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
NC_010514	Methylobacterium radiotolerans JCM 2831 plasmid pMRAD03, complete sequence	0 crisprs	NA	0	0	0
NC_010510	Methylobacterium radiotolerans JCM 2831 plasmid pMRAD01, complete sequence	0 crisprs	NA	0	0	1
NC_010518	Methylobacterium radiotolerans JCM 2831 plasmid pMRAD05, complete sequence	0 crisprs	DEDDh	0	0	0
NC_010509	Methylobacterium radiotolerans JCM 2831 plasmid pMRAD02, complete sequence	1 crisprs	NA	0	1	0
NC_010504	Methylobacterium radiotolerans JCM 2831 plasmid pMRAD07, complete sequence	0 crisprs	NA	0	0	0
NC_010505	Methylobacterium radiotolerans JCM 2831, complete sequence	7 crisprs	cas3,csa3,RT,WYL,DEDDh,PD-DExK	1	2	5
NC_010507	Methylobacterium radiotolerans JCM 2831 plasmid pMRAD08, complete sequence	0 crisprs	NA	0	0	0
NC_010517	Methylobacterium radiotolerans JCM 2831 plasmid pMRAD04, complete sequence	0 crisprs	NA	0	0	1
NC_010502	Methylobacterium radiotolerans JCM 2831 plasmid pMRAD06, complete sequence	0 crisprs	NA	0	0	0

Results visualization

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CRISPR-Cas detection and classification

Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

305281 : 417404

Bacillus_phage(21.05%)

bacteriocin,integrase,transposase

attL 305249:305308|attR 420300:420315

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
305249:305308	attL	NA	NA	NA	NA
WP_085985306.1\|305281_306465_-\|transposase	IS3 family transposase	A0A0P0I4A4	Acinetobacter_phage	2.2e-52	43.3
305249:305308	attL	NA	NA	NA	NA
WP_012329779.1\|307693_309778_+	ParB/RepB/Spo0J family partition protein	G8DH78	Emiliania_huxleyi_virus	2.8e-26	30.8
WP_012329780.1\|309822_310302_-	MucR family transcriptional regulator	NA	NA	NA	NA
WP_012329781.1\|311697_312015_+	DUF736 domain-containing protein	NA	NA	NA	NA
WP_012329782.1\|312355_313402_+	toprim domain-containing protein	NA	NA	NA	NA
WP_012329783.1\|313668_314610_+	DUF2493 domain-containing protein	A0A2H4J0K9	uncultured_Caudovirales_phage	2.0e-08	29.9
WP_012329784.1\|314808_315045_+	hypothetical protein	NA	NA	NA	NA
WP_012329785.1\|315044_315344_+	type II toxin-antitoxin system RelE/ParE family toxin	NA	NA	NA	NA
WP_012329786.1\|315446_315863_-	helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_158682025.1\|315978_316803_-	DUF2726 domain-containing protein	NA	NA	NA	NA
WP_012329788.1\|317364_317517_+	hypothetical protein	NA	NA	NA	NA
WP_106427966.1\|318103_318805_-	glutathione S-transferase	NA	NA	NA	NA
WP_012329790.1\|319156_320113_-	DUF1775 domain-containing protein	NA	NA	NA	NA
WP_012329791.1\|320214_322365_-	TonB-dependent receptor	NA	NA	NA	NA
WP_012329792.1\|323132_323438_-	hypothetical protein	NA	NA	NA	NA
WP_012329793.1\|323800_324067_+	hypothetical protein	NA	NA	NA	NA
WP_012329794.1\|325264_327481_-	TonB-dependent siderophore receptor	NA	NA	NA	NA
WP_012329795.1\|327483_327945_-	nickel-responsive transcriptional regulator NikR	NA	NA	NA	NA
WP_012329796.1\|327944_328736_-	ATP-binding cassette domain-containing protein	F2Y302	Organic_Lake_phycodnavirus	1.0e-10	31.2
WP_012329797.1\|328732_329515_-	nickel import ATP-binding protein NikD	W6JKT0	Anomala_cuprea_entomopoxvirus	5.3e-07	24.6
WP_012329798.1\|329511_330363_-	nickel ABC transporter permease subunit NikC	NA	NA	NA	NA
WP_041373042.1\|330359_331304_-	nickel ABC transporter permease subunit NikB	NA	NA	NA	NA
WP_012329800.1\|331315_332890_-	nickel ABC transporter, nickel/metallophore periplasmic binding protein	NA	NA	NA	NA
WP_012329801.1\|333510_335481_+	TonB-dependent receptor	NA	NA	NA	NA
WP_012329802.1\|335489_336323_+	ABC transporter substrate-binding protein	NA	NA	NA	NA
WP_012329803.1\|336319_337366_+	iron ABC transporter permease	NA	NA	NA	NA
WP_012329804.1\|337362_338178_+	ABC transporter ATP-binding protein	G9BWD6	Planktothrix_phage	2.0e-12	30.6
WP_012329805.1\|338155_339121_+	hypothetical protein	NA	NA	NA	NA
WP_012329806.1\|339132_339663_+	AAA family ATPase	NA	NA	NA	NA
WP_012329807.1\|339878_340511_-\|integrase	tyrosine-type recombinase/integrase	H0USV4	Bacillus_phage	4.9e-11	28.4
WP_012329808.1\|340626_341550_-	EamA family transporter	NA	NA	NA	NA
WP_012329809.1\|341603_342335_-	helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_041373046.1\|342716_345263_-	TonB-dependent siderophore receptor	NA	NA	NA	NA
WP_012329811.1\|345372_346371_-	DUF4880 domain-containing protein	NA	NA	NA	NA
WP_012329812.1\|346473_347019_-	sigma-70 family RNA polymerase sigma factor	NA	NA	NA	NA
WP_158682026.1\|347767_348178_-	hypothetical protein	NA	NA	NA	NA
WP_012329813.1\|349314_350313_+	hypothetical protein	NA	NA	NA	NA
WP_147021508.1\|350565_351258_-	hypothetical protein	NA	NA	NA	NA
WP_012329816.1\|352203_352836_-\|integrase	tyrosine-type recombinase/integrase	H0USV4	Bacillus_phage	2.6e-12	30.1
WP_012329817.1\|353089_353659_-	type 1 glutamine amidotransferase	A0A0N7KVR4	Yellowstone_lake_phycodnavirus	4.3e-14	29.2
WP_012329818.1\|353697_354780_-	catalase family protein	NA	NA	NA	NA
WP_081437830.1\|355035_356100_+	catalase family protein	NA	NA	NA	NA
WP_012329820.1\|356262_357261_-	hypothetical protein	NA	NA	NA	NA
WP_041372325.1\|357643_359641_+	methyl-accepting chemotaxis protein	NA	NA	NA	NA
WP_012319510.1\|359648_359966_+	hypothetical protein	NA	NA	NA	NA
WP_012329821.1\|360362_362354_-	conjugal transfer protein TraG	NA	NA	NA	NA
WP_012329822.1\|362350_362548_-	conjugal transfer protein TraD	NA	NA	NA	NA
WP_012329823.1\|362531_362894_-	hypothetical protein	NA	NA	NA	NA
WP_085985307.1\|364818_365920_+\|transposase	IS3-like element ISMra1 family transposase	S5WIU1	Leptospira_phage	3.4e-52	42.6
WP_012329824.1\|365941_366145_-	hypothetical protein	NA	NA	NA	NA
WP_012329825.1\|366141_366927_-	ABC transporter ATP-binding protein	G3M9Y6	Bacillus_virus	1.1e-12	25.5
WP_012329826.1\|366935_368345_-	LLM class flavin-dependent oxidoreductase	NA	NA	NA	NA
WP_012329827.1\|370006_370918_+	HEPN domain-containing protein	NA	NA	NA	NA
WP_085985306.1\|371382_372565_+\|transposase	IS3 family transposase	A0A0P0I4A4	Acinetobacter_phage	2.2e-52	43.3
WP_012329828.1\|374868_375930_-	hypothetical protein	NA	NA	NA	NA
372540:373818	attR	NA	NA	NA	NA
WP_147021504.1\|376455_377076_+	hypothetical protein	NA	NA	NA	NA
372540:373818	attR	NA	NA	NA	NA
WP_012329829.1\|377412_378339_+	hypothetical protein	NA	NA	NA	NA
WP_012329830.1\|378766_379507_+	carbonic anhydrase	NA	NA	NA	NA
WP_012329831.1\|379879_381199_+\|bacteriocin	NHLP bacteriocin system secretion protein	NA	NA	NA	NA
WP_012329832.1\|381206_383402_+\|bacteriocin	NHLP family bacteriocin export ABC transporter peptidase/permease/ATPase subunit	W8CYL7	Bacillus_phage	2.0e-27	26.0
WP_012329833.1\|383391_386073_+\|bacteriocin	NHLP bacteriocin export ABC transporter permease/ATPase subunit	W8CYL7	Bacillus_phage	3.7e-23	35.4
WP_147021505.1\|386487_386778_-	hypothetical protein	NA	NA	NA	NA
WP_147021506.1\|387243_387585_-	hypothetical protein	NA	NA	NA	NA
WP_012340144.1\|388051_388806_-\|transposase	IS5-like element ISMra5 family transposase	A0A0N9SJT9	Paenibacillus_phage	3.8e-10	35.5
WP_012329836.1\|388884_389217_-	hypothetical protein	NA	NA	NA	NA
WP_012329837.1\|389655_390522_-	porin family protein	NA	NA	NA	NA
WP_012329838.1\|390750_394728_-	S8 family serine peptidase	NA	NA	NA	NA
WP_012329839.1\|395151_396885_+	outer membrane beta-barrel protein	NA	NA	NA	NA
WP_012329840.1\|397007_397709_-	response regulator transcription factor	F4YXP8	Roseobacter_phage	4.8e-15	49.5
WP_012329841.1\|398399_399461_+\|integrase	tyrosine-type recombinase/integrase	Q5QBN6	Enterobacteria_phage	9.4e-15	26.3
WP_012329842.1\|399601_400084_-	DUF2442 domain-containing protein	NA	NA	NA	NA
WP_147021501.1\|400068_400563_-	hypothetical protein	NA	NA	NA	NA
WP_012329844.1\|401103_402021_+\|integrase	tyrosine-type recombinase/integrase	A0A142K830	Mycobacterium_phage	6.7e-17	34.6
WP_012329845.1\|402030_403110_+	D-alanine--D-alanine ligase	NA	NA	NA	NA
WP_012329846.1\|403111_405562_-	AAA family ATPase	NA	NA	NA	NA
WP_076611868.1\|406863_407701_-\|transposase	IS5-like element ISMra2 family transposase	A0A0N9SHJ4	Paenibacillus_phage	1.1e-26	50.9
WP_012329849.1\|407938_408850_+	cyclic nucleotide-binding domain-containing protein	NA	NA	NA	NA
WP_012329850.1\|409468_411244_+	NTPase KAP	NA	NA	NA	NA
WP_147021465.1\|411338_412013_+	hypothetical protein	NA	NA	NA	NA
WP_051516200.1\|412138_413317_+	hypothetical protein	NA	NA	NA	NA
WP_012329853.1\|413313_414057_+	TatD family hydrolase	NA	NA	NA	NA
WP_041373057.1\|414295_414652_+	hypothetical protein	NA	NA	NA	NA
WP_012329856.1\|416468_417404_+\|integrase	site-specific integrase	NA	NA	NA	NA
420300:420315	attR	NA	NA	NA	NA

Anti-CRISPR protein detection

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

2. NC_010509

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CRISPR-Cas detection and classification

Crispr_ID: NC_010509_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_010509_1

40921-41013

Orphan

Consensus_repeat	Method
TGCGCCGGACCCGCCGGCTTCGCC	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_010509_1

>merge|NC_010509|1|40921-41013|CRISPRCasFinder
TGCGCCGGACCCGCCGGCTTCGCCCTGATTGCCGGGCGGCGTTTTTTCGTCATGACGAAATTTTCCGGTTCCGCCGGACCCGCCGGCTTCGCC

>NC_010509|1|1|40921-41013|CRISPRCasFinder
TGCGCCGGACCCGCCGGCTTCGCC	CTGATTGCCGGGCGGCGTTTTTTCGTCATGACGAAATTTTCCGGT
TCCGCCGGACCCGCCGGCTTCGCC

Protein	Signature genes	Signature genes Name	Protein_function
NC_010509.1\|WP_012329498.1\|36674_37139_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|376209
NC_010509.1\|WP_041373123.1\|44394_44676_-\|hypothetical-protein	unknown	unknown	unknown
NC_010509.1\|WP_012329505.1\|42654_42972_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|376782
NC_010509.1\|WP_147021533.1\|46548_46758_+\|hypothetical-protein	unknown	unknown	unknown
NC_010509.1\|WP_041373122.1\|44156_44384_-\|hypothetical-protein	unknown	unknown	unknown
NC_010509.1\|WP_106427983.1\|45387_46248_-\|DUF3560-domain-containing-protein	unknown	unknown	gnl\|CDD\|371890
NC_010509.1\|WP_012329501.1\|38569_39673_-\|relaxase/mobilization-nuclease-domain-containing-protein	unknown	unknown	gnl\|CDD\|237533
NC_010509.1\|WP_012329497.1\|34815_36495_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|376240
NC_010509.1\|WP_012329508.1\|44702_45110_-\|hypothetical-protein	unknown	unknown	unknown
NC_010509.1\|WP_012329509.1\|45111_45303_-\|hypothetical-protein	unknown	unknown	unknown
NC_010509.1\|WP_012329506.1\|43053_43419_-\|single-stranded-DNA-binding-protein	unknown	unknown	gnl\|CDD\|239942
NC_010509.1\|WP_012329495.1\|31390_34084_+\|type-IV-secretory-system-conjugative-DNA-transfer-family-protein	unknown	unknown	gnl\|CDD\|226036
NC_010509.1\|WP_012329494.1\|30114_31188_+\|P-type-DNA-transfer-ATPase-VirB11	unknown	unknown	gnl\|CDD\|274301
NC_010509.1\|WP_012329500.1\|37916_38519_+\|conjugal-transfer-protein-TrbM	unknown	unknown	gnl\|CDD\|237548
NC_010509.1\|WP_085985376.1\|39669_40212_-\|plasmid-mobilization-relaxosome-protein-MobC	unknown	unknown	gnl\|CDD\|368576
NC_010509.1\|WP_051516203.1\|37452_37887_+\|OmpA-family-protein	unknown	unknown	gnl\|CDD\|143586
NC_010509.1\|WP_012329493.1\|28988_30131_+\|TrbI/VirB10-family-protein	unknown	unknown	gnl\|CDD\|319755
NC_010509.1\|WP_012329504.1\|41797_42658_-\|ParA-family-protein	unknown	unknown	gnl\|CDD\|224113
NC_010509.1\|WP_012329496.1\|34176_34803_+\|hypothetical-protein	unknown	unknown	unknown

Protein	Function_ID	Function_description	E-value
NC_010509.1\|WP_012329498.1\|36674_37139_+\|hypothetical-protein	gnl\|CDD\|376209	pfam18790, KfrB, KfrB protein. This is an alpha and beta domain found in polyvalent proteins of conjugative element or often in the neighbourhood of one. The KfrB domain has been speculated to play a role in discrimination of self from non-self in plasmid conjugation systems.	3.30862e-12
NC_010509.1\|WP_012329505.1\|42654_42972_-\|hypothetical-protein	gnl\|CDD\|376782	pfam02424, ApbE, ApbE family. This prokaryotic family of lipoproteins are related to ApbE from Salmonella typhimurium. ApbE is involved in thiamine synthesis. It acts as an FAD:protein FMN-transferase, catalyzing the attachment of an FMN residue to a threonine residue of a protein via a phosphoester bond in such bacterial flavoproteins.	0.00533664
NC_010509.1\|WP_106427983.1\|45387_46248_-\|DUF3560-domain-containing-protein	gnl\|CDD\|371890	pfam12083, DUF3560, Domain of unknown function (DUF3560). This presumed domain is functionally uncharacterized. This domain is found in bacteria. This domain is about 120 amino acids in length. This domain has a conserved GHHSE sequence motif.	4.77145e-45
NC_010509.1\|WP_012329501.1\|38569_39673_-\|relaxase/mobilization-nuclease-domain-containing-protein	gnl\|CDD\|237533	PRK13863, PRK13863, T-DNA border endonuclease VirD2.	2.25875e-05
NC_010509.1\|WP_012329497.1\|34815_36495_+\|hypothetical-protein	gnl\|CDD\|376240	pfam18821, LPD7, Large polyvalent protein-associated domain 7. This domain contains conserved aspartate and phenylalanine residues. It is widely present in polyvalent proteins and gene neighbourhoods of conjugative elements. This domain is also known as PTox1.	6.42231e-11
NC_010509.1\|WP_012329506.1\|43053_43419_-\|single-stranded-DNA-binding-protein	gnl\|CDD\|239942	cd04496, SSB_OBF, SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date oligomerize to bring together four OB folds in their active state. The majority (e.g. Escherichia coli SSB) have a single OB fold per monomer, which oligomerize to form a homotetramer. However, Deinococcus and Thermus SSB proteins have two OB folds per monomer, which oligomerize to form a homodimer. Mycobacterium tuberculosis SSB varies in quaternary structure from E. coli SSB. It forms a dimer of dimers having a unique dimer interface, which lends the protein greater stability. Included in this group are OB folds similar to Escherichia coli PriB. E.coli PriB is homodimeric with each monomer having a single OB fold. It does not appear to form higher order oligomers. PriB is an essential protein for the replication restart at forks that have stalled at sites of DNA damage. It also plays a role in the assembly of primosome during replication initiation at the bacteriophage phiX174 origin. PriB physically interacts with SSB and binds ssDNA with high affinity.	1.73248e-16
NC_010509.1\|WP_012329495.1\|31390_34084_+\|type-IV-secretory-system-conjugative-DNA-transfer-family-protein	gnl\|CDD\|226036	COG3505, VirD4, Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion].	1.63457e-56
NC_010509.1\|WP_012329494.1\|30114_31188_+\|P-type-DNA-transfer-ATPase-VirB11	gnl\|CDD\|274301	TIGR02788, conjugal_transfer_protein, P-type DNA transfer ATPase VirB11. The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA.	1.24587e-140
NC_010509.1\|WP_012329500.1\|37916_38519_+\|conjugal-transfer-protein-TrbM	gnl\|CDD\|237548	PRK13893, PRK13893, conjugal transfer protein TrbM; Provisional.	2.49174e-104
NC_010509.1\|WP_085985376.1\|39669_40212_-\|plasmid-mobilization-relaxosome-protein-MobC	gnl\|CDD\|368576	pfam05713, MobC, Bacterial mobilisation protein (MobC). This family consists of several bacterial MobC-like, mobilisation proteins. MobC proteins belong to the group of relaxases. Together with MobA and MobB they bind to a single cis-active site of a mobilising plasmid, the origin of transfer (oriT) region. The absence of MobC has several different effects on oriT DNA. Site- and strand-specific nicking by MobA protein is severely reduced, accounting for the lower frequency of mobilisation. The localized DNA strand separation required for this nicking is less affected, but becomes more sensitive to the level of active DNA gyrase in the cell. In addition, strand separation is not efficiently extended through the region containing the nick site. These effects suggest a model in which MobC acts as a molecular wedge for the relaxosome-induced melting of oriT DNA. The effect of MobC on strand separation may be partially complemented by the helical distortion induced by supercoiling. However, MobC extends the melted region through the nick site, thus providing the single-stranded substrate required for cleavage by MobA.	1.16603e-05
NC_010509.1\|WP_051516203.1\|37452_37887_+\|OmpA-family-protein	gnl\|CDD\|143586	cd07185, OmpA_C-like, Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA. OmpA-like domains (named after the C-terminal domain of Escherichia coli OmpA protein) have been shown to non-covalently associate with peptidoglycan, a network of glycan chains composed of disaccharides, which are crosslinked via short peptide bridges. Well-studied members of this family include the Escherichia coli outer membrane protein OmpA, the Escherichia coli lipoprotein PAL, Neisseria meningitdis RmpM, which interact with the outer membrane, as well as the Escherichia coli motor protein MotB, and the Vibrio flagellar motor proteins PomB and MotY, which interact with the inner membrane.	3.0578e-12
NC_010509.1\|WP_012329493.1\|28988_30131_+\|TrbI/VirB10-family-protein	gnl\|CDD\|319755	cd16429, VirB10, VirB10 forms part of core complex in Type IV secretion system (T4SS). This family contains VirB10, a component of the type IV secretion system (T4SS), including homologs TrbI, TraF, TrwE and TraL. T4S system is employed by pathogenic bacteria to export virulence DNAs and/or proteins directly from the bacterial cytoplasm into the host cell. It forms a large multiprotein complex consisting of 12 proteins termed VirB1-11 and VirD4. VirB10, interacts with VirB7 and VirB9, forming the membrane-spanning 'core complex' (CC), around which all other components assemble. The CC is inserted in both, the outer and inner membranes, playing a fundamental role as a scaffold for the rest of the T4SS components and actively participating in T4S substrate transfer through the bacterial envelope via conformational changes regulating channel opening and closing. TrwE in R33 plasmid has been shown to be anchored to the inner membrane and its C-terminal is necessary for conjugation; the transmembrane domains of TrwB and TrwE are involved in TrwB-TrwE interactions. TraF protein of the RP4 plasmid is involved in circularization of pilin subunits of P-type pili. In gonococcal genetic island (GGI) of Neisseria gonorrhoeae, T4SS encodes TrbI and circularization occurs via a covalent intermediate between the C terminus of putative pilin protein TraA and TrbI.	1.1386e-83
NC_010509.1\|WP_012329504.1\|41797_42658_-\|ParA-family-protein	gnl\|CDD\|224113	COG1192, Soj, ATPases involved in chromosome partitioning [Cell division and chromosome partitioning].	4.22692e-28

>NC_010509.1|WP_085985376.1|39669_40212_-|plasmid-mobilization-relaxosome-protein-MobC
MEKPSRSLNLHLGPERKARWVAYCAARGKTPGAAICEAIDHTLATAPKEPPKLYRQTHQAPEDEPKQRFEILLTASEKAAVRERANIERCSMNRWGVDAIRAGLTGEPQFGTKEVDALGESNYQLLAIGRNLNQIARRLNEGKSARVTVEQIKMLADRIDQHTKKVADAIRASQERWNIE
>NC_010509.1|WP_012329501.1|38569_39673_-|relaxase/mobilization-nuclease-domain-containing-protein
MTRQSIELDLSDFADAARITYKKTRKAKRTPRGAKITGPEPPKPNRSGPAIRATIDRITRRVPEVMVKITQGKKNPETGKREILCKDMRGVRAHMQYISRNGAVELEDENGQRYIGQEDVRDVLRGFARAGTPIPERDGRRREVYSIVLSMPPGTDRDAVKAAARDFAAAEFSGHQYVFAAHDDDAHPHVHLAVKTADARGVRLNPRKPDLQRWRELFAEKLRDHGIEANASDRRLRGIVKKSERQAIRSLNDRGETPRRVAQQEAQARDEAAGRSRHANPAQDKISAGRRRTTAAYGKVARSLATGDAEDRALALRIVELVKAMPPPTTRHEDRVAQLRANAKTAGVDRGADRDAAKEKPEQGRDR
>NC_010509.1|WP_012329500.1|37916_38519_+|conjugal-transfer-protein-TrbM
MYLSVRSLALAVAACAAAGAASAQEFTGDTKLACEAILCLSTGQRPDECAPSIRKYFSISARKVSDTIKKRKSFLQLCPDSESDDKMKSLVDSIANGAGRCDAATLNASMTVYQGYGNTRYVRNSAPSYCSAYGGNENVDQTNGTVARYVGEPGKGGHWVDPDQYAAALAEYNKRQASGNSSGGDNGWDSDGSNWQQMQR
>NC_010509.1|WP_051516203.1|37452_37887_+|OmpA-family-protein
MQQEAFPPAPVVVQRQGGPQAVQRQQAPRAAARPLYPVVSVQFPWNSAQFRPTPAQVAHLRGLIAAGVAHVQVRGRTDNPNPSSGDERIARGRAEAAKDWLIGEGVPSGIIDLNFVSAGDYRSNNRLSDGRALNRRVDIEFIRK
>NC_010509.1|WP_012329498.1|36674_37139_+|hypothetical-protein
MRQHDNSQRSPSPTLAANGVPQSPLRQNAAEGHQLLVILNESRLVDTKTGGEWVSRHVGQRGGLPKGIYDLTGAARPALNATSQAYAGNVLHVSPSHVFQLTADQRGKATVVKHDRALFRHAGQDRTPAVGSQVAVVYERGQGRVQDQQHDRSR
>NC_010509.1|WP_012329497.1|34815_36495_+|hypothetical-protein
MADESTTAGAPAESAMPGYGVMMIDDKPATAVKFDKREVDGETAYDLSFRLNGKQVVRIKGVNEVGLTEAVGERNALRITEAETTKGSLSGEDLTFSHGLTPLETERRSLANEDRAQEATEVNTIREVKGNELEAVDVVEALAMAAKLRKRDREEYERNAGIDGVERDLSKLQGRADSEMLAVKGLDQEADRLERVEVLDQRAGLAPQPVEAEHDVVEAEKNRRIQLMEQVNAQFNTSGPRHYFKDQPGRIAFRDVGDRLKTASNDQRVARAMVMMADAKGWKVVHLDGHPEFRQAGWMEASLRGMGSTGYKPTERDLEALAAEQERRMGNSVSRGTERVQERSRGPSPSTTTERSADGAQKPSEAVSAPEKPAKAAGAPARSLAVHEGIMLAHGAAPYQNDPAEKMSYFVKLRTETGERTIWGKDLDRAVSESKLNPGDAVRLEFKGNQPVTVEALTRDDKGKVTGSETINTHRNTWEVHKGDREKVITAIAAKVMEGKVKDPQDREKVMAEIGRVVSEKSKAGTLPPVMMYDKAAPQRVPEQERTAPVVQRNAERTR
>NC_010509.1|WP_012329496.1|34176_34803_+|hypothetical-protein
MSNDTSNASTTQSKAEDRIKPTDIPREIRATVAEKLGKEADVFPAKSESKNGYKGPVIHADKDFIVQAIGKGQRSAIVHLRNDVEFQGPKLQSRDENNDLVNRNIQVHYRDGQAKAYPWNPERAAENQAQTQRKTVDPVEAAKEYAQTAFKTAKQREAFVAHVQGVQALAADMAKAPAAPVQDGAKTARSIPVPSKGQDKAPAPSLER
>NC_010509.1|WP_012329495.1|31390_34084_+|type-IV-secretory-system-conjugative-DNA-transfer-family-protein
MSGEKWAKLVFVLVVLIVGTAGVVYLGGVMFYLLGKANPIGKTDFGTWWTYWSYYKNNPPVAKRLIWALVIPAVPIYGAIIAATIAAMRDQRKLYGESRFANEGEIAAAGLFAPKGIIVGKWKKRFLLFPGLQFVLLSAPTRSGKGVGIVIPNLLSWEDSVVVLDVKQENFLVTSGWRARYGHACYLFNPFAEDGRTHRYNPLGYISDDPRLRVGEILDLGYAIYPGDGKEPFFDDTARNLFLGLVLYLIETPELPRTFGELLRQASGKGKSAKDHIQGIITSRNYREFGDIMLNSAGEDQAQTVKVIMDLKRVDKREAEALCDEIPFAVAENVPAADIEAIEQQLKACGAEYETERRLEPIVQWDGVGLPPLSSECVDALNRFVTTSDNTLSSIMSTFNSPLTLWASPIFDAATAANDFDLREVRRKRMSVYIGIPAAKLDSARLIMNMMFSQLVKLNLDVQLNATPDVKYHCMMLMDEFTAPGRIGIIAKSNAYMASYGMRLVTIIQSAGQLEADIPMGYGRDLARTLVTNHACQIFYTPREQRDANDYSEALGYYTFKSTGRSRQLGRSGGSESESDQKRPLMMPQELKEMSQREQIINLENTKAIKCTKIRYYEDYVFLDRLAEVDPSLLTRNFLGMRRKPTQRELERSWGGWKLAAPVPTIDFDLHDAIVQSRVREVTPDDIAGGIDLRKLAMDTSKIRDLAAGQELPPEQVKGIVADFFDALEAASPSSAGDIGEEDAVSDEELARLDAEAATETDDDDDGDRATDAAEPPVAPAAAIAPIVVKAVAQPEPPAEPPASDTVGEPADEDDATEAGAEDGGDAEGDDVPELSEDDEARLYDDLPDLSDFDADTEVVHPDDEVLEDDDAAPTPATAPHKPILDLSILDRPIDRK
>NC_010509.1|WP_012329494.1|30114_31188_+|P-type-DNA-transfer-ATPase-VirB11
MSRPVEIATVGVGFNRASSVRHLMEPLSPWMGDSSITEICVNRPGEVFIERESRWECYEEPGLTYAHLESLGTAIARYGNDTLDDVKPILSGILPDGERVQIVRPDACEHGTFSYTIRKPSFSRRSLEDYNRQGFFKHIRPVSTGLTSAERELLELRSTGDTLGFLRRAVQLDKVIVVAGETGSGKTTFMKALMQEIPREQRLITIEDTPELFLPDHPNHVHLFYKSEAKEEDGAIVTPASLLKSCLRMKPTRILLAELRSGETYDFLNVAASGHGGSITSVHAGSCDLAFERLALMVLQNRQGRQLPYPVIRRLLHLVVDVVVHITNDTDEGGFGRHITELWYDPDAKRALGKIDA
>NC_010509.1|WP_012329493.1|28988_30131_+|TrbI/VirB10-family-protein
MSEANTQPELAALPGERGMPGVNDSQRGSGMKVAFVIGVIVILMALVSLALLKYTGKKSAATDKKASMEAPALPARTFTAPPAPPAPPAPPEAVPVVPGVQPTATAASVPGGTSSEEARPPAKLDKSASSLMVVSDDAASSGSANGAQSAAGAGARLGLEPAGTDGGGPMASLLSGTKTDARKAGMIGNRNFILAKGSFIDCALQTRLDSTVPGMTACVVTRNIFSDNGKVLLIERGSTVTGEYQSNMRQGMARIYVLWTRVKTPNGVVVNLDSPGADALGGAGLPGYVDNHFWKRFGGALMLSLVDDTARFATQGSGSSSSSNQFNFNSTGEASSNMAAEALKNTINIPPTLYKNQGEQIGIFIARDLDFSSVYDVQTR
>NC_010509.1|WP_012329504.1|41797_42658_-|ParA-family-protein
MKTVVFANQKGGVGKSAILDQLAYYFVLQRQLRVVVIDFDHQKNTTKALTTGGLCTVSPVTSSQILTAGKSAIGRADFVLVPGDGELYRMEEKAAELTAFVKYAKDQGKPGARDGRSEYATNLLSVLGEIAPHFDICLIDTNPNPDIRQLAALVVADYVVSPIQLNQEAIDGIGDLLNHENLGIRKITATINKKLKLIGILPNMVEPTPFQRDNFTALATHYPQLLISMAPLPGFAAVKKTTAIPEAQAVGQPVWKLGKTSARDAWTQMRPVFDKIAEAMEVPKND
>NC_010509.1|WP_012329505.1|42654_42972_-|hypothetical-protein
MGAVRSILVDGVPIADAATAHQITAKHARVLMNRFLAKAEQQRLAEFMQVEPPKQPTALLESYANEIVTLRDKGYTADQIAAYLKKHGVATSAAKVRNFIRSNRA
>NC_010509.1|WP_012329506.1|43053_43419_-|single-stranded-DNA-binding-protein
MQSNVFVGNLAKNPVLSGNGDRAYCRFTLISNEYAGRDGEGAARERTVTLSFVAFKSLAERIARHCMKGDQLIVDHRIANNNREVDGETVYGFDFIAERVQYGAPGKEKREYLAENQGSND
>NC_010509.1|WP_041373122.1|44156_44384_-|hypothetical-protein
MSVYSYAQQIEQAAKALEAARDPESALDALELLRSLTDDAQMMALLASSFRLLVDVLPSDPPAVDKPVIPTRYPR
>NC_010509.1|WP_041373123.1|44394_44676_-|hypothetical-protein
MDEDQTQFAPTAIDAALDALDELSKGHQFCGDDLIAAAYALDYLALQSDDLRRIASDPAFAGSTQGTETAQRVARLLREVRRYIMPAASATLH
>NC_010509.1|WP_012329508.1|44702_45110_-|hypothetical-protein
MTKTTKRATAHLAALADELPDLITGLDKEIQSITETMAGLKKQGLVYASPFWKRDKSGQPKYFYLLHTQRKGEPRNREYIGCDANRIARANAAIERAKKYDDLDRQLTRLRSQAEQGARVLADAKRVLTGKGSAW
>NC_010509.1|WP_012329509.1|45111_45303_-|hypothetical-protein
MKIFRFLDDFIVVIAKAVIRAVFAVGTGLVYIQFIGGLLLTVAFGTSALVLVLAAVRRAVLGA
>NC_010509.1|WP_106427983.1|45387_46248_-|DUF3560-domain-containing-protein
MCESNSNQTDNTEEDAPMNSYEAKLDARRERLLARAEEASKNADNLHKKARSMAGVIPFGQPILIGHHSESRDRNYRKRIHSTFGKAFAEMDNAQHYASKAAAVGTGGISSDDPDAIAKLSKELEAMEASQERMKAANKVIRTKKTPEEREAALIAQGFTAATAAEILTPDFCGRVGFPSYALSNNTANMRRVRLRIEELEKRKASADLERQGNGFKYREDVAENRVMFLFDVKPDEATRTLLKRHGFKWSPSRDGQPWVRQLNNAGIYNGRQVFDTLNSANIGDI
>NC_010509.1|WP_147021533.1|46548_46758_+|hypothetical-protein
MQHATGDAWERSRGPERVASATCRWSRSGEPQARFCGRVRPPLVIALVIELVAVLQGRAAALAGVRSAR

