4. spacer 1.3|301812|30|NC_022080|PILER-CR,CRISPRCasFinder,CRT matches to NC_007974 (Cupriavidus metallidurans CH34 megaplasmid, complete sequence) position: , mismatch: 5, identity: 0.833

cggcgtgtt--cctcgaacatgcgccagccga	CRISPR spacer
--gcgtcctggcctcgaacatgcgccacccga	Protospacer
  **** .*  **************** ****

5. spacer 1.3|301812|30|NC_022080|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP046333 (Cupriavidus metallidurans strain FDAARGOS_675 plasmid unnamed3) position: , mismatch: 5, identity: 0.833

cggcgtgtt--cctcgaacatgcgccagccga	CRISPR spacer
--gcgtcctggcctcgaacatgcgccacccga	Protospacer
  **** .*  **************** ****

6. spacer 1.3|301812|30|NC_022080|PILER-CR,CRISPRCasFinder,CRT matches to KY940711 (Bradyrhizobium phage BDU-MI-1, complete genome) position: , mismatch: 5, identity: 0.833

cggcgtg-ttcctcgaacatgcgccagccga	CRISPR spacer
-ggcaggcttcctcgaacttgcgccagcaga	Protospacer
 ***. * ********** ********* **

7. spacer 1.6|302010|30|NC_022080|PILER-CR,CRISPRCasFinder,CRT matches to NC_012109 (Desulfobacterium autotrophicum HRM2 plasmid pHRM2a, complete sequence) position: , mismatch: 7, identity: 0.767

--ataacgaacagcaagtgaacaggaggacaa	CRISPR spacer
gagcaacag--agcaagtgaacaagaggacaa	Protospacer
  ..***..  ************.********

8. spacer 1.6|302010|30|NC_022080|PILER-CR,CRISPRCasFinder,CRT matches to MT700412 (Bacillus phage 1_ICo-2020, complete genome) position: , mismatch: 7, identity: 0.767

ataacgaacagcaagtgaacaggaggacaa	CRISPR spacer
ggaaatgacagtaattgaacaggaggacaa	Protospacer
. **  .****.** ***************

9. spacer 1.1|301681|30|NC_022080|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP051164 (Geobacillus subterraneus strain CPW16 plasmid pBsrF30, complete sequence) position: , mismatch: 8, identity: 0.733

aaattcaaaacagaaataccgtttcttgta	CRISPR spacer
tgtatcaaaacagaaacaccgtttgtttca	Protospacer
 .  ************.******* ** .*

10. spacer 1.5|301944|30|NC_022080|PILER-CR,CRISPRCasFinder,CRT matches to MN694548 (Marine virus AFVG_250M139, complete genome) position: , mismatch: 8, identity: 0.733

taataccatgaaggcatggctgagatcgtg	CRISPR spacer
gcaccccatgaaggcatggctgggatgtcg	Protospacer
  *. *****************.***  .*

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

259204 : 267562

Synechococcus_phage(33.33%)

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
WP_020958486.1\|259204_260500_+	adenylosuccinate lyase	A0A1B3B081	Gordonia_phage	2.9e-18	33.6
WP_020958487.1\|260574_261303_+	phosphoribosylaminoimidazolesuccinocarboxamide synthase	A0A0E3HI61	Synechococcus_phage	6.0e-45	41.2
WP_020958488.1\|261290_261545_+	phosphoribosylformylglycinamidine synthase subunit PurS	NA	NA	NA	NA
WP_020958489.1\|261541_262228_+	phosphoribosylformylglycinamidine synthase subunit PurQ	NA	NA	NA	NA
WP_020958490.1\|262211_264440_+	phosphoribosylformylglycinamidine synthase subunit PurL	A6N228	Microbacterium_phage	1.1e-169	42.4
WP_020958491.1\|264415_265828_+	amidophosphoribosyltransferase	A0A0M3SGR2	Mollivirus	6.4e-51	34.2
WP_020958492.1\|265892_266933_+	phosphoribosylformylglycinamidine cyclo-ligase	A0A0E3FZ01	Synechococcus_phage	1.4e-66	45.0
WP_020958493.1\|266929_267562_+	phosphoribosylglycinamide formyltransferase	E3SNR5	Prochlorococcus_phage	8.3e-27	38.5

DBSCAN-SWA_2

284506 : 331426

Pandoravirus(10.0%)

tRNA,transposase,holin

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_020958508.1\|284506_284797_+\|tRNA	Asp-tRNA(Asn)/Glu-tRNA(Gln) amidotransferase subunit GatC	NA	NA	NA	NA
WP_020958509.1\|284809_286267_+\|tRNA	Asp-tRNA(Asn)/Glu-tRNA(Gln) amidotransferase subunit GatA	NA	NA	NA	NA
WP_020958510.1\|286280_287711_+\|tRNA	Asp-tRNA(Asn)/Glu-tRNA(Gln) amidotransferase subunit GatB	NA	NA	NA	NA
WP_020958511.1\|287897_289202_+	homocysteine synthase	A0A0B5JD48	Pandoravirus	1.4e-20	26.9
WP_020958512.1\|289414_290044_-	ABC transporter permease	NA	NA	NA	NA
WP_020958513.1\|290281_291409_-\|holin	betaine/proline/choline family ABC transporter ATP-binding protein	G3M9Y6	Bacillus_virus	6.5e-30	36.0
WP_020958514.1\|291425_292328_-	glycine/betaine ABC transporter substrate-binding protein	NA	NA	NA	NA
WP_020958516.1\|292781_293219_-	hypothetical protein	NA	NA	NA	NA
WP_020958517.1\|293360_294869_+	TIGR02677 family protein	NA	NA	NA	NA
WP_020958518.1\|294852_296049_+	TIGR02678 family protein	NA	NA	NA	NA
WP_041267822.1\|296008_300130_+	TIGR02680 family protein	NA	NA	NA	NA
WP_020958520.1\|300126_301347_+	TIGR02679 family protein	NA	NA	NA	NA
WP_020958521.1\|302240_302549_-	CRISPR-associated endonuclease Cas2	NA	NA	NA	NA
WP_020958522.1\|302553_303453_-	type II CRISPR-associated endonuclease Cas1	NA	NA	NA	NA
WP_041267823.1\|303382_306646_-	type II CRISPR RNA-guided endonuclease Cas9	NA	NA	NA	NA
WP_020958525.1\|307743_308796_+	P1 family peptidase	NA	NA	NA	NA
WP_020958526.1\|309062_310304_-	MFS transporter	NA	NA	NA	NA
WP_128754814.1\|310344_310635_-	hypothetical protein	NA	NA	NA	NA
WP_020958527.1\|310688_311342_-	PspA/IM30 family protein	NA	NA	NA	NA
WP_020958528.1\|311301_311826_-	hypothetical protein	NA	NA	NA	NA
WP_041267722.1\|312498_313872_-	GHKL domain-containing protein	Q8QKV7	Ectocarpus_siliculosus_virus	2.2e-11	25.9
WP_020958532.1\|313852_314524_-	response regulator transcription factor	W8CYM9	Bacillus_phage	1.7e-33	37.1
WP_041267824.1\|314702_315122_+	PepSY domain-containing protein	NA	NA	NA	NA
WP_020958534.1\|315334_316540_+	PDZ domain-containing protein	W5SAB9	Pithovirus	3.1e-14	32.2
WP_012749541.1\|317227_317980_+	hypothetical protein	NA	NA	NA	NA
WP_020958536.1\|318447_319623_+\|transposase	ISL3 family transposase	NA	NA	NA	NA
WP_148294922.1\|319641_320076_+	hypothetical protein	NA	NA	NA	NA
WP_020958542.1\|321703_322072_+	hypothetical protein	NA	NA	NA	NA
WP_012748944.1\|322248_322647_+\|transposase	IS200/IS605 family transposase	A0A286QN76	Streptococcus_phage	1.0e-51	72.0
WP_020958543.1\|322659_323769_+\|transposase	IS200/IS605 family element transposase accessory protein TnpB	A0A288TXV8	Enterococcus_phage	1.3e-83	48.0
WP_020958546.1\|324464_324827_+	DUF962 domain-containing protein	NA	NA	NA	NA
WP_020958547.1\|324924_325815_-\|transposase	transposase	NA	NA	NA	NA
WP_020958548.1\|326029_326569_+	hypothetical protein	NA	NA	NA	NA
WP_020958549.1\|326590_328108_+	flotillin family protein	A0A2I2L4B2	Orpheovirus	3.6e-07	27.6
WP_041267827.1\|328252_329173_+	diacylglycerol kinase	A0A1V0SBJ0	Catovirus	6.0e-26	30.6
WP_020958551.1\|329250_330624_+	23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD	A0A2K5B251	Erysipelothrix_phage	1.4e-122	48.1
WP_081713486.1\|331174_331426_-\|transposase	transposase	NA	NA	NA	NA

DBSCAN-SWA_3

898536 : 906493

Pneumococcus_phage(33.33%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_041267863.1\|898536_899202_+	7-cyano-7-deazaguanine synthase QueC	A0A2H4J8Q7	uncultured_Caudovirales_phage	1.3e-65	57.0
WP_020959125.1\|899198_899636_+	6-carboxytetrahydropterin synthase QueD	A0A1U9WRB3	Streptococcus_virus	2.8e-05	35.8
WP_020959126.1\|899635_900370_+	7-carboxy-7-deazaguanine synthase QueE	E7DN68	Pneumococcus_phage	3.8e-55	45.0
WP_020959127.1\|900421_900919_+	NADPH-dependent 7-cyano-7-deazaguanine reductase QueF	E7DN65	Pneumococcus_phage	1.7e-51	67.9
WP_020959128.1\|900964_901660_+	NAD(P)H-binding protein	NA	NA	NA	NA
WP_020959129.1\|901693_901876_-	YkvS family protein	NA	NA	NA	NA
WP_020959130.1\|902047_902578_-	LysM peptidoglycan-binding domain-containing protein	A0A0E3XAL9	Bacillus_phage	1.1e-35	50.3
WP_020959131.1\|902770_902965_-	hypothetical protein	NA	NA	NA	NA
WP_020959132.1\|903136_903829_+	hypothetical protein	NA	NA	NA	NA
WP_020959133.1\|904082_904832_+	glucose 1-dehydrogenase	NA	NA	NA	NA
WP_023817537.1\|904896_905142_+	hypothetical protein	NA	NA	NA	NA
WP_020959135.1\|905197_906493_+	PAS domain-containing protein	A0A1V0SGX0	Hokovirus	3.8e-18	27.6