You can click texts colored in the table to view more detailed information

Click the colored protein region to show detailed information

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_010509_1	1.1\|40945\|45\|NC_010509\|CRISPRCasFinder	40945-40989	45	NC_010509	Methylobacterium radiotolerans JCM 2831 plasmid pMRAD02, complete sequence	40945-40989	0	1.0

1. spacer 1.1|40945|45|NC_010509|CRISPRCasFinder matches to NC_010509 (Methylobacterium radiotolerans JCM 2831 plasmid pMRAD02, complete sequence) position: , mismatch: 0, identity: 1.0

ctgattgccgggcggcgttttttcgtcatgacgaaattttccggt	CRISPR spacer
ctgattgccgggcggcgttttttcgtcatgacgaaattttccggt	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

3. NC_010517

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CRISPR-Cas detection and classification

Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

19318 : 28989

Mycobacterium_phage(25.0%)

transposase

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_012340150.1\|19318_19909_-	recombinase family protein	Q1MVP4	Enterobacteria_phage	9.2e-28	41.5
WP_012340152.1\|20564_21230_-	ParA family protein	W8ECJ6	Mycobacterium_phage	1.4e-16	35.5
WP_012340153.1\|21480_21768_+	plasmid maintenance system killer protein	A0A222YWE2	Escherichia_phage	1.0e-08	56.2
WP_041373180.1\|21772_22057_+	HigA family addiction module antidote protein	M9MUN2	Rhodococcus_phage	3.7e-11	44.7
WP_012340155.1\|22434_23250_+	hypothetical protein	A0A0A8IK91	Aurantimonas_phage	2.7e-14	33.5
WP_012340156.1\|23656_24148_-	hypothetical protein	NA	NA	NA	NA
WP_012340157.1\|24592_25036_+	MucR family transcriptional regulator	A0A1P8VVG0	Erythrobacter_phage	5.0e-18	44.4
WP_012340158.1\|25127_26396_-\|transposase	IS256 family transposase	A0A2P1JQX9	Mycobacterium_phage	1.7e-87	44.4
WP_085985377.1\|27760_28989_-\|transposase	IS3 family transposase	Q8W6R2	Burkholderia_virus	1.1e-104	66.9

Anti-CRISPR protein detection

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

4. NC_010505

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CRISPR-Cas detection and classification

Crispr_ID: NC_010505_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_010505_1

1129334-1129673

Orphan

Consensus_repeat	Method
CGGCGGCTNCGGCNNCGGC	CRT

6 spacers

The CRISPR arrays of NC_010505_1

>merge|NC_010505|1|1129334-1129673|CRT
CGGCGGCTTCGGCGGCGGCTTCCACGGTGGCGGTTTCGGCGGCGGCTTCCGGGGCGGCGGGTTCGGGGGATTCCGCAACGGCGGCTTCGGCGGCGGCTTCCGCGGTGTCGGTTTCCGTCCGGGCGGCTTCGGCTACGGCCGCGGCTTCTACGGGCGGGGTTACGGCTGGCGCGGCGGCTACGGCTATCGCGGCGGCTACGGCTACGGACTCGGCGGCCTGGGCCTCGGCGTCGGGCTCGGCCTCGCGGCCGGCAGCCTCTACGGCGGCTACGGATACGGCTACCCAGGCTACGGCTACGGTGGCTACTACGCCCCGGCGGCCTACGATTACGGCTACGGC

>NC_010505|1|1|1129334-1129673|CRT
CGGCGGCTTCGGCGGCGGC	TTCCACGGTGGCGGTTTCGG
CGGCGGCTTCCGGGGCGGC	GGGTTCGGGGGATTCCGCAA
CGGCGGCTTCGGCGGCGGC	TTCCGCGGTGTCGGTTTCCGTCC
GGGCGGCTTCGGCTACGGC	CGCGGCTTCTACGGGCGGGGTTACGGCTGGCGCGGCGGCTACGGCTATCG
CGGCGGCTACGGCTACGGA	CTCGGCGGCCTGGGCCTCGGCGTCGGGCTCGGCCTCGCGGCCGGCAGCCTCTA
CGGCGGCTACGGATACGGC	TACCCAGGCTACGGCTACGGTGGCTACTACGCCCCGGCGGC
CTACGATTACGGCTACGGC

Protein	Signature genes	Signature genes Name	Protein_function
NC_010505.1\|WP_012318079.1\|1134442_1135003_-\|cupin-domain-containing-protein	unknown	unknown	gnl\|CDD\|182158
NC_010505.1\|WP_024830808.1\|1123517_1123736_-\|DUF465-domain-containing-protein	unknown	unknown	gnl\|CDD\|227768
NC_010505.1\|WP_012318081.1\|1136699_1137761_+\|SDR-family-oxidoreductase	unknown	unknown	gnl\|CDD\|187652
NC_010505.1\|WP_012318069.1\|1124291_1126220_+\|propionyl-CoA-synthetase	unknown	unknown	gnl\|CDD\|341271
NC_010505.1\|WP_012318080.1\|1135170_1136505_+\|aspartate-aminotransferase-family-protein	unknown	unknown	gnl\|CDD\|181707
NC_010505.1\|WP_012318064.1\|1120622_1121495_-\|tetratricopeptide-repeat-protein	unknown	unknown	gnl\|CDD\|276809
NC_010505.1\|WP_012318075.1\|1131198_1132068_+\|amidohydrolase-family-protein	unknown	unknown	gnl\|CDD\|238636
NC_010505.1\|WP_012318068.1\|1123909_1124092_+\|DUF465-domain-containing-protein	unknown	unknown	gnl\|CDD\|227857
NC_010505.1\|WP_012318078.1\|1133793_1134429_-\|alpha/beta-fold-hydrolase	unknown	unknown	gnl\|CDD\|184875
NC_010505.1\|WP_012318077.1\|1132438_1133758_-\|MHS-family-MFS-transporter	unknown	unknown	gnl\|CDD\|340927
NC_010505.1\|WP_012318082.1\|1137874_1139167_-\|ArgE/DapE-family-deacylase	unknown	unknown	gnl\|CDD\|180721
NC_010505.1\|WP_012318074.1\|1129891_1131196_+\|MFS-transporter	unknown	unknown	gnl\|CDD\|340929
NC_010505.1\|WP_012318063.1\|1119398_1120553_+\|acyl-CoA-dehydrogenase	unknown	unknown	gnl\|CDD\|132247
NC_010505.1\|WP_012318083.1\|1139266_1140169_-\|LysR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|176133
NC_010505.1\|WP_012318065.1\|1121829_1122942_-\|5-(carboxyamino)imidazole-ribonucleotide-synthase	unknown	unknown	gnl\|CDD\|235674
NC_010505.1\|WP_012318071.1\|1126925_1128044_+\|NADH:flavin-oxidoreductase/NADH-oxidase	unknown	unknown	gnl\|CDD\|239242
NC_010505.1\|WP_024830804.1\|1128239_1129001_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|226222
NC_010505.1\|WP_012318076.1\|1132172_1132370_-\|hypothetical-protein	unknown	unknown	unknown
NC_010505.1\|WP_012318070.1\|1126264_1126738_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|153095
NC_010505.1\|WP_012318066.1\|1122938_1123439_-\|5-(carboxyamino)imidazole-ribonucleotide-mutase	unknown	unknown	gnl\|CDD\|223119

Protein	Function_ID	Function_description	E-value
NC_010505.1\|WP_012318079.1\|1134442_1135003_-\|cupin-domain-containing-protein	gnl\|CDD\|182158	PRK09943, PRK09943, HTH-type transcriptional regulator PuuR.	2.97537e-39
NC_010505.1\|WP_024830808.1\|1123517_1123736_-\|DUF465-domain-containing-protein	gnl\|CDD\|227768	COG5481, COG5481, Uncharacterized conserved small protein containing a coiled-coil domain [Function unknown].	3.87189e-14
NC_010505.1\|WP_012318081.1\|1136699_1137761_+\|SDR-family-oxidoreductase	gnl\|CDD\|187652	cd08948, 5beta-POR_like_SDR_a, progesterone 5-beta-reductase-like proteins (5beta-POR), atypical (a) SDRs. 5beta-POR catalyzes the reduction of progesterone to 5beta-pregnane-3,20-dione in Digitalis plants. This subgroup of atypical-extended SDRs, shares the structure of an extended SDR, but has a different glycine-rich nucleotide binding motif (GXXGXXG) and lacks the YXXXK active site motif of classical and extended SDRs. Tyr-179 and Lys 147 are present in the active site, but not in the usual SDR configuration. Given these differences, it has been proposed that this subfamily represents a new SDR class. Other atypical SDRs include biliverdin IX beta reductase (BVR-B,aka flavin reductase), NMRa (a negative transcriptional regulator of various fungi), phenylcoumaran benzylic ether and pinoresinol-lariciresinol reductases, phenylpropene synthases, eugenol synthase, triphenylmethane reductase, isoflavone reductases, and others. 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. In addition to the Rossmann fold core region typical of all SDRs, extended SDRs have a less conserved C-terminal extension of approximately 100 amino acids, and typically have a TGXXGXXG cofactor binding motif. Complex (multidomain) SDRs such as ketoreductase domains of fatty acid synthase have a GGXGXXG NAD(P)-binding motif and an altered active site motif (YXXXN). Fungal type ketoacyl reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.	3.90671e-124
NC_010505.1\|WP_012318069.1\|1124291_1126220_+\|propionyl-CoA-synthetase	gnl\|CDD\|341271	cd05967, PrpE, Propionyl-CoA synthetase (PrpE). EC 6.2.1.17: propanoate:CoA ligase (AMP-forming) or propionate#CoA ligase (PrpE) catalyzes the first step of the 2-methylcitric acid cycle for propionate catabolism. It activates propionate to propionyl-CoA in a two-step reaction, which proceeds through a propionyl-AMP intermediate and requires ATP and Mg2+. In Salmonella enterica, the PrpE protein is required for growth of Salmonella enterica on propionate and can substitute for the acetyl-CoA synthetase (Acs) enzyme during growth on acetate. PrpE can also activate acetate, 3HP, and butyrate to their corresponding CoA-thioesters, although with less efficiency.	0
NC_010505.1\|WP_012318083.1\|1139266_1140169_-\|LysR-family-transcriptional-regulator	gnl\|CDD\|176133	cd08442, PBP2_YofA_SoxR_like, The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold. YofA is a LysR-like transcriptional regulator of cell growth in Bacillus subtillis. YofA controls cell viability and the formation of constrictions during cell division. YofaA positively regulates expression of the cell division gene ftsW, and thus is essential for cell viability during stationary-phase growth of Bacillus substilis. YofA shows significant homology to SoxR from Arthrobacter sp. TE1826. SoxR is a negative regulator for the sarcosine oxidase gene soxA. Sarcosine oxidase catalyzes the oxidative demethylation of sarcosine, which is involved in the metabolism of creatine and choline. The topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase domains. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis.	8.07151e-73
NC_010505.1\|WP_012318064.1\|1120622_1121495_-\|tetratricopeptide-repeat-protein	gnl\|CDD\|276809	sd00006, TPR, Tetratricopeptide repeat. The Tetratricopeptide repeat (TPR) typically contains 34 amino acids and is found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans. It is present in a variety of proteins including those involved in chaperone, cell-cycle, transcription, and protein transport complexes. The number of TPR motifs varies among proteins. Those containing 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accommodate an alpha-helix of a target protein. It has been proposed that TPR proteins preferentially interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes.	1.72503e-19
NC_010505.1\|WP_012318075.1\|1131198_1132068_+\|amidohydrolase-family-protein	gnl\|CDD\|238636	cd01311, PDC_hydrolase, 2-pyrone-4,6-dicarboxylic acid (PDC) hydrolase hydrolyzes PDC to yield 4-oxalomesaconic acid (OMA) or its tautomer, 4-carboxy-2-hydroxymuconic acid (CHM). This reaction is part of the protocatechuate (PCA) 4,5-cleavage pathway. PCA is one of the most important intermediate metabolites in the bacterial pathways for various phenolic compounds, including lignin, which is the most abundant aromatic material in nature.	1.44963e-71
NC_010505.1\|WP_012318068.1\|1123909_1124092_+\|DUF465-domain-containing-protein	gnl\|CDD\|227857	COG5570, COG5570, Uncharacterized small protein [Function unknown].	4.95509e-13
NC_010505.1\|WP_012318078.1\|1133793_1134429_-\|alpha/beta-fold-hydrolase	gnl\|CDD\|184875	PRK14875, PRK14875, acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional.	2.09029e-08
NC_010505.1\|WP_012318077.1\|1132438_1133758_-\|MHS-family-MFS-transporter	gnl\|CDD\|340927	cd17369, MFS_ShiA_like, Shikimate transporter and similar proteins of the Major Facilitator Superfamily. This subfamily is composed of Escherichia coli shikimate transporter (ShiA), inner membrane metabolite transport protein YhjE, and other putative metabolite transporters. ShiA is involved in the uptake of shikimate, an aromatic compound involved in siderophore biosynthesis. It has been suggested that YhjE may mediate the uptake of osmoprotectants. The ShiA-like subfamily belongs to the Metazoan Synaptic Vesicle Glycoprotein 2 (SV2) and related small molecule transporter family (SV2-like) of the Major Facilitator Superfamily (MFS) of membrane transport proteins. MFS proteins are thought to function through a single substrate binding site, alternating-access mechanism involving a rocker-switch type of movement.	1.41548e-145
NC_010505.1\|WP_012318082.1\|1137874_1139167_-\|ArgE/DapE-family-deacylase	gnl\|CDD\|180721	PRK06837, PRK06837, ArgE/DapE family deacylase.	0
NC_010505.1\|WP_012318074.1\|1129891_1131196_+\|MFS-transporter	gnl\|CDD\|340929	cd17371, MFS_MucK, Cis,cis-muconate transport protein and similar proteins of the Major Facilitator Superfamily. This subfamily is composed of Acinetobacter sp. Cis,cis-muconate transport protein (MucK), Escherichia coli putative sialic acid transporter 1, and similar proteins. MucK functions in the uptake of muconate and allows Acinetobacter calcoaceticus ADP1 (BD413) to grow on exogenous cis,cis-muconate as the sole carbon source. The MucK subfamily belongs to the Metazoan Synaptic Vesicle Glycoprotein 2 (SV2) and related small molecule transporter family (SV2-like) of the Major Facilitator Superfamily (MFS) of membrane transport proteins. MFS proteins are thought to function through a single substrate binding site, alternating-access mechanism involving a rocker-switch type of movement.	4.39287e-154
NC_010505.1\|WP_012318063.1\|1119398_1120553_+\|acyl-CoA-dehydrogenase	gnl\|CDD\|132247	TIGR03203, pimD_small, pimeloyl-CoA dehydrogenase, small subunit. Members of this protein family are the PimD proteins of species such as Rhodopseudomonas palustris, Bradyrhizobium japonicum. The pimFABCDE operon encodes proteins for the metabolism of straight chain dicarboxylates of seven to fourteen carbons. Especially relevant is pimeloyl-CoA, basis of the gene symbol, as it is a catabolite of benzoyl-CoA degradation, which occurs in Rhodopseudomonas palustris.	6.05626e-147
NC_010505.1\|WP_012318065.1\|1121829_1122942_-\|5-(carboxyamino)imidazole-ribonucleotide-synthase	gnl\|CDD\|235674	PRK06019, PRK06019, phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed.	0
NC_010505.1\|WP_012318071.1\|1126925_1128044_+\|NADH:flavin-oxidoreductase/NADH-oxidase	gnl\|CDD\|239242	cd02932, OYE_YqiM_FMN, Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing agent. The YqjM enzyme exists as a homotetramer that is assembled as a dimer of catalytically dependent dimers, while other OYE members exist only as monomers or dimers. Moreover, the protein displays a shared active site architecture where an arginine finger at the COOH terminus of one monomer extends into the active site of the adjacent monomer and is directly involved in substrate recognition. Another remarkable difference in the binding of the ligand in YqjM is represented by the contribution of the NH2-terminal tyrosine instead of a COOH-terminal tyrosine in OYE and its homologs.	0
NC_010505.1\|WP_024830804.1\|1128239_1129001_-\|hypothetical-protein	gnl\|CDD\|226222	COG3698, COG3698, Predicted periplasmic protein [Function unknown].	1.03395e-93
NC_010505.1\|WP_012318080.1\|1135170_1136505_+\|aspartate-aminotransferase-family-protein	gnl\|CDD\|181707	PRK09221, PRK09221, beta alanine--pyruvate transaminase; Provisional.	0
NC_010505.1\|WP_012318070.1\|1126264_1126738_-\|hypothetical-protein	gnl\|CDD\|153095	cd04706, PLA2_plant, PLA2_plant: Plant-specific sub-family of Phospholipase A2, a super-family of secretory and cytosolic enzymes; the latter are either Ca dependent or Ca independent. Enzymatically active PLA2 cleaves the sn-2 position of the glycerol backbone of phospholipids; secreted PLA2s have also been found to specifically bind to a variety of soluble and membrane proteins in mammals, including receptors. As a toxin, PLA2 is a potent presynaptic neurotoxin which blocks nerve terminals by binding to the nerve membrane and hydrolyzing stable membrane lipids. The products of the hydrolysis cannot form bilayers leading to a change in membrane conformation and ultimately to a block in the release of neurotransmitters. PLA2 may form dimers or oligomers. This sub-family does not appear to have a conserved active site and metal-binding loop.	1.61566e-06
NC_010505.1\|WP_012318066.1\|1122938_1123439_-\|5-(carboxyamino)imidazole-ribonucleotide-mutase	gnl\|CDD\|223119	COG0041, PurE, Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism].	2.24476e-79

>NC_010505.1|WP_024830804.1|1128239_1129001_-|hypothetical-protein
MERMMMLRPAHALLIVLLALAAPARAASPAAAEPCRAVEAQGETFTVCTIDLRKQRLRLFWLQDDGKPYGALGTLAEKQGGRLAFAMNAGMYDKDQAPVGLYVEDGHELKRVSTTDGPGNFHLKPNGIFWVKGERAGVVDTARYLRAKIRPDFATQSGPMLVIDGQIHPKIAADGPSQKIRNGVGVPGDGHVAIFAISERPVTFGAFARLFRDDLGCRNALFLDGSVSSLYAPNLGRSDISRPLGPLVGALPR
>NC_010505.1|WP_012318071.1|1126925_1128044_+|NADH:flavin-oxidoreductase/NADH-oxidase
MTARLFEPLTLDALTLENRILVAPMCQYSARDGEATDWHMMHLGQLAMSGAGLLTLEATAVSPEARITAWDLGLYNDGCERALGRVLDAVREYAPIPVCIQIAHAGRKASSEAPWAGGQQIPPEHAYGWRTEAPSAVAHGEGEVPPHALDAADLKRVRDAFVATAKRAVRLGIEAVELHGAHGYLLHQFLSPIANKRTDAYGGSLAKRMRFPLEVYDAVRDVVPAGSPVWLRVSATDWVEDGWDLDETIELAQALKRAGSPALHVSTGGVSPKQAIKLGPGYQVPYAERIKAETGLTTIAVGLITEAHQAETILQEGKADAISLARAMLYDPRWPWHAAAELGARVRAPRQYWRSQPREYKDLFKDTAFGQR
>NC_010505.1|WP_012318070.1|1126264_1126738_-|hypothetical-protein
MMLTKLAVPLVLAAGCAALAGAAQAQPAAFGGPKMLIHGNYCGPGNNAPLPPIDALDAACARHDACTPEGGLPSQACNLRLKQEATLISRDPSQPDDVRSLAGLVAATATLIPSEPNARRVPASVTTGPASGAYVPAVTRPAPTVDVDPDDDGADAD
>NC_010505.1|WP_012318069.1|1124291_1126220_+|propionyl-CoA-synthetase
MTRASLPGRYPEIYESARRDPEAFWLGAARALDWARSPERAFAPDSGPYGRWFPDGTLNACHNAVDRHADGARADQVAIRYDSPVTGTKRSITYRVLRDEVAVLAAVLADLGVGKGDRVILYMPMVPEALFGMLACARLGAVHSVVFGGFAANELAVRIEDAAPKVVLAASCGIEPNRVVAYKPLLDAAIAASRHKPEACLILQRPQGPATLVVGRDRDWAETVAAARAAGRRADCVPVAATDPLYILYTSGTTGKPKGVVRDTGGYLVALAWSMPNLYGVQPGETYFCASDIGWVVGHSYIVYAPLLHGCTTVLYEGKPVGTPDAGAFWRVVAEYGVVCLFTAPTALRAIKKEDSKGARIAAYDLSAFRSLFLAGERADPDSVAWAERVLDRPVVDHWWQTETGWPIAGNPMGLGLLPVKHGSTCVPMPGYRVEVLDEGGRPVPAGTMGTIAIRLPLPPGCLPTLWGSDDRMRSSYLATFPGYYDTSDAGVIDGDGYITVLGRTDDIINVAGHRLSTGGMEAVLASHPDVAECAVIGIRDALKGEVPCGFVVLKAGVARPTETIERELVAKVRDEIGPVAAFKLALTVPRLPKTRSGKILRATMKRIADHEPWTMPATIDDAAALDEIGDSLKDRGIGAAR
>NC_010505.1|WP_012318068.1|1123909_1124092_+|DUF465-domain-containing-protein
MSLQTHLNQLARKHEALEREIQEAIHRPSANDLHIAELKRRKLLLKDEINKLQAGNDTLH
>NC_010505.1|WP_024830808.1|1123517_1123736_-|DUF465-domain-containing-protein
MADEAGEGAQSDLLGELARLREEHRDLDSAIEALERSVAGDQLQIQRLKKRKLTLRDRIFHIEDALTPDIIA
>NC_010505.1|WP_012318066.1|1122938_1123439_-|5-(carboxyamino)imidazole-ribonucleotide-mutase
MASPPPVAIIMGSQSDWATMRHAAETLDALGVPYDARIVSAHRTPDRLVAFAKGAVAAGLKVVIAGAGGAAHLPGMAAAMTRLPVFGVPVESKALSGQDSLLSIVQMPAGIPVGTLAIGRAGAVNAALLAAAVLALTDPGLAERLEAWRAAQSASVAERPVTEENA
>NC_010505.1|WP_012318065.1|1121829_1122942_-|5-(carboxyamino)imidazole-ribonucleotide-synthase
MTDKILGPGFTLGIVGGGQLGRMIALAAADYGLKAHVYAPDADSPAFDVAARTTCAAYDDAAALADFARSVDVVTYEFENIPHATADVLARHAALHPNARALSTTQDRLSEKEFINGLGIPTAPFRAVDTPDDLDRAIEVIGLPAVLKTRRFGYDGKGQRMLRERAEGDRNALFAEFGGAPLILEGFVPFEREVSVVGARGRDGSFAAYDLCENEHRDHILALTRVPAPGVSAETGRAAVEIARRIADALDYVGVLAVEMFLVREDGAERLVVNEIAPRVHNSGHWTSEGALTSQFAQHVRAVCGWPLGDPGRVGGLPVEMRNLIGAQADDWHALLAEPGAHLHLYGKGEARPGRKMGHVTRLGAGPTGS
>NC_010505.1|WP_012318064.1|1120622_1121495_-|tetratricopeptide-repeat-protein
MNVRIRLGRKTALIGAALVSAAGLAGCETVGSAAGPRQYAVLEKDTTGATNVNIASLTEVVQRNPNDAAAYNTRGAAYARAGQFNDAIADFTKAIQLDPNSASAYNNRALANRQIGRDGPALQDFSKAIGIDPNYGPAYIGRANVERAQGNLDQALNDLNVAIRLSPESAQAYHARGLVKQKQGQDTQAIADFDAAIDRDPFVAAPYAARGQSLIATNQYAKAIEDYNAALNVNAKDATSWAYRGLAYEKQGQRKEAMENYQRASTIDPNNTVARAGLGRVQGGVGSLFN
>NC_010505.1|WP_012318063.1|1119398_1120553_+|acyl-CoA-dehydrogenase
MDFDLNEDQSLLRDSVERLAADLYPSLESRQARLKAPFGFPEEGWTAFAELGVAGLPFSEEEGGLGGGPVETMLVMEAVGRNLVVEPLLASLVLGSTALRLGGSAAQKARLVPGLVAGDLRLTLAHTERQSRYDLADVATAARRSGDGFVLSGAKSVVPNADAAGLMVVSARVSGERRDPRGLGLFLVPTDAAGVAVEAYPTQDGGRAAEVSFSEVQIPADAALGDPEDGLPLLERVVEHGIAALAAEAVGSMDALHKLTVEYLKTRKQFGVSVGSFQALQHRAVDMLIQLEQARSMALYAAMMVDTPDARARAAALSAVKVQINKACRYVGQEAVQLHGGIGMTLEYVGAHHFKRLAMIEYQLGDTAHHLRRITQDENGLLAA
>NC_010505.1|WP_012318074.1|1129891_1131196_+|MFS-transporter
MSSATGQGPTGVDAVEIRDASLSAFYRSMTPPERHTFWACAAGWCLDGMDFMIYPLVIGTIMALWHVDAGTAGLAATVTLLASALGGWLAGFVADRIGRVLTLQITILWFSLFSLLCAFVQNFEQLLIARALLGLGFGGEWAAGAVLIGETIRAEYRGRAVGSVQSGWAIGWGLAVLSQAVLFSVLPPETAWRWMFAVGALPALLVFYLRRYVKEPEVAAESRARAAATGDRPQIWEIFSGPILKTTLLASLAAAGCQGGYYAITTWVPRFLTTERHLSIVSSTGYLAALIIGSFTGYLVGAWLADRLGRRPLFLIFSLGAIAVIVAYTQIPLSNGVLWVLGFPLGFFASGYFSGMGAFLTELYPTRLRGSGQGFCYNFGRGIGALFPALVGYLAERAGLASAIAIFAAVAYGIFFLAAFALPETRGKVLHADS
>NC_010505.1|WP_012318075.1|1131198_1132068_+|amidohydrolase-family-protein
MPEIRDCPAPDPHPEGPTRYAVPDGAVDTHAHVIGLPPAYPLVADRSYTPPAAPADQYLAMLDGTGMANGVLIQVSVHGTDNRLMVETLRAHRQRLRGVAVIPLGLPDAELAALKEAGVVGLRLNVLFGGGVGLDAVESYGALAREMGWHLQFLLDARELPPIAGRLSRLPVPLVFDHMGHMPTSAGVDHPGFRALLGLVGDGNWVKLSGAFRDSVTGPPYADTIPFARALNDAAPERCLWGSDWPHVAAWDGPPRTTALLDLMADWVPDADRRRMVFVDNPRRLYGFA
>NC_010505.1|WP_012318076.1|1132172_1132370_-|hypothetical-protein
MDSIAAAAVQMLGSSQNQQIGIAVAKQQLSADKAVAGLVADSAAQAASAGPPAPSGQGLSVDRRV
>NC_010505.1|WP_012318077.1|1132438_1133758_-|MHS-family-MFS-transporter
MAVTTAAPAAGPGQNQSARAALAAFVGTTIEWYDFFIYGTAAALVFGPLFFTAESPYIATLSAFGTFAVGFLARPLGGLIFGHLGDRFGRKRALVATLVMMGIATSCIGLLPTYASVGLWAPVMLVVLRLIQGLAVGGEWGGAVLMAAEHAPAGRNTFFASFAQLGSPAGQILSLLAFRLAGLLDKESFLTWGWRVPFLVSILLLFVGLAIRLGVAESPAFEKAQAAGGPPPAPVREVLTAYLKPVLLAAGANTFAIASVYLFNTFMIAFTTQYLGIARATILDALLIAAVVQLVMTPVGARIAEVIRNERLFLQGTLVWAMLAPYPLFWLVETKSVPLIVLGLALNVIGSATFYAVIAGYLAGAFPTRVRYTAISIAYQFCGALAGGLTPIVGTVLAERFQGHWWPIAVFGTCLAGVSFLCVTAIGGYRARQRGFLDG
>NC_010505.1|WP_012318078.1|1133793_1134429_-|alpha/beta-fold-hydrolase
MPSDSVVLLHGLGRRAASLARMRSALTAEGYRVFALDYPSTRHDLPTLTATLRPKVAAIAGATAGAVHFVGHSMGGLLARSLIADARPDRLGRLVMLGPPNRGSEIADRLRHVGLYRRLLGPAALSLGTATVPVWPDPDYPIGVIAGTRSIDPVGWLMLPRPNDGRVSVARTGIPGLHGHLVLPVSHALMMNHPTVIAQTVRFLATGAFAA
>NC_010505.1|WP_012318079.1|1134442_1135003_-|cupin-domain-containing-protein
MSIDVGARLRFVRARHGLSQRTLAKRAGVTNSAISLIEANRVNPSVGALKRILDGVPIGMAEFFALEPEPERKAFFAAEELTEIGRRAAKGAISYRQVGDSLFGRKLQILKERYEPGADTGRVPLSHEGEEGGIVLSGRLEVTVDAERRILGPGDAYSFDSRRPHRFRCVGPNPCEVVSACTPPSF
>NC_010505.1|WP_012318080.1|1135170_1136505_+|aspartate-aminotransferase-family-protein
MTDHPLRNTPAMDAFWMPFTANRQFKAAPRLLVSAEGMHYTADDGRKVLDGSAGLWCVNAGHGRRGIAAAMERQLATLDFAPTFQMGHPIAFEFAERLAEIAPGGPGKRLDRVFFTNSGSESVDTALKIALAYQRAIGQGTRTRLIGRERGYHGVGFGGLSVGGIVSNRRVFPQLNGTDHLRHTHDPARNAFVKGQPEHGAELAEDLERLVALHGAETIAACIVEPVAGSTGVLIPPKGYLERLREICTKHGILLIFDEVISGFGRLGAPFATDFFGVVPDLVTSAKGLTNGTVPMGAVFASRAVHDALMQGPDGIELFHGYTYSGHPIACAAGLATLDIYREEGLLTRVADIADDWAAAMHDLRGRKNVVDIRTIGLVAGIELAPRPDAVGKRAYEVFVDCFERGLLTRVTGDIIALSPPLIIERGQIGEIVEILGAAIDRVA
>NC_010505.1|WP_012318081.1|1136699_1137761_+|SDR-family-oxidoreductase
MSNTALIVGASGIVGSATAALLQQEGWRVAGLARRPVAQAGVEPVAGDLQDPASLEKALADLAPTHVFLATWQRRPTEAEMIRVNRAMVENLLDALRPKGSVRHVALVTGLKHYLGPFEAYGKGKLPQTPFREDQGRLDIENFYYAQEDAVFAAAARDGFTWSVHRPHTIIGKAVGNAMNMGTTLACYATLCRELGRPFLFPGSAAQWNGLTDMTDARLLARQLLWASTEPRAANEAFNVVDGDVFRWSWMWGRIAAWFGIEAVPFDGTHRPLEPRMAQDGPAWAEIAQRYGLAEPNLEKLASPWHTDADLGRPIEVVTDMSKSRRLGFTAYQPTDDAFYDLFAQLRADRLIP
>NC_010505.1|WP_012318082.1|1137874_1139167_-|ArgE/DapE-family-deacylase
MALDPTLAAEIEASVAEGFADQVAHTQALVRFASLRGEEHACQDYVFEQFRARGYATERFAMDRGAIAAHPGGSKIDDAHHSDAPIVVCHHRPGTETGRSLILQAHVDVVPPGPLDLWTHRPFDPVIQGDWMYGRGAGDMKAGHAANLFALDALARLGLQPAASVTVQSVVEEESTGNGALMTHLRGYRADAVLIPEPEDEKLVRANTGVLWFTVEVRGVPVHVREMGAGANAIDATYRVIGALREVEARWNAEKAAHPHFETEDHPINLNIGKIEGGDWASSVPAWCRIHCRVALYPGVTAAQAAAEIEAAVASFSRTDPFLANSPPRVVFNGFFAEGYVLEAGSEAEAVLGRAHERAIGSPLQSFMTAGYLDTRVHALYDRVPALCYGPTSQNIHGFDERVSLASVKRITTTMALFVAEWCGTERKVS
>NC_010505.1|WP_012318083.1|1139266_1140169_-|LysR-family-transcriptional-regulator
MNSTDLMFFAAVAETGGIGRAAARLNTVQSNVTGRIRALEQALRVPLFHRGSRGVTLTRAGERLLPYALQVGQLLAEARHALLAEGEPRGPLRIGAMETTAALRLPGPLADFAARHPDVDIELETGPTERLIARVLDRSLEGAFVAGPVAQADLVGIPVFTEELVLVAHPAVGDLAALLDRLARARDAKVLVFRAGCSYRRRLEDFLARQGLVHVRRMEFGTLDGILGCVAAGLGVTLVPRGVADPAHRAGRVSLHPVPDGDGHAPTLLVHRADVRPSAAFARFAEQVRVAFPDSPSDSP