DBSCAN-SWA_4

1398205 : 1463943

Anomala_cuprea_entomopoxvirus(16.67%)

transposase,coat,integrase

attL 1385980:1385996|attR 1458755:1458771

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
1385980:1385996	attL	NA	NA	NA	NA
WP_020959603.1\|1398205_1399489_+\|transposase	IS110 family transposase	NA	NA	NA	NA
WP_020959604.1\|1400013_1401408_-	ferrous iron transporter B	NA	NA	NA	NA
WP_020959605.1\|1401376_1402111_-	GTP-binding protein	NA	NA	NA	NA
WP_020959606.1\|1402103_1402358_-	ferrous iron transport protein A	NA	NA	NA	NA
WP_081713465.1\|1402641_1404645_+	acetoacetate--CoA ligase	NA	NA	NA	NA
WP_020959608.1\|1404821_1407041_+	GAF domain-containing protein	NA	NA	NA	NA
WP_020959609.1\|1407151_1408012_+	3-hydroxyacyl-CoA dehydrogenase family protein	NA	NA	NA	NA
WP_020959610.1\|1408110_1408890_+	crotonase	NA	NA	NA	NA
WP_020959611.1\|1409002_1410577_+	AMP-binding protein	A0A2H4PQM9	Staphylococcus_phage	5.1e-33	29.6
WP_128754820.1\|1410590_1412351_+	acyl-CoA dehydrogenase	NA	NA	NA	NA
WP_020959613.1\|1412437_1413616_+	acetyl-CoA C-acetyltransferase	NA	NA	NA	NA
WP_041267891.1\|1413786_1415088_+	MFS transporter	NA	NA	NA	NA
WP_023817589.1\|1415863_1417072_+	ABC transporter substrate-binding protein	NA	NA	NA	NA
WP_020959616.1\|1417090_1417963_+	branched-chain amino acid ABC transporter permease	NA	NA	NA	NA
WP_020959617.1\|1417959_1418949_+	branched-chain amino acid ABC transporter permease	NA	NA	NA	NA
WP_020959148.1\|1419057_1420341_+\|transposase	IS110 family transposase	NA	NA	NA	NA
WP_020959618.1\|1420734_1421505_+	ABC transporter ATP-binding protein	W6JKT0	Anomala_cuprea_entomopoxvirus	8.4e-13	25.9
WP_020959619.1\|1421497_1422190_+	ABC transporter ATP-binding protein	W6JKT0	Anomala_cuprea_entomopoxvirus	3.6e-15	28.8
WP_020959620.1\|1422350_1422755_-	DUF1259 domain-containing protein	NA	NA	NA	NA
WP_020959621.1\|1423022_1423430_-	hypothetical protein	NA	NA	NA	NA
WP_020959622.1\|1423587_1424559_+	ABC transporter ATP-binding protein	A0A2R8FG22	Brazilian_cedratvirus	8.3e-18	33.2
WP_020959623.1\|1424555_1425329_+	ABC transporter permease	NA	NA	NA	NA
WP_020959624.1\|1425331_1426120_+	multidrug transporter	NA	NA	NA	NA
WP_020959625.1\|1426446_1426845_+	MerR family DNA-binding transcriptional regulator	NA	NA	NA	NA
WP_020959628.1\|1427583_1428693_-\|transposase	IS200/IS605 family element transposase accessory protein TnpB	A0A288TXV8	Enterococcus_phage	7.6e-84	48.6
WP_020959629.1\|1429415_1430552_+\|transposase	IS110 family transposase	Q9JMN8	Wolbachia_phage	4.3e-42	29.4
WP_020959631.1\|1432280_1434116_+	sodium:proton antiporter	NA	NA	NA	NA
WP_020959632.1\|1434175_1435111_+	alpha/beta fold hydrolase	NA	NA	NA	NA
WP_020959633.1\|1435205_1435874_+	SOS response-associated peptidase	A0A1P8CX02	Bacillus_phage	5.7e-34	51.8
WP_020959634.1\|1435887_1436292_+	DUF393 domain-containing protein	NA	NA	NA	NA
WP_020959635.1\|1436349_1436529_+	hypothetical protein	NA	NA	NA	NA
WP_081713466.1\|1436866_1437712_-	hypothetical protein	NA	NA	NA	NA
WP_020959637.1\|1437750_1438416_-	ABC transporter permease	NA	NA	NA	NA
WP_020959638.1\|1438405_1439419_-	methionine ABC transporter ATP-binding protein	G9BWD6	Planktothrix_phage	1.2e-30	35.9
WP_020959639.1\|1439811_1441344_+	bifunctional ADP-dependent NAD(P)H-hydrate dehydratase/NAD(P)H-hydrate epimerase	NA	NA	NA	NA
WP_020959640.1\|1441512_1441764_-	hypothetical protein	NA	NA	NA	NA
WP_020959641.1\|1442149_1443586_-\|integrase,transposase	DDE-type integrase/transposase/recombinase	A0A1X9I6E7	Streptococcus_phage	4.4e-07	26.2
WP_020959642.1\|1443757_1444384_+	LysE family transporter	NA	NA	NA	NA
WP_020959643.1\|1444427_1445753_-	amino acid permease	NA	NA	NA	NA
WP_020959644.1\|1445911_1446340_+	GNAT family N-acetyltransferase	NA	NA	NA	NA
WP_020959645.1\|1446472_1447228_+	IclR family transcriptional regulator	NA	NA	NA	NA
WP_020959646.1\|1447224_1447911_+	5-oxoprolinase subunit PxpB	NA	NA	NA	NA
WP_020959647.1\|1447903_1448875_+	biotin-dependent carboxyltransferase	NA	NA	NA	NA
WP_020959648.1\|1448871_1449627_+	LamB/YcsF family protein	NA	NA	NA	NA
WP_020959650.1\|1450349_1451186_+	HAD family hydrolase	NA	NA	NA	NA
WP_020959651.1\|1451388_1453071_+	long-chain fatty acid--CoA ligase	NA	NA	NA	NA
WP_020959652.1\|1453070_1454051_+	phosphotriesterase-related protein	NA	NA	NA	NA
WP_041267751.1\|1454185_1455892_+	membrane protein	NA	NA	NA	NA
WP_020959654.1\|1455893_1456916_+	glycosyltransferase family 2 protein	A8CG95	Salmonella_phage	5.4e-52	39.7
WP_020959655.1\|1457097_1457907_+	hydroxyethylthiazole kinase	NA	NA	NA	NA
WP_020959656.1\|1457924_1458725_+	bifunctional hydroxymethylpyrimidine kinase/phosphomethylpyrimidine kinase	NA	NA	NA	NA
WP_020959657.1\|1458730_1459399_+	thiamine phosphate synthase	NA	NA	NA	NA
1458755:1458771	attR	NA	NA	NA	NA
WP_020959658.1\|1459453_1460449_-	acyltransferase family protein	NA	NA	NA	NA
WP_041267752.1\|1460564_1460750_+	hypothetical protein	NA	NA	NA	NA
WP_020959660.1\|1460752_1460932_+	H-type small acid-soluble spore protein	NA	NA	NA	NA
WP_020959661.1\|1461040_1461211_+	twin-arginine translocase TatA/TatE family subunit	NA	NA	NA	NA
WP_041267895.1\|1461408_1461984_+	membrane protein	M1Q1P6	Streptococcus_phage	1.3e-13	27.8
WP_020959663.1\|1462191_1463556_-	peptidase S8	A0A2K9L1P3	Tupanvirus	8.1e-27	38.5
WP_020959664.1\|1463652_1463943_-\|coat	spore coat protein	NA	NA	NA	NA

DBSCAN-SWA_5

2129117 : 2139825

Pandoravirus(25.0%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_020960317.1\|2129117_2130137_-	anthranilate phosphoribosyltransferase	A0A0N7IRD9	Acinetobacter_phage	1.4e-68	43.4
WP_020960318.1\|2130130_2131657_-	anthranilate synthase component I	A0A0B5J984	Pandoravirus	1.0e-33	37.7
WP_020960319.1\|2131887_2132268_-	chorismate mutase	NA	NA	NA	NA
WP_041267771.1\|2132264_2133365_-	3-dehydroquinate synthase	E5ERI4	Ostreococcus_lucimarinus_virus	3.1e-21	28.5
WP_020960321.1\|2133367_2134534_-	chorismate synthase	A0A291AU41	Pandoravirus	6.9e-43	36.7
WP_020960322.1\|2134632_2135403_-	protein-glutamate O-methyltransferase CheR	NA	NA	NA	NA
WP_020960323.1\|2135486_2135936_-	nucleoside-diphosphate kinase	D2E8E1	Anguillid_herpesvirus	5.4e-28	46.2
WP_020960324.1\|2136034_2136997_-	heptaprenyl diphosphate synthase component II	A0A1V0SE37	Indivirus	3.8e-07	24.8
WP_020960325.1\|2137012_2137717_-	demethylmenaquinone methyltransferase	NA	NA	NA	NA
WP_051391594.1\|2137721_2138501_-	heptaprenyl diphosphate synthase component 1	NA	NA	NA	NA
WP_020960327.1\|2138615_2138840_-	trp RNA-binding attenuation protein MtrB	NA	NA	NA	NA
WP_020960328.1\|2138852_2139419_-	GTP cyclohydrolase I FolE	E7DN69	Pneumococcus_phage	3.1e-49	53.8
WP_008879623.1\|2139552_2139825_-	HU family DNA-binding protein	A7KV42	Bacillus_phage	3.5e-30	78.9