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Crispr_ID: NC_010505_2

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_010505_2

3768881-3768972

Orphan

Consensus_repeat	Method
GGCATCGGCGGCACCGGCATGAT	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_010505_2

>merge|NC_010505|2|3768881-3768972|CRISPRCasFinder
GGCATCGGCGGCACCGGCATGATGCGGACCGACGAGCCGCGGAACGGGTCCCTCGGCGAGGGCGACCGCGGCATCGGCGGCACCGGCGTGAT

>NC_010505|2|1|3768881-3768972|CRISPRCasFinder
GGCATCGGCGGCACCGGCATGAT	GCGGACCGACGAGCCGCGGAACGGGTCCCTCGGCGAGGGCGACCGC
GGCATCGGCGGCACCGGCGTGAT

Protein	Signature genes	Signature genes Name	Protein_function
NC_010505.1\|WP_012320480.1\|3760983_3762402_+\|C4-dicarboxylate-ABC-transporter-substrate-binding-protein	unknown	unknown	gnl\|CDD\|225233
NC_010505.1\|WP_012320491.1\|3772561_3773308_-\|YebC/PmpR-family-DNA-binding-transcriptional-regulator	unknown	unknown	gnl\|CDD\|234640
NC_010505.1\|WP_041372715.1\|3778536_3779484_+\|LysR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|176111
NC_010505.1\|WP_012320484.1\|3766540_3767278_-\|outer-membrane-beta-barrel-protein	unknown	unknown	gnl\|CDD\|226163
NC_010505.1\|WP_106427924.1\|3765983_3766355_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|153095
NC_010505.1\|WP_012320498.1\|3779480_3780719_+\|oxidoreductase	unknown	unknown	gnl\|CDD\|224171
NC_010505.1\|WP_012320486.1\|3767439_3767769_-\|hypothetical-protein	unknown	unknown	unknown
NC_010505.1\|WP_012320494.1\|3775695_3776382_-\|ribulose-phosphate-3-epimerase	unknown	unknown	gnl\|CDD\|238244
NC_010505.1\|WP_012320478.1\|3758934_3760146_-\|putative-DNA-modification/repair-radical-SAM-protein	unknown	unknown	gnl\|CDD\|188431
NC_010505.1\|WP_012320482.1\|3765349_3765964_+\|nucleotide-exchange-factor-GrpE	unknown	unknown	gnl\|CDD\|172630
NC_010505.1\|WP_024829253.1\|3762453_3765246_+\|[protein-PII]-uridylyltransferase	unknown	unknown	gnl\|CDD\|235342
NC_010505.1\|WP_012320496.1\|3777286_3778342_-\|class-1-fructose-bisphosphatase	unknown	unknown	gnl\|CDD\|236458
NC_010505.1\|WP_012320479.1\|3760222_3760759_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|225048
NC_010505.1\|WP_041372713.1\|3757453_3758860_-\|UdgX-family-uracil-DNA-binding-protein	unknown	unknown	gnl\|CDD\|274850
NC_010505.1\|WP_012320493.1\|3774913_3775702_-\|HAD-IA-family-hydrolase	unknown	unknown	gnl\|CDD\|319830
NC_010505.1\|WP_012320487.1\|3767921_3768767_+\|hypothetical-protein	unknown	unknown	unknown
NC_010505.1\|WP_012320495.1\|3776402_3777263_-\|phosphoribulokinase	unknown	unknown	gnl\|CDD\|237970
NC_010505.1\|WP_024829250.1\|3773537_3774578_+\|SDR-family-oxidoreductase	unknown	unknown	gnl\|CDD\|235935
NC_010505.1\|WP_012320490.1\|3771385_3772372_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|270206
NC_010505.1\|WP_041372714.1\|3770138_3771203_-\|bifunctional-DNA-binding-transcriptional-regulator/O6-methylguanine-DNA-methyltransferase-Ada	unknown	unknown	gnl\|CDD\|185333

Protein	Function_ID	Function_description	E-value
NC_010505.1\|WP_012320480.1\|3760983_3762402_+\|C4-dicarboxylate-ABC-transporter-substrate-binding-protein	gnl\|CDD\|225233	COG2358, Imp, TRAP-type uncharacterized transport system, periplasmic component [General function prediction only].	1.27169e-18
NC_010505.1\|WP_012320491.1\|3772561_3773308_-\|YebC/PmpR-family-DNA-binding-transcriptional-regulator	gnl\|CDD\|234640	PRK00110, PRK00110, YebC/PmpR family DNA-binding transcriptional regulator.	3.91354e-147
NC_010505.1\|WP_041372715.1\|3778536_3779484_+\|LysR-family-transcriptional-regulator	gnl\|CDD\|176111	cd08419, PBP2_CbbR_RubisCO_like, The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold. CbbR, a LysR-type transcriptional regulator, is required to activate expression of RubisCO, one of two unique enzymes in the Calvin-Benson-Bassham (CBB) cycle pathway. All plants, cyanobacteria, and many autotrophic bacteria use the CBB cycle to fix carbon dioxide. Thus, this cycle plays an essential role in assimilating CO2 into organic carbon on earth. The key CBB cycle enzyme is ribulose 1,5-bisphosphate carboxylase/oxygenase (RubisCO), which catalyzes the actual CO2 fixation reaction. The CO2 concentration affects the expression of RubisCO genes. It has also shown that NADPH enhances the DNA-binding ability of the CbbR. RubisCO is composed of eight large (CbbL) and eight small subunits (CbbS). The topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase domains. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis.	1.76485e-89
NC_010505.1\|WP_012320484.1\|3766540_3767278_-\|outer-membrane-beta-barrel-protein	gnl\|CDD\|226163	COG3637, COG3637, Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane].	8.06643e-11
NC_010505.1\|WP_106427924.1\|3765983_3766355_-\|hypothetical-protein	gnl\|CDD\|153095	cd04706, PLA2_plant, PLA2_plant: Plant-specific sub-family of Phospholipase A2, a super-family of secretory and cytosolic enzymes; the latter are either Ca dependent or Ca independent. Enzymatically active PLA2 cleaves the sn-2 position of the glycerol backbone of phospholipids; secreted PLA2s have also been found to specifically bind to a variety of soluble and membrane proteins in mammals, including receptors. As a toxin, PLA2 is a potent presynaptic neurotoxin which blocks nerve terminals by binding to the nerve membrane and hydrolyzing stable membrane lipids. The products of the hydrolysis cannot form bilayers leading to a change in membrane conformation and ultimately to a block in the release of neurotransmitters. PLA2 may form dimers or oligomers. This sub-family does not appear to have a conserved active site and metal-binding loop.	6.55047e-07
NC_010505.1\|WP_012320498.1\|3779480_3780719_+\|oxidoreductase	gnl\|CDD\|224171	COG1251, NirB, NAD(P)H-nitrite reductase [Energy production and conversion].	3.83182e-65
NC_010505.1\|WP_012320494.1\|3775695_3776382_-\|ribulose-phosphate-3-epimerase	gnl\|CDD\|238244	cd00429, RPE, Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose phosphate pathway. In the Calvin cycle Ru5P is phosphorylated by phosphoribulose kinase to ribulose-1,5-bisphosphate, which in turn is used by RubisCO (ribulose-1,5-bisphosphate carboxylase/oxygenase) to incorporate CO2 as the central step in carbohydrate synthesis.	1.82281e-115
NC_010505.1\|WP_024829253.1\|3762453_3765246_+\|[protein-PII]-uridylyltransferase	gnl\|CDD\|235342	PRK05092, PRK05092, PII uridylyl-transferase; Provisional.	0
NC_010505.1\|WP_012320482.1\|3765349_3765964_+\|nucleotide-exchange-factor-GrpE	gnl\|CDD\|172630	PRK14141, PRK14141, heat shock protein GrpE; Provisional.	1.42909e-93
NC_010505.1\|WP_012320478.1\|3758934_3760146_-\|putative-DNA-modification/repair-radical-SAM-protein	gnl\|CDD\|188431	TIGR03916, hypothetical_protein, putative DNA modification/repair radical SAM protein. This uncharacterized protein of about 400 amino acids in length contains a radical SAM protein in the N-terminal half. Members are present in about twenty percent of prokaryotic genomes, always paired with a member of the conserved hypothetical protein TIGR03915. Roughly forty percent of the members of that family exist as fusions with a uracil-DNA glycosylase-like region, TIGR03914. In DNA, uracil results from deamidation of cytosine, forming U/G mismatches that lead to mutation, and so uracil-DNA glycosylase is a DNA repair enzyme. This indirect connection, and the recurring role or radical SAM protein in modification chemistries, suggest that this protein may act in DNA modification, repair, or both. [Unknown function, Enzymes of unknown specificity].	0
NC_010505.1\|WP_012320496.1\|3777286_3778342_-\|class-1-fructose-bisphosphatase	gnl\|CDD\|236458	PRK09293, PRK09293, class 1 fructose-bisphosphatase.	5.30521e-139
NC_010505.1\|WP_012320479.1\|3760222_3760759_-\|hypothetical-protein	gnl\|CDD\|225048	COG2137, OraA, Uncharacterized protein conserved in bacteria [General function prediction only].	8.98365e-11
NC_010505.1\|WP_041372713.1\|3757453_3758860_-\|UdgX-family-uracil-DNA-binding-protein	gnl\|CDD\|274850	TIGR03914, SPO1_DNA_polymerase-related_protein, uracil-DNA glycosylase family domain. This model represents a clade within the uracil-DNA glycosylase superfamily. Among characterized proteins, it most closely resembles the Thermus thermophilus uracil-DNA glycosylase TTUDGA, which acts uracil (deamidated cytosine) in both single-stranded DNA and U/G pairs of double-stranded DNA. This domain may occur either as a stand-alone protein or as the C-terminal domain of a fusion with another domain that always pairs with a particular radical-SAM family protein.	2.09134e-118
NC_010505.1\|WP_012320493.1\|3774913_3775702_-\|HAD-IA-family-hydrolase	gnl\|CDD\|319830	cd07528, HAD_CbbY-like, subfamily of beta-phosphoglucomutase-like family, similar to Rhodobacter sphaeroides xylulose-1,5-bisphosphate phosphatase CbbY. This family includes Rhodobacter sphaeroides and Arabidopsis thaliana xylulose-1,5-bisphosphate phosphatase CbbY which convert xylulose-1,5-bisphosphate (a potent inhibitor of Ribulose-1,5-bisphosphate carboxylase/oxygenase, Rubisco), to the non-inhibitory compound xylulose-5-phosphate. It belongs to the beta-phosphoglucomutase-like family whose other members include Lactococcus lactis beta-PGM, a mutase which catalyzes the interconversion of beta-D-glucose 1-phosphate (G1P) and D-glucose 6-phosphate (G6P), Saccharomyces cerevisiae phosphatases GPP1 and GPP2 that dephosphorylate DL-glycerol-3-phosphate and DOG1 and DOG2 that dephosphorylate 2-deoxyglucose-6-phosphate, and Escherichia coli 6-phosphogluconate phosphatase YieH. This family belongs 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.	5.67093e-75
NC_010505.1\|WP_012320490.1\|3771385_3772372_+\|hypothetical-protein	gnl\|CDD\|270206	cd14440, AlgX_N_like_3, Uncharacterized proteins similar to putative alginate O-acetyltransferase. The alginate biosynthesis protein AlgX appears to be directly involved in the O-acetylation of alginate, an exopolysaccharide that is associated with the formation of persistent biofilms, such as those by mucoid strains of Pseudomonas aeruginosa that affect patients suffering from cystic fibrosis. Its N-terminal catalytic domain resembles SGNH hydrolases, though with a permuted topology. The active site matches that of the SGNH hydrolases, is well conserved, and has been verified experimentally. Members of this uncharacterized protein family resemble AlgX_N.	4.52618e-42
NC_010505.1\|WP_012320495.1\|3776402_3777263_-\|phosphoribulokinase	gnl\|CDD\|237970	PRK15453, PRK15453, phosphoribulokinase; Provisional.	0
NC_010505.1\|WP_024829250.1\|3773537_3774578_+\|SDR-family-oxidoreductase	gnl\|CDD\|235935	PRK07109, PRK07109, short chain dehydrogenase; Provisional.	4.99094e-164
NC_010505.1\|WP_041372714.1\|3770138_3771203_-\|bifunctional-DNA-binding-transcriptional-regulator/O6-methylguanine-DNA-methyltransferase-Ada	gnl\|CDD\|185333	PRK15435, PRK15435, bifunctional DNA-binding transcriptional regulator/O6-methylguanine-DNA methyltransferase Ada.	2.51478e-127

>NC_010505.1|WP_012320487.1|3767921_3768767_+|hypothetical-protein
MSETADTPREGASLHAPLARLLRPLVRLLVARGITFPALTDLLRELYVNVAEYDFALTGKEQTDSRVSLLTGIHRKEVRRLRGAGAPVSAVPAVVSRTSRIIARWIADPTFTDPQGQPLKLPRTAEGGAPSFESLVAGVTRDLRPRAVLDEWLDRGLAFTDPQDRIVLAEAAYVPRGDGAEGPQLYYFGRNLHDHIAAAVANIVGDAPRFLERAVHYDGLSEDLAIRLEERAREIAMEALQQANREAHAACQTDPGGTHRWNFGLYVYTEAAPPARQADER
>NC_010505.1|WP_012320486.1|3767439_3767769_-|hypothetical-protein
MTVETRILVAKSLPPLTLPVAPAGRPRPSDTLPRLRRLVCVVAALSLPVLGVAVAETVHRASSSRAPQAAAPAFPSGGAAASSNAVVPGRAARTARIAARSDENQWVRS
>NC_010505.1|WP_012320484.1|3766540_3767278_-|outer-membrane-beta-barrel-protein
MNARIHAALAGAAFGCLALAAQAADLPRRAPPPPPPSLPVFTWTGFYAGVNAGYAFPTGSGGFTDPTYGTVTGGGRSGGFAGGGQVGYNYQFTPGSGVVVGVETDIQGTAFAKADAAYLGTAPYYSVRPSLDYFGTVRARLGYAFDRVLVYGTGGFAYGGGARSTYAASYPYTLPSTDRTGYAAGGGIEYAFTEKLSAKVEALYLHLGRGTTAATYYNASVPAFYGAGKQDSGLALVRAGVNYRF
>NC_010505.1|WP_106427924.1|3765983_3766355_-|hypothetical-protein
MPSATSLTTRLLAVALAACAVPARAQEIVPPGPAGRGAILIYGNFCGPGSRGPGYPPIDALDLACAHHDACSPEPTAGTLPTCACNHRLRVEAGLVARDPAAPAQTRQTAQFISDFAAALPCQ
>NC_010505.1|WP_012320482.1|3765349_3765964_+|nucleotide-exchange-factor-GrpE
MPQDDQRQTTVEAGAGAAQDPAPAGQGSESATVDPVAEALALLTAERDELKDRTLRTLAEMENLRRRTEREVADARAYAVTNFARDVLNVADNIRRALDSVPADAKATADGALKGLIDGIELTERDLAKTLERHGVKIVEPQGQKFDPNRHQAMFEVPNAEVPAGTVVQVVQAGYVIGERVLRPALVGVAKGGPKAAANPADAA
>NC_010505.1|WP_024829253.1|3762453_3765246_+|[protein-PII]-uridylyltransferase
MFDPVAALDTVLENLDREAREPTKLRAALVPQLRRVIEEGHRAAEAQLLEDRNGLLCAQTLSNLTDAVVRAIHDAVVWRLYPNDNPSTGEQLAVVATGGYGRGTMAPGSDIDLLFLLPYKQTAWSESVVEGMLYVLWDLKLKVGHATRSVEECLREARADMTIRTALLEARFLFGTRVLYEELVTRFDAELVVGSAAEFVEAKLRERDMRVSKAGTSRYLVEPNVKDGKGGLRDLNTLFWIAKYTYRVRDQIELVSAGLFTPEEYALFERCEEFLWRVRCHMHFATKRAEERLSFGLQPRIAERFGYEARGGLSGVERFMKAYFRIAKDVGDLTAIVCAELEARHAKRTPVLDRWIGRFRDRFRATAMEAEDFWIDHGRVNLRAEDAFERDPVNLIRLFWLADRHNLAIHPDAKRLANRSLRLVNPSLRVDPEANRLFVEILTSRNAPEEALREMNEAGVLGRFIPDFGRIVAMMQFNMYHHFTVDEHLLRSVGVLADIESGRAQETYPLVSRLVHSIHNRTALYVAILLHDIAKGRPEDHSIAGAAIAEKLCPRFGLNQAETETVRWLVEHHLLMSMTAQSRDLSDAKTIERFAASVQSLERLKLLTILTVADITAVGPGVWTAWKGTLLRTLYDETEVYLSGGHSEIARTDRVRLVQMGLREQLPGWGSEEFDTYAARHSQAYWLKVDGTRQLKNAIFLRDVVRDGRTSATDVALDPVRGVTEITVYSPDHPRLLAIVTGACAAAGSNIVDAQIFTTTDGFALDTIFISRAFERDDDELRRTKRITAAIERALKGEIKIADLVADKHPPTSTRAKTFPVPPDVIIDNALSSRETVVEITGLDRPGLLYELTTAFSRLSLNITSAHVATFGERAVDVFYVTDLTGTRVTQPDRQAAIRAAVMDVFAHDVATLKAEGLEALVAAPPPREA
>NC_010505.1|WP_012320480.1|3760983_3762402_+|C4-dicarboxylate-ABC-transporter-substrate-binding-protein
MRREWLLVLVALGLAAAAAAIVYLSRPNTLTVAVGPQDGPEAALIEAYAGALDRAREDVRLKVVRYGDVRDSALALQRNKADLAVVRPDVFLPENGLTLAILHDEALVIAAPEAADIDDVPALARKRLGIVVRHSADLSFLTNLLSFYDLVPDSAGEDAAEAGHAAEAEPGHVVVVPLKVGDVTAALAEKRVDAVAVIASPASKPAAAVVRAVELGSPDRKVGFVSIPDGDAILQRFPELQSVTIPAGTFGGRPKRPDEEIKTVGASYRLMARGTVSRVAVASATQHLFEWRSRLASTAPVAKLMKAPDFDTTVAATSARLPNHPGAVDYFEREQQTFLDRYEDYIYLFAFFGGTIGSGFAWIGQRLARKRRERVDFVLDRLLDIMREVRAATSAAELDAIAIETDGLVADVVCYARERSIDARTVSALILAVDGVHAAIADARRQTSETEPRAATRNRTARLLALDLPAAE
>NC_010505.1|WP_012320479.1|3760222_3760759_-|hypothetical-protein
MSPAWLERAALHYLERYSASTEMLRRTLARRVQKRARARGEDPERFADLVTATVARAVSAGLVDDARFADTRLATLRRRGTSSRGVSAKLAAKGVPRDVVEAAMLAERDALPVGEADAVEEQAAQAYAKRRRLGPYRRPDQRAAHRDRDLAALGRAGFAYGLARRVVDRETEEPDEPA
>NC_010505.1|WP_012320478.1|3758934_3760146_-|putative-DNA-modification/repair-radical-SAM-protein
MDETLAKKLRILADAAKYDASCASSAAPKRAAGKDGLGSTTGAGICHAYTPDGRCVSLLKILLTNWCLFDCAYCVNRRSSNVRRAKFTVEEVVNLTLNFYRRNYIEGLFLSSGIIKSPDHTMELLTRVAKSLRRDHGFAGYIHLKSIPEASPWLIEEAGLYADRLSINVELPTEASLERLAPEKDGAAIQGAMAQIGERIVQAKAEKRRFSPAGHSTQVIVGADATTDEALIRKSALLYGSVGLKRVYYSAFSPIPDGSAILPPKPPPLQREHRLYQADWLLRYYEFTPDEVADASEGGMLALDIDPKLAWALKHRDKFPVDVNRADREWLLRVPGLGARAVDKIIRARRHATLRLDDVARLTSGLKRARPFLVAADHRPVALTDRLDLRARLVEPAAQLSLF
>NC_010505.1|WP_041372713.1|3757453_3758860_-|UdgX-family-uracil-DNA-binding-protein
MRPGADLDGFRKAVRSLVAQGVAPGAVTWSVTDSPGLFSGDGEPAAGAPLVLPKAVASLIPQVIPHRDPERYGLLYALVWRVCRGERHLMEVGSDPLVHRLHRMAKAIGRDLHKMHAFLRFRRAEGPDGERYVAWFEPDHHILEAAAPFFVNRFRGMRWSILTPDGSAHWDTETLTFGPAGDRAQLPEGDGFEAGWQTYYESTFNPARTNLKAMRAEMPKKYWHNMPETAAIPALVRAAAGRTVAMIEREPTMPTRREPARAVAAMADQDPKTLEELNAIIRRTEPLVPGATQAVLGEGPVGATVAFVGEQPGDQEDRQGRPFVGPAGQLLSRAMAEAGIDRGASYLTNAVKHFKFEERGKRRIHQKPTAGEVSHYRWWLDRELEFVGPKLVVALGATAVLALTGKAIPITRARGPFRFDRHDNRFQGFITVHPSYLLRLPDEAKAEAYAAFVDDLRRVEALGRELAA
>NC_010505.1|WP_041372714.1|3770138_3771203_-|bifunctional-DNA-binding-transcriptional-regulator/O6-methylguanine-DNA-methyltransferase-Ada
MSPVPATDPDDAARWAALAARDARADGTFVYAVRTTGVYCRPSCAARAARPENVSFHRTCAEAEAAGFRPCRRCRPDEPALAERRAEAVARACRSIETAETMPSLAALARAAGLSAYHFHRVFKDVTGVTPKAYAAAHRAAAVARRLPGAASVTEALYEAGYGAASRFYAGGAPRLGMAPAAYRTGGAGLRIRFGIGACSLGAILVAATEAGVCAILLGDAPEPLLHDLQDRFPAAEIEGGDPAFEGWMAQVIGFVEAPGTGLDLPLDIRGTAFQQRVWAALREIPVGSTATYAEIARAIGLPTATRAVAQACGANPVAVAIPCHRVVRSDGALSGYRWGVARKRALLDREAEA
>NC_010505.1|WP_012320490.1|3771385_3772372_+|hypothetical-protein
MASTTPDHIHVGQDGWLFLKTGTNDVLGQYERPEETTELIWQWRSLVTTRERRLRAQGILYRHVVAPEKLMIYDHRLDGLAIRPSASPAYRLLHSEPPAGRFPGPVGLYAAWRRRKRWQQTCIDLVTPMRAQRDAADLYCRTDTHWSADGCYLAYAEICRALGAEPRQDLRERPSFETDHDGDLGSAFDPPRRARSRTVQMQQDAVRIYGSPIVEAREKAGLLHTLHVGAHVIYGNTKATDPRRLALFGDSFSHVMPYMLTIMLAETFREVHFVWSTSLDWSYIERVRPDIVLTEVAERFMVQLPDDTFSVERYAQDRFGAELAAAGT
>NC_010505.1|WP_012320491.1|3772561_3773308_-|YebC/PmpR-family-DNA-binding-transcriptional-regulator
MAGHSQFKNIMHRKGRVDAVRSKVFGKLAREITVAAKLGTPDPAMNPRLRAAILAARAENMPKDNIERAIKKAAGADGENYEDIRYEGYGPGGAALIVEAQTDNRNRTASDVRSAFTKSGGSLAETGAVAFMFDRVGVIAYPASVADADTMLEAAIEAGADDVSSGEDGHEVICAQDSYGEVTKALEARFGEPARTGLIWKAQNTINVDDETGEKLIRLVEVIEDQDDVQHVYVNFALSDALVAKLQA
>NC_010505.1|WP_024829250.1|3773537_3774578_+|SDR-family-oxidoreductase
MSSRNGRSTVMVTGASAGVGRAVAHEFARHGWNVGLIARGEAGLRGTIRDVERAGGRALAFAADVADAEAVAQAADELAEAFGGIDVWVNNAMVTVYAPVQETSPEEFHRATAVTYLGQVHGTLAALRHMVPRDRGTIVHVGSALAYRSIPLQASYCAAKAAVRGFVDSLRSELLHDRSRVRLTMVQLPAVNTPQFDWARSRLPRKLEPVPPIYQPEAIARHVFRAAHDAPREMWIGASAWKAIIGNMLIPGWIDGYLARHGYRGEMTGVQAQKNRPDNLYDPVDTDPGAHGRFDARATGDVAAVDPRWLKFGLAAALGVVAGTMLFATEAHGRADARADRRLGRR
>NC_010505.1|WP_012320493.1|3774913_3775702_-|HAD-IA-family-hydrolase
MLRALIFDVDGTLAETEDLHRQAFNRAFAELGLPWRWDEALYADLLAVMGGKERLAHFIDSAHPADAEALHARAPEIHARKTRAYGDLVAQHGLPLRPGIARLIAEARAAGIRLAVATTTSRPNVDRLLAANFPPGAAPFDVIAAGDEASRKKPAPDVFLLALAGLGIPASEAVAFEDSAAGISSARSAGLPVLATRSRYTESHRLDGAFSAVSDLGEPERPHRHLAGVAWPGGVVDLAALIRWHEAPDGQSAPFEAMGTGR
>NC_010505.1|WP_012320494.1|3775695_3776382_-|ribulose-phosphate-3-epimerase
MLAPVIAPSILSADFSKLAEETRAVDAAGADWIHLDVMDGHFVPNITFGPPVVKALRPHTQKYFDVHLMIAPADPYLAAFAQAGADGITVHAEAGPHIHRSLQTIRDLGKRAGVAINPGTPAAMVEPVLDLVDLVLVMTVNPGFGGQSFVKGAMESVARVRAMVAGRDIRIQVDGGIDPETVKVASRAGADTFVAGNAVFSGGPDAYAERIAAIREGAEGASGRDLSC
>NC_010505.1|WP_012320495.1|3776402_3777263_-|phosphoribulokinase
MSARHPIISVTGSSGAGTTSVRNTFEQIFRREDVRAVFIEGDGFHAFDRDTMRAMMANEPTLSHFAPRANLLPELEAVFRSYAESGTGRTRHYAHDQHDAQAYGIPEGSFSDWETFPPDSDLLFYEGLHGCVADQDVDIARYADLKIGVVPVINLEWIQKLHRDRSFRGYSTEAVTDVILRRMPDYVQTICPQFSFTDINFQRVPTVDTSNPFIARWIPTADESMVVIRFKDPKGIDFSYLVSMIHDSFMSRANSIVIPGGKLDLAMQLILTPMIMQLVERRRRLA
>NC_010505.1|WP_012320496.1|3777286_3778342_-|class-1-fructose-bisphosphatase
MAISAAIGTPLETCLAQAVDANPALKDAAAVVAAVGRSAVEISERIGRGALGGDLAAAGDHNSDGDVQKALDVIAHESVTAALRGAPVAEVASEEAEEVMRLNPDAPLAVAIDPLDGSSNIGVNMAVGMIFGIRPSIKDPANPLASFTTPGSTQIAAGFVTYGPATALILTLGEGTQSYVLDRTEGRFKLTSPAMSVPPSTKEFAINASNARHWDAPVKAYIEDCQRGTEGPRDKDYNMRWLASLVADIQRVLTRGGVFLYPGDARKNYARGRLRLLYEVAPVAMLVEQAGGAATDGQTRILDIVANGIHERAPLVCGSTEEVTCVATYYAGGKPDAGRSPLFGQRGLMRS
>NC_010505.1|WP_041372715.1|3778536_3779484_+|LysR-family-transcriptional-regulator
MRNLSLKQLQAVAAVARLGTMTRAAQELNVTSAALYARIRQLEEEAGLLLFDRTPGGLKPTDAGREMLWAIDSINTVLETCTDRLRTLRGAEGGRVALGVVSTAKYFAPQVIAGFVKKHPGVEISLSVRNRGQTVEALRGYEIDFALMGRPPRDFPIEAATFGPHPIVLIAPPDHPLAGRTDLNREDLADQPFFLREEGSGTRMVFEEFMSGVLVKRAPLDIDTGSNETIKQAVMAGLGIALLSVHSVAAELESGRLVLLNVRGLPIRRDWYAVRRADKVLGPAASAVWSYLMSEGARSLPGVAQSGLVPAGARA
>NC_010505.1|WP_012320498.1|3779480_3780719_+|oxidoreductase
MSAGVVVAGAGQAGFQLAASLREGGFRDPITLVGDEAALPYQRPPLSKAYLAGKTDQEGLFLRPPGFFAEHAVAHRPGLRAVAIDRDARRLQLSDGTDLPYDHLVLATGARNRPLPVPGAELAGVRQLRGLADADALKESLATARAIVVVGAGFIGLEFAAVAAARGLPVTVIEAAERPMARAVSSEMGAFFRRAHAAMGVRFAFGAGVTAIVGRDGRAAGVALADGRELAADLILVGIGVLPNRELAAEAGLPAEDGVRVDAFLATPDPAISAIGDCARFPIPFARGLTPDGTVRIESVQNAIDQGRCLAARLTGKPASYGALPWFWSDQGPHKLQIAGLSGPGDASVVRGTGDAFSVFRFRDGHLSAVESVARAGDHMIARRLLTAGTPLTPDQAADPDFDLKGLALRRP

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Crispr_ID: NC_010505_3

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_010505_3

3832375-3832561

Orphan

Consensus_repeat	Method
GGCCGATCCGGACAACGACGGCACGCTCGACGCCAAGGAGCTGAAAGGCCG	PILER-CR
GGCCGATCCGGACAACGACGGCAC	CRISPRCasFinder

2 spacers

The CRISPR arrays of NC_010505_3

>merge|NC_010505|3|3832375-3832561|PILER-CR,CRISPRCasFinder
GACGGCACGCTCGACGCCAAGGAGCTGAAGGGCCGCCTGAGCAAGGCCGGCGTGCAGCAGGCCGATCCGGACAACGACGGCACCCTGGACAAGAAGGAGTACCTCGCGGCCGTCGGCGAGCGCTTCAAGATGGCCGATCCGGACAACGACGGCACGCTCGACGCCAAGGAGCTGAACTCCAAGGCCG

>NC_010505|3|1|3832375-3832561|PILER-CR
GACGGCACGCTCGACGCCAAGGAGCTGAAGGGCCGCCTGAGCAAGGCCGGCGTGCA	GCAGGCCGATCCGGACAACGACGG
CACCCTGGACAAGAAGGAGTACCTCGCGGCCGTCGGCGAGCGCTTCAAGATGGCCG	ATCCGGACAACGACGGCACGCTCGACGCCAAGGAGCTGAAC
TCCAAGGCCG

>NC_010505|3|2|3832434-3832529|CRISPRCasFinder
GGCCGATCCGGACAACGACGGCAC	CCTGGACAAGAAGGAGTACCTCGCGGCCGTCGGCGAGCGCTTCAAGAT
GGCCGATCCGGACAACGACGGCAC

Protein	Signature genes	Signature genes Name	Protein_function
NC_010505.1\|WP_012320533.1\|3822990_3824172_-\|methyltransferase-domain-containing-protein	unknown	unknown	gnl\|CDD\|372616
NC_010505.1\|WP_012320534.1\|3824216_3825146_-\|hypothetical-protein	unknown	unknown	unknown
NC_010505.1\|WP_106427925.1\|3834687_3834942_+\|hypothetical-protein	unknown	unknown	unknown
NC_010505.1\|WP_012320548.1\|3835951_3838396_-\|PBP1A-family-penicillin-binding-protein	unknown	unknown	gnl\|CDD\|273955
NC_010505.1\|WP_012320535.1\|3825186_3826377_-\|inositol-3-phosphate-synthase	unknown	unknown	gnl\|CDD\|369641
NC_010505.1\|WP_012320532.1\|3821995_3822991_-\|Gfo/Idh/MocA-family-oxidoreductase	unknown	unknown	gnl\|CDD\|223745
NC_010505.1\|WP_012320543.1\|3833306_3834104_-\|3-oxoadipate-enol-lactonase	unknown	unknown	gnl\|CDD\|131480
NC_010505.1\|WP_012320537.1\|3828415_3828652_+\|hypothetical-protein	unknown	unknown	unknown
NC_010505.1\|WP_012320546.1\|3834996_3835380_-\|hypothetical-protein	unknown	unknown	unknown
NC_010505.1\|WP_165851011.1\|3840687_3842343_+\|DHA2-family-efflux-MFS-transporter-permease-subunit	unknown	unknown	gnl\|CDD\|129794
NC_010505.1\|WP_012320542.1\|3832945_3833233_+\|hypothetical-protein	unknown	unknown	unknown
NC_010505.1\|WP_012320539.1\|3830016_3831636_+\|ABC-transporter-substrate-binding-protein	unknown	unknown	gnl\|CDD\|173860
NC_010505.1\|WP_012320536.1\|3826714_3827935_+\|transglycosylase-SLT-domain-containing-protein	unknown	unknown	gnl\|CDD\|381617
NC_010505.1\|WP_012320540.1\|3831734_3831980_+\|hypothetical-protein	unknown	unknown	unknown
NC_010505.1\|WP_012320538.1\|3828769_3829831_+\|MBL-fold-metallo-hydrolase	unknown	unknown	gnl\|CDD\|293841
NC_010505.1\|WP_012320549.1\|3838556_3839219_-\|HdeD-family-acid-resistance-protein	unknown	unknown	gnl\|CDD\|225786
NC_010505.1\|WP_012320544.1\|3834192_3834465_-\|DUF2061-domain-containing-protein	unknown	unknown	gnl\|CDD\|378262
NC_010505.1\|WP_012320547.1\|3835518_3835947_+\|DUF1810-domain-containing-protein	unknown	unknown	gnl\|CDD\|378062
NC_010505.1\|WP_012320550.1\|3839413_3840682_+\|HlyD-family-secretion-protein	unknown	unknown	gnl\|CDD\|224482
NC_010505.1\|WP_012320531.1\|3820178_3821780_-\|YcaO-like-family-protein	unknown	unknown	gnl\|CDD\|376866

Protein	Function_ID	Function_description	E-value
NC_010505.1\|WP_012320533.1\|3822990_3824172_-\|methyltransferase-domain-containing-protein	gnl\|CDD\|372616	pfam13489, Methyltransf_23, Methyltransferase domain. This family appears to be a methyltransferase domain.	9.54975e-09
NC_010505.1\|WP_012320548.1\|3835951_3838396_-\|PBP1A-family-penicillin-binding-protein	gnl\|CDD\|273955	TIGR02074, Includes:_Penicillin-insensitive_transglycosylase, penicillin-binding protein, 1A family. Bacterial that synthesize a cell wall of peptidoglycan (murein) generally have several transglycosylases and transpeptidases for the task. This family consists of bifunctional transglycosylase/transpeptidase penicillin-binding proteins (PBP). In the Proteobacteria, this family includes PBP 1A but not the paralogous PBP 1B (TIGR02071). This family also includes related proteins, often designated PBP 1A, from other bacterial lineages. [Cell envelope, Biosynthesis and degradation of murein sacculus and peptidoglycan].	0
NC_010505.1\|WP_012320535.1\|3825186_3826377_-\|inositol-3-phosphate-synthase	gnl\|CDD\|369641	pfam07994, NAD_binding_5, Myo-inositol-1-phosphate synthase. This is a family of myo-inositol-1-phosphate synthases. Inositol-1-phosphate catalyzes the conversion of glucose-6- phosphate to inositol-1-phosphate, which is then dephosphorylated to inositol. Inositol phosphates play an important role in signal transduction.	3.94119e-137
NC_010505.1\|WP_012320532.1\|3821995_3822991_-\|Gfo/Idh/MocA-family-oxidoreductase	gnl\|CDD\|223745	COG0673, MviM, Predicted dehydrogenases and related proteins [General function prediction only].	1.15926e-60
NC_010505.1\|WP_012320543.1\|3833306_3834104_-\|3-oxoadipate-enol-lactonase	gnl\|CDD\|131480	TIGR02427, b-ketoadipate_enol-lactone_hydrolase, 3-oxoadipate enol-lactonase. Members of this family are 3-oxoadipate enol-lactonase. Note that the substrate is known as 3-oxoadipate enol-lactone, 2-oxo-2,3-dihydrofuran-5-acetate, 4,5-Dihydro-5-oxofuran-2-acetate, and 5-oxo-4,5-dihydrofuran-2-acetate. The enzyme the catalyzes the fourth step in the protocatechuate degradation to beta-ketoadipate and then to succinyl-CoA and acetyl-CoA. 4-hydroxybenzoate, 3-hydroxybenzoate, and vanillate all can be converted in one step to protocatechuate. This enzyme also acts in catechol degradation. In genomes that catabolize both catechol and protocatechuate, two forms of this enzyme may be found. All members of the seed alignment for this model were chosen from within protocatechuate degradation operons of at least three genes of the pathway, from genomes with the complete pathway through beta-ketoadipate. [Energy metabolism, Other].	5.11481e-85
NC_010505.1\|WP_165851011.1\|3840687_3842343_+\|DHA2-family-efflux-MFS-transporter-permease-subunit	gnl\|CDD\|129794	TIGR00711, Uncharacterized_MFS-type_transporter_YhcA, drug resistance transporter, EmrB/QacA subfamily. This subfamily of drug efflux proteins, a part of the major faciliator family, is predicted to have 14 potential membrane-spanning regions. Members with known activities include EmrB (multiple drug resistance efflux pump) in E. coli, FarB (antibacterial fatty acid resistance) in Neisseria gonorrhoeae, TcmA (tetracenomycin C resistance) in Streptomyces glaucescens, etc. In most cases, the efflux pump is described as having a second component encoded in the same operon, such as EmrA of E. coli. [Cellular processes, Toxin production and resistance, Transport and binding proteins, Other].	2.36653e-108
NC_010505.1\|WP_012320536.1\|3826714_3827935_+\|transglycosylase-SLT-domain-containing-protein	gnl\|CDD\|381617	cd16896, LT_Slt70-like, uncharacterized lytic transglycosylase subfamily with similarity to Slt70. Uncharacterized lytic transglycosylase (LT) with a conserved sequence pattern suggesting similarity to the Slt70, a 70kda soluble lytic transglycosylase which also has an N-terminal U-shaped U-domain and a linker L-domain. LTs catalyze the cleavage of the beta-1,4-glycosidic bond between N-acetylmuramic acid (MurNAc) and N-acetyl-D-glucosamine (GlcNAc), as do "goose-type" lysozymes. However, in addition to this, they also make a new glycosidic bond with the C6 hydroxyl group of the same muramic acid residue.	2.76204e-05
NC_010505.1\|WP_012320539.1\|3830016_3831636_+\|ABC-transporter-substrate-binding-protein	gnl\|CDD\|173860	cd08495, PBP2_NikA_DppA_OppA_like_8, The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold. This CD represents the substrate-binding domain of an uncharacterized ATP-binding cassette (ABC) type nickel/dipeptide/oligopeptide-like transporter. The oligopeptide-binding protein OppA and the dipeptide-binding protein DppA show significant sequence similarity to NikA, the initial nickel receptor. The DppA binds dipeptides and some tripeptides and is involved in chemotaxis toward dipeptides, whereas the OppA binds peptides of a wide range of lengths (2-35 amino acid residues) and plays a role in recycling of cell wall peptides, which precludes any involvement in chemotaxis. Most of other periplasmic binding proteins are comprised of only two globular subdomains corresponding to domains I and III of the dipeptide/oligopeptide binding proteins. The structural topology of these domains is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase domains. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis. Besides transport proteins, the PBP2 superfamily includes the ligand-binding domains from ionotropic glutamate receptors, LysR-type transcriptional regulators, and unorthodox sensor proteins involved in signal transduction.	0
NC_010505.1\|WP_012320531.1\|3820178_3821780_-\|YcaO-like-family-protein	gnl\|CDD\|376866	pfam02624, YcaO, YcaO cyclodehydratase, ATP-ad Mg2+-binding. YcaO is an ATP- an Mg2+-binding protein involved in the peptidic biosynthesis of azoline. There three motifs involved in the binding are, in UniProtKB:P75838, 71-79: Sx3ExxER, 184-203: Sx6Ex3Qx3ExxER, and 286-290: RxxxE. Three slightly different functional families are represented in this family, proteins involved in TOMM (thiazole/oxazole-modified microcin) biogenesis, non-TOMM proteins such as UniProtKB:P75838, and TfuA-associated non-TOMM proteins involved in trifolitoxin biosynthesis. UniProtKB:P75838 hydrolyzes ATP to AMP and pyrophosphate.	2.98301e-47
NC_010505.1\|WP_012320538.1\|3828769_3829831_+\|MBL-fold-metallo-hydrolase	gnl\|CDD\|293841	cd16283, RomA-like_MBL-fold, Enterobacter cloacae RomA and related proteins; MBL-fold metallo hydrolase domain. Derepression of the romA-ramA locus results in a multidrug-resistance phenotype. 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.	2.41498e-74
NC_010505.1\|WP_012320549.1\|3838556_3839219_-\|HdeD-family-acid-resistance-protein	gnl\|CDD\|225786	COG3247, HdeD, Uncharacterized conserved protein [Function unknown].	4.03283e-22
NC_010505.1\|WP_012320544.1\|3834192_3834465_-\|DUF2061-domain-containing-protein	gnl\|CDD\|378262	pfam09834, DUF2061, Predicted membrane protein (DUF2061). This domain, found in various prokaryotic proteins, has no known function.	7.44502e-22
NC_010505.1\|WP_012320547.1\|3835518_3835947_+\|DUF1810-domain-containing-protein	gnl\|CDD\|378062	pfam08837, DUF1810, Protein of unknown function (DUF1810). This is a family of uncharacterized proteins. The structure of one of the members in this family has been solved and it adopts a mainly alpha helical structure.	9.69886e-91
NC_010505.1\|WP_012320550.1\|3839413_3840682_+\|HlyD-family-secretion-protein	gnl\|CDD\|224482	COG1566, EmrA, Multidrug resistance efflux pump [Defense mechanisms].	8.17843e-90

>NC_010505.1|WP_012320540.1|3831734_3831980_+|hypothetical-protein
MKTLLAGAVLAASLASVVPAAAQRIEIGPDGPSVDLRSRAQRERDFRREEYRRDRAYDEDRLYRRQRFDDDRPVMRRGYGY
>NC_010505.1|WP_012320539.1|3830016_3831636_+|ABC-transporter-substrate-binding-protein
MDPIKPTRRSLMAGGVALAALGAAGRAGAQGAAPGTLTYGISMTDLPLTTGQPDRGAGGYQFTGLTLYDPLVAWELDVADRPGKMVPGLATAWEADPADPKVWTFHLREGVAFHDGSAFDADAVIWNFDKVLNKEAPHFDQRQAAQVRPRLPGVASYRKLDAKTVQVVTKTPDSLFPYQMLWFLISSPAQYEKVGKDWAKFAFEPSGTGPFRMGQLVPRVRLELLPNVGYWNPKRVPKLAKLTLTCVPEDLARVNALLSGSVDLIEAPAPDAVPRLKAAGMRVVGNETPHVWNYHLSMLEGSPWRDLRLRKAANLAIDRAGVVELMGGLAQPAVGQVQESSPWFGKPGFRIRTDVEAARKLVEEAGYSVKNPVKATVLIPTGGTGQMLSLPINEFVQQSWAEIGIHVEFKTVELEVAYTAWRQGAADPSLKGVSAGNIAYVTSDPFYAILRFYDSRQIAPNGVNWSHYRNPEVDALCDKVKASLDVAEQNRLLARIHEIVVDDAVQVWVVHDTNPHALSSRVKNYVQAQHWFQDLATLA
>NC_010505.1|WP_012320538.1|3828769_3829831_+|MBL-fold-metallo-hydrolase
MKRRSLLTVASAATVMTLGGVGYAAHRRGRNPYYRGPTSDHFDGLRFFLPGQSTDKALPDVLRWQAKRQREPWPKSFPSPYPADRPPERVEGLRVVLIGHASYLVQVAGRNILIDPVFAKRASPVRFAGPKRVNPPGIALADLPPIDAVLITHNHYDHLDGPSLARIWQAHQPLIVAPLGNDTILRGYDDTMHVETRDWGESVDLGDGLQVHLTPANHWSARGVNDRRMALWCAFVLTSPRGVHYHVGDTGFGDGALFSDVRARFGPPRLATLPIGAYEPRWFMQAQHVDPAEAVKAFTLLGAEQALGHHWGTFQLTDEGIERPVEALAAALGGAGIPAERFVALRPGQVWEA
>NC_010505.1|WP_012320537.1|3828415_3828652_+|hypothetical-protein
MPRYFIDLHDGSQPIHDEVGFDLPDLPAARAKVTRIMSAIARDMLPDVERQDYVACVRDGVGKVVYRARLSLAAEMVE
>NC_010505.1|WP_012320536.1|3826714_3827935_+|transglycosylase-SLT-domain-containing-protein
MGVFPEPARRADDVSRLVPQTLTGTGHFEDEAVAWLPRAGRETGRRSLRRTGLGRISGTLALGLVAGFGLPQAAFAPAYFAPAAQAHDRVDTSPRAAHALAQRASEPAVPAEAPAAKDAWNGLPVPEQEPATTALIQEDLAALPRVTQEQDAVKFGERSVPRKVVDTIVKASDEAGVDPVYMMALADKESSFDTDAKAATSSAQGLFQFVARTWLEMIRDYGARYGLAEEAAAVKGRGAAITVAGSMRARVLGLRNDPRVAALMAAELIKRDRERIEARVGRALTTTELYLAHFLGTASAGRFLSLSSEKPDEVAGREFRTAARANRSLFTEKTGGKRRSLTVSELHDRIDGMIDRRLTRYQGVAAVAEALDKAPVQSDVAAAEETAPVAGNRRVEVTEALPPDGV
>NC_010505.1|WP_012320535.1|3825186_3826377_-|inositol-3-phosphate-synthase
MSMQSGRRVGVAFVGMGGAVATTAIAGIEMIKSGSNRLDGLPLAGLSVAGMADYKDLVFGGWDLNGDDLASAASGHGVLSKDDIENGAQVLKGITPWPAVGSAKFCKNIDGQNRIVAKDHREAVSVIANDLRRFQKESNLDDVVVVNLASTERWPDLNDPTLNSTAAFEKGLDSSDEAISPAMLYAYAAIKSGIPYANFTPSVAADVPALLELAKELNVPVAGKDGKTGQTMMKTVLAPAFKARALHVDGWFSTNILGNRDGLALNDPNSLQSKLNTKGTVLDSILGYPVEDHLVHIHYYRPRGDDKEAWDNIDVTGFMGQRMQIKVNFLCKDSILAAPLVIEIARVLDLASKRGDGGVQEQLSTFFKAPMVKNGHGPEHAFGKQEQMLRDWLGVH
>NC_010505.1|WP_012320534.1|3824216_3825146_-|hypothetical-protein
MPSETQSPHSGAAAPEALRDLLVEMNDLKRVRSAGRQGSIAERLFAQGWGLLTGGGAPDDVALDIAAVTLAATRLCDLDAAFLTAAGLSDEAASAVLVAGFDAVTGDLDPDLRDRLRARLAPRPAGRPGPLPGFVGALAQQPRAGVTCPGRARILLEPPENHAEHCLIVAVYGVCLSPFYRADPGTVFLAAMAHHFHNAAMPDAGFTGEMLLGDHLGPIMATTTAWALAELDEPLRGQVERARAVLPDDATAEGRAFHAADCIDRVLQIAQHLRGASTTMGMVLDEWELVHAGPVKGFHDRVLADMRIP
>NC_010505.1|WP_012320533.1|3822990_3824172_-|methyltransferase-domain-containing-protein
MIPFELRSPDTGNPLKADGPHALRDAETGARWPVIDGIPYLRINRAALIERVLAHLDAGEPDEALAALLVDQDDWWNGPPADPAGIIRLIKERRTATLREAVELLGWGRVGDYFLHRWSDPTFLAGLSLLEAHWNEPVCVFEFACGIGHYLRELQRRGCKVAGADVVFAKLWVARHWVVAEKAQLVCFDAGSAHWPIPGAPVDLVVCNDAFYFLDDKAALLECLRQNAGDDGWLALSHIHNRDCPGFSAGRAVTAEEIAELFPDALVYDDAELTRALVEARAPGPQEPAALRTCEAFSVVCGPGMRPAPRALVDGLTLPKPGTVLRLNPLYVPEGDGYVVRWPSERYEAEYGPRATYPLHSPGPESLTFDESLDAPETQRVRVREFVDLPERW
>NC_010505.1|WP_012320532.1|3821995_3822991_-|Gfo/Idh/MocA-family-oxidoreductase
MDAVGWGIVGYGWVARDYMEPGIRAAGHRLVAVCDPNPESRAAAERAGARVHADLAGLIAEPAVEAVYVATPNHLHRGAVEALAAAGKAVLCEKPMAATLGDAEAIAHAVESQRIFYGTAFDQRHHPAHRAIRAQVEAGRLGTVTAVRIVYACWLGRDWSEAGQPNWRIDAAQAGGGALMDLAPHGLDLVDFLLGEPIADLAALTQTRAQDYAVDDGALLIGRTAGGALASLHVAYNCPDALPRRRLEVVGTKGLLVAENTMGQTAGGSLTFIDGASGRAEPLAFDADSSPFAEQVRAFGSALRRPEERVAYSAARDLHTMRLVARAYGQG
>NC_010505.1|WP_012320531.1|3820178_3821780_-|YcaO-like-family-protein
MSNADAFHDQDDRARHERIKAPRPYRFGAKRPIEGLPGTLPDPVKAYLDVLPEGRVVGFPLAPLDRTGVPVWFVALFLDDPFFVGAMPSGIGYGATDDEALIGAVAEIAENLMPSLAVLPRAKERASYTDLVRVYGAKSVADPLTLCLPAGSPVGRDTVLEWTPSVRHATGEIVLMPLDVAATDYFELSEGYKPFTNLITNGLGAGPDVPFALGHGVLELLQRDGNGLLFRALDQGVMLDLEGIGPENAAMLARLKELGIRALPKFATDQFGLTNLYVVGYDEDPARTPAPIALSACGEACDPDRERALRKALLEFQAARVRKTFGHGPLDMAATVTPPGYVDAFIQKALPSLDLEESRALQAMLEWIEMPAADLRGVLADTVYSERSTKSFAELPSTPAADGHARGKIACDRLLEAGFDVLYVDCTPPGGGVGVVKAIVPGLEVETMSYYRIGERNTKKLLDRDHPLITFGTESETLRPVRLTPEALERFGGQPLFDVALAERIVGRHYPLYREPESHHAPFRLAQRKGRAA
>NC_010505.1|WP_012320542.1|3832945_3833233_+|hypothetical-protein
MRNGSPEDEANARRRAELCALADGRDTGTGRDADVADADPTDRLGELGDALLAAYQLAEQDGDPLTVALLEQALLRTGRRLARGMSPADVGIACH
>NC_010505.1|WP_012320543.1|3833306_3834104_-|3-oxoadipate-enol-lactonase
MPQITVGGLGLRYHLEGPEDAPVVAFSNSLGATLEMWDALLPALAGRYRTLRYDTRGHGGSDTRDRPTAIADLAGDLAGLLDALGIGRAHLVGLSLGGMTVQALASADPGRALSATLMATAAFLPSQQSWDERAATVRAQGTSAVVEATLGRWFTPGFAARDPEAVRAVRERFLACDPAGYAVCCGAIGRMDLRPALGAITAPTLVIAGRDDPSTPPAMAEEICGGIAQAELVVLPRAAHLLAVERADAVGAYLRAFLDRAAPGA
>NC_010505.1|WP_012320544.1|3834192_3834465_-|DUF2061-domain-containing-protein
MPADNVPTQDGRAPEPARTGASPAGESRLRSIAKAMSWRVVGSLDTLLLSYLFTGSVLVAGSIASTETVTKTVLYYLHERGWGLIPLGRA
>NC_010505.1|WP_106427925.1|3834687_3834942_+|hypothetical-protein
MGDAATRPAEFWDTVGGLVTAKVEPVIGRADKQRSPVIDYLRDLEALARRQCSSRETVQIIASGRRLLGDRSEIGPADGPFTRA
>NC_010505.1|WP_012320546.1|3834996_3835380_-|hypothetical-protein
MLGTLVAYMVANPAMSHALTAIPETAGMAAALILLRSPRPEGVAALVVSTYYYGREAGQREHDIKHAGWDAVQAHLGAEFLYGWSLPNLQQWVAPTCAAWAVAAAIYLVRSRAARAVPARPPGRGRP
>NC_010505.1|WP_012320547.1|3835518_3835947_+|DUF1810-domain-containing-protein
MTDTYELGRFVAAQEGVYPRALAELQAGDKRSHWMWFVFPQIAGLGASPMAQRYAIGSLAEAEAYAAHPVLGARLRACTAAVNAVAGRSAHAIFGSPDDLKFRSSMTLFARAVPGEPVFADALARYFDGVPDPRTLAKLGAG
>NC_010505.1|WP_012320548.1|3835951_3838396_-|PBP1A-family-penicillin-binding-protein
MTPDAPERAPADGPKPPKPDPAADAPDPRLAAREAGRAARDLARHLRTLLAAAGLGLARTGRALSARAAERAARARADLPPAAETGARVRTRRFRPILGRRHPAVIAAALVVLLPALALAIYLFAAFVSLPPLGGAVVETGQRAITVEADDGRVFATRGSFRGQKLTAADLPPHLAQAIVAIEDRRFYSHWGIDLRGLARATWRNLRGGGVREGGSTITQQYVRLTSLNQEKTLWRKVQEAFLALRVESTMSKDAILLGYLDSAYFGAGAYGADAAARRYFGKPAKALNLPESAMLAGLVRAPSQLAPTRNLGGAKERADVVLQAMVETGAITQGEADAARKQSVTLKSPPEAPPGTNYFLDMIAGDVKRLAGTDGDMTVRSTLNLDLQSLAEGVVARRLDKDGARRKVGQAAMVVLSKEGAILAMVGGRDYEDSQFNRAVQAKRQPGSLFKLLAYLTAYEKGYTPESVMVDRPIQIGDWQPENDDGRYRGAVPLRTAFALSINTVAAQLGQDVGIPAVIATARKLGIQSDLPNVPSLVLGSGAVSLLEMTRAYGSVLSGRTPLQTYGIQAIRGAAPQPLYVRTDAAPGPMLAQEPRTMMLDSLQAVVESGTGRAARVPGQIIGGKTGTSQDFRDAWFVGMTPDLVVGIWVGNDDDSPMNRMFGGEMPAGIFHDFVQRATEKLAKGRARPSAERAEPARATAPAPEPAAVGEVRGVPEVIDTGTLNLRGRVVRLLGVVGERGHLARQLASYLRRREVVCSGLSDGATARCRIEGDDLAGLILAAGGARASEDAPPDLLGAEEQARAERVGLWGR
>NC_010505.1|WP_012320549.1|3838556_3839219_-|HdeD-family-acid-resistance-protein
MTSSPSPTPNSPGSGPATTPSGIPLVGVARLDAMSAALARNWWLVALRGVIAILFGAVAFIAPGAFVLSLVLFFAAYMLVDGIFAVVGAVRAAQRHERWGFLLLEGLVDIVVGVAAVLVPAAAVWAFVLLLAAWALVTGGLMIAAAFRLHLHYGRWWLVLGGVVSILFGLALLINPGMSALVLTLWIGSYTFAFGILLLILAFKLRAQHGAVGPGAPLGR
>NC_010505.1|WP_012320550.1|3839413_3840682_+|HlyD-family-secretion-protein
MFDDQRHLSEDEARPRPADGPAVARERDVLDLGRTEPAADRGADREAARKPGTEGADDAPEAQDGQAGDDAEDDDDGARRPSVLRRHPVAFLLGGLAVVALCVGVFFYWLLYMHPYESTDDAFVDARSISIQPKVGGYLVDVPVTDNQHVEAGQILFQVFQRDYDIALDQAKAQVAADEAGIKNIDAQIQAQYANIDVSKAQVATAEAALKFAQEDAARYKDLAERGSGSVQQSQSATSTLQQRQAAVQSANASVVAAQKQVGSLQAQKASTQAQLGRDRAQVEQAELNLGYTTVRAVQGGRIVRLTGGVGQLAQAGQTLAMFVPDDIWVTANFKETQITDMRQGQPVDIEIDAYPGRKIQGTVASVQPGSGTAFSLLPAQNATGNYVKVTQRIPVKIVVKNWPTDVSIGPGMSIVPTVTVR
>NC_010505.1|WP_165851011.1|3840687_3842343_+|DHA2-family-efflux-MFS-transporter-permease-subunit
MAGQASAAAPGRKPGAGQARGSKAASGKAPGGHNPWLIAGVVALATFMEVLDTTIANVALRYISGGLAVGPDEAAWVVTSYLVANAITLTASSFLAKRYGRKAFFMWSVALFTASSILCGFAWSLESLLLFRVMQGLGGGGMAPLAQSILADSFPPAKRGQAFALYGVAIVVAPVIGPTLGGWLSDNASWHWCFLINGPVGVIALGLMYWLIEDSDAAKKERRALVRKGIRFDIVGFVLVALFLGSLEVILDEGQRKDWFGTSTLMNVSGVLMVVSFIAMIPWLLTRENPVVDLRLIGNRQFGSCFLVMMFTGAILIATTQFIPQITQEYYGYTATLSGLVLGPGGIVTVVMMFLTGRISSYVQPKWLIATGMTIVALGMYDLTRIDGSTTFAFFAWSRVYIGIGLPMVFLSITSASYEGIRKDQTDQASALINVARNVGGSMGVSLAQNILAYRSQFHQSRLVESVNPASPAYQETMRQATQYFSEHGYAGVEAQNQATAWIGSVLSTQVAYWAYIDVFWVLGLVAACAVPLALSLKSVKLGGGAPAGGH

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Crispr_ID: NC_010505_4

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_010505_4

3968559-3968659

Orphan

Consensus_repeat	Method
CGCCTCGGGTTGGCGGGCCGGCG	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_010505_4

>merge|NC_010505|4|3968559-3968659|CRISPRCasFinder
CGCCTCGGGTTGGCGGGCCGGCGCGGCCGCAGGGCGCGCGGGCGCCGCGGCGGGACGGGCGGCGGCCGGCTGGGCCGGCGCCTCGGGTTGGCGGGCCGGCG

>NC_010505|4|3|3968559-3968659|CRISPRCasFinder
CGCCTCGGGTTGGCGGGCCGGCG	CGGCCGCAGGGCGCGCGGGCGCCGCGGCGGGACGGGCGGCGGCCGGCTGGGCCGG
CGCCTCGGGTTGGCGGGCCGGCG