DBSCAN-SWA_6

2202735 : 2212020

Staphylococcus_phage(50.0%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_023817674.1\|2202735_2204013_-	superoxide dismutase	Q56AR7	Bacillus_thuringiensis_phage	5.6e-38	43.6
WP_020960403.1\|2204204_2205014_+	DUF2935 domain-containing protein	A0A2I2L551	Orpheovirus	5.6e-44	39.1
WP_020960404.1\|2205256_2205655_-	hypothetical protein	NA	NA	NA	NA
WP_041267951.1\|2205701_2206331_-	SMC-Scp complex subunit ScpB	A0A1B1IVT7	uncultured_Mediterranean_phage	1.6e-14	35.3
WP_020960406.1\|2206524_2207283_-	segregation/condensation protein A	A0A1B1IVW1	uncultured_Mediterranean_phage	4.2e-09	26.0
WP_020960407.1\|2207538_2208051_+	DUF309 domain-containing protein	NA	NA	NA	NA
WP_020960408.1\|2208106_2208457_-	GNAT family N-acetyltransferase	NA	NA	NA	NA
WP_020960409.1\|2208577_2209042_-	6,7-dimethyl-8-ribityllumazine synthase	A0A2H4PQS3	Staphylococcus_phage	1.8e-42	59.7
WP_020960410.1\|2209059_2210253_-	bifunctional 3,4-dihydroxy-2-butanone-4-phosphate synthase/GTP cyclohydrolase II	A0A2H4PQS2	Staphylococcus_phage	3.7e-116	53.6
WP_020960411.1\|2210275_2210920_-	riboflavin synthase	A0A2H4PQS5	Staphylococcus_phage	9.7e-39	42.6
WP_023817677.1\|2210922_2212020_-	bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase RibD	A0A2H4PQS8	Staphylococcus_phage	2.1e-54	39.5

DBSCAN-SWA_7

2986409 : 2995002

Bacillus_phage(33.33%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_020961233.1\|2986409_2988050_-	mercury(II) reductase	A0A2K5B2C5	Erysipelothrix_phage	1.0e-47	29.4
WP_020961234.1\|2988132_2988408_-	hypothetical protein	NA	NA	NA	NA
WP_020961235.1\|2988790_2990074_-	peptidoglycan DD-metalloendopeptidase family protein	A0A7K9	Microcystis_virus	6.0e-16	41.7
WP_020961236.1\|2990106_2991000_-	ABC transporter permease	NA	NA	NA	NA
WP_020961237.1\|2990989_2991676_-	cell division ATP-binding protein FtsE	G9BWD6	Planktothrix_phage	5.3e-27	36.3
WP_020961238.1\|2991898_2992237_-	cytochrome c	NA	NA	NA	NA
WP_020961239.1\|2992299_2993163_-	YitT family protein	NA	NA	NA	NA
WP_023817745.1\|2993299_2993560_-	type II toxin-antitoxin system RelE/ParE family toxin	A0A125RQ76	Bacillus_phage	1.3e-29	67.4
WP_011232575.1\|2993528_2993789_-	hypothetical protein	A0A125RQ77	Bacillus_phage	4.2e-17	52.9
WP_128754848.1\|2993897_2995002_-	peptide chain release factor 2	A0A0S4KWG0	Pseudomonas_phage	2.4e-05	39.0

DBSCAN-SWA_8

3416198 : 3425939

uncultured_Mediterranean_phage(16.67%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_020961630.1\|3416198_3417416_-	PDZ domain-containing protein	A0A1B1IT49	uncultured_Mediterranean_phage	4.0e-17	28.4
WP_023817796.1\|3417517_3418312_-	MBL fold metallo-hydrolase	A0A0C5AJ83	Bacteriophage	8.5e-45	37.3
WP_020961632.1\|3418318_3419101_-	hypothetical protein	NA	NA	NA	NA
WP_020961633.1\|3419087_3420416_-	hypothetical protein	NA	NA	NA	NA
WP_020961634.1\|3420408_3422238_-	cell wall metabolism sensor histidine kinase WalK	A0A1V0SGX0	Hokovirus	4.7e-22	27.0
WP_020961635.1\|3422244_3422958_-	response regulator transcription factor	W8CYM9	Bacillus_phage	1.3e-44	41.9
WP_020961636.1\|3423141_3424428_-	adenylosuccinate synthase	A0A2P1EKE7	Megavirus	3.0e-71	36.2
WP_020961637.1\|3424574_3425939_-	replicative DNA helicase	A0A1P8VVQ6	Streptococcus_phage	6.0e-123	52.8

Anti-CRISPR protein detection

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

2. NC_022092

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CRISPR-Cas detection and classification

Crispr_ID: NC_022092_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_022092_1

32525-32663

Orphan

Consensus_repeat	Method
TACATTTTTGGTGTTAGGCGTACATTTTTGGTG	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_022092_1