Protein	Signature genes	Signature genes Name	Protein_function
NC_010505.1\|WP_012320668.1\|3976001_3976178_-\|hypothetical-protein	unknown	unknown	unknown
NC_010505.1\|WP_041372726.1\|3956664_3957255_-\|PAS-domain-containing-protein	unknown	unknown	gnl\|CDD\|369881
NC_010505.1\|WP_012320656.1\|3959880_3960474_-\|biliverdin-producing-heme-oxygenase	unknown	unknown	gnl\|CDD\|350857
NC_010505.1\|WP_012320651.1\|3955213_3956629_+\|endolytic-transglycosylase-MltG	unknown	unknown	gnl\|CDD\|224475
NC_010505.1\|WP_012320663.1\|3970042_3971680_-\|transcription-termination/antitermination-protein-NusA	unknown	unknown	gnl\|CDD\|236410
NC_010505.1\|WP_041372727.1\|3957650_3958508_+\|YicC-family-protein	unknown	unknown	gnl\|CDD\|236993
NC_010505.1\|WP_012320666.1\|3974073_3975027_+\|sulfoxide-reductase-heme-binding-subunit-YedZ	unknown	unknown	gnl\|CDD\|235452
NC_010505.1\|WP_012320654.1\|3958572_3959235_+\|guanylate-kinase	unknown	unknown	gnl\|CDD\|234719
NC_010505.1\|WP_012320659.1\|3964690_3965719_-\|tRNA-pseudouridine(55)-synthase-TruB	unknown	unknown	gnl\|CDD\|235442
NC_010505.1\|WP_012320664.1\|3971744_3972518_-\|ribosome-maturation-factor-RimP	unknown	unknown	gnl\|CDD\|234627
NC_010505.1\|WP_012320665.1\|3972855_3973866_-\|aldo/keto-reductase	unknown	unknown	gnl\|CDD\|381313
NC_010505.1\|WP_127992567.1\|3975592_3975988_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|227505
NC_010505.1\|WP_012320660.1\|3965773_3966202_-\|30S-ribosome-binding-factor-RbfA	unknown	unknown	gnl\|CDD\|234787
NC_010505.1\|WP_012320657.1\|3960470_3963086_-\|GAF-domain-containing-protein	unknown	unknown	gnl\|CDD\|226702
NC_010505.1\|WP_012320662.1\|3969297_3970020_-\|RNA-binding-protein	unknown	unknown	gnl\|CDD\|236401
NC_010505.1\|WP_012320669.1\|3976327_3976735_-\|DUF4174-domain-containing-protein	unknown	unknown	gnl\|CDD\|379363
NC_010505.1\|WP_012320670.1\|3976858_3977878_+\|NADP-dependent-oxidoreductase	unknown	unknown	gnl\|CDD\|176190
NC_010505.1\|WP_012320658.1\|3963170_3964556_-\|dihydrolipoyl-dehydrogenase	unknown	unknown	gnl\|CDD\|235774
NC_010505.1\|WP_012320655.1\|3959242_3959689_-\|DMT-family-transporter	unknown	unknown	gnl\|CDD\|377396
NC_010505.1\|WP_024829154.1\|3975095_3975482_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|237030

Protein	Function_ID	Function_description	E-value
NC_010505.1\|WP_041372726.1\|3956664_3957255_-\|PAS-domain-containing-protein	gnl\|CDD\|369881	pfam08447, PAS_3, PAS fold. The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs. The PAS fold appears in archaea, eubacteria and eukarya.	8.03338e-09
NC_010505.1\|WP_012320656.1\|3959880_3960474_-\|biliverdin-producing-heme-oxygenase	gnl\|CDD\|350857	cd19166, HemeO-bac, heme oxygenase found in pathogenic bacteria. This subfamily contains bacterial heme oxygenase (HO, EC 1.14.14.18), where HO is part of a pathway for iron acquisition from host heme and heme products. Most of these proteins have yet to be characterized. HO catalyzes the rate limiting step in the degradation of heme to biliverdin in a multi-step reaction. HO is essential for recycling of iron from heme which is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This family includes heme oxygenase (pa-HO) from Pseudomonas aeruginosa, an opportunistic pathogen that causes a variety of systemic infections, particularly in those afflicted with cystic fibrosis, as well as cancer and AIDS patients who are immunosuppressed. Pa-HO, expressed by the PigA gene, is critical for the acquisition of host iron since there is essentially no free iron in mammals, and is unusual since it hydroxylates heme predominantly at the delta-meso heme carbon, while all other well-studied HOs hydroxylate the alpha-meso carbon. Also included in this family is Neisseria meningitidis HO which is substantially different from the human HO, with the reaction product being ferric biliverdin IXalpha rather than reduced iron and free biliverdin IXalpha. HO shares tertiary structure similarity to methane monooxygenase (EC 1.14.13.25), ribonucleotide reductase (EC 1.17.4.1) and thiaminase II (EC 3.5.99.2), but shares little sequence homology.	1.3087e-42
NC_010505.1\|WP_012320651.1\|3955213_3956629_+\|endolytic-transglycosylase-MltG	gnl\|CDD\|224475	COG1559, COG1559, Aminodeoxychorismate lyase [Coenzyme transport and metabolism].	4.93075e-116
NC_010505.1\|WP_012320663.1\|3970042_3971680_-\|transcription-termination/antitermination-protein-NusA	gnl\|CDD\|236410	PRK09202, nusA, transcription elongation factor NusA; Validated.	0
NC_010505.1\|WP_041372727.1\|3957650_3958508_+\|YicC-family-protein	gnl\|CDD\|236993	PRK11820, PRK11820, YicC family protein.	1.80528e-98
NC_010505.1\|WP_012320666.1\|3974073_3975027_+\|sulfoxide-reductase-heme-binding-subunit-YedZ	gnl\|CDD\|235452	PRK05419, PRK05419, protein-methionine-sulfoxide reductase heme-binding subunit MsrQ.	2.0686e-51
NC_010505.1\|WP_012320654.1\|3958572_3959235_+\|guanylate-kinase	gnl\|CDD\|234719	PRK00300, gmk, guanylate kinase; Provisional.	2.70356e-110
NC_010505.1\|WP_012320659.1\|3964690_3965719_-\|tRNA-pseudouridine(55)-synthase-TruB	gnl\|CDD\|235442	PRK05389, truB, tRNA pseudouridine synthase B; Provisional.	1.27219e-164
NC_010505.1\|WP_012320664.1\|3971744_3972518_-\|ribosome-maturation-factor-RimP	gnl\|CDD\|234627	PRK00092, PRK00092, ribosome maturation protein RimP; Reviewed.	3.01708e-54
NC_010505.1\|WP_012320665.1\|3972855_3973866_-\|aldo/keto-reductase	gnl\|CDD\|381313	cd19087, AKR_AKR12A1_B1_C1, AKR12A, AKR12B, AKR12C families of aldo-keto reductase (AKR). Streptomyces fradiae TylCII, Saccharopolyspora erythraea EryBII, and Streptomyces avermitilis aveBVIII are founding members of aldo-keto reductase family 12 member A1 (AKR12A1), B1 (AKR12B1), and C1(AKR12C1), respectively. TylCII acts as a NDP-hexose 2,3-enoyl reductase. EryBII is a mycarose/desosamine reductase involved in L-mycarose and D-desosamine production. aveBVIII functions as a dTDP-4-keto-6-deoxy-L-hexose-2,3-reductase.	1.16904e-145
NC_010505.1\|WP_127992567.1\|3975592_3975988_+\|hypothetical-protein	gnl\|CDD\|227505	COG5178, PRP8, U5 snRNP spliceosome subunit [RNA processing and modification].	0.000616252
NC_010505.1\|WP_012320660.1\|3965773_3966202_-\|30S-ribosome-binding-factor-RbfA	gnl\|CDD\|234787	PRK00521, rbfA, 30S ribosome-binding factor RbfA.	1.41784e-43
NC_010505.1\|WP_012320657.1\|3960470_3963086_-\|GAF-domain-containing-protein	gnl\|CDD\|226702	COG4251, COG4251, Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms].	3.48251e-132
NC_010505.1\|WP_012320662.1\|3969297_3970020_-\|RNA-binding-protein	gnl\|CDD\|236401	PRK09190, PRK09190, RNA-binding protein.	3.67529e-67
NC_010505.1\|WP_012320669.1\|3976327_3976735_-\|DUF4174-domain-containing-protein	gnl\|CDD\|379363	pfam13778, DUF4174, Domain of unknown function (DUF4174). This domain of unknown function is found in a putative tumor suppressor gene and in a ligand for the the urokinase-type plasminogen activator receptor, which plays a role in cellular migration and adhesion.	5.94254e-38
NC_010505.1\|WP_012320670.1\|3976858_3977878_+\|NADP-dependent-oxidoreductase	gnl\|CDD\|176190	cd05288, PGDH, Prostaglandin dehydrogenases. Prostaglandins and related eicosanoids are metabolized by the oxidation of the 15(S)-hydroxyl group of the NAD+-dependent (type I 15-PGDH) 15-prostaglandin dehydrogenase (15-PGDH) followed by reduction by NADPH/NADH-dependent (type II 15-PGDH) delta-13 15-prostaglandin reductase (13-PGR) to 15-keto-13,14,-dihydroprostaglandins. 13-PGR is a bifunctional enzyme, since it also has leukotriene B(4) 12-hydroxydehydrogenase activity. These 15-PGDH and related enzymes are members of the medium chain dehydrogenase/reductase 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.	0
NC_010505.1\|WP_012320658.1\|3963170_3964556_-\|dihydrolipoyl-dehydrogenase	gnl\|CDD\|235774	PRK06292, PRK06292, dihydrolipoamide dehydrogenase; Validated.	1.91757e-152
NC_010505.1\|WP_012320655.1\|3959242_3959689_-\|DMT-family-transporter	gnl\|CDD\|377396	pfam04657, DMT_YdcZ, Putative inner membrane exporter, YdcZ. DMT_YdcZ is a family of putative inner membrane exporters from both Gram-positive and Gram-negative bacteria.	1.81473e-27
NC_010505.1\|WP_024829154.1\|3975095_3975482_+\|hypothetical-protein	gnl\|CDD\|237030	PRK12270, kgd, multifunctional oxoglutarate decarboxylase/oxoglutarate dehydrogenase thiamine pyrophosphate-binding subunit/dihydrolipoyllysine-residue succinyltransferase subunit.	9.18999e-08

>NC_010505.1|WP_012320660.1|3965773_3966202_-|30S-ribosome-binding-factor-RbfA
MAQKPTSTGPSQRQQRVAELVRHALAEVLQRGDIQDPVLGTHVVTVPEVRMSPDLKLATAYVMPLGGLDEAPVIAALERHRKVLRQAVARRVNLKFAPELRFRRDETFDEAARIDRLLRDERVQRDLDSAPEDDEPETGTGH
>NC_010505.1|WP_012320659.1|3964690_3965719_-|tRNA-pseudouridine(55)-synthase-TruB
MTVSMEDLPPAERQAPLPSAERRGPEGRRPQRGPRPDRPKRRDVSGWVILDKHVGMTSTHAVAVVKRAFNAKKAGHAGTLDPLASGILPIALGEATKTVPFVMDGRKAYRFTVQWGIETDTDDAEGRPVATSDARPDRAAVEAALPTFVGAIEQVPPRYSAIKIQGERAYDLAREGETVELVARPVQIDRLAVVEHDGERTVIEAECGKGTYVRALARDLGRMLGCYGHVAALRRTRVGPFSEAEACAVSALTDGSPEAALAYLRPVETALDSIPEVAVSRDLGLRLMRGQPVILRGRDAPVEGKAFATCAGILVAVGDVERGELIPHRVFHLGGTAPGRSA
>NC_010505.1|WP_012320658.1|3963170_3964556_-|dihydrolipoyl-dehydrogenase
MRELDYDVAVIGAGTAGIAAHRAATAAGARSVLIERGPGGTTCARVGCMPSKLLIAAGAAAHAARTADLFGIRVPEVAVDGPAVLRRLRAERDRFVGSVLDGLDDLPEGERLDGTARFEDDRTLLVDDATRIRFRAAVIATGSSPIVPGPLRGLGAFVLTTDTLFEIPDLPASLAVLGAGAVGIEIAQAMARLGVAVTVIDAGDTVAGLTEPDLAGQAAAIFGAELDLHLGAELRKAVPEGDGVCLHWTDRAGRERTTRAARVLAAAGRSPNLEALRLEATGLCLEPEGLPAFDRRSLVCAGAPILIAGDVDGWRPVLHEASRQGGIAGANAAALAAGRPVATPEPWTRLAMVFTHPQAAVIGAPYDPEDDRRIVGALDFSDQGRARVEGVNRGGMRIWADRSGRLLGGEMLGPAVEHLAHLLTFAVADEKTAQAVHGRPVYHPTVEEGLTSIMSKMIQRS
>NC_010505.1|WP_012320657.1|3960470_3963086_-|GAF-domain-containing-protein
MPPSQIPDTDVDLDAIAPEALDRLDQGVIGLDPAGTVVAFSEGASAISGLSREAVLGRDYFRDVMPGTNVPSFRGRFLAGARRGALDETFDYVFGRLPQPLRARIHMRHGQIGGLRPVTWLTIDPVESLGADLSREAVLAAIGQRVRAEPVDASICEREPIHIPGSIQPNAVMLAADAGTLLVAAYSANVGEIIDPIEPPLAGRPLADVLPAEFVAAIRARLASGTLDDGASMRRTLTIPDRGAAYHAVAHAHAGRVIVELELEPDSADDFATASQVDTELAVGRLREAGTLAEAARIAALEIRALTGFEAVLVYRFDVDWNGEAVAEDKVPGWSRSLLGLRFPASDIPAQARALYTKAKSRFVIDRDSVPVGLVAAPGAGNGPIDLTFAQHRTLSPIHLEYQRNLGVNGSMSISIMVEGRLWGLMIGHHRRPHYVTPETRAAATVLTDAFAMRVEEIESRRLWAERQAHLDVEGRLVRGLTRSDDFVAALTAGTTTLLDLFSATGAGIVSGERVTLIGRTPPAEMVAAIAGWLRARVPEGEVVYSSDSFSADYPETGPHREIASGLLSAFVDDSRENLLVWFRPEVPSTVTWGGDPRKPVLAGSGPVAVLPRRSFERWVEERTGFAAPFAEWQVQLAGSLAEAVEGVVLRQRRKIDELTGLLAEKERLLEQKDLLTREIDHRVKNSLQIVSAFLQMQRRQIADGEARQAFADTSARVMSVARVHDSLYQADRFDEVDLGQTIESLCNDLAGLAGDGHAVDMSAEPGLMVPYRKAVALSLIATELVTNAFKYAANPAGGGRVEVSVSASGPGEVQLRVCDDGAGLPDDWADAKARSKGSGLGMKLIRAMLDQINAKLTVANNPGACFTITA
>NC_010505.1|WP_012320656.1|3959880_3960474_-|biliverdin-producing-heme-oxygenase
MRSRDGLHARLRAATDPAHRALEVSLDWQARVATLDGYRDLLGRLYGFHAVWEAAIGSGLADEPFLAPRRRLALLAADLDHLGLRPDAVAALPRPAAPALHGPAAATGALYVLEGSTLGGQLIGRHIAGLHGFSGAGLAYYRAHGPAAGAMWAAFRARLDAFGDDPAAEAALTGAAVSTFAAMRAWLCPVPDLPAAA
>NC_010505.1|WP_012320655.1|3959242_3959689_-|DMT-family-transporter
MLAFALSALLAVLAGAGLVLQQILNANLRAGLDSASWAGVSSYAVGLACMALLAAALRDPVPTAGAAERIPWWTWSGGLFGAVFIGLAILLVPKLGAATFFALLVTGQMLASVLFDHAGLLGLAQRPVDLPRLLGIALLIGGVVLIRR
>NC_010505.1|WP_012320654.1|3958572_3959235_+|guanylate-kinase
MTEAAGNVSDSIARRGLILILSSPSGAGKTTLTRAIAQDPSWALDLSISVTTRGRRPSEIDGRHYHFIDREAFDDLRNRDDLLEWAEVHGNFYGTPRRPVEKVLGSGRDMIFDIDYQGTRQVRSKLAQDVVTVFILPPSMAELRQRLERRAEDSAETIEKRLANARTEIQRWVEYDYVIVNDDLQNAFRALQGILAAERLRRARRTGLAPFVEGLLAETP
>NC_010505.1|WP_041372727.1|3957650_3958508_+|YicC-family-protein
MTGFARTAGSAGPVHWAWEVRSVNGRGLDVRTRVPAGYDGLGETARTALQKTLTRGQCQLTLTLTKPETTARVRINETLLASLAQAVARVPVPEGVAPATMDGLLGVRGVIEVEDEAADTDTLARDLAAGVVQLVADLVEARRAEGRQLEQVVTGQVERIAALTQAAEENPARQPEAVRARLEAAVAALGGSGLDPDRLHQEAMLLAGKADVREELDRLRAHVASARDLLAAGGAIGRRLDFLAQEFGREANTLCAKANDISLSRIGLDLKAVVEQFREQVQNIE
>NC_010505.1|WP_041372726.1|3956664_3957255_-|PAS-domain-containing-protein
MSALGVGIWEDAPHEGWVRGDATMARIFGLSEAEAAEGISWEQLSAIFHPEDLARDQSERRRVREEGGLFAWEHRIVPAPGLVRWVLARGRFERRPDGHVYGRGIVIDITDSRIDGPLEPPAGFLGAPAEQGTAVERMADYAMRLWEMVGDLGPDEAARVQPLLEALLYELGRQIAASLSGSPPDVARRPRNPKAH
>NC_010505.1|WP_012320651.1|3955213_3956629_+|endolytic-transglycosylase-MltG
MFFRRSKTPAPETTAQDPTDEPALPQRLSPRSPGEAIKPTVAPPPPEKPERERSGLVGLISGALTFAVVIAIAAMIGITLFQRQVREPGPLAADKVVVIPTHSGTAEIAETLKREGVIDHTGLFEFAARFGGRPALRAGEYVFKAHASISDALDTIATGRQVQHAITFPEGLTSEQIVNRLNDNDVLAGEINEIPPEGSLLPDTYKFERGATRQQIVNLMKAKQREVLNQIWLRRSADVPVRTPAEMVTLASIVEKETGRADERPRVAGVFINRLNKRMKLQSDPTIVYGLVGGRGTLGRGILRSEIDRPTPYNTYVIEGLPPGPIANPGRAALEAVANPSRTKDLYFVADGTGGHAFADSLEAHQRNVARWRAVEKSRQAPPDAVDKVEPGPDPATPGRASAYAPGGAPAGNGINTNAAFALDTGTPGTRAFDASEGTRLDPLKNRTYDLGSPKTVPTLSEPAPAPRGRR
>NC_010505.1|WP_012320662.1|3969297_3970020_-|RNA-binding-protein
MVAVDTTPPEDGLEAGGLDAGPGRRLPERTCIVTRVAQAPDAMIRFVRGPDGSVVPDLRAKLPGRGAWVSARREAVATAVRKNLFARAFKGPTPAAPDLPDRIVAGLREDLRQAIAMANKAGCVVAGFSKVEAAIGGQPGAIAVIHAAEASPDGRRKIASALHRRHGDAMSRIPIIDDLSEDELDMALGRDHVIHAALVAGAGAAGCLSRWRRLRSFEGAAAATGEPDPARIGGIDEASR
>NC_010505.1|WP_012320663.1|3970042_3971680_-|transcription-termination/antitermination-protein-NusA
MAVVSANRLELLQIADAVAREKVIDRSIVIDAMEEAIAKAARSRYGAETDVHAEIDPKTGALRLSRHLLVVDQVENDAREITLDQARRYNPGALVGDVISDTLPPFDFGRVAAQSAKQVIVQKVRDAERARQFDEYKDRIGEILNGIVKRVEYGNVIVDLGRGEGIVRRDEMIPRETFRPGDRIRSYLFDVRSEVRGPQIFLSRSHPQFMAKLFGQEVPEIYDGIVEVKAVARDPGSRAKIAVISRDGSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSEDEATFIVNALQPAEVVKVVLDEEADRIEVVVPDDQLSLAIGRRGQNVRLASQLTGWDIDILTEAEESERRQKEFAERTQVFMEALDVDETVGQLLAAEGFRNVEEIAYVDIQELSGIQGLDEETGTEIQARAQDHLARIEQAHDARRTELGVSDELREIEGITTPMMVALGENDVKTVEDLAGCATDDLVGYTEGRGPDAVRHAGYLDGFDLSRAEAEALIMAARLKAGWIEALPEPETEEGAEEGAEAAEGEETAPAQAEA
>NC_010505.1|WP_012320664.1|3971744_3972518_-|ribosome-maturation-factor-RimP
MSSEIEADLSEKRLVREAGVAARVAQAIEGPLAGLGFRLVRVRMSNVNGCTVQIMAERPDGTFTIDDCEAVSRAISPILDVDDPVGGAYNLEVSSPGIDRPLVRVSDFARWAGYEAKVELSPPLDGRKRFRGILGAPDPTGTTVPIDLPDVKEGLPSRIDLPLKDLAEAHLVLTDELIRESLRRGGPPAADEADEAEEAEDEEVAAESASSPARAPFQPKGPRKASPAAKPQKQARTGPKKPVVTKASRLKDRDSLH
>NC_010505.1|WP_012320665.1|3972855_3973866_-|aldo/keto-reductase
MQYRTLGRSGLKVSPICLGTMMFGGPTDEATAGRVVASAREAGINFIDTANVYTEGRSEEITGRAIRAERDAWVLATKVANPTGPGVNDRGLSRVHVMKAAEDSLRRLGTDVIDIYYLHKEDHDTPLAETVRAIADLVRAGKIRHFGVSNHRSWRVAEICRLCDEAGIDRPVVSQPYYNAFNRMPETEHLPACAHFGLGVVPYSPLARGVLTGKYDPDAPPPAESRAGRQDARMMQTEWRPESLRIARTLREHAEARGITAGQFATAWVLNNRLVTGVIAGPRTEAQWQEYLGALDYAFTPEDEALVDGFVAAGHPTTPGYNDPAYPLEGRVPRSG
>NC_010505.1|WP_012320666.1|3974073_3975027_+|sulfoxide-reductase-heme-binding-subunit-YedZ
MIDRLAAPLGIPLPWLDRAGRLSWLKLAVFAGCVAPALYLAAAYRLDALGAKPITALIHATGEWAVRFLLFSLAISPLRRLADWPKVIVVRRMLGVTVMAYAVAHLTLYAVDQNLILTKVISEIALRLYLMIGFVALVGLIALGLTSTDAAIRNLGPNWNRLHRLTYTIAVAALVHYFLQSKIDVTDPVFSAGLFLLLIGWRVMRRFQWPERPWSLLLLAIVAGLATAGLEAAWYGLASGVPANLVLAANLDFSGPIRPAWWVLAVGLSLPLVALVRGPKAPAPGRRPAQAARREPIREPVREPVREPVREPLSPSA
>NC_010505.1|WP_024829154.1|3975095_3975482_+|hypothetical-protein
MRGTPLLIAGLLAPTLAFATPAKPAAKAAPAAPPPAAAAPAAADCTPPEPPPASARPAKPALPPKPACLDAKEGCPGWEAYSYNDAIKAYNLQAQAFRPIAEAYLQKLNAYVKASADYAQCEVNAMQK
>NC_010505.1|WP_127992567.1|3975592_3975988_+|hypothetical-protein
MPARRLLVRTGFCALLLAAGPALAADFDGPYPPPHGYGGPAQEDEPERRPPPPPPPPGPRPEPEVRGPRFTAVPPEASPEACREFVRRRFGPDGEPVLRRVRVCDEPVVDRGPPPPPPEDIPPRRWGGPRW
>NC_010505.1|WP_012320668.1|3976001_3976178_-|hypothetical-protein
MTRQQVATAIRRLVDLQVEDIERAVRDGHKTIALNELADLNRQLKAFAAALRKAPARI
>NC_010505.1|WP_012320669.1|3976327_3976735_-|DUF4174-domain-containing-protein
MRETALGLGLAATTAMAAAAAPAGPLDGYRDRARVLVLSAPEAGDAQLRAQRAALASVRAGVAERDLVVLEAVGSGAEARTLRERLGLPADSFRAVLIGKDGGAKITAAAPIAPQRLFATIDAMPMRRTEMRERR
>NC_010505.1|WP_012320670.1|3976858_3977878_+|NADP-dependent-oxidoreductase
MTTAMNRRIVLASRPHGEPRPENFRLEEVPVPQPGPGQVLLRTRWLSLDPYMRGRMSDAKSYAAPVEIGAPITAETVGEVVASNHPDHAVGDLLTAFAGWQEYCVTDAKGSRKVDPAAAPPSTALGVLGMPGMTAYTGLLNIGRPKFGETVVVAAAAGPVGSLVGQIAKIHGARAVGIAGGPEKCRYLTEELGFDAAIDHRGSDLPGTLAAACPKGIDVYFENVGGAVFAAVLPLLNPFARIPVCGLVSAYNATEVPPGPDRLPGLMRSVLTNRLHIQGFIVWDFAEQAETFRKEVAGWIQDGRVRYREDVVEGLENAPEAFIGLLKGRNFGKLVVRVS

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Crispr_ID: NC_010505_5

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_010505_5

4081057-4081150

Orphan

Consensus_repeat	Method
CACCGTGTCGTAGACCGGCGGCGTG	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_010505_5

>merge|NC_010505|5|4081057-4081150|CRISPRCasFinder
CACCGTGTCGTAGACCGGCGGCGTGGTGCGGTAGACCGTGCGGGGCGGACGCACCAGCACGTTCTCCTGCACGGTGTCGTAGACCGGCGGCGTG

>NC_010505|5|4|4081057-4081150|CRISPRCasFinder
CACCGTGTCGTAGACCGGCGGCGTG	GTGCGGTAGACCGTGCGGGGCGGACGCACCAGCACGTTCTCCTG
CACGGTGTCGTAGACCGGCGGCGTG

Protein	Signature genes	Signature genes Name	Protein_function
NC_010505.1\|WP_012320762.1\|4073574_4075314_-\|acyl-CoA-dehydrogenase	unknown	unknown	gnl\|CDD\|173842
NC_010505.1\|WP_012320779.1\|4097138_4097435_-\|preprotein-translocase-subunit-SecE	unknown	unknown	gnl\|CDD\|376355
NC_010505.1\|WP_012320760.1\|4071942_4072785_-\|SDR-family-NAD(P)-dependent-oxidoreductase	unknown	unknown	gnl\|CDD\|236229
NC_010505.1\|WP_012320776.1\|4095169_4095868_-\|50S-ribosomal-protein-L1	unknown	unknown	gnl\|CDD\|180071
NC_010505.1\|WP_012320759.1\|4070013_4071699_-\|B12-binding-domain-containing-radical-SAM-protein	unknown	unknown	gnl\|CDD\|379101
NC_010505.1\|WP_012320765.1\|4077319_4078192_+\|LysR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|223656
NC_010505.1\|WP_012320770.1\|4081478_4082576_-\|cell-wall-hydrolase	unknown	unknown	gnl\|CDD\|226296
NC_010505.1\|WP_012320763.1\|4075451_4076450_+\|threonylcarbamoyl-AMP-synthase	unknown	unknown	gnl\|CDD\|223088
NC_010505.1\|WP_012320773.1\|4091742_4092120_-\|50S-ribosomal-protein-L7/L12	unknown	unknown	gnl\|CDD\|234671
NC_010505.1\|WP_012320775.1\|4093223_4094867_-\|B12-binding-domain-containing-radical-SAM-protein	unknown	unknown	gnl\|CDD\|379101
NC_010505.1\|WP_012320767.1\|4078799_4079609_+\|class-I-SAM-dependent-methyltransferase	unknown	unknown	gnl\|CDD\|379312
NC_010505.1\|WP_012320761.1\|4072781_4073564_-\|enoyl-CoA-hydratase	unknown	unknown	gnl\|CDD\|235852
NC_010505.1\|WP_012320777.1\|4095879_4096329_-\|50S-ribosomal-protein-L11	unknown	unknown	gnl\|CDD\|234661
NC_010505.1\|WP_012320774.1\|4092169_4092688_-\|50S-ribosomal-protein-L10	unknown	unknown	gnl\|CDD\|234632
NC_010505.1\|WP_012320768.1\|4079621_4080608_-\|oxidoreductase	unknown	unknown	gnl\|CDD\|176248
NC_010505.1\|WP_012320778.1\|4096546_4097080_-\|transcription-termination/antitermination-protein-NusG	unknown	unknown	gnl\|CDD\|180161
NC_010505.1\|WP_012320764.1\|4076583_4077186_-\|NAD(P)H:quinone-oxidoreductase	unknown	unknown	gnl\|CDD\|179647
NC_010505.1\|WP_012320772.1\|4087373_4091498_-\|DNA-directed-RNA-polymerase-subunit-beta	unknown	unknown	gnl\|CDD\|234749
NC_010505.1\|WP_012320766.1\|4078198_4078672_-\|transcription-elongation-factor-GreA	unknown	unknown	gnl\|CDD\|180535
NC_010505.1\|WP_012320771.1\|4082986_4087198_-\|DNA-directed-RNA-polymerase-subunit-beta'	unknown	unknown	gnl\|CDD\|234794