>merge|NC_022092|1|32525-32663|CRISPRCasFinder
CATTTTTGGTTTCTTTGACGTACATTTTTGGTGTTTATCTCATACATTTTTGGTGTTAGGCGTACATTTTTGGTGTTTATCTCGTACATTTTTGGTTATTTCAGCGTACATTTTTGGTGTTAGACGTACATTTTTGGTG

>NC_022092|1|1|32525-32663|CRISPRCasFinder
CATTTTTGGTTTCTTTGACGTACATTTTTGGTG	TTTATCTCATACATTTTTGGTGTTAGGCGTACATTTTTGGTGTTTATCTCGTACATTTTTGGTTATTTCAGCG
TACATTTTTGGTGTTAGACGTACATTTTTGGTG

Protein	Signature genes	Signature genes Name	Protein_function
NC_022092.1\|WP_020961688.1\|29484_30015_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|368849
NC_022092.1\|WP_031213304.1\|30311_30719_+\|ribbon-helix-helix-protein,-CopG-family	unknown	unknown	unknown
NC_022092.1\|WP_020961687.1\|29121_29343_-\|DUF1659-domain-containing-protein	unknown	unknown	gnl\|CDD\|377933
NC_022092.1\|WP_020961682.1\|25180_26500_-\|hypothetical-protein	unknown	unknown	unknown
NC_022092.1\|WP_078172677.1\|35215_36283_+\|nuclease	unknown	unknown	gnl\|CDD\|214615
NC_022092.1\|WP_020961685.1\|28189_28660_-\|M15-family-metallopeptidase	unknown	unknown	gnl\|CDD\|350620
NC_022092.1\|WP_020961686.1\|28890_29103_-\|DUF2922-domain-containing-protein	unknown	unknown	gnl\|CDD\|378571
NC_022092.1\|WP_020961693.1\|34067_35138_+\|DUF4236-domain-containing-protein	unknown	unknown	gnl\|CDD\|379423
NC_022092.1\|WP_011229514.1\|28679_28826_-\|YvrJ-family-protein	unknown	unknown	gnl\|CDD\|378969
NC_022092.1\|WP_020961692.1\|32834_33983_+\|replication-initiation-protein	unknown	unknown	gnl\|CDD\|376444
NC_022092.1\|WP_020961684.1\|27438_28008_-\|site-specific-integrase	unknown	unknown	gnl\|CDD\|271192
NC_022092.1\|WP_020961691.1\|31604_31892_+\|hypothetical-protein	unknown	unknown	unknown
NC_022092.1\|WP_020961690.1\|30823_31621_+\|ParA-family-protein	unknown	unknown	gnl\|CDD\|224113

Protein	Function_ID	Function_description	E-value
NC_022092.1\|WP_020961684.1\|27438_28008_-\|site-specific-integrase	gnl\|CDD\|271192	cd01192, INT_C_like_3, Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain. Tyrosine recombinase (integrase) belongs to a DNA breaking-rejoining enzyme superfamily. The catalytic domain contains six conserved active site residues. The recombination reaction involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA. Many DNA breaking-rejoining enzymes also have N-terminal domains, which show little sequence or structure similarity.	2.787e-63
NC_022092.1\|WP_020961688.1\|29484_30015_-\|hypothetical-protein	gnl\|CDD\|368849	pfam06338, ComK, ComK protein. This family consists of several bacterial ComK proteins. The ComK protein of Bacillus subtilis positively regulates the transcription of several late competence genes as well as comK itself. It has been found that ClpX plays an important role in the regulation of ComK at the post-transcriptional level.	0.00733326
NC_022092.1\|WP_020961693.1\|34067_35138_+\|DUF4236-domain-containing-protein	gnl\|CDD\|379423	pfam14020, DUF4236, Protein of unknown function (DUF4236). This family of proteins is functionally uncharacterized. This family of proteins is found in bacteria and viruses. Proteins in this family are typically between 69 and 402 amino acids in length.	2.74267e-24
NC_022092.1\|WP_020961687.1\|29121_29343_-\|DUF1659-domain-containing-protein	gnl\|CDD\|377933	pfam07872, DUF1659, Protein of unknown function (DUF1659). This family consists of hypothetical bacterial proteins of unknown function.	1.36319e-07
NC_022092.1\|WP_011229514.1\|28679_28826_-\|YvrJ-family-protein	gnl\|CDD\|378969	pfam12841, YvrJ, YvrJ protein family. This family of short proteins are related to B. subtilis YvrJ protein. None of the members of this family have been functionally characterized.	3.65767e-13
NC_022092.1\|WP_020961692.1\|32834_33983_+\|replication-initiation-protein	gnl\|CDD\|376444	pfam01051, Rep_3, Initiator Replication protein. This protein is an initiator of plasmid replication. RepB possesses nicking-closing (topoisomerase I) like activity. It is also able to perform a strand transfer reaction on ssDNA that contains its target. This family also includes RepA which is an E.coli protein involved in plasmid replication. The RepA protein binds to DNA repeats that flank the repA gene.	8.40129e-66
NC_022092.1\|WP_020961686.1\|28890_29103_-\|DUF2922-domain-containing-protein	gnl\|CDD\|378571	pfam11148, DUF2922, Protein of unknown function (DUF2922). This bacterial family of proteins has no known function.	9.43449e-20
NC_022092.1\|WP_078172677.1\|35215_36283_+\|nuclease	gnl\|CDD\|214615	smart00318, SNc, Staphylococcal nuclease homologues.	7.09415e-20
NC_022092.1\|WP_020961685.1\|28189_28660_-\|M15-family-metallopeptidase	gnl\|CDD\|350620	cd14845, L-Ala-D-Glu_peptidase_like, L-Ala-D-Glu peptidase, also known as L-alanyl-D-glutamate endopeptidase. This L-Ala-D-Glu peptidase family includes L-alanyl-D-glutamate peptidase (bacteriophage T5) (also known as L-alanoyl-D-glutamate endopeptidase), and Ply118 and Ply500 L-Ala-D-Glu peptidase. Bacteriophage endolysin degrades the peptidoglycan of the bacterial host from within, leading to cell lysis and release of progeny virions. The bacteriophage endolysin Ply118 cleaves between L-Ala and D-Glu residues of Listeria cell wall peptidoglycan. This family belongs to the MEROPS peptidase M15 subfamily C.	2.23716e-61
NC_022092.1\|WP_020961690.1\|30823_31621_+\|ParA-family-protein	gnl\|CDD\|224113	COG1192, Soj, ATPases involved in chromosome partitioning [Cell division and chromosome partitioning].	1.0593e-47