Protein	Function_ID	Function_description	E-value
NC_010505.1\|WP_012320762.1\|4073574_4075314_-\|acyl-CoA-dehydrogenase	gnl\|CDD\|173842	cd01153, ACAD_fadE5, Putative acyl-CoA dehydrogenases similar to fadE5. Putative acyl-CoA dehydrogenase (ACAD). Mitochondrial acyl-CoA dehydrogenases (ACAD) catalyze the alpha,beta dehydrogenation of the corresponding trans-enoyl-CoA by FAD, which becomes reduced. The reduced form of ACAD is reoxidized in the oxidative half-reaction by electron-transferring flavoprotein (ETF), from which the electrons are transferred to the mitochondrial respiratory chain coupled with ATP synthesis. The ACD family includes the eukaryotic beta-oxidation, as well as amino acid catabolism enzymes. These enzymes share high sequence similarity, but differ in their substrate specificities. The mitochondrial ACD's are generally homotetramers and have an active site glutamate at a conserved position.	3.70804e-154
NC_010505.1\|WP_012320779.1\|4097138_4097435_-\|preprotein-translocase-subunit-SecE	gnl\|CDD\|376355	pfam00584, SecE, SecE/Sec61-gamma subunits of protein translocation complex. SecE is part of the SecYEG complex in bacteria which translocates proteins from the cytoplasm. In eukaryotes the complex, made from Sec61-gamma and Sec61-alpha translocates protein from the cytoplasm to the ER. Archaea have a similar complex.	8.30012e-18
NC_010505.1\|WP_012320760.1\|4071942_4072785_-\|SDR-family-NAD(P)-dependent-oxidoreductase	gnl\|CDD\|236229	PRK08303, PRK08303, short chain dehydrogenase; Provisional.	5.32905e-65
NC_010505.1\|WP_012320776.1\|4095169_4095868_-\|50S-ribosomal-protein-L1	gnl\|CDD\|180071	PRK05424, rplA, 50S ribosomal protein L1; Validated.	8.8531e-145
NC_010505.1\|WP_012320759.1\|4070013_4071699_-\|B12-binding-domain-containing-radical-SAM-protein	gnl\|CDD\|379101	pfam13282, DUF4070, Domain of unknown function (DUF4070). This is a bacterial domain often found at the C-terminus of Radical_SAM methylases.	6.80792e-40
NC_010505.1\|WP_012320765.1\|4077319_4078192_+\|LysR-family-transcriptional-regulator	gnl\|CDD\|223656	COG0583, LysR, Transcriptional regulator [Transcription].	7.93563e-36
NC_010505.1\|WP_012320770.1\|4081478_4082576_-\|cell-wall-hydrolase	gnl\|CDD\|226296	COG3773, SleB, Cell wall hydrolyses involved in spore germination [Cell envelope biogenesis, outer membrane].	9.086e-40
NC_010505.1\|WP_012320763.1\|4075451_4076450_+\|threonylcarbamoyl-AMP-synthase	gnl\|CDD\|223088	COG0009, SUA5, Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis].	3.12297e-74
NC_010505.1\|WP_012320773.1\|4091742_4092120_-\|50S-ribosomal-protein-L7/L12	gnl\|CDD\|234671	PRK00157, rplL, 50S ribosomal protein L7/L12; Reviewed.	4.15308e-45
NC_010505.1\|WP_012320775.1\|4093223_4094867_-\|B12-binding-domain-containing-radical-SAM-protein	gnl\|CDD\|379101	pfam13282, DUF4070, Domain of unknown function (DUF4070). This is a bacterial domain often found at the C-terminus of Radical_SAM methylases.	3.4305e-39
NC_010505.1\|WP_012320767.1\|4078799_4079609_+\|class-I-SAM-dependent-methyltransferase	gnl\|CDD\|379312	pfam13649, Methyltransf_25, Methyltransferase domain. This family appears to be a methyltransferase domain.	6.86445e-15
NC_010505.1\|WP_012320761.1\|4072781_4073564_-\|enoyl-CoA-hydratase	gnl\|CDD\|235852	PRK06688, PRK06688, enoyl-CoA hydratase; Provisional.	7.19407e-71
NC_010505.1\|WP_012320777.1\|4095879_4096329_-\|50S-ribosomal-protein-L11	gnl\|CDD\|234661	PRK00140, rplK, 50S ribosomal protein L11; Validated.	1.09256e-84
NC_010505.1\|WP_012320774.1\|4092169_4092688_-\|50S-ribosomal-protein-L10	gnl\|CDD\|234632	PRK00099, rplJ, 50S ribosomal protein L10; Reviewed.	7.75798e-67
NC_010505.1\|WP_012320768.1\|4079621_4080608_-\|oxidoreductase	gnl\|CDD\|176248	cd08288, MDR_yhdh, Yhdh putative quinone oxidoreductases. Yhdh putative quinone oxidoreductases (QOR). QOR catalyzes the conversion of a quinone + NAD(P)H to a hydroquinone + NAD(P)+. Quinones are cyclic diones derived from aromatic compounds. Membrane bound QOR actin the respiratory chains of bacteria and mitochondria, while soluble QOR acts to protect from toxic quinones (e.g. DT-diaphorase) or as a soluble eye-lens protein in some vertebrates (e.g. zeta-crystalin). QOR reduces quinones through a semi-quinone intermediate via a NAD(P)H-dependent single electron transfer. QOR is a member of the medium chain dehydrogenase/reductase family, but lacks the zinc-binding sites of the prototypical alcohol dehydrogenases of this group. NAD(P)(H)-dependent oxidoreductases are the major enzymes in the interconversion of alcohols and aldehydes, or ketones. Alcohol dehydrogenase in the liver converts ethanol and NAD+ to acetaldehyde and NADH, while in yeast and some other microorganisms ADH catalyzes the conversion acetaldehyde to ethanol in alcoholic fermentation. ADH is a member of the medium chain alcohol dehydrogenase family (MDR), which has a NAD(P)(H)-binding domain in a Rossmann fold of a beta-alpha form. The NAD(H)-binding region is comprised of 2 structurally similar halves, each of which contacts a mononucleotide. A GxGxxG motif after the first mononucleotide contact half allows the close contact of the coenzyme with the ADH backbone. The N-terminal catalytic domain has a distant homology to GroES. These proteins typically form dimers (typically higher plants, mammals) or tetramers (yeast, bacteria), and have 2 tightly bound zinc atoms per subunit, a catalytic zinc at the active site and a structural zinc in a lobe of the catalytic domain. NAD(H) binding occurs in the cleft between the catalytic and coenzyme-binding domains at the active site, and coenzyme binding induces a conformational closing of this cleft. Coenzyme binding typically precedes and contributes to substrate binding. In human ADH catalysis, the zinc ion helps coordinate the alcohol, followed by deprotonation of a histidine, the ribose of NAD, a serine, then the alcohol, which allows the transfer of a hydride to NAD+, creating NADH and a zinc-bound aldehyde or ketone. In yeast and some bacteria, the active site zinc binds an aldehyde, polarizing it, and leading to the reverse reaction.	0
NC_010505.1\|WP_012320778.1\|4096546_4097080_-\|transcription-termination/antitermination-protein-NusG	gnl\|CDD\|180161	PRK05609, nusG, transcription antitermination protein NusG; Validated.	1.86374e-99
NC_010505.1\|WP_012320764.1\|4076583_4077186_-\|NAD(P)H:quinone-oxidoreductase	gnl\|CDD\|179647	PRK03767, PRK03767, NAD(P)H:quinone oxidoreductase; Provisional.	6.49788e-142
NC_010505.1\|WP_012320772.1\|4087373_4091498_-\|DNA-directed-RNA-polymerase-subunit-beta	gnl\|CDD\|234749	PRK00405, rpoB, DNA-directed RNA polymerase subunit beta; Reviewed.	0
NC_010505.1\|WP_012320766.1\|4078198_4078672_-\|transcription-elongation-factor-GreA	gnl\|CDD\|180535	PRK06342, PRK06342, transcription elongation factor GreA.	3.61296e-55
NC_010505.1\|WP_012320771.1\|4082986_4087198_-\|DNA-directed-RNA-polymerase-subunit-beta'	gnl\|CDD\|234794	PRK00566, PRK00566, DNA-directed RNA polymerase subunit beta'; Provisional.	0

>NC_010505.1|WP_012320768.1|4079621_4080608_-|oxidoreductase
MGTFKAWVVEKNEAGQSLAFRDFDDADLMDGDVTVRVTHSTLNYKDGLALTGKSPVVRRFPMIPGIDFSGIVETSDHPEYRPGDAVVLTGWGVGETHLGAYAQRARVRGDWLVPLPRGLTAEQAMAVGTAGYTAMLCCMALDAHGVRPEHGPVIVTGASGGVGSVAVALLARAGWHVIASTGRDGESDYLRGLGAAEILDRAELSKPGKPLGKERWAAGVDAVGSTTLANVLAMTRADGAVAACGLAQGMDLPTSVAPFILRGVSLLGINSVTTPQKKRREAWARLARELDLGKLAAMTSRVRLEEVGRLGDEILAGKVRGRTVVTVA
>NC_010505.1|WP_012320767.1|4078799_4079609_+|class-I-SAM-dependent-methyltransferase
MSSLSAAEVVAANRQAWDASAPLHRSDPSWHRLTQHFAQDPGFSCFDPPMEEALRAVGLAGASVAQLCCNNGRETVSLMNLGARSATGFDQSEAFLAQARDLARIAGRDCRFVAGDVHAIDAEHDGAYDLAVITIGVLGWMPDLPRFLAVAARLLRSGGRILIHEEHPVVNMFEPRAEQPLLVRHSYFRTAPFVGEDAIVYGDGPAPRVGPHYWFAHPLGALIETLIGAGLAIERFREFPDNISTTACDVLAADRLLPMSYLLQARKAA
>NC_010505.1|WP_012320766.1|4078198_4078672_-|transcription-elongation-factor-GreA
MSVAFVKEPEGGEAFENLPDRPISPHTNFVTPEGLAQIEAEVARLEKEVASLDPADKAEDSRIGRDLRYWAARKNTAQLVEPKGGDTVQFGSTVTVVREDESGKETRQTFRIVGEDEADPHKGSISYVAPLARAITGKTIGDVVEVNGHEVEVLEIR
>NC_010505.1|WP_012320765.1|4077319_4078192_+|LysR-family-transcriptional-regulator
MELDWDDFRFVKAVADRGGLTAASAELGINHSTAFRRLAALEARLGTRLFERLRTGYVPTAAGQAMVDAAGRIETDVTRFARAVAGQGETPSGELRVTAPAGFAAELLMPMLASFAERYPEIRIELILAEATLNLSRRDADVAIRISREPSETLVGRRLALTAWAVYGRADRAYGDLAREAWISPGPLVAGGSLTRFVEARAPSDRVRLRINAVPGLEAAVEAGLGIGPLPCFTADVNPALRRLSGPHPELGADLWILTHPDLRHAARVRAFMEHVAEALLPLRARFEGR
>NC_010505.1|WP_012320764.1|4076583_4077186_-|NAD(P)H:quinone-oxidoreductase
MAKVLVLYYSTYGHVEQMAYAVAEGARETGAEVVVKRVPELVPEEVARQNHFKLDQAAPVATVAELADYDAIIFGTPTRYGNMASQMKQFIDQTGGLWMKGALVGKVGSVFTSTASQHGGQETTLTSFHTVLFHHGMVVVGLPYSFQGQAGVEAVKGNTPYGASTIADGDGSRQPSAVELEGARFQGRHVAGIAAKLARD
>NC_010505.1|WP_012320763.1|4075451_4076450_+|threonylcarbamoyl-AMP-synthase
MNDPGSTVPSATRRLPADAAGLAEAAALLRAGRLVAFPTETVYGLGADATDPAAVTGIFAAKARPRFNPLISHLPDAVAALAEGVFDAPARRLAEAFWPGPLTLVVPAHTGTRVCDLVRAGLPSLALRVPAHPLARDLLAEVGRPVAAPSANWSGRVSPTRAAHVLDDLAGRISAVLDGGDTPVGVESTVVACLGGPPRLLRPGGITRAALRDVLGLDPAAPEAADADRPAGPGMLASHYAPRARVRLDAVRVEPGEAALLFGPRPPAGHETARASLNLSPAGDPAEAAARLFGALRDLDASGAETIAVAPIPEDGLGEAIRDRLARAAAPR
>NC_010505.1|WP_012320762.1|4073574_4075314_-|acyl-CoA-dehydrogenase
MSYRAPVPEMLFTLRHVAGLDAVDPDDAEAILTEAGRIAAGVIAPLNRVGDRHGTPFADGQVTTPPGWREAYRTFTEGGWNGLSAEADHGGQGLPKLIEAACTEMWNGANLAFGLCPLLTQGGIEALAAHGSDDLKARYLEKLVSGAWPATMNLTEPQAGSDLALLRTRAVPAGDGTYRITGNKIYITYGEHDLADNIVHLVLARLPDAPAGTRGISLFLVPKVLPDGTRNDLRCSGIEHKLGIHASPTCSMAFGDQVGATGWLIGQENKGLACMFTMMNAARLNVGLQGVGVAEAATQRALAYAQERRQGKAVGAAEATSPIAAHPDVQRMLLTMKASTAAARAICYLTAAALDAAKGPEGQAALDRASLLTPVAKAFATDLANEVTSLGVQVHGGMGFVEETGAAQLMRDARILGIYEGTNGIQAIDLAARKLPLNGGGTARSQIAWMRRAAEGLLKAGDPAFGHMAARLRDGIGSLDRATSHQLAALSSNRPEAALAGATPYLRLFGLTLGAACLARSALAASAARKAGETDPAHAARIALARFYAENLLVAASGLEQAVVEGGAFTDDAALALAV
>NC_010505.1|WP_012320761.1|4072781_4073564_-|enoyl-CoA-hydratase
MAEPVTIDDLAGGVRLITLNRPEKKNALTGAMYDAMRAGLAEADASDAVGAVVFAGQPGMFSAGNDLADFMRQASGDRAEDGFSTSPALAFIRQLARTRTPMVAAVDGIAVGIGATLCLHCDLVYASPAARLRMPFVELGLVPEAASSYLLPLRVGRLRATELLLLSRPLEADEAQALGLVNAVLPADMLVEQAIAQAARLAALPRGALTASRALIRGDQAQVEAALEAEAKAFDAQLRSPESQERLAAFLSRSKPAASA
>NC_010505.1|WP_012320760.1|4071942_4072785_-|SDR-family-NAD(P)-dependent-oxidoreductase
MSPPDLSEKICLVAGASRGVGRGLARALGEAGATVIVTARSSETGPRTEMRAEAIEDTARAVDAAGGRGHHYLCDHRSERATDALMHWALRRFGRIDVAACSVWSGNEGYDGERYPDGAGWGTPFWRRSAEPYLGLLEAGPLPALLLARAVAPAMVAARAGLLALVSFGTEDYLGDVFYDSAKAATNRLTLAFARELAPHGVTALGLSPGFVATERARDLGHAQHATESPLYAGRALAALAADPGIAARAGAVLHAGDLARVYGFTDADGTRPERFRVGP
>NC_010505.1|WP_012320759.1|4070013_4071699_-|B12-binding-domain-containing-radical-SAM-protein
MSEANTAPRVLMVFPKFYENSMWNFKEAMELQGARAPAPPLGLITLAAMLPPAWQVTLVNRNCEELTDAQIQAADLVMTGGMLPQEPDCLVVIDRCVALGTPVCVGGPAPTSTPEVYDKADFLVLGEAEGILDKFVAAWEAGERRGRLTAEKFKADVTKSPIPRFDLLTFSHYLYIGVQFSRGCPFTCEFCDIIELYGRAPRTKTTPQMLAELDRLYGLGYRGHVDFVDDNLIGNKKAIKLFLPHLIQWQEAHGYPFKFSTEASLNLADDDELLGMMRDANFFALFTGIETPDEATLIQTQKKQNTKRSIADSVHKLYEHGMFVTAGFIVGFDTEKDSISKAMSLCIGQTGIPIAMVGLLFALPNTQLSRRLRKEGRLYENYAATTADQGDQCTQGINFVTLRPQRDVLADYRDVLQEIYDPPNFFDRVRVVARRVKRPRFAAQKLNWRHVAHDLYSLLRVCWRMTVRRPELAKHFWSVFLETARRNPAALEAVVTNMVIYLHVYPFSRYVIREINGRIADLDAGRWVQPPVLAPEAETCKAPPVGKVVAKAEVKHLAAVA
>NC_010505.1|WP_012320770.1|4081478_4082576_-|cell-wall-hydrolase
MVGLGLLVSFTADAGTENAIGASRLGVIDAGTVPPLPPGTVLIGSALRRLGDEPPQAVFKTGAHVFPVVQRAGKGDPARPPAESFARRAANLREAGGALVFGDVTGSVTGVLTQGSAVWDPESEPEAAFVPVPDLGLTTGSGTAASTGEGTADLTEDGGPERFDGSTPPVPRAIALSSTTPAPADAIPVEIAAASLALPDFAIRTERPDNAQPVPEDARRRYADLIDPNALDKEQRCLSEAVYFEARSEPEAGQAAVAQVVLNRVKSGLYPASVCGVVYQNRHHYMGCQFSFACEGKSLRITDAGAWESATRIARSVIEGRTYLAEVGAATHYHADYVRPGWARRLRKMDVIGRHIFYQLRAGQT
>NC_010505.1|WP_012320771.1|4082986_4087198_-|DNA-directed-RNA-polymerase-subunit-beta'
MNQEVMNLFNQQAQPVSFDQIKISISSPEKILSWSYGEIKKPETINYRTFKPERDGLFCARIFGPIKDYECLCGKYKRMKYKGVICEKCGVEVTLARVRRDRMGHIELAAPVAHIWFLKSLPSRIGLLLDMALKDLERILYFESYCVIEPGLTPLKERQLLSEEEYLRAQEEYGEDSFTAMIGAEAIRRILQELDLDKIANDLREEIAVTTSELKPKKLLKRLKIIEAFQMSGNKPEWMILTVVPVIPPDLRPLVPLDGGRFATSDLNDLYRRVINRNNRLKRLIELRAPDIIIRNEKRMLQEAVDALFDNGRRGRVITGANKRPLKSLADMLKGKQGRFRQNLLGKRVDYSGRSVIVVGPELKLHQCGLPKKMALELFKPFIYARLDAKGFSATVKQAKKLVEKEKPEVWDILDEVIREHPVMLNRAPTLHRLGIQAFEPKLIEGKAIQLHPLVCAAFNADFDGDQMAVHVPLSLEAQLEARVLMMSTNNILHPANGQPIIVPSQDIVLGLYYLSIVAEGAPGEYKPDNAKNPMQGVYGDMGELEHALAAKAVSLHSKIKWRWTGIGPDGEPLTKTYETTPGRVILSGALPKHAKVPFDVVNKLMTKKEISAMIDTVYRHCGQKESVIFCDRIMALGFNHAFKAGISFGKDDMVVPENKWSIVDTTRALVKDYEQQYNDGLITQGEKYNKVVDAWAKCSDKLAAEMMGRISSVQKDEKGADKQVNSIYMMSHSGARGSPAQMKQLAAMRGLMAKPSGEIIETPIISNFKEGLDVLEYFNSTHGARKGLADTALKTANSGYLTRRLVDVAQDAVIREVDCGTTSGIKMRAIVDAGQVVATLATRILGRATAEDLVAADGTVIVKTGETIEERHLPAINAAGIQEVKIRSVLVCATKSGVCATCYGRDLARGTPVNMGEAVGVIAAQSIGEPGTQLTMRTFHIGGAAQIADSSFIESSFEGTIKIRNRAVAKNTDGDLIATGRNVAVVIVGSDGVERAVHRLQYGAKLRVDEGDKIKRGQRIAEWDPYTRPILTEVDGIVAYEDLVDGQSMTETTDESTGIAKRVVVDWRGSARTSDLKPAMVVVDRDGKALKLPRGSDARYFLPVDAIIGFDPGATVKAGDILARVSTDSAKTRDITGGLPRVAELFEARRPKDAAIIAEKSGTIAFGRDYKNKRRLTLTPHDGSEAVEYLIPKGKHIHLQDGDVVELGDYIVDGNPAPHDILAIKGVEELAAYLVNEIQEVYRLQGVSINDKHIEVIVRQMLQKVEVTDGGDSDILSGDQIDRTELTDYNEKLLAEGKKPIQGVPVLLGITKASLQTKSFISAASFQETTRVLTEAAVNGKVDTLEGLKENVIVGSLIPAGTGSMVADIRSIARRRDAMILQQKQAESGAMPVEELPPAAAE
>NC_010505.1|WP_012320772.1|4087373_4091498_-|DNA-directed-RNA-polymerase-subunit-beta
MANTLVGRKRIRKFFGKIKEVAEMPNLIEVQKASYDQFLMVDEPEGGRADEGLQSVFKSVFPISDFASTALLEFVRYTFEAPKYDVDECRQRGITFAAPLKVTLRLIVFDVDPDTQAKSVKDIKEQDVYMGDMPLMTENGTFIVNGTERVIVSQMHRSPGVFFDHDKGKTHSSGKLLFAARIIPYRGSWLDVEFDAKDIVHVRIDRKRKLPATSLLYALGLDGEEILSTFYNKVVYDRDGADWRVPFDAERMKGMKATVDLIDADSGEVVLEAGKKLNARNARQITEKGTKFLKATDEDLVGQYVAEDLVNAQTGEIWAEAGEEVTDKLLKSLEEVGITELPVLDIDHVNIGPYIRNTLAVDKNSNREGALFDIYRVMRPGEPPTLETAEAMFHSLFFDSERYDLSAVGRVKMNMRLDLDAADTVRTLRKEDMLAVVKALVELRDGKGEVDDIDHLGNRRVRSVGELMENQYRLGLLRMERAIRERMSQVDIDTVMPQDLINAKPAAAAVREFFGSSQLSQFMDQTNPLSEVTHKRRLSALGPGGLTRERAGFEVRDVHPTHYGRICPIETPEGPNIGLINSLATFARVNKYGFIETPFRRVRDGVVTDEVAYLSAMEEAKYYVAQANAQMDENRKLTEDLVVCRRAGEVIVVGPERVDLMDVSPKQLVSVAAALIPFLENDDANRALMGSNMQRQAVPLVRADAPFVGTGMEAVVARDSGAAIAARRAGIIDQVDATRIVIRATEEADANKPGVDIYRLQKFQRSNQSTCITQKPLVRVGEFVKKGEIIADGPSTEFGELALGRNVLVAFMPWNGYNFEDSILLSERIVKDDVFTSIHIEEFEVMARDTKLGPEEITRDIPNVSEEALKNLDEAGIVYIGAEVNAGDILVGKITPKGESPMTPEEKLLRAIFGEKASDVRDTSLRVPPGVTGTIVEVRVFNRHGVDKDERAQAIEREEIERLAKDRDDEQAILDRNTYARLADVLIGQAPVAGPKGFKKDTTLTRELINDYPRSQWWQFAVIDDRLMTEMEAMQKQYDESKKRLEQRFLDKVEKLQRGDELPPGVMKMVKVFVAVKRKIQPGDKMAGRHGNKGVVSRIVPIEDMPFLEDGTHADIVLNPLGVPSRMNVGQILETHLGWAAAGLGRKVSKAVDAYLKTQDIAPLREEMKAIYSPGELDGLTDEELAEAGNNVRRGVPMATPVFNGAKEADIEQMLEMAGLDRSAQSTLYDGRTGEPFDRKVTMGYIYMLKLHHLVDDKIHARSIGPYSLVTQQPLGGKAQFGGQRFGEMEVWALEAYGAAYTLQEMLTVKSDDVAGRTKVYEAIVRGDDTFEAGIPESFNVLVKEMRSLGLNVELTSSKKAANDQLEPPADAAE
>NC_010505.1|WP_012320773.1|4091742_4092120_-|50S-ribosomal-protein-L7/L12
MADLAKLVDDLSSLTVLEAADLAKMLEEKWGVSAAAAVAVAAGPAAGGAAAAVEEQTEFTVVLASAGDKKIEVIKEVRAITGLGLKEAKDLVEGAPKPVKEGVAKDEAEKLKAQLEKAGAKIELK
>NC_010505.1|WP_012320774.1|4092169_4092688_-|50S-ribosomal-protein-L10
MDRTAKADLVSTLNGVFNESAVVVVAHYKGLTVADMQKLRAQMKQAGATVKVAKNSLAGIALDGTDVASIKPLLKGPTLLAYSGDPVAAAKVAVDFAKANDKLVILGGAMGKTALNPDGVKALASLPSLDELRAKIVGLVQAPATKIAQVVNAPASKLARVFGAYAKKDEAA
>NC_010505.1|WP_012320775.1|4093223_4094867_-|B12-binding-domain-containing-radical-SAM-protein
MRCTLTVTSKRRILCVFPAYTPSFGTFSHAYPLMGGVKAFMPPQGLLLIAAYMPEAWECRFIDENIRRAGPADFAWADAVFVSGMHIQEPQIHDIRDRARAAGKVTVLGGPSVSGAPEKYGDFDYLHIGEIGDATDQLVARLDGDVTPPPDQVVLETKDRLALADFPAPAYEHAPLKRYLIGSLQFSSGCPYRCEFCDIPQLYGRQPRLKSPEQMCAELDAIVSQPGHPAVVYFVDDNFIGNRKATREMLPHLVAWQKKNNYPLQFACEATLNMAKQPEILELMRQANFMTVFVGIETPEAEALKGIDKTHNAAVPMYEAIETLNSYGLEVTSGIILGLDSDTDKSEQNLIDFIDRSAIPVLTINLLQALPKTPLWDRLEREGRLLHDASLESNVLFKRPHDSVVSSWRRAIAHAYEPEKIFERFKHQCAVTYPNRITTPTAGKLTFTNLRRGLILGFNIITRVGIFSDYRKPFWSAAGYALKRGQIEAVFNMGFVAHHLIRFTREALRGEHNASFYAAKAAEAKAARDRSWWEAARRKLVPEREAA
>NC_010505.1|WP_012320776.1|4095169_4095868_-|50S-ribosomal-protein-L1
MAKEGKRIRAAREGIEATKLYALDEAIKLVKERATAKFDETVEVSMNLGVDPRHADQMVRGVCNLPNGSGRTVRVAVFARGAKADDARAAGADIVGAEDLLEIVQGGKIEFDRCIATPDMMPLVGRLGKVLGPRGLMPNPKVGTVTMDVKGAVAGAKGGSVEFRVEKAGIVHAGVGKVSFDADKLVENIKAFADAVAKAKPAGAKGTYVQRIAVTSTMGPGVKVEPNTVLTA
>NC_010505.1|WP_012320777.1|4095879_4096329_-|50S-ribosomal-protein-L11
MAKKITGYVKLQVPAGAANPSPPIGPALGQRGLNIMEFCKAFNAKTAQMEKGTPIPVIITAYQDRSFTFEMKQPPVTFFLKKAAGLKLGKKPASGSKTPGKGPTVGKISEAQLREIAEKKMPDLNCDTVESAVAMIRGSARAMGLEVVA
>NC_010505.1|WP_012320778.1|4096546_4097080_-|transcription-termination/antitermination-protein-NusG
MSKRWYIVHAYSNFENKVAQSIKDQAAQRGLTELFDEVMVPTEKVVEVRRGRKVDAERKFFPGYVLVKCDLTDEVYHLIKNTPKVTGFLGADKSKPVPIPDAEAERIKGQVAEGVDRPKPSISFEIGETVRVADGPFASFNGTVEEIDDARSRLKVAVSIFGRATPVELEYAQVEKA
>NC_010505.1|WP_012320779.1|4097138_4097435_-|preprotein-translocase-subunit-SecE
MASNEATKKVDLVRGAARGPANPPPARPATPARAPQKRATPGEFFAQVRDEARKVTWPTRRETTITTIMVFVMVVAASLFFTVVDQALRFVVGLILGV

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Crispr_ID: NC_010505_6

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_010505_6

4131965-4132059

Orphan

Consensus_repeat	Method
CCCCTCTCCCGTGCGGGAGAGGG	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_010505_6

>merge|NC_010505|6|4131965-4132059|CRISPRCasFinder
CCCCTCTCCCGTGCGGGAGAGGGTTGGGGTGAGGGATCAGGTCCTTCCGGATCAGTCGCATCCCTCACCCTGTCCCTCTCCCGTGCGGGAGAGGG

>NC_010505|6|5|4131965-4132059|CRISPRCasFinder
CCCCTCTCCCGTGCGGGAGAGGG	TTGGGGTGAGGGATCAGGTCCTTCCGGATCAGTCGCATCCCTCACCCTG
TCCCTCTCCCGTGCGGGAGAGGG

Protein	Signature genes	Signature genes Name	Protein_function
NC_010505.1\|WP_012320812.1\|4129928_4131104_+\|glutathione-dependent-formaldehyde-dehydrogenase	unknown	unknown	gnl\|CDD\|176243
NC_010505.1\|WP_012320808.1\|4125629_4126952_+\|glycosyltransferase-family-1-protein	unknown	unknown	gnl\|CDD\|340817
NC_010505.1\|WP_012320819.1\|4135409_4136021_+\|NnrU-family-protein	unknown	unknown	gnl\|CDD\|377807
NC_010505.1\|WP_106427847.1\|4132123_4132870_-\|transglycosylase-SLT-domain-containing-protein	unknown	unknown	gnl\|CDD\|381617
NC_010505.1\|WP_012320821.1\|4136879_4138226_+\|ribosome-biogenesis-GTPase-Der	unknown	unknown	gnl\|CDD\|234628
NC_010505.1\|WP_012320804.1\|4122669_4123044_-\|hypothetical-protein	unknown	unknown	unknown
NC_010505.1\|WP_012320815.1\|4132953_4133214_-\|hypothetical-protein	unknown	unknown	unknown
NC_010505.1\|WP_041372373.1\|4133261_4133501_-\|hypothetical-protein	unknown	unknown	unknown
NC_010505.1\|WP_012320809.1\|4126948_4127188_+\|ferredoxin	unknown	unknown	gnl\|CDD\|379145
NC_010505.1\|WP_012320813.1\|4131217_4131886_+\|SOS-response-associated-peptidase	unknown	unknown	gnl\|CDD\|225046
NC_010505.1\|WP_012320806.1\|4123891_4124704_+\|methanol-dehydrogenase	unknown	unknown	gnl\|CDD\|224429
NC_010505.1\|WP_012320822.1\|4138277_4139396_-\|carboxylate-amine-ligase	unknown	unknown	gnl\|CDD\|237406
NC_010505.1\|WP_012320811.1\|4128502_4129744_+\|cytochrome-P450	unknown	unknown	gnl\|CDD\|225035
NC_010505.1\|WP_012320805.1\|4123245_4123881_+\|LemA-family-protein	unknown	unknown	gnl\|CDD\|377192
NC_010505.1\|WP_012320810.1\|4127184_4128510_+\|FAD-dependent-oxidoreductase	unknown	unknown	gnl\|CDD\|170080
NC_010505.1\|WP_012320823.1\|4139457_4139868_-\|diacylglycerol-kinase	unknown	unknown	gnl\|CDD\|238127
NC_010505.1\|WP_041372737.1\|4134035_4135217_-\|hypothetical-protein	unknown	unknown	unknown
NC_010505.1\|WP_012320820.1\|4136138_4136849_+\|tetratricopeptide-repeat-protein	unknown	unknown	gnl\|CDD\|226996
NC_010505.1\|WP_012320807.1\|4124693_4125326_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|226285
NC_010505.1\|WP_012320817.1\|4133688_4133925_+\|hypothetical-protein	unknown	unknown	unknown

Protein	Function_ID	Function_description	E-value
NC_010505.1\|WP_012320812.1\|4129928_4131104_+\|glutathione-dependent-formaldehyde-dehydrogenase	gnl\|CDD\|176243	cd08283, FDH_like_1, Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1. Members identified as glutathione-dependent formaldehyde dehydrogenase(FDH), a member of the zinc-dependent/medium chain alcohol dehydrogenase family. FDH converts formaldehyde and NAD(P) to formate and NAD(P)H. The initial step in this process the spontaneous formation of a S-(hydroxymethyl)glutathione adduct from formaldehyde and glutathione, followed by FDH-mediated oxidation (and detoxification) of the adduct to S-formylglutathione. MDH family uses NAD(H) as a cofactor in the interconversion of alcohols and aldehydes, or ketones. Like many zinc-dependent alcohol dehydrogenases (ADH) of the medium chain alcohol dehydrogenase/reductase family (MDR), these FDHs form dimers, with 4 zinc ions per dimer. The medium chain alcohol dehydrogenase family (MDR) has a NAD(P)(H)-binding domain in a Rossmann fold of a beta-alpha form. The N-terminal region typically has an all-beta catalytic domain. These proteins typically form dimers (typically higher plants, mammals) or tetramers (yeast, bacteria), and have 2 tightly bound zinc atoms per subunit.	0
NC_010505.1\|WP_012320808.1\|4125629_4126952_+\|glycosyltransferase-family-1-protein	gnl\|CDD\|340817	cd03784, GT1_Gtf-like, UDP-glycosyltransferases and similar proteins. This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the oxidatively cross-linked heptapeptide core of vancomycin group antibiotics. The core structure is important for the bioactivity of the antibiotics.	5.26312e-46
NC_010505.1\|WP_012320819.1\|4135409_4136021_+\|NnrU-family-protein	gnl\|CDD\|377807	pfam07298, NnrU, NnrU protein. This family consists of several plant and bacterial NnrU proteins. NnrU is thought to be involved in the reduction of nitric oxide. The exact function of NnrU is unclear. It is thought however that NnrU and perhaps NnrT are required for expression of both nirK and nor.	1.20643e-51
NC_010505.1\|WP_012320807.1\|4124693_4125326_+\|hypothetical-protein	gnl\|CDD\|226285	COG3762, COG3762, Predicted membrane protein [Function unknown].	2.55002e-35
NC_010505.1\|WP_106427847.1\|4132123_4132870_-\|transglycosylase-SLT-domain-containing-protein	gnl\|CDD\|381617	cd16896, LT_Slt70-like, uncharacterized lytic transglycosylase subfamily with similarity to Slt70. Uncharacterized lytic transglycosylase (LT) with a conserved sequence pattern suggesting similarity to the Slt70, a 70kda soluble lytic transglycosylase which also has an N-terminal U-shaped U-domain and a linker L-domain. LTs catalyze the cleavage of the beta-1,4-glycosidic bond between N-acetylmuramic acid (MurNAc) and N-acetyl-D-glucosamine (GlcNAc), as do "goose-type" lysozymes. However, in addition to this, they also make a new glycosidic bond with the C6 hydroxyl group of the same muramic acid residue.	2.98833e-21
NC_010505.1\|WP_012320821.1\|4136879_4138226_+\|ribosome-biogenesis-GTPase-Der	gnl\|CDD\|234628	PRK00093, PRK00093, GTP-binding protein Der; Reviewed.	0
NC_010505.1\|WP_012320809.1\|4126948_4127188_+\|ferredoxin	gnl\|CDD\|379145	pfam13370, Fer4_13, 4Fe-4S single cluster domain of Ferredoxin I. Fer4_13 is a ferredoxin I from sulfate-reducing bacteria. Chemical sequence analysis suggests that this characteristic [4Fe-4S] cluster sulfur environment is widely distributed among ferredoxins.	2.188e-09
NC_010505.1\|WP_012320813.1\|4131217_4131886_+\|SOS-response-associated-peptidase	gnl\|CDD\|225046	COG2135, COG2135, Uncharacterized conserved protein [Function unknown].	4.921e-35
NC_010505.1\|WP_012320806.1\|4123891_4124704_+\|methanol-dehydrogenase	gnl\|CDD\|224429	COG1512, COG1512, Beta-propeller domains of methanol dehydrogenase type [General function prediction only].	1.54658e-67
NC_010505.1\|WP_012320822.1\|4138277_4139396_-\|carboxylate-amine-ligase	gnl\|CDD\|237406	PRK13515, PRK13515, carboxylate-amine ligase; Provisional.	5.71321e-143
NC_010505.1\|WP_012320811.1\|4128502_4129744_+\|cytochrome-P450	gnl\|CDD\|225035	COG2124, CypX, Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism].	4.73244e-89
NC_010505.1\|WP_012320805.1\|4123245_4123881_+\|LemA-family-protein	gnl\|CDD\|377192	pfam04011, LemA, LemA family. The members of this family are related to the LemA protein. LemA contains an amino terminal predicted transmembrane helix. It has been predicted that the small amino terminus is extracellular. The exact molecular function of this protein is uncertain.	1.76244e-75
NC_010505.1\|WP_012320810.1\|4127184_4128510_+\|FAD-dependent-oxidoreductase	gnl\|CDD\|170080	PRK09754, PRK09754, phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional.	4.6239e-48
NC_010505.1\|WP_012320823.1\|4139457_4139868_-\|diacylglycerol-kinase	gnl\|CDD\|238127	cd00209, DHFR, Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5,10-methylenetetrahydrofolate which is then utilized by thymidylate synthase. Inhibition of DHFR interrupts thymidilate synthesis and DNA replication, inhibitors of DHFR (such as Methotrexate) are used in cancer chemotherapy. 5,6,7,8-tetrahydrofolate also is involved in glycine, serine, and threonine metabolism and aminoacyl-tRNA biosynthesis.	2.56468e-11
NC_010505.1\|WP_012320820.1\|4136138_4136849_+\|tetratricopeptide-repeat-protein	gnl\|CDD\|226996	COG4649, COG4649, Uncharacterized protein conserved in bacteria [Function unknown].	1.56573e-46

>NC_010505.1|WP_012320813.1|4131217_4131886_+|SOS-response-associated-peptidase
MCNLYSLRTGPADLRRAFGIAEDRTGNLPLLPAIFPDQLAPVVLNGATGRDLAMMRWGMPGPKAFGEHPITNVRNVASPHWRPWLGVAHRCLVPVNAFSEYADTKPRKTPVWFALDEDRPLFAFAGIWRPWTGVRGTKRENPDRVAEEHRLFAFLTTEANGVVGPVHPKAMPVLLTKPEEWATWLEAPTAEALRLQRPLPDAAMREVARGARSDGPEAEPEA
>NC_010505.1|WP_012320812.1|4129928_4131104_+|glutathione-dependent-formaldehyde-dehydrogenase
MKALCWHGRNDIRCDTVPDPVIEDSRDVIIKVTSCAICGSDLHLMDGLMPTMKSGDVLGHEFMGEVVEVGQGFTKFKKGDRIVVPFNINCGACRQCKLGNYSVCERSNRNAEMAAAQFGYTTAGLFGYSHLTGGYAGGQAEYVRVPMADVAPMKVPDGMDDESVLFLTDILPTGWQGAEHCEIRGGETIAVWGTGPVGIFAIQSAKIMGAERIIAIETVPERIALARKAGATDVIDFMNEDVFERIKEITKGQGADGVIDCVGMEASAGHGGLTGMLSTVQEKLTATERPYALAEAIKAVRPCGIVSVPGVYGGPIPVNMGSIVQKGLTLKSGQTHVKRYLEPLTKLIQEGKIDMTSLITHRSQNLAEGPDLYKTFRDKKDGCVKVVFHLN
>NC_010505.1|WP_012320811.1|4128502_4129744_+|cytochrome-P450
MSDDALFAAVMDPANRADPYPLYRRMRQQPVSRQRDGSYVVSTHAAIRSLLFDPRLSSEDLPPPRRPRTGNPLKDLILNPIKNRISATHRPFIFRDPPDHDRLRSLVMREFSIARVQALRPRIAREVDGLIDACRERREVCLVSDLSYPLPVTVICELLGVPRADEPRFQAWATQLATAVEPDARHDDGTRRQIVGAFDEIAAYMRDLIREKRRRPADDMLSGLAAPGPDGRKQMSDFDLLSTAVLLLVAGHETTVNLITNAMLTLLRHPEELERLKADPERAPRLIEEVLRYEPPVHFRTRKALGAIAVAGEMIPKGAPVILMFAAANRDPDRFAAPDRFDPDRGDIEHFGFGGGLHYCVGAPLARLEAEIALVALSRRLVAPRLAVDPPPYRPGASLRGPEQLRIGIDGVA
>NC_010505.1|WP_012320810.1|4127184_4128510_+|FAD-dependent-oxidoreductase
MTPEPAGIVVVGASLAGLRGAEALRRGGYDGPLTLVGAEPYRPYDRPPLSKHVLAGELAADATRLPELAELRARWRLGSPAVALDRAARTLRLADGSTLAYESLLIATGAEARPWPAETGGGLAGIFTLRGRDDAAALRDALVARPRQVLIVGGGLIGCEAASCLRDLGLPVTLVDPNAAPLARGLGTFVGSVIAECLRASGATFRPGATVRAFEGDASGHVARARLADGSTIETNLVIVALGATRATGWLRGAGLRADAGGVTCDAACRVLDADRVPCPDIYAAGDVARWPIPLYGNRLIAVEHWGNAVEQAAHAARNMLADPGDQRPYGHLPAFWSSQFGINIKLVGLPDGADSVAVVQGSRASRRFLAVYGRAGRSIAAVSFDQARWLPAYAEAITAGDPFPPITDATDRPRVEMAVPGFPPPHRAAEARPSAETVHV
>NC_010505.1|WP_012320809.1|4126948_4127188_+|ferredoxin
MKPASDTAALRVVVDLNRCQGYAQCCYAAPDAFALRGHEILFYDPAPPAERRGAIERALQACPVRAISLQAGPDDGGAP
>NC_010505.1|WP_012320808.1|4125629_4126952_+|glycosyltransferase-family-1-protein
MKILIAATPLTGHVNPLLAIGRTAAARGDDVLVLTDPTFRPKVEAAGLRFAPYADDHAAEYRETDLPAGPERYRREFERRFVDPMPVQAAALRALIAAEAPDVILAGSMFLGALPLLLDSAPRPPIVTVNVSILFLDRPDHAPVGLGLPPARDRDDLVRYATLKAGMDAAFVNPVRAYTDAKLAALGLPPLPASLPHSIVILPDLFLQPTVPGFEYDYGTLPPGLRFIGLLQPPTPPAPLPEWWPALEAANAAGRPVVLVTQGTLANADLGELVEPTLTALADRDDLLVLATTGGRPVDALAVPVPANARVSCFLPFRELLPRVSVLVTNGGYGSVSQALAAGVPIVSAGLTEDKAEVNARIGWSGVGINLGTNAPTPEAVGAAVARVLDEPNFRARAGAMRDAFAARDAMASILTAVDDLARARGKADNGAARPLARSA
>NC_010505.1|WP_012320807.1|4124693_4125326_+|hypothetical-protein
MTGRRAAVLTPEARERLAQAVGRAEAGTSGEIVVMVSRRAGAYRSIVLLTALVAGLVLPWPLIALTAWSAASILLAQAALVAAILAASQNERLRMALVPRRLRRARAREAARRAFWSRGLSLTRRRTGVLLYLSLAERHAEIVTDLGVLREIPPAAWDGILAELIPALGRGAIEDGLTAAVARVGACLAEHLPAGPGDPDELPNRVVVVD
>NC_010505.1|WP_012320806.1|4123891_4124704_+|methanol-dehydrogenase
MGRTVCRAMPVRGRHALSLAVLAACLTITAIGALAAELTFPALTGRVVDAAGILTPEQRGTLEAKLKAHEDKTSDQVVVATVPNLQGTTVEDYANRLFRDWKLGQAKTDNGVLLLVAPSERKVRIEVGYGLEGALTDALSKVIIAGAITPRFKTGDYFGGLDAGVDGILSILAGDAQEWQRKPQVRADEVDPAQVAVFVALFLIVLFVAWRMSRGGRSRPGGLVILPGPSSGGWGGGFSDGGSGGSSGGFDGGFSGGGGSSGGGGASGDW
>NC_010505.1|WP_012320805.1|4123245_4123881_+|LemA-family-protein
MGTTLTAGAVRRTSPAARLLGVLSVILVAAGLSGCGAVNRVPTLQEQAKSSWSEVQNQYQRRADLIPNLVETVKGYAQQEKDVLIGVTEARAKASSVKVDASTVSDPQKFKEYQDAQNQLSGALGRLLVTVEKYPDLKSNQNFLALQSQLEGTENRIAVARRDYITAVQAYNTEVRTIPGRWIAAILYPDAKPMETFTATPNADRPPNVKF
>NC_010505.1|WP_012320804.1|4122669_4123044_-|hypothetical-protein
MDAALADHVRAASADARRHARAYRAPAGKDALPWSVIETFDARVRGHLARDPRIEDERDRVLIAAVKLAETPVEEGDESIAEARAHLVDAIDYLEQAVLRFGLVNREGAKAGLGTYGQPVGSRD
>NC_010505.1|WP_106427847.1|4132123_4132870_-|transglycosylase-SLT-domain-containing-protein
MLLLLLACAAPAQARPATFLAVHAVGMASLPPVPPVPAAAPVAADARARFLPLIAREAAGTGLPLAVADAVARIESGYDPTVVGSVGEVGLMQVRPTTAAMLGFRGTVAELASPEINVRYGVRYLAEAWRRADGDLCRALMKYRAGHGAESMSPLSQLYCARAQAILGDPEARAVRASARAAAPDRLAARPAGPVHRTRVAAVPARPLSFWEAHRARIARLNAAVVARWRARGWSAAPNGASGEPAGG
>NC_010505.1|WP_012320815.1|4132953_4133214_-|hypothetical-protein
MTDRKPPFRPADAVDALGEVEGDFVLPLCLPGSNLLIGEDLAMLVLDTIHGQRVGLPLSPQGAADLHAVLGEALRLLQARDRGPIQ
>NC_010505.1|WP_041372373.1|4133261_4133501_-|hypothetical-protein
MIPSPDTAILGSGAVGAGAIGASALGALALGAAALGVVAVGAFAIGRLSVGRARVGALEVGSLEIDTLTVRSVRMPERG
>NC_010505.1|WP_012320817.1|4133688_4133925_+|hypothetical-protein
MQHLFQAVAIFAFGCLLIHAGRAYARATTLLLSATALMLSVTLGTVLWQRIGVPGRSVAAGPSYTVALGQPAQESRAR
>NC_010505.1|WP_041372737.1|4134035_4135217_-|hypothetical-protein
MLPALLLALLLALLTLLPHRAAAAPEAPLSALTLVGPPALVFKAGRDACDGADVPDAPARAFRDASGSVALYGMHYRNRALRGPDLGHLKLDCAVVLDSGEKPDPATYDDRSWITATWTEDGTRVAALLHHEYQANEHPGRCPAASYMACWYNTITAAASTDGGRSFRRQSPPAVVAGAPFRQEVDQGRHRGFFNPSNIVADGTWRYFLASTTGWTRPGSDQEAGVCLFRSDDPADPTRWRAWTGTGFTAAFPDPYRVARPNTATCRPVGPFPGPVGAVVRHRGTGAWIAVFMAKAGEGFPRSGFYWTTSRDLITWDSPRLLLEGATLYDDPCAATAPLLAYPSLLDPDARGRNFDDVGDRALLTYASLRTEGCTITSDRDLLRRPVAIRVWP
>NC_010505.1|WP_012320819.1|4135409_4136021_+|NnrU-family-protein
MVLLILGLVLFLGTHAFSMARTRRAAIVGRIGEGRYKLGYTALSLLGLVLIGIGFHDYRLAGYIPVWDPPVWTRHLALTLVWLAFVCLAAAYLPGHIRAKAKHPMLLAVKIWATAHLLANGDLGSMLLFGGFLAWAVTARISAKRRGLVPGAVAAQHGGPAAAPLGWRNDVLALVIGTAAWFVFARYLHYPVIGVPVWPGSAA
>NC_010505.1|WP_012320820.1|4136138_4136849_+|tetratricopeptide-repeat-protein
MAENNEFLREVDEDYRRDRILQIWKRYSGVIIALAVLVVAGVAGWRYWQAQQRAAAEVASVRFDDANRLAKDGKVAEADKAFETLEAQGPAGYRLLARFRAAAETGKRDPAAGAAEFDKLADDTGLGDGLRDLARLRAALLRLDGPNPDPALANLQGLAAGTPFRHTAREMLGLAALKKGDYEDASRWFDQIVADPDTPRNLRERIEVYAAIVAGGPVTVTAAKPEPAAPPPPITR
>NC_010505.1|WP_012320821.1|4136879_4138226_+|ribosome-biogenesis-GTPase-Der
MDMPTVAIVGRPNVGKSTLFNRLVGKKLALVDDRPGVTRDRREGDVAFGGLEFRVIDTAGLEEADAASLTGRMRMQTEAAILAADVVLFVIDARAGVLPADQPFAELVRRAGCPVILIANKAEGGAGLAGAYEAFTLGLGDPIPFSAEHGEGLGELHEALKGALPQRDADEDPDDAPGGRALKVAIVGRPNAGKSTLINRMLGEDRLLVGPEAGITRDSISLDWEWRGRRIKLHDTAGMRRRARIDDKLEKLAVSDGLRAVRFAEVVVVLLDATIPFEKQDLTIVDLVESEGRALVIGLNKWDLVADQPGLLKQLREDCTRLLPQVRGVAVVPLSGLAGDGVDKLMQAVVQAAEVWDRRVSTSRINDWLNEATSRNPPPAVSGRRIKIRYATQVKSRPPHFALFGNQLNALPKSYTRYLVNGLREAFDLPGTPIRLSLRTSQNPFDKG
>NC_010505.1|WP_012320822.1|4138277_4139396_-|carboxylate-amine-ligase
MSAPSYRFGIEEEYFLADAETRGTPRGDLAAFHARVEAELPETGRELVAAQVELCTPPLTDAAAARENLGGQRRQLAGIAAESGLRLLACGTHPLARWSRQTATDGERYKGILSDVGIAARRALICGMHVHVEVPDPDARVDLMNRLLPFQPLLLALSASSPFWQGEATGLRAYRLSVFGELPRTGLPELFADAAAHARFVAIMTRSGAIADASFLWWSLRPSIKFPTLELRIADACTRLDDSLCIAALFRCLVRLCVRRPELHAGLDGVSRALASENLWRAQHSGVAASLIDEARGEAVPFAEALEAMLTLVAEDADALGCAADVARARAIVAEGTSADGQVAAYEAALTAGQDERAALAAAVDWIADAAR
>NC_010505.1|WP_012320823.1|4139457_4139868_-|diacylglycerol-kinase
MIDVRCICAIGLRGQLGLNGHLPWEGNTDPLFVEDVTRFFALTMGHVLIAGPKTVASVPEFAFKDRTIDVIRSHEDPEAVLKRYPGRRIFVGGGIAVWNVYARYIQNWDITRLPYDGEADRWFDPAWLVGGPLRTP

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Crispr_ID: NC_010505_7

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_010505_7

4946288-4946388

Orphan

Consensus_repeat	Method
CGGCTCGGACAGGTCGGATCCGG	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_010505_7

>merge|NC_010505|7|4946288-4946388|CRISPRCasFinder
CGGCTCGGACAGGTCGGATCCGGGCTCGGCGGCGACCGGTTCGGCCCCGGCGGGGGCGGCCTGCGCCTCGACCGGAGCGGTCTCGGACAGGTCGGATCCGG

>NC_010505|7|6|4946288-4946388|CRISPRCasFinder
CGGCTCGGACAGGTCGGATCCGG	GCTCGGCGGCGACCGGTTCGGCCCCGGCGGGGGCGGCCTGCGCCTCGACCGGAGC
GGTCTCGGACAGGTCGGATCCGG

Protein	Signature genes	Signature genes Name	Protein_function
NC_010505.1\|WP_012321567.1\|4942439_4943684_-\|methyl-accepting-chemotaxis-protein	unknown	unknown	gnl\|CDD\|206779
NC_010505.1\|WP_012321576.1\|4958016_4959030_+\|DUF1611-domain-containing-protein	unknown	unknown	gnl\|CDD\|225902
NC_010505.1\|WP_012321571.1\|4950424_4951867_-\|teichoic-acid-transporter	unknown	unknown	gnl\|CDD\|225153
NC_010505.1\|WP_106427859.1\|4939740_4940553_-\|FadR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|225097
NC_010505.1\|WP_012321569.1\|4947709_4949050_-\|glycolate-oxidase-subunit-GlcF	unknown	unknown	gnl\|CDD\|236890
NC_010505.1\|WP_012321578.1\|4960294_4961344_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|367125
NC_010505.1\|WP_012321565.1\|4941873_4942044_+\|DUF3606-domain-containing-protein	unknown	unknown	gnl\|CDD\|371985
NC_010505.1\|WP_012321558.1\|4935478_4936297_-\|GTP-cyclohydrolase-I-FolE	unknown	unknown	gnl\|CDD\|236472
NC_010505.1\|WP_012321574.1\|4955812_4956979_+\|type-III-PLP-dependent-enzyme	unknown	unknown	gnl\|CDD\|143482
NC_010505.1\|WP_012321562.1\|4938515_4939631_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|225930
NC_010505.1\|WP_012321572.1\|4951991_4954091_-\|methyl-accepting-chemotaxis-protein	unknown	unknown	gnl\|CDD\|214599
NC_010505.1\|WP_041372399.1\|4942096_4942378_+\|DUF2934-domain-containing-protein	unknown	unknown	gnl\|CDD\|378572
NC_010505.1\|WP_024828685.1\|4936537_4936981_+\|iron-sulfur-cluster-assembly-scaffold-protein	unknown	unknown	gnl\|CDD\|223892
NC_010505.1\|WP_012321570.1\|4949107_4950295_-\|FAD-binding-protein	unknown	unknown	gnl\|CDD\|236893
NC_010505.1\|WP_012321575.1\|4957205_4957757_+\|N-acetyltransferase	unknown	unknown	gnl\|CDD\|225695
NC_010505.1\|WP_106427860.1\|4954573_4955068_-\|GNAT-family-N-acetyltransferase	unknown	unknown	gnl\|CDD\|223532
NC_010505.1\|WP_012321560.1\|4936985_4937318_+\|membrane-protein-insertion-efficiency-factor-YidD	unknown	unknown	gnl\|CDD\|178815
NC_010505.1\|WP_012321564.1\|4940746_4941751_+\|2-keto-3-deoxygluconate-permease	unknown	unknown	gnl\|CDD\|235384
NC_010505.1\|WP_012321577.1\|4959031_4960015_+\|dipeptide-epimerase	unknown	unknown	gnl\|CDD\|239435
NC_010505.1\|WP_041372805.1\|4937493_4938495_-\|4-hydroxythreonine-4-phosphate-dehydrogenase-PdxA	unknown	unknown	gnl\|CDD\|273137

Protein	Function_ID	Function_description	E-value
NC_010505.1\|WP_012321567.1\|4942439_4943684_-\|methyl-accepting-chemotaxis-protein	gnl\|CDD\|206779	cd11386, MCP_signal, Methyl-accepting chemotaxis protein (MCP), signaling domain. Methyl-accepting chemotaxis proteins (MCPs or chemotaxis receptors) are an integral part of the transmembrane protein complex that controls bacterial chemotaxis, together with the histidine kinase CheA, the receptor-coupling protein CheW, receptor-modification enzymes, and localized phosphatases. MCPs contain a four helix trans membrane region, an N-terminal periplasmic ligand binding domain, and a C-terminal HAMP domain followed by a cytoplasmic signaling domain. This C-terminal signaling domain dimerizes into a four-helix bundle and interacts with CheA through the adaptor protein CheW.	1.94175e-31
NC_010505.1\|WP_012321576.1\|4958016_4959030_+\|DUF1611-domain-containing-protein	gnl\|CDD\|225902	COG3367, COG3367, Uncharacterized conserved protein [Function unknown].	8.98812e-97
NC_010505.1\|WP_012321571.1\|4950424_4951867_-\|teichoic-acid-transporter	gnl\|CDD\|225153	COG2244, RfbX, Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only].	7.11905e-14
NC_010505.1\|WP_106427859.1\|4939740_4940553_-\|FadR-family-transcriptional-regulator	gnl\|CDD\|225097	COG2186, FadR, Transcriptional regulators [Transcription].	1.87106e-46
NC_010505.1\|WP_012321569.1\|4947709_4949050_-\|glycolate-oxidase-subunit-GlcF	gnl\|CDD\|236890	PRK11274, glcF, glycolate oxidase subunit GlcF.	1.43292e-166
NC_010505.1\|WP_012321578.1\|4960294_4961344_+\|hypothetical-protein	gnl\|CDD\|367125	pfam02558, ApbA, Ketopantoate reductase PanE/ApbA. This is a family of 2-dehydropantoate 2-reductases also known as ketopantoate reductases, EC:1.1.1.169. The reaction catalyzed by this enzyme is: (R)-pantoate + NADP(+) <=> 2-dehydropantoate + NADPH. AbpA catalyzes the NADPH reduction of ketopantoic acid to pantoic acid in the alternative pyrimidine biosynthetic (APB) pathway. ApbA and PanE are allelic. ApbA, the ketopantoate reductase enzyme is required for the synthesis of thiamine via the APB biosynthetic pathway.	6.3094e-07
NC_010505.1\|WP_012321565.1\|4941873_4942044_+\|DUF3606-domain-containing-protein	gnl\|CDD\|371985	pfam12244, DUF3606, Protein of unknown function (DUF3606). This family of proteins is found in bacteria. Proteins in this family are typically between 58 and 85 amino acids in length. There is a single completely conserved residue G that may be functionally important.	7.55261e-09
NC_010505.1\|WP_012321558.1\|4935478_4936297_-\|GTP-cyclohydrolase-I-FolE	gnl\|CDD\|236472	PRK09347, folE, GTP cyclohydrolase I; Provisional.	7.05163e-113
NC_010505.1\|WP_012321574.1\|4955812_4956979_+\|type-III-PLP-dependent-enzyme	gnl\|CDD\|143482	cd00622, PLPDE_III_ODC, Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase. This subfamily is composed mainly of eukaryotic ornithine decarboxylases (ODC, EC 4.1.1.17) and ODC-like enzymes from prokaryotes represented by Vibrio vulnificus LysineOrnithine decarboxylase. These are fold type III PLP-dependent enzymes that differ from most bacterial ODCs which are fold type I PLP-dependent enzymes. ODC participates in the formation of putrescine by catalyzing the decarboxylation of ornithine, the first step in polyamine biosynthesis. Members of this subfamily contain an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain, similar to bacterial alanine racemases. They exist as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Homodimer formation and the presence of the PLP cofactor are required for catalytic activity. Also members of this subfamily are proteins with homology to ODC but do not possess any catalytic activity, the Antizyme inhibitor (AZI) and ODC-paralogue (ODC-p). AZI binds to the regulatory protein Antizyme with a higher affinity than ODC and prevents ODC degradation. ODC-p is a novel ODC-like protein, present only in mammals, that is specifically exressed in the brain and testes. ODC-p may function as a tissue-specific antizyme inhibitory protein.	1.7865e-160
NC_010505.1\|WP_012321562.1\|4938515_4939631_-\|hypothetical-protein	gnl\|CDD\|225930	COG3395, COG3395, Uncharacterized protein conserved in bacteria [Function unknown].	1.57857e-19
NC_010505.1\|WP_012321572.1\|4951991_4954091_-\|methyl-accepting-chemotaxis-protein	gnl\|CDD\|214599	smart00283, MA, Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer). Thought to undergo reversible methylation in response to attractants or repellants during bacterial chemotaxis.	5.71493e-35
NC_010505.1\|WP_041372399.1\|4942096_4942378_+\|DUF2934-domain-containing-protein	gnl\|CDD\|378572	pfam11154, DUF2934, Protein of unknown function (DUF2934). This bacterial family of proteins has no known function.	2.27613e-10
NC_010505.1\|WP_024828685.1\|4936537_4936981_+\|iron-sulfur-cluster-assembly-scaffold-protein	gnl\|CDD\|223892	COG0822, IscU, NifU homolog involved in Fe-S cluster formation [Energy production and conversion].	9.45363e-40
NC_010505.1\|WP_012321570.1\|4949107_4950295_-\|FAD-binding-protein	gnl\|CDD\|236893	PRK11282, glcE, glycolate oxidase FAD binding subunit; Provisional.	2.29048e-93
NC_010505.1\|WP_012321575.1\|4957205_4957757_+\|N-acetyltransferase	gnl\|CDD\|225695	COG3153, COG3153, Predicted acetyltransferase [General function prediction only].	1.26139e-39
NC_010505.1\|WP_106427860.1\|4954573_4955068_-\|GNAT-family-N-acetyltransferase	gnl\|CDD\|223532	COG0456, RimI, Acetyltransferases [General function prediction only].	3.35356e-19
NC_010505.1\|WP_012321560.1\|4936985_4937318_+\|membrane-protein-insertion-efficiency-factor-YidD	gnl\|CDD\|178815	PRK00041, PRK00041, hypothetical protein; Validated.	2.23546e-34
NC_010505.1\|WP_012321564.1\|4940746_4941751_+\|2-keto-3-deoxygluconate-permease	gnl\|CDD\|235384	PRK05274, PRK05274, 2-keto-3-deoxygluconate permease; Provisional.	2.40728e-134
NC_010505.1\|WP_012321577.1\|4959031_4960015_+\|dipeptide-epimerase	gnl\|CDD\|239435	cd03319, L-Ala-DL-Glu_epimerase, L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of the murein peptide of peptidoglycan, of which L-Ala-D-Glu is a component. L-Ala-D/L-Glu epimerase is a member of the enolase-superfamily, which is characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion.	3.00177e-119
NC_010505.1\|WP_041372805.1\|4937493_4938495_-\|4-hydroxythreonine-4-phosphate-dehydrogenase-PdxA	gnl\|CDD\|273137	TIGR00557, pdxA, 4-hydroxythreonine-4-phosphate dehydrogenase. This model represents PdxA, an NAD+-dependent 4-hydroxythreonine 4-phosphate dehydrogenase (EC 1.1.1.262) active in pyridoxal phosphate biosynthesis. [Biosynthesis of cofactors, prosthetic groups, and carriers, Pyridoxine].	6.03731e-139