>NC_022092.1|WP_020961691.1|31604_31892_+|hypothetical-protein
MSKVDDIKNMKRQQKVITPMQVLTDPVGEENNITLNEDDNQPRKEGKKVERKRVSFDIRTDLHKELKMQSILQEKNIYLLIEEAVEKYLNELKQK
>NC_022092.1|WP_020961690.1|30823_31621_+|ParA-family-protein
MAITITMGIQKGGCGKSTTTGVLAYLLSRDGYRVLAVDMDSQGNLTELLSRKPSNEFTEKSVLEAMQERDPEPYIVKVNDRLDLLPANNFLATFPRWIYTGETYLGKYIRYKGKPTLILDDTLDKIRHHYDFIVIDTPPSLSEQTTNALCASQYVIMMFECSNWCYSAVPNFMESVEGARVHGRHNTRLLGILRTMNDVRRNDAKAFNEMIEEDYPNEVFKTIITRKAPIGRLSLYGFEENNELNQALEQYENFYKEMMERVQSG
>NC_022092.1|WP_031213304.1|30311_30719_+|ribbon-helix-helix-protein,-CopG-family
MMEGRCYERHDFQVLVLQEFGKRRPRSPEETKRLQEEYLRLLEEIPRMWEEFVEKHKNIYERFGYLDVVVHDDLRVERKKLQRGRPKEEKSKSHRITVRLDDELYELLQKYCRTKNASESEAVRQLISELKWKRF
>NC_022092.1|WP_020961688.1|29484_30015_-|hypothetical-protein
MDWKEVKRFAYAGQAFIPVNVENRGDSVKLFLRSGETKLLDVQSSLFLKRLLTFFGTSISINRHRYGELVGKKQLVPIVLSYGFTIIPFNVREPVGRQSRVGWFVSREIEQFRQRSPQCTTIHLLSGHQIPVFHSRKFCIDQLKNAKWIEMCYGEIHEPHRRQWINGSAVCETVVM
>NC_022092.1|WP_020961687.1|29121_29343_-|DUF1659-domain-containing-protein
MAASEMVSGRTLVLDFYAGKDSDGKDIIRSQTFRVKSDASVQSLYDAAAAIASLSSGSLRYVRTTLTSHIINA
>NC_022092.1|WP_020961686.1|28890_29103_-|DUF2922-domain-containing-protein
MKTLELTFNAQAGPARILIRYPKEPVDPVQVKTVMNQLVAANVFMTGNGELVSPKSARIIDRETQDIQLP
>NC_022092.1|WP_011229514.1|28679_28826_-|YvrJ-family-protein
MDLFSMISEVSFPILVSIYLLYRMETKLDQLTKSIQDLTIALSRGPQN
>NC_022092.1|WP_020961685.1|28189_28660_-|M15-family-metallopeptidase
MELVELLFRAEKRLSGLHPLVADKARALIRKAYEEGIYIIITQGFRTIEEQNRLYALGRTKPGRIVTNARGGYSYHNFGLAFDVCVCNVFKGTLIPSWSLDRRWFRVGQIGKSLGLEWGGDWKSFKDYPHFQYTFGLSLAQLRAGKKPPSAVVAKK
>NC_022092.1|WP_020961684.1|27438_28008_-|site-specific-integrase
MHTVQPIKDREKIEAMKKILRASSLRDELLFTIGINTGLRISDILALRVGDVKNQKGVVERIEIVEKKTKKTRVVALNRKTRRLIELYLAQERPHARGDEPLFRSQKGGRAISRQHAHYILNRAAKAVGIVDRIGTHSLRKTFGYFAYKQGTDLAMIQKILNHSSQAETLRYIGITQEQIDEVTAGLDL
>NC_022092.1|WP_020961682.1|25180_26500_-|hypothetical-protein
MENFKLENMELSPLDRAKRHVTFQHRGASGWITLAKKEPDGGWKQYHYQPNELAVELPKWLGEDVYFSQNTFYKPQRRIENIRQLRALYVDVDCHTIGYEPEWVVGKLDIEVFYDNILPEPNLIIFSGRGIVCVWLIEPVPYKALPLWKAVENYFYEQLSYVGADKKSLDPTRVFRIDGSVNSKSKREVVVEYRHGDRYVLRDLQYEYLPELTRTETGKKGRKGKLVRLHNIQTLHYARLLDLIRLAELRNYDLKGYRELFCFLYRYWSCCLTDDPDEALRQMIELNAGFKEPLSEKEVIRATKSAEKAWMAKNDAKANEEARKKGYPGAGYNLKNSTIIRWLDITPEEQRHLQTIIDANEKRRRKRERDRARTGELRRGQGAKTREEYLEEQRERTEDKAWQLQKAMERHPDATNKQLAMMLQISVRRVQQLKRWVKN
>NC_022092.1|WP_020961692.1|32834_33983_+|replication-initiation-protein
MQASAVQPKQYNNAVTKSNVLIEANYKLSTLEQKIILYLISQIHKDDDDFKMYRLPIQEFSELLGYRGSPKYTELREITKNLMRKVLEIREGQKFKQMSWVSYVEYDGNSGYVSLSFDPRLKPYLLQLKREFTTYRLKNVMELKSSYSIRMYELLKRWQYVGGFEIRLDELRMMVGAGNKYREYHNFKKRVLNPAQQEISEKTDIMFSYEEIREKRKVVSIRFRIKEKNVEPAVEVIEGKKEDHVDDQYLQFLAVLQAYDRYITEKQFAKIAVLAQKVFSDNWLDELIQTTRSILQRKDIREPIAFLTYFLNEKVQRIQAGVNPNEVTIHKDVKVVRREIVPDWLQDYEEKLAAESARSKESDEDIEQMRRDLVERLQKYKS
>NC_022092.1|WP_020961693.1|34067_35138_+|DUF4236-domain-containing-protein
MGLRFRKSVKIAPGVRMNIGKKGVSMSFGGKGLRVNTSSRGVSVSSSIPGTGISYRKQIYSTRKKRPQRTRYEQIKYQQQKGKMLEEARNKVEQYEAHIDMLLTVHEETSDKVHWEKIAISDPPFRIGEEDGPNVQELKKRVEEYKPTWRDRFFNRVEARKRQMLVHIDQAVREDEKIYENWKENKEIAQKVLANDLQTWRKVIDDAKPFEDIEEMGSRVRYRFDQSRRVIAQLDINNREVVPTKVLTLTKTGKLSEKNMAKGKYLQLYQDYVCSCTLRIAREFFSLLPVQEVVVNVYDESPAEEQYGCILSVVFPREKMDMLDFTNIDCSDTIEQFEHNMKFLKTKGFKLVEEMQ
>NC_022092.1|WP_078172677.1|35215_36283_+|nuclease
MALAIWGIYEWKINKNLGAKSKKPAIILSIGLILALGSCVGNDDVTTEKEVAVKQEAGKVPNDESKKEKDKKQEEKKDDDKQVKETVNEEQSKSTAATGENQNTEQKESNTEAQKQAQLSSLIKKFGLQAAVVARVVDGDTFELSDGRKVRLIGVNTPESTTRTEEYGKEASNYTKSKLEGKRVYLQKDVSETDRYGRLLRIVWLSVPTDDMNENEIRSKMFNADLVINGYAEPSTYPPDVKYADYFRKFAREAREANRGLWAYGEYGTTKGDFDPKETEKKSSNSSTNRSSGSSSSSNAKSSSGSSVTSSSSGSTEYFKNCTELRKVYPNGVPADHPAYQPRLDRDKDNYACER

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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
NC_022092_1	1.1\|32558\|73\|NC_022092\|CRISPRCasFinder	32558-32630	73	NC_022092	Geobacillus genomosp. 3 plasmid pBt40, complete sequence	32558-32630	13	0.822

1. spacer 1.1|32558|73|NC_022092|CRISPRCasFinder matches to NC_022092 (Geobacillus genomosp. 3 plasmid pBt40, complete sequence) position: , mismatch: 13, identity: 0.822

tttatctcatacatttttggtgttaggcgtacatttttggtgtttatctcgtacattttt	CRISPR spacer
tttatctcatacatttttggtgttaggcgtacatttttggtgtttatctcgtacattttt	Protospacer
************************************************************

Prophage detection

Region	Region Position	Protein_number	Hit_taxonomy	Key_proteins	Att_site	Prophage annotation

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_022080

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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

2. NC_022092

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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