>NC_010505.1|WP_012321567.1|4942439_4943684_-|methyl-accepting-chemotaxis-protein
MFSLRRQRQTPDALATPVTAIAPVETAVAAPVETAPNPVAELAVDREWLTLLARLSASASDAGTSIGWMTHDASGTAEQARLIAAASEELAATTGEIAARSSSAAEMAETARAGIATCVGDLHRATDGMRGIEEGTEEIGSRLDSFSTAALRIEEMAGTIAAISAQTNLLALNATIEAARAGEAGRGFAVVAAEVKTLSAQTAKATDEIRARVSGLREEMAAMQAAVSRSRNAVEAGAAAMVRANARVEAESGAVANVAAQMREASEILGQQMQATGDIAQNVGRIAEGTDKARREIGDALAQLGRIEDLGRTLLDRQTGTTADQRVIRLSADCAAWRRAVAATLVGMRSTDTPPEGIPADATRPAAIETPLAQAREQAAALVRHVRSQAWDSATTAFVAFEAAVKEARAAIEA
>NC_010505.1|WP_041372399.1|4942096_4942378_+|DUF2934-domain-containing-protein
MAGTQAPASETGTAPEPPSGVEASAPQPPPRSPDTITFEQIRERAYELWERNHRPEGFEIEFWLLAERELRKERDRQRADAAPAAPGSEPPPG
>NC_010505.1|WP_012321565.1|4941873_4942044_+|DUF3606-domain-containing-protein
MSTEARGKTHIDIYDRATREEWAQRFGVSEERLRKAVTMVGSRITSVAAYLDKPAS
>NC_010505.1|WP_012321564.1|4940746_4941751_+|2-keto-3-deoxygluconate-permease
MQIPIKRSLERVPGGLMVMPLFLGAILHTLFPNTATFFGSFTGALFNGALPILAVFFVCMGAGIDFRATPAIARKGGVLLAAKVGIAAIMGVVFGQLLGEAPVVGGAFAGISTLAIVAAMNDTNGGLYLALMGQFGRPKDAGAYAIMSLESGPFLTMVTLGLAGLSAFPWPTLVGSILPLLIGMILGNLDRDMRAFLSGAAPVMIPFFAFALGFGLDLAKIWQAGLLGIGLGVAVVAITGAALFVADRLTGGNGVAGVAAASTAGNAAAVPAIIAAANPAYREAAGPATVLVAASVVVTALLVPLLTAFVAARVRPDAAEADPAPVPSPAPTAP
>NC_010505.1|WP_106427859.1|4939740_4940553_-|FadR-family-transcriptional-regulator
MSPSLSGSPDPAEAPGQRALRGAEPARPASLADGLYQAIRTGIANGTYGPDARLPSEHDLAGRFQVSRPVVRAALDRLRREGAIVSRQGAGSFVRARPVRPALGFAPVESVADIQRCYEFRLTLEPEAAYHAALRHDAAALDRIAAALDRLAVATRQEQHRADADFAFHHAIAAASNNHYYAACLEALQSHIAVGMTIHGLALQGPRSGLRGVLEEHRGIFAAIEGRDGAGARSRMAAHIAGSRDRLFEGRLLDLSLGRPAEAGAAAPPA
>NC_010505.1|WP_012321562.1|4938515_4939631_-|hypothetical-protein
MTRLRLIADDLTGTLDTAAGFTGLCGSIPVAWPEILAAEAAGGSRGCLAIDSGTRELSAEAAGRIVGALAPRLDGAGIAFKKVDSLLRGPWAAELAAVLRTGTWERCVVAPAFPYQGRRTAGGRQLARRGAGFEPVSGDIAEALRAVGLPARRVDPADGPVAGVAVYDAASDADLARVAGLGGGGPVLWCGSGGLAAALARGAAPPGDARLAGPVLGLFGSDRPETAAQLAACGTHHLVLSADDPDHAGAVAARLDRDGVVLASLALPAGTAREDAAAHIAATFAGVIDRIPRPGTLLVAGGETLKALCLALAVARLDVTGQIAPGLPRSTLRGGRWDGLPVVSKSGAFGTEGVWRDLLHQNGFPHDRSAP
>NC_010505.1|WP_041372805.1|4937493_4938495_-|4-hydroxythreonine-4-phosphate-dehydrogenase-PdxA
MGDPAGIGPEIIVKAAARLKDRIAAGDLKLVVIGSAPALRRAEQALGLLPEAIPEVAEAGDWPALCCLQADAEGAPIEPGRLSADGGRFAYKAIEAGVRLAMAGRIGGIVTAPLNKEALNKAGYHYAGHTEMLAELTGVRGSVMMLAHGNMRVSHVTTHVALEDVPKRLTPERLRLVIDLTDKALKGLGLAKPKIAVAALNPHAGEGGLFGRQDIDVSAPVIAAANADGLDVHGPVPGDTVFVKLRAGQYDAVVAMYHDQGHIPVKLLGFEIDPATGKWMDLSGVNITLGLPIIRTSVDHGTAFDIAGTGVANERSLIEAIEFAEKLAASRAA
>NC_010505.1|WP_012321560.1|4936985_4937318_+|membrane-protein-insertion-efficiency-factor-YidD
MVRRAAHWAIRGYQLTLSGLVGRQCRHWPSCSEYTDTAIARHGLWPGGWMGFARICRCGPFGTHGIDLVPERLPAGAAWYRPWTYGRWRGVEAPPSPFACEAVGQEADIR
>NC_010505.1|WP_024828685.1|4936537_4936981_+|iron-sulfur-cluster-assembly-scaffold-protein
MLDDIYNRRILELAADIPRLGRLENPDATATAHSRLCGSTVTVDLVLGEDGRVADFAQEVRACALGQASSSLMGRHVVGASAEELRGVRETMRSMLKENGPAPDGAWSDLAVLEPVRDFKARHASTLLTFDAVVDALDQIAAKRQAA
>NC_010505.1|WP_012321558.1|4935478_4936297_-|GTP-cyclohydrolase-I-FolE
MYAKPDSTPMKSRIARAGDAMDAALKSLSYQGDGQGFDRNGIDGQGLNGMRNDNRPADDGRPVEVAPEPTSATRVPDGIETGRPSRAEAEAAVRTLLRWAGDDPTREGLLDTPARVTKAYEQLFGGYAVDAEKLLERVFEEVEGYSDIVLVRDIPFHSHCEHHMVPFMGLAHIAYYPTRGVVGLSKLARVVDTFARRLQTQETMTAQIADVIESILKPRGVAVMVEAEHLCMAMRGVQKAGVSTITSQFRGVFKDNANEQVRFLTLVRGGAK
>NC_010505.1|WP_012321569.1|4947709_4949050_-|glycolate-oxidase-subunit-GlcF
MQTNFAPAQLADPAMAASEKILRTCVHCGFCTATCPTYLLLGDELDSPRGRIYLIKDMLEGGKPASQEVVKHVDRCLSCLSCMTTCPSGVHYMHLVDHARAHIEETYTRPAGDRFLRALLAQVLPYPGRFRLALTAARLGAPFRGLVARLPRVGNRLAAMLDLAPAGTPPREPTNRPGRFPPAGAGAAGTAPKRVALLRGCAQSVLRPDFNAAAIRLLNRHGIEVVHANEGCCGALTHHMGKEDSAHAHAKQAIDAWDAEIAKGLDAILVTASGCGTTIKDYGFMFRDDPAYAEKALRVSSLAKDVTEYLALLDLAPVAETDLVVAYHSACSMQHGQGIRLEPKTLLKRAGFTVKDVPEGHICCGSAGTYNILQPELAAKLRARKVANIERVRPDVIATGNIGCATQIGKGTGIPIVHTVELLDWATGGPKPAALAGVAPRLEAAE
>NC_010505.1|WP_012321570.1|4949107_4950295_-|FAD-binding-protein
MGVYEPGTEAEAGEIVRAAAGRGERLRLAGGGTAAGLGRPAQDSATLSAKALTGVTLYEPAEMVVAARAGTPLAEVEALLASRGQMLPFEPMDLRGLYGSAGEPTLGAVAAINNAGPRRINAGAARDSLIGVRFVNGRGEAIKSGGRVMKNVTGLDLVKLMAGAHGTLGLLTEITFKVLPACERVATLVFSGLEDARAVTALAEALGSPFELTGAAHLPAGIGAPEARTLMRLEGFSDSIDYRAGALRRLLKRYGQPETVDGEAGAALWRSVRDAAPLAEPREAALWRISTAPTRGPALAAAVAAEREARWFFDWGGGLIWLTTGSAGDAGAATVRRAVKAQGGHATLVRAPDAVRAAVPVFEPLAEPLMRLTAGIKAAHDPAGVLNPGRMYAGL
>NC_010505.1|WP_012321571.1|4950424_4951867_-|teichoic-acid-transporter
MAVIVAFVINAGLNFVLGLLIAKLLGPADFGRFALATTGAIVLNTVLFEWLRLSATRFYSGRVRVDEPWIRHGLDRAYLRIGALLLAAAALCGAFGFAGGADGREAVLCGTGLAALGIGVFDYHAALARARFDGKLYLGLVAVKNVLSFALMAAAAWWLPQPAWVLAAAGLSQLLAVVVLRHPLRDPRTPLERPRLSATWRVFARYGLPLIAANTAYQCLTFVNRGAIAGQAGFAEAGYFALAADVTSRALMTLGTALDLLLFQLAVQAEEQSGRAAAEAQVAANAGTVFALLAPCAVGFWAVLPALQGLVVPDAYRGPFETYSTVLMPGLFCLAMMFYALNPVFQIRRRTLPVVAAALVGLAVNGAGLLVLPDRMGGLGVALAQSAGLAAAGTWLGWRALTGAERIALPWGEIGVAALACAAMGLALAPFRQLPPATALAVLVPAGMVLYGTLVWILDIAGLRRQVLARLRPAGTVAAE
>NC_010505.1|WP_012321572.1|4951991_4954091_-|methyl-accepting-chemotaxis-protein
MSRWLGRFSIRTLLCLVIVIMACMALGNAVRSLVDARAQAARAARAVTLTEASQGLLRAILPLRLERGSSLALGGEAPADAKTLSTVADSRQALTENYRRAQRSLSDLAEPAVSATLDRLTTAQEAMAALRPRIDEALRLPKAQRDPALREAAMAAFQDLLEALTATLKAVDASIPRSDPALQRYLALKQAAWDTRVASGNVAVRVQSSLVAGASWSLPETIAAAEERTELLAAWRRTTEAATGVSEAVRAAFERAKASNFEGETRAIAQAVFDALSTHTPPRHSFAELRDRNTENQRSLVALCDAALDAMVARAEALADAARSDVARSGAALLAVILLVALGLWTLFGGVLRPLRALTATMRALADGDASVTVSARTYRNEIGAMARAVQVFKDNLIRSRQLESEAAEARLAAEARRRSDLRAMAERFERTVGGIIAQVSDSATALQGTAQTMTATATRTASQSSTVAAAAEEAAANVSTVAAAAEELGASVEEIGRQVEGSTRLAQGAVSEAGQTGALVRDLSGAVARIGDVVGLIAAIAGQTNLLALNATIEAARAGEAGRGFAVVAGEVKALAAQTARATEEIAGQIAGIQGATGGAVAAIGAITGRIQEISGVASAIAAAVEEQGSATREIVRNVGQAAVGTGAVTSTILGVAGAAEETGRAAAAVLAAASALSRQSETLTAEVARFLDSVRAA
>NC_010505.1|WP_106427860.1|4954573_4955068_-|GNAT-family-N-acetyltransferase
MRSPVGDGLPEPTIRTATLADLDALVALEHAAFATDRAERRAIRHAIRSPTMDVLAALIDPPDRDPIPVLVGAAVLERRRGSRIARLASIAVAPNRGGLGLGGRLLDAAEARARAQGCDRLRLEVRADNGAGIRLYERRGYTRFAVRPDYYEDGMEAWRYERAL
>NC_010505.1|WP_012321574.1|4955812_4956979_+|type-III-PLP-dependent-enzyme
MTDRIRDYLRVRRDLGQDEGPVMVLDLDVVRDNYTAFARSLPDTRVFYAVKANPAPEVLRLLAEMGSCFDTASVAEMEMVLAAGATADRISFGNTIKKERCIGRALKLGIRLFAVDCQAEVEKIARAAEAVDVPAGEIRVFCRILCDGVGADWPLSRKFGCVPEMAADVLEHAHRQGLEAYGISFHVGSQQGNTEAWDGALGSAAAVFRECAERGIGLSMVNLGGGFPTKYLKAVPGVESYGEAIFRGLTKHFGNQIPETIIEPGRGMVGNAGLIEAEVVLVSRKSADADEVRWVYLDIGKFGGLAETMDEAIRYPIRTARDGDATEPCVIAGPTCDSVDVLYERQLYPLPVSLSIGDKVLIEGAGAYTTTYAAVAFNGFPPLQQIVI
>NC_010505.1|WP_012321575.1|4957205_4957757_+|N-acetyltransferase
MIEIRAEHLHHVPARERLLDACFPGNRRAKTSERLREGRLPARGLAFAATRAGRLVGTLRLWHVEAGLARPALLLGPLAVDPAIQGQGLGSVMMQAALGRAESLGHGAVLLVGDAPYYARFGFDRALADGLTLPGPFERARFLGLELRAGALAGAAGMVRATGVLSPAGAVANEAGVARRRAA
>NC_010505.1|WP_012321576.1|4958016_4959030_+|DUF1611-domain-containing-protein
MQIATPYLMFLGDVPDTLAAKTAYGIKDWRPEWCVGQMRLPGCAADLGIPDMTLAEALAKGCRTLVIGVVNAGGVLPDHWVKEIVAAIEAGLDVASGLHVKLGTVPAIAEAAARRGRQLHDVRHTDERFPTGKGTKRAGRRLLTVGTDCSVGKKYTVLALERGMRARGLDADFRATGQTGVFISGRGVAIDAVVADFISGAVETIAPEAAPNHWDLIEGQGSLYHPSFAGVSLGLLHGAQADAFVVCHEPTRTNMRGVKHPLPTIRQVIDLTVQLGSLTNPAIRPVGIAVNTQALAEGEARALLDKLASEHGLPATDPVRFGVDGLVDRIVADFPEA
>NC_010505.1|WP_012321577.1|4959031_4960015_+|dipeptide-epimerase
MARRLTLAVERFPIAGAFTISRGSRTEIAVVVATIADGDAVGRGECVPYPRYGESVESVSALIEGQAEAIAAGIERDALMARMKAGAARNALDCALFDLEAKRQGRPAWEIAGLAEPRPAITAYTLSLGTPESMAEAARKSAHRPLLKVKLGGDGDPERIAAVRAGAPESRLIVDANEAWRPENVEANLAACLKAGVALIEQPLPADADALLAEIPHPVPVCADESLHDRAGLDALAGRYDAINIKLDKTGGLTEAVLLAREARARGLSIMVGCMLGTSLGMAPAALLANAAEFVDLDGPLLLACDRDPPLRYEGSLMHPPTPELWG
>NC_010505.1|WP_012321578.1|4960294_4961344_+|hypothetical-protein
MARNILILGASYGSLLGTKLLMAGHNVTLVCRRKTADLINREGTEVRIKLRDEKEHRAIHSRDLPGKVDAMPPEEVDVSRYDLVGLAMQEPQYNNHTIRVLMIKIAAARLPCLSIMNMPPLPYLKRIPALAAMDLEDAYTNAGVWDRFEPGLVSLCSPDPQAFRPPEEEANVLHVGLPTNFKAATFADEAHNRLLRELEADIDAVRLDGHDVPVKLKVFDSLFVPLAKWSMLLTGNYRCITPGEPQSIHDAVHGDLARSRAIYDHVDGIARKLGADPADQVPFEKYAKAAESLLKPSSAARAVANGAPYIERVDLLVKLISHQLGEPNAEIDRTVETVDRKLDERIIEG

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Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity
NC_010505_1	1.1\|1129353\|20\|NC_010505\|CRT	1129353-1129372	20	NC_010505.1	491718-491737	2	0.9
NC_010505_1	1.1\|1129353\|20\|NC_010505\|CRT	1129353-1129372	20	NC_010505.1	1129326-1129345	2	0.9

1. spacer 1.1|1129353|20|NC_010505|CRT matches to position: 491718-491737, mismatch: 2, identity: 0.9

ttccacggtggcggtttcgg	CRISPR spacer
ttccacggcggcggcttcgg	Protospacer
********.*****.*****

2. spacer 1.1|1129353|20|NC_010505|CRT matches to position: 1129326-1129345, mismatch: 2, identity: 0.9

ttccacggtggcggtttcgg	CRISPR spacer
ttccacggcggcggcttcgg	Protospacer
********.*****.*****

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity
NC_010505_1	1.1\|1129353\|20\|NC_010505\|CRT	1129353-1129372	20	NC_008270	Rhodococcus jostii RHA1 plasmid pRHL2, complete sequence	213938-213957	1	0.95
NC_010505_3	3.1\|3832431\|24\|NC_010505\|PILER-CR	3832431-3832454	24	NC_022049	Paracoccus aminophilus JCM 7686 plasmid pAMI4, complete sequence	335150-335173	3	0.875
NC_010505_3	3.1\|3832431\|24\|NC_010505\|PILER-CR	3832431-3832454	24	NZ_CP019037	Massilia putida strain 6NM-7 plasmid unnamed2, complete sequence	146966-146989	3	0.875
NC_010505_3	3.1\|3832431\|24\|NC_010505\|PILER-CR	3832431-3832454	24	NZ_CP022367	Azospirillum sp. TSH58 plasmid TSH58_p02, complete sequence	464741-464764	4	0.833
NC_010505_3	3.1\|3832431\|24\|NC_010505\|PILER-CR	3832431-3832454	24	NZ_CP032346	Azospirillum brasilense strain MTCC4039 plasmid p1, complete sequence	804824-804847	4	0.833
NC_010505_3	3.1\|3832431\|24\|NC_010505\|PILER-CR	3832431-3832454	24	MK962640	Achromobacter phage vB_AxyP_19-32_Axy23, complete genome	33854-33877	5	0.792

1. spacer 1.1|1129353|20|NC_010505|CRT matches to NC_008270 (Rhodococcus jostii RHA1 plasmid pRHL2, complete sequence) position: , mismatch: 1, identity: 0.95

ttccacggtggcggtttcgg	CRISPR spacer
ttccacggtggcggtttcgt	Protospacer
*******************

2. spacer 3.1|3832431|24|NC_010505|PILER-CR matches to NC_022049 (Paracoccus aminophilus JCM 7686 plasmid pAMI4, complete sequence) position: , mismatch: 3, identity: 0.875

cctgagcaaggccggcgtgcagca	CRISPR spacer
gctgagcaaggcgggcgtgcagcc	Protospacer
 *********** **********

3. spacer 3.1|3832431|24|NC_010505|PILER-CR matches to NZ_CP019037 (Massilia putida strain 6NM-7 plasmid unnamed2, complete sequence) position: , mismatch: 3, identity: 0.875

cctgagcaaggccggcgtgcagca	CRISPR spacer
ccccggcaaggccggcgtgcagca	Protospacer
**. .*******************

4. spacer 3.1|3832431|24|NC_010505|PILER-CR matches to NZ_CP022367 (Azospirillum sp. TSH58 plasmid TSH58_p02, complete sequence) position: , mismatch: 4, identity: 0.833

cctgagcaaggccggcgtgcagca	CRISPR spacer
gctgagcgaggccggcgtgcaggg	Protospacer
 ******.************** .

5. spacer 3.1|3832431|24|NC_010505|PILER-CR matches to NZ_CP032346 (Azospirillum brasilense strain MTCC4039 plasmid p1, complete sequence) position: , mismatch: 4, identity: 0.833

cctgagcaaggccggcgtgcagca	CRISPR spacer
gctgagcgaggccggcgtgcaggg	Protospacer
 ******.************** .

6. spacer 3.1|3832431|24|NC_010505|PILER-CR matches to MK962640 (Achromobacter phage vB_AxyP_19-32_Axy23, complete genome) position: , mismatch: 5, identity: 0.792

cctgagcaaggccggcgtgcagca	CRISPR spacer
gggcagcaaggccggcgtgcagct	Protospacer
    *******************

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

1061249 : 1071420

Burkholderia_phage(33.33%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_012318007.1\|1061249_1063934_-	type I DNA topoisomerase	A0A1V0SCS0	Indivirus	5.4e-99	30.8
WP_012318008.1\|1064141_1064414_+	BrnT family toxin	K4NX81	Burkholderia_phage	6.3e-24	61.6
WP_012318009.1\|1064373_1064703_+	BrnA antitoxin family protein	K4NZP3	Burkholderia_phage	6.9e-09	44.0
WP_012318010.1\|1064707_1065667_-	molybdopterin-dependent oxidoreductase	NA	NA	NA	NA
WP_012318011.1\|1065663_1066527_-	hypothetical protein	NA	NA	NA	NA
WP_041372515.1\|1066905_1067853_+	aspartate carbamoyltransferase catalytic subunit	A7RB08	Paramecium_bursaria_Chlorella_virus	1.6e-29	33.2
WP_012318013.1\|1067995_1068319_+	phosphoribosyl-ATP diphosphatase	NA	NA	NA	NA
WP_012318014.1\|1068315_1069305_+	type I pantothenate kinase	A0A1B1ISL9	uncultured_Mediterranean_phage	1.1e-30	35.7
WP_012318015.1\|1069390_1069930_-	RNA 2',3'-cyclic phosphodiesterase	NA	NA	NA	NA
WP_041372263.1\|1069929_1070529_-	arylesterase	NA	NA	NA	NA
WP_167539001.1\|1070736_1071420_+	ATP-binding cassette domain-containing protein	G9BWD6	Planktothrix_phage	2.7e-39	42.3

DBSCAN-SWA_2

1571624 : 1580651

Staphylococcus_phage(16.67%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_012318485.1\|1571624_1573262_-	acyl-CoA synthetase	A0A2H4PQU7	Staphylococcus_phage	2.0e-32	26.8
WP_012318486.1\|1573449_1574010_-	PAS domain-containing protein	NA	NA	NA	NA
WP_012318487.1\|1574382_1575030_+	ParA family protein	W8ECJ6	Mycobacterium_phage	1.2e-12	34.6
WP_012318488.1\|1575013_1575337_+	hypothetical protein	NA	NA	NA	NA
WP_012318489.1\|1575887_1577216_+	septal ring lytic transglycosylase RlpA family protein	F5B3X9	Synechococcus_phage	2.1e-19	57.1
WP_041372295.1\|1577421_1578672_+	D-alanyl-D-alanine carboxypeptidase	B6DZZ7	Stx2-converting_phage	1.1e-49	35.6
WP_012318491.1\|1578682_1579405_+	dTMP kinase	Q2Z0N0	Pseudomonas_phage	2.6e-24	39.2
WP_012318492.1\|1579598_1580651_+	DNA polymerase III subunit delta'	M1NSC1	Streptococcus_phage	1.4e-05	38.7

DBSCAN-SWA_3

5258303 : 5294307

Streptococcus_phage(12.5%)

head,tail,protease,portal,capsid

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_158682018.1\|5258303_5259077_+\|protease	trypsin-like serine protease	NA	NA	NA	NA
WP_012321850.1\|5259577_5260018_-	(deoxy)nucleoside triphosphate pyrophosphohydrolase	NA	NA	NA	NA
WP_012321851.1\|5260014_5260731_-	SIMPL domain-containing protein	NA	NA	NA	NA
WP_012321852.1\|5260727_5261978_-	bifunctional glutamate N-acetyltransferase/amino-acid acetyltransferase ArgJ	NA	NA	NA	NA
WP_012321853.1\|5262208_5262643_+	hypothetical protein	NA	NA	NA	NA
WP_012321854.1\|5263181_5265128_+	HAMP domain-containing protein	NA	NA	NA	NA
WP_012321855.1\|5265137_5265989_-	hypothetical protein	NA	NA	NA	NA
WP_041372842.1\|5266116_5266920_-	pyrroline-5-carboxylate reductase	A0A1X9I6T5	Streptococcus_phage	7.6e-17	35.7
WP_012321857.1\|5266946_5267456_-	hypothetical protein	NA	NA	NA	NA
WP_012321858.1\|5267746_5268031_-	accessory factor UbiK family protein	NA	NA	NA	NA
WP_012321859.1\|5268190_5268439_-	hypothetical protein	NA	NA	NA	NA
WP_012321860.1\|5268572_5269289_-	PhoH family protein	I6R9K2	Celeribacter_phage	8.8e-57	44.9
WP_012321861.1\|5269702_5272096_-	UvrD-helicase domain-containing protein	A7KV33	Bacillus_phage	8.7e-109	35.7
WP_012321862.1\|5272516_5275957_+	hypothetical protein	NA	NA	NA	NA
WP_012321863.1\|5276152_5278288_-	S9 family peptidase	NA	NA	NA	NA
WP_046154868.1\|5278842_5280450_+	porin	NA	NA	NA	NA
WP_012321865.1\|5280563_5280788_+	hypothetical protein	NA	NA	NA	NA
WP_046154999.1\|5280974_5281730_+	hypothetical protein	NA	NA	NA	NA
WP_012321867.1\|5281745_5282174_-	SufE family protein	NA	NA	NA	NA
WP_041372846.1\|5282254_5283241_-	PAS domain S-box protein	NA	NA	NA	NA
WP_012321869.1\|5283767_5284028_+	DUF3761 domain-containing protein	NA	NA	NA	NA
WP_012321870.1\|5284145_5284796_+	hypothetical protein	NA	NA	NA	NA
WP_012321871.1\|5284770_5286069_+	DNA-packaging protein	A0A0U4IJ26	Arthrobacter_phage	3.3e-70	39.8
WP_012321872.1\|5286646_5287624_-	hypothetical protein	NA	NA	NA	NA
WP_012321873.1\|5287654_5288848_+\|portal	phage portal protein	W8ECU7	Geobacillus_phage	1.0e-54	39.4
WP_012321874.1\|5288907_5289462_+\|head,protease	HK97 family phage prohead protease	A0A0U2BX10	Paracoccus_phage	8.9e-25	47.3
WP_012321875.1\|5289486_5290779_+\|capsid	phage major capsid protein	A0A2D1GNH4	Pseudomonas_phage	2.4e-81	43.7
WP_012321876.1\|5290828_5291374_-	DNA starvation/stationary phase protection protein Dps	A0A222YYG6	Streptomyces_phage	1.2e-05	28.5
WP_012321877.1\|5291495_5292407_-\|protease	trypsin-like serine protease	NA	NA	NA	NA
WP_012321878.1\|5292567_5293341_-	S1 family peptidase	NA	NA	NA	NA
WP_012321879.1\|5293366_5293930_+	phiE125 gp8 family protein	NA	NA	NA	NA
WP_012321880.1\|5293953_5294307_+\|head,tail	head-tail adaptor protein	NA	NA	NA	NA

DBSCAN-SWA_4

5457465 : 5516375

Bacillus_virus(20.0%)

transposase,tRNA,tail,protease,integrase

attL 5481805:5481821|attR 5518933:5518949

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_012322036.1\|5457465_5458092_+\|protease	ATP-dependent Clp protease proteolytic subunit	A0A223W000	Agrobacterium_phage	1.2e-65	62.9
WP_010684321.1\|5458276_5459548_+\|protease	ATP-dependent Clp protease ATP-binding subunit ClpX	G3M9Z9	Bacillus_virus	1.3e-132	58.5
WP_012322037.1\|5459794_5462221_+	endopeptidase La	A0A0R6PGP8	Moraxella_phage	4.1e-191	47.9
WP_012322038.1\|5462304_5463024_+	Asp/Glu racemase	NA	NA	NA	NA
WP_081437825.1\|5463202_5463448_-	hypothetical protein	NA	NA	NA	NA
WP_012322040.1\|5463868_5464831_+	phytanoyl-CoA dioxygenase family protein	NA	NA	NA	NA
WP_012322041.1\|5464855_5465773_-	alpha/beta hydrolase	NA	NA	NA	NA
WP_012322042.1\|5465784_5466798_-	SDR family NAD(P)-dependent oxidoreductase	NA	NA	NA	NA
WP_012322043.1\|5466923_5468354_-	mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase	A0A1V0SH58	Hokovirus	9.3e-42	26.3
WP_012322044.1\|5468544_5469987_+\|tRNA	L-seryl-tRNA(Sec) selenium transferase	NA	NA	NA	NA
WP_012322045.1\|5470110_5470581_+	MarR family transcriptional regulator	NA	NA	NA	NA
WP_012322046.1\|5470623_5471994_-	pentapeptide repeat-containing protein	NA	NA	NA	NA
WP_012322047.1\|5472039_5474358_-	FdhF/YdeP family oxidoreductase	NA	NA	NA	NA
WP_012322048.1\|5474514_5474688_+	metallothionein	NA	NA	NA	NA
WP_012322049.1\|5475101_5475389_-	MTH1187 family thiamine-binding protein	NA	NA	NA	NA
WP_012322050.1\|5475499_5476402_-	LysR family transcriptional regulator	NA	NA	NA	NA
WP_012322051.1\|5476509_5477424_+	5-dehydro-4-deoxyglucarate dehydratase	NA	NA	NA	NA
WP_012322052.1\|5477522_5478878_+	MFS transporter	NA	NA	NA	NA
WP_041372861.1\|5479008_5480358_+	glucarate dehydratase	NA	NA	NA	NA
WP_012322054.1\|5480380_5481922_-	amidohydrolase family protein	NA	NA	NA	NA
5481805:5481821	attL	NA	NA	NA	NA
WP_012322055.1\|5481948_5482755_-	ABC transporter ATP-binding protein	G3M9Y6	Bacillus_virus	8.4e-32	41.4
WP_012322056.1\|5482744_5483671_-	ABC transporter permease	NA	NA	NA	NA
WP_012322057.1\|5483675_5484728_-	ABC transporter substrate-binding protein	NA	NA	NA	NA
WP_012322058.1\|5485160_5485706_-	GNAT family N-acetyltransferase	NA	NA	NA	NA
WP_012322059.1\|5485728_5486622_-	hypothetical protein	NA	NA	NA	NA
WP_012322060.1\|5486633_5487620_-	hypothetical protein	NA	NA	NA	NA
WP_012322061.1\|5487693_5488425_-	NUDIX hydrolase	A0A0E3JJF3	Streptomyces_phage	6.1e-05	42.9
WP_012322062.1\|5488676_5490866_+	marine proteobacterial sortase target protein	A0A2K9L1J5	Tupanvirus	2.5e-06	22.4
WP_012322063.1\|5490862_5491453_+	class GN sortase	NA	NA	NA	NA
WP_012322064.1\|5491545_5492298_+	helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_012322065.1\|5492452_5492668_+	hypothetical protein	NA	NA	NA	NA
WP_012322066.1\|5492664_5493087_+	hypothetical protein	NA	NA	NA	NA
WP_012322067.1\|5493083_5493953_+	DNA primase	M4QC51	Vibrio_phage	6.5e-14	32.3
WP_012322068.1\|5493936_5495355_+	hypothetical protein	K4HZY1	Acidithiobacillus_phage	5.7e-108	46.4
WP_041372862.1\|5495477_5495750_+	DNA-binding protein	NA	NA	NA	NA
WP_012322070.1\|5495841_5496048_+	hypothetical protein	NA	NA	NA	NA
WP_012322071.1\|5496169_5496652_+	hypothetical protein	NA	NA	NA	NA
WP_012322072.1\|5496798_5497428_+	hypothetical protein	NA	NA	NA	NA
WP_012322073.1\|5497463_5498453_+	hypothetical protein	NA	NA	NA	NA
WP_012322074.1\|5498449_5498707_+	hypothetical protein	NA	NA	NA	NA
WP_106427875.1\|5498757_5499099_+	hypothetical protein	NA	NA	NA	NA
WP_012322076.1\|5499111_5502570_+\|tail	phage tail tape measure protein	NA	NA	NA	NA
WP_012322077.1\|5502713_5503286_+	MucR family transcriptional regulator	NA	NA	NA	NA
WP_012322078.1\|5503620_5503899_+	hypothetical protein	NA	NA	NA	NA
WP_012322079.1\|5504015_5504246_+	hypothetical protein	NA	NA	NA	NA
WP_012322080.1\|5504836_5505112_+	hypothetical protein	NA	NA	NA	NA
WP_012322081.1\|5505173_5505581_-	hypothetical protein	NA	NA	NA	NA
WP_085985323.1\|5505634_5506590_-\|transposase	IS630 family transposase	A0A1V0SCG6	Indivirus	1.8e-09	19.4
WP_147021428.1\|5506722_5507232_-	hypothetical protein	NA	NA	NA	NA
WP_147021427.1\|5507286_5507850_-	hypothetical protein	NA	NA	NA	NA
WP_012322084.1\|5507888_5509229_-	hypothetical protein	NA	NA	NA	NA
WP_012322085.1\|5509386_5509557_-	hypothetical protein	NA	NA	NA	NA
WP_012322086.1\|5509867_5510134_+	hypothetical protein	NA	NA	NA	NA
WP_012322087.1\|5510145_5511144_+	hypothetical protein	NA	NA	NA	NA
WP_012322088.1\|5511229_5511418_-	hypothetical protein	NA	NA	NA	NA
WP_012322089.1\|5512135_5512462_+	hypothetical protein	NA	NA	NA	NA
WP_012322090.1\|5512532_5513054_+	hypothetical protein	NA	NA	NA	NA
WP_012322091.1\|5513055_5513307_+	hypothetical protein	NA	NA	NA	NA
WP_012322092.1\|5513296_5514523_+\|integrase	integrase	NA	NA	NA	NA
WP_012322093.1\|5514812_5516375_+\|integrase	integrase family protein	NA	NA	NA	NA
5518933:5518949	attR	NA	NA	NA	NA

DBSCAN-SWA_5

6048892 : 6056770

Pseudomonas_phage(16.67%)

integrase

attL 6050734:6050749|attR 6065719:6065734

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_012322621.1\|6048892_6049684_+	ERF family protein	A0A1B0VMB2	Pseudomonas_phage	2.2e-37	42.5
WP_012322622.1\|6049685_6050321_+	YqaJ viral recombinase family protein	A0A0U2BXF3	Paracoccus_phage	1.8e-53	53.4
WP_012322623.1\|6050322_6050616_+	hypothetical protein	NA	NA	NA	NA
WP_012322624.1\|6050615_6050759_+	hypothetical protein	NA	NA	NA	NA
6050734:6050749	attL	NA	NA	NA	NA
WP_012322625.1\|6050758_6052018_+	phosphoadenosine phosphosulfate reductase family protein	R9TRT5	Rhizobium_phage	1.9e-163	69.8
WP_147021396.1\|6052032_6052515_-	hypothetical protein	NA	NA	NA	NA
WP_012322626.1\|6052642_6053731_+	phage Gp37/Gp68 family protein	A0A291AUR0	Sinorhizobium_phage	1.2e-100	52.7
WP_041372909.1\|6054165_6054732_+	DUF1643 domain-containing protein	NA	NA	NA	NA
WP_012322628.1\|6054728_6054938_+	hypothetical protein	NA	NA	NA	NA
WP_085985371.1\|6055036_6055414_+	hypothetical protein	A0A2P1JRA0	Mycobacterium_phage	6.1e-17	46.1
WP_012322630.1\|6055406_6055625_+	helix-turn-helix domain-containing protein	NA	NA	NA	NA
WP_012322631.1\|6055546_6056770_-\|integrase	site-specific integrase	A0A077KET4	Ralstonia_phage	1.9e-83	45.9
6065719:6065734	attR	NA	NA	NA	NA

Anti-CRISPR protein detection

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

Overview of predicted results

Overview of the results

Cas Category Instructions

Results visualization

1. NC_010510

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection

2. NC_010509

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Click the colored protein region to show detailed information

Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection

3. NC_010517

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection

4. NC_010505

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection