CRISPRimmunity

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Overview of predicted results

Overview of the results

Contig_ID	Contig_def	CRISPR array number	Contig Signature genes	Self targeting spacer number	Target MGE spacer number	Prophage number	Anti-CRISPR protein number
NC_008146	Mycobacterium sp. MCS, complete genome	3 crisprs	cas3,csa3,casR,WYL,cas4,DEDDh,DinG	0	1	3	0
NC_008147	Mycobacterium sp. MCS Plasmid1, complete sequence	0 crisprs	DEDDh,csf3gr5,csf2gr7,csf4gr11,csf1gr8	0	0	1	0

Results visualization

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CRISPR-Cas detection and classification

Crispr_ID: NC_008146_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_008146_1

4054105-4054208

Orphan

Consensus_repeat	Method
GCGCTGAGGGCCTGGGCAAGTCTC	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_008146_1

>merge|NC_008146|1|4054105-4054208|CRISPRCasFinder
GCGCTGAGGGCCTGGGCAAGTCTCCAATGCATTGGACACTTCATCCTCGGTCAGTTGAGTCGTCGTGACTCACCTCCCCAGCGCTGAGGGCCTGGGCCAAGTCT

>NC_008146|1|1|4054105-4054208|CRISPRCasFinder
GCGCTGAGGGCCTGGGCAAGTCTC	CAATGCATTGGACACTTCATCCTCGGTCAGTTGAGTCGTCGTGACTCACCTCCCCA
GCGCTGAGGGCCTGGGCCAAGTCT

Protein	Signature genes	Signature genes Name	Protein_function
NC_008146.1\|WP_041309765.1\|4053686_4053872_-\|hypothetical-protein	unknown	unknown	unknown
NC_008146.1\|WP_011561174.1\|4047204_4047915_-\|hypothetical-protein	unknown	unknown	unknown
NC_008146.1\|WP_011561191.1\|4058221_4058500_-\|hypothetical-protein	unknown	unknown	unknown
NC_008146.1\|WP_011561181.1\|4052585_4053248_-\|hypothetical-protein	unknown	unknown	unknown
NC_008146.1\|WP_011561179.1\|4051472_4052213_+\|KR-domain-containing-protein	unknown	unknown	gnl\|CDD\|181349
NC_008146.1\|WP_011561187.1\|4056815_4057040_-\|hypothetical-protein	unknown	unknown	unknown
NC_008146.1\|WP_011561175.1\|4048019_4048595_+\|TetR/AcrR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|366102
NC_008146.1\|WP_011561190.1\|4057885_4058137_-\|hypothetical-protein	unknown	unknown	unknown
NC_008146.1\|WP_011561176.1\|4048596_4049469_-\|methylmalonyl-Co-A-mutase-associated-GTPase-MeaB	unknown	unknown	gnl\|CDD\|224617
NC_008146.1\|WP_011561177.1\|4049481_4050633_-\|acetyl-CoA-C-acyltransferase	unknown	unknown	gnl\|CDD\|238383
NC_008146.1\|WP_011561185.1\|4055129_4055459_-\|hypothetical-protein	unknown	unknown	unknown
NC_008146.1\|WP_011561186.1\|4055729_4056587_-\|phage-major-capsid-protein	unknown	unknown	gnl\|CDD\|377449
NC_008146.1\|WP_011561192.1\|4058525_4058921_-\|hypothetical-protein	unknown	unknown	unknown
NC_008146.1\|WP_011561189.1\|4057689_4057908_-\|hypothetical-protein	unknown	unknown	unknown
NC_008146.1\|WP_011561184.1\|4054798_4055113_-\|hypothetical-protein	unknown	unknown	unknown
NC_008146.1\|WP_011561180.1\|4052209_4052473_-\|HNH-endonuclease	unknown	unknown	gnl\|CDD\|238038
NC_008146.1\|WP_011768330.1\|4050711_4051476_+\|short-chain-dehydrogenase	unknown	unknown	gnl\|CDD\|187629
NC_008146.1\|WP_011561188.1\|4057039_4057687_-\|hypothetical-protein	unknown	unknown	unknown
NC_008146.1\|WP_011561182.1\|4053271_4053646_-\|hypothetical-protein	unknown	unknown	unknown
NC_008146.1\|WP_011561183.1\|4054439_4054799_-\|HNH-endonuclease	unknown	unknown	gnl\|CDD\|366837

Protein	Function_ID	Function_description	E-value
NC_008146.1\|WP_011561186.1\|4055729_4056587_-\|phage-major-capsid-protein	gnl\|CDD\|377449	pfam05065, Phage_capsid, Phage capsid family. Family of bacteriophage hypothetical proteins and capsid proteins.	2.47225e-35
NC_008146.1\|WP_011561180.1\|4052209_4052473_-\|HNH-endonuclease	gnl\|CDD\|238038	cd00085, HNHc, HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and anaredoxins.	0.00609049
NC_008146.1\|WP_011561179.1\|4051472_4052213_+\|KR-domain-containing-protein	gnl\|CDD\|181349	PRK08278, PRK08278, SDR family oxidoreductase.	7.74873e-65
NC_008146.1\|WP_011561175.1\|4048019_4048595_+\|TetR/AcrR-family-transcriptional-regulator	gnl\|CDD\|366102	pfam00440, TetR_N, Bacterial regulatory proteins, tetR family.	1.21884e-12
NC_008146.1\|WP_011561176.1\|4048596_4049469_-\|methylmalonyl-Co-A-mutase-associated-GTPase-MeaB	gnl\|CDD\|224617	COG1703, ArgK, Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism].	7.78081e-93
NC_008146.1\|WP_011561177.1\|4049481_4050633_-\|acetyl-CoA-C-acyltransferase	gnl\|CDD\|238383	cd00751, thiolase, Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and eukaryotes (cytosol, microbodies and mitochondria). There are 2 functional different classes: thiolase-I (3-ketoacyl-CoA thiolase) and thiolase-II (acetoacetyl-CoA thiolase). Thiolase-I can cleave longer fatty acid molecules and plays an important role in the beta-oxidative degradation of fatty acids. Thiolase-II has a high substrate specificity. Although it can cleave acetoacyl-CoA, its main function is the synthesis of acetoacyl-CoA from two molecules of acetyl-CoA, which gives it importance in several biosynthetic pathways.	1.90866e-147
NC_008146.1\|WP_011768330.1\|4050711_4051476_+\|short-chain-dehydrogenase	gnl\|CDD\|187629	cd05371, HSD10-like_SDR_c, 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs. HSD10, also known as amyloid-peptide-binding alcohol dehydrogenase (ABAD), was previously identified as a L-3-hydroxyacyl-CoA dehydrogenase, HADH2. In fatty acid metabolism, HADH2 catalyzes the third step of beta-oxidation, the conversion of a hydroxyl to a keto group in the NAD-dependent oxidation of L-3-hydroxyacyl CoA. In addition to alcohol dehydrogenase and HADH2 activites, HSD10 has steroid dehydrogenase activity. Although the mechanism is unclear, HSD10 is implicated in the formation of amyloid beta-petide in the brain (which is linked to the development of Alzheimer's disease). Although HSD10 is normally concentrated in the mitochondria, in the presence of amyloid beta-peptide it translocates into the plasma membrane, where it's action may generate cytotoxic aldehydes and may lower estrogen levels through its use of 17-beta-estradiol as a substrate. HSD10 is a member of the SRD family, but differs from other SDRs by the presence of two insertions of unknown function. SDRs are a functionally diverse family of oxidoreductases that have a single domain with a structurally conserved Rossmann fold (alpha/beta folding pattern with a central beta-sheet), an NAD(P)(H)-binding region, and a structurally diverse C-terminal region. Classical SDRs are typically about 250 residues long, while extended SDRs are approximately 350 residues. Sequence identity between different SDR enzymes are typically in the 15-30% range, but the enzymes share the Rossmann fold NAD-binding motif and characteristic NAD-binding and catalytic sequence patterns. These enzymes 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 (15-PGDH) numbering). In addition to the Tyr and Lys, there is often an upstream Ser (Ser-138, 15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH numbering) 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. Extended SDRs have additional elements in the C-terminal region, 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. Some atypical SDRs have lost catalytic activity and/or have an unusual NAD(P)-binding motif and missing or unusual active site residues. Reactions catalyzed within the SDR family include isomerization, decarboxylation, epimerization, C=N bond reduction, dehydratase activity, dehalogenation, Enoyl-CoA reduction, and carbonyl-alcohol oxidoreduction.	1.10065e-92
NC_008146.1\|WP_011561183.1\|4054439_4054799_-\|HNH-endonuclease	gnl\|CDD\|366837	pfam01844, HNH, HNH endonuclease. His-Asn-His (HNH) proteins are a very common family of small nucleic acid-binding proteins that are generally associated with endonuclease activity.	1.72489e-06

>NC_008146.1|WP_041309765.1|4053686_4053872_-|hypothetical-protein
MYAAAAKERMLAGKKDPVANSRQGSQRERRSDEQAAKAVEASDRSVLFPVWDMPLTSTDEN
>NC_008146.1|WP_011561182.1|4053271_4053646_-|hypothetical-protein
MSRIPLWDRAIHITSRTLSGMTINMSIPTRDEIENLSDTDHKVLENRLRRAAERQDLRLLKSRARDPRSRLYGTYMLTDQNNGVVFADHSTGRGYGLDLVDVAEWLFGDREQFAVQADTREALR
>NC_008146.1|WP_011561181.1|4052585_4053248_-|hypothetical-protein
MDKKQATVYDKEIRRLVGKIQDDLDTLAHLINQMLEGQAHLALGFKTPQAYLQDVFRIDGVSRVIEQRRPVVAMLTQKGLSQRAIADIVGVSVGTVVNDQAASGAQKLSTSSEDRVIGRDGKSYPATKPKPEPEVSDDEIIDYQAAQDDFNRLTSSMFAAKRKAQDALSLALHLRGFNEDEKRSIVADVADEVIDVFNAIKDAAKGRSMDAELRKLLDQG
>NC_008146.1|WP_011561180.1|4052209_4052473_-|HNH-endonuclease
MPFYWTEAHHTDDYSRGGRTDIDDLTLACQPANLLIEKTGWTTQRPGNGRTQWTPPEDHDTGQPRINNHFHPHRYLTDKSEGDDESD
>NC_008146.1|WP_011561179.1|4051472_4052213_+|KR-domain-containing-protein
MSLAGKVAFVAGASRGIGATVAKALAAEGAAVAVAARSEQPGKLPGTIHTVAESITASGGRALPVSCDVTDESSVETAVAETVSEFGGIDILVANAGVLWLGPIESTPLKRWQLCLNVNLTGVFLVTKAVIPHVRARGGGSLIAVTTTGVTMTDQGSNAYWVSKAAAERLYLGLAADLRADNIAVNCLSPSRVVLTEGWQAGGAGMEIPPEMVEPPEAMGRAAVLLAAQDASGITGTIQRSEEVVR
>NC_008146.1|WP_011768330.1|4050711_4051476_+|short-chain-dehydrogenase
MQIAGSSAIVVGGAGGLGEATVRRLQGAGAKVVVADLADEKGAALEKELGVRYVRTDATSEESVNAAIAEAESMGPLRISVDTHGGPASGGRLIGKDGSPLDLDGFKKTIEFYLTAVFNVMRLTAAAIAKSEPLEEGGRGVIVNTASIAGYEGQIGQLPYSAAKGGVLGMTLVAARDLSPLGIRVCTIAPGTINTPAYGKAADQLEQYWGPQVPFPKRMGRSTEYAQLAQSIIENDYLNGEIIRLDGALRFPPK
>NC_008146.1|WP_011561177.1|4049481_4050633_-|acetyl-CoA-C-acyltransferase
MPEAVIVSALRTPIGTAMKGTLRDTDAYRLAEHVVAAAAEDLPTGQIDDVVLGEGLYGGGVIARHAAITAGLISVPGLSNNRHCAAGQAAVQSAAASIRAGMDQLVIAGGVNSASTTPRFTRRASSAKDAAMLDWFPPTHPDRADAPNMDMSITVGWNAAVRAGVSREEMDQWALDSHRKAIQAIDEGRFKEEIVPIDTPYGLFDTDEHPRRDTSIEKLASLKPLHPEIEGFSITAGNACGANDGAAVLALASDRLGLPALGAVKAWASVGVDPAFTGLAPVEAIPKALKRAGISLSDVDLFEINEAFAAMCVATVKMLDIDPAKVNVSGSGCSLGHPVAATGARMLVTLVHELRRRGGGIGVAAMCAGGGMGSATVIEVPAP
>NC_008146.1|WP_011561176.1|4048596_4049469_-|methylmalonyl-Co-A-mutase-associated-GTPase-MeaB
MDVDELIAAARNGSTRAAGRLLSLVEGTRRDEVLAALAPHRARVVGLTGPPGAGKSTTVAALVTAYRQRGLRVAVLAVDPSSPYSGGALLGDRIRMAAHINDPDVLIRSVATRGHLGGLAAAVPAAIRLLAALAFDLIILETVGVGQSEIEIAAIADPTVVVLNPGAGDAVQAAKAGLLEVADIVVVNKADRDGADQTVRDLRGEVSVPILKLVAAQGEGVPELVDTIDAHHRDDTAQRRTARARTQILSLAHTLLRTHPELDRLAELVAEGTHDPYGAAEQLFAVRIES
>NC_008146.1|WP_011561175.1|4048019_4048595_+|TetR/AcrR-family-transcriptional-regulator
MPPVHDHPAVRRSAAQVRVLDAALDLIAENGVGGTSLQMIADRIGVTKAAVYHQFKTKEEIVIALTERELAGLEDALAAAEAEENRSRAREVLLTRVVDLAINRRRVASVLQFDPVIVRLLAEHEPFQRFIDRLYSAMLGNETGTRARVHAAMLSGVISVAVMHPLVVDIDDDTLRDEVLQTMRRIVDLPG
>NC_008146.1|WP_011561174.1|4047204_4047915_-|hypothetical-protein
MTRRVDGEVILLWTLPAVVLIWVSAFFLFPGFVHPMSPTMSAEEVAAFYRDETARIRYSMILFNWFGVGLIPLVMLIVVQVRRMAHRTPILSYSLLACSAGPPTLFLVANMFWLLGAFRPERAPELTQLFNDLAWITFTILVPYLIAQCLLLALAIYWDHQAQPVFTPWVAHFNLLVAAALAPAAFTALAWTGPFAWDGVLSFWLKNVAIALWIVVMGLVVAQTIRRQRTQERVVA
>NC_008146.1|WP_011561183.1|4054439_4054799_-|HNH-endonuclease
MPRAPKMCGRNGCRTIVHPPRKHCPEHSGWNTSPRTASAAATERSYWRTVIRPQALARDNHQCQLRFPGICTGHATEVDHIVAVSDGGADELDNARSACRRCHARRTAQDAARASHRAR
>NC_008146.1|WP_011561184.1|4054798_4055113_-|hypothetical-protein
MIGATGSPQQAAEKVAADLAALAEKLDVLRERPDWHHDDVLAPALAALTSAAKSTPAQRAKRRAAKDEARADELARAKAARNRFRTPASDRRTGGPNAVKARRS
>NC_008146.1|WP_011561185.1|4055129_4055459_-|hypothetical-protein
MPRNRFKPGAEHPNWRGDAASYAAIHYRLRTTLGSARDHRCVDCGEPAKHWSFSGCESEIPRRRNEAGRVISPPYCPHPEHFSPRCIPCHWRHDGAADRLNKKPAKKSA
>NC_008146.1|WP_011561186.1|4055729_4056587_-|phage-major-capsid-protein
MAFLSTSAGSILKPEEVHDLIVQPTQEQSVAMQTATVVPTSSAEFRFPVVVEDAAAQWLSEGEEIPLTDPTVDEVVARPKKIASLTKVSRELAEDSSPEATALVGASVARDMARRIDAAWFAASTAKGPAGLASLIGTAQSVAGGAYTNLDALAEALSLIEDVGGNPTAFVSNSSTVLALSKLKKTSDSNEPLLSPNLATGATQRIERQLLGVRLHSTPDTNLEDDVIWAYDQSKVFVVLRRDVDLAVDQSAFFTSDSLAVRCTMRIDFAFPHPQSVVRVGPDGS
>NC_008146.1|WP_011561187.1|4056815_4057040_-|hypothetical-protein
MPASKRSKRQIAIQRSQRRHRPDDPAMKPQPWHPLPDGDVRPFVPRNQRNATRDERGRVRNTEEVHDELRRLNP
>NC_008146.1|WP_011561188.1|4057039_4057687_-|hypothetical-protein
MPESSTTATDSGSSTGAEGGAQHQDSTGRELPADSPEATERQDNPASEAPGTDTGGGAGEPVADSRQVSDDPPADLQEGEPDPADDGKPDREAAKYRRERNEARAEVDRLRATVETFQRAEVERLAALKLIDGRDVWAAGAKLADLLADDGTVDIEKVSAAAQEIAATRRHWAKQAAAPASVVTGNQKPGYGDDEKTTWGDVFQRVRNGVAPEDR
>NC_008146.1|WP_011561189.1|4057689_4057908_-|hypothetical-protein
MLWLAVIDRDYPAVDRALDMLPADPEVRAIAITLCEIGIAIEPRLRCDAARDQALTQLALLDHTFKMLTGRD
>NC_008146.1|WP_011561190.1|4057885_4058137_-|hypothetical-protein
MRCPLCSRLTWLDRLPSTRSVPAHCNPHALLRLETHTLRRTIEHHRDQRPEAAARRAFIAQCRAQHLADHDQGGADDAVAGGD
>NC_008146.1|WP_011561191.1|4058221_4058500_-|hypothetical-protein
MPANIFRLELNERDYQRVGAALAALVHCDARGIADVLKDATEAKRGFHYHVAVLQTLAHRMGLDGPDRDELLANLQQEIAELARRAEAGGDD
>NC_008146.1|WP_011561192.1|4058525_4058921_-|hypothetical-protein
MTERSGLDRPNPHLNGWSTNDVVRLLLSLAEELQNLDAELSGLERDAVTKAEQLNVAQAKALLTATGKTVGEREAQALLATEAERLAARLAEINVKATKRRVETLRMRIDIGRTVCATLRSETELERSSWR

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Crispr_ID: NC_008146_2

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_008146_2

4603408-4603494

Orphan

Consensus_repeat	Method
GCATCATCCGCCGTCACCCGACCGGCG	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_008146_2

>merge|NC_008146|2|4603408-4603494|CRISPRCasFinder
GCATCATCCGCCGTCACCCGACCGGCGCCCAGCCCGTCGTGCCGAGCGCCCAACAGACCGGCATCATCCGCCGTCACCCGACCGGCG

>NC_008146|2|2|4603408-4603494|CRISPRCasFinder
GCATCATCCGCCGTCACCCGACCGGCG	CCCAGCCCGTCGTGCCGAGCGCCCAACAGACCG
GCATCATCCGCCGTCACCCGACCGGCG

Protein	Signature genes	Signature genes Name	Protein_function
NC_008146.1\|WP_011561705.1\|4600834_4601998_-\|succinyl-CoA-ligase-subunit-beta	unknown	unknown	gnl\|CDD\|234813
NC_008146.1\|WP_011561699.1\|4593586_4595005_-\|hypothetical-protein	unknown	unknown	unknown
NC_008146.1\|WP_011561712.1\|4610594_4612259_+\|glucose-6-phosphate-isomerase	unknown	unknown	gnl\|CDD\|234679
NC_008146.1\|WP_011768366.1\|4609094_4610543_-\|NAD-dependent-succinate-semialdehyde-dehydrogenase	unknown	unknown	gnl\|CDD\|143421
NC_008146.1\|WP_011561717.1\|4615211_4616264_-\|YihY/virulence-factor-BrkB-family-protein	unknown	unknown	gnl\|CDD\|377085
NC_008146.1\|WP_011561710.1\|4606889_4608935_-\|acyltransferase-family-protein	unknown	unknown	gnl\|CDD\|224748
NC_008146.1\|WP_011561713.1\|4612308_4613058_-\|short-chain-dehydrogenase	unknown	unknown	gnl\|CDD\|181324
NC_008146.1\|WP_011561716.1\|4614419_4615184_-\|precorrin-6A-synthase-(deacetylating)	unknown	unknown	gnl\|CDD\|236218
NC_008146.1\|WP_011561698.1\|4592937_4593567_-\|phosphoribosylglycinamide-formyltransferase	unknown	unknown	gnl\|CDD\|235544
NC_008146.1\|WP_011561708.1\|4603984_4606342_-\|DNA-helicase-PcrA	unknown	unknown	gnl\|CDD\|273429
NC_008146.1\|WP_011561700.1\|4595062_4595950_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|375092
NC_008146.1\|WP_011561702.1\|4597326_4598175_+\|TIGR03619-family-F420-dependent-LLM-class-oxidoreductase	unknown	unknown	gnl\|CDD\|274680
NC_008146.1\|WP_011561703.1\|4598246_4599776_-\|acetyl-CoA-acetyltransferase	unknown	unknown	gnl\|CDD\|236204
NC_008146.1\|WP_011561715.1\|4614011_4614401_-\|phage-holin-family-protein	unknown	unknown	gnl\|CDD\|224861
NC_008146.1\|WP_011561704.1\|4599921_4600824_-\|succinate--CoA-ligase-subunit-alpha	unknown	unknown	gnl\|CDD\|180194
NC_008146.1\|WP_011561714.1\|4613131_4613995_-\|Fpg/Nei-family-DNA-glycosylase	unknown	unknown	gnl\|CDD\|223344
NC_008146.1\|WP_011768365.1\|4596095_4597226_-\|dimethyl-sulfone-monooxygenase-SfnG	unknown	unknown	gnl\|CDD\|274923
NC_008146.1\|WP_011561709.1\|4606540_4606837_+\|chorismate-mutase	unknown	unknown	gnl\|CDD\|236117
NC_008146.1\|WP_011561706.1\|4602260_4603343_+\|M23-family-peptidase	unknown	unknown	gnl\|CDD\|366703
NC_008146.1\|WP_011561697.1\|4591357_4592941_-\|bifunctional-phosphoribosylaminoimidazolecarboxamide-formyltransferase/inosine-monophosphate-cyclohydrolase	unknown	unknown	gnl\|CDD\|234854

Protein	Function_ID	Function_description	E-value
NC_008146.1\|WP_011561705.1\|4600834_4601998_-\|succinyl-CoA-ligase-subunit-beta	gnl\|CDD\|234813	PRK00696, sucC, ADP-forming succinate--CoA ligase subunit beta.	0
NC_008146.1\|WP_011561712.1\|4610594_4612259_+\|glucose-6-phosphate-isomerase	gnl\|CDD\|234679	PRK00179, pgi, glucose-6-phosphate isomerase; Reviewed.	0
NC_008146.1\|WP_011768366.1\|4609094_4610543_-\|NAD-dependent-succinate-semialdehyde-dehydrogenase	gnl\|CDD\|143421	cd07103, ALDH_F5_SSADH_GabD, Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like. Succinate-semialdehyde dehydrogenase, mitochondrial (SSADH, GabD, EC=1.2.1.24) catalyzes the NAD+-dependent oxidation of succinate semialdehyde (SSA) to succinate. This group includes the human aldehyde dehydrogenase family 5 member A1 (ALDH5A1) which is a mitochondrial homotetramer that converts SSA to succinate in the last step of 4-aminobutyric acid (GABA) catabolism. This CD also includes the Arabidopsis SSADH gene product ALDH5F1. Mutations in this gene result in the accumulation of H2O2, suggesting a role in plant defense against the environmental stress of elevated reactive oxygen species.	0
NC_008146.1\|WP_011561717.1\|4615211_4616264_-\|YihY/virulence-factor-BrkB-family-protein	gnl\|CDD\|377085	pfam03631, Virul_fac_BrkB, Virulence factor BrkB. This family acts as a virulence factor. In Bordetella pertussis, BrkB is essential for resistance to complement-dependent killing by serum. This family was originally predicted to be ribonuclease BN, but this prediction has since been shown to be incorrect.	1.22002e-68
NC_008146.1\|WP_011561710.1\|4606889_4608935_-\|acyltransferase-family-protein	gnl\|CDD\|224748	COG1835, COG1835, Predicted acyltransferases [Lipid metabolism].	3.61581e-67
NC_008146.1\|WP_011561713.1\|4612308_4613058_-\|short-chain-dehydrogenase	gnl\|CDD\|181324	PRK08251, PRK08251, SDR family oxidoreductase.	4.84705e-163
NC_008146.1\|WP_011561716.1\|4614419_4615184_-\|precorrin-6A-synthase-(deacetylating)	gnl\|CDD\|236218	PRK08284, PRK08284, precorrin 6A synthase; Provisional.	5.61835e-142
NC_008146.1\|WP_011561698.1\|4592937_4593567_-\|phosphoribosylglycinamide-formyltransferase	gnl\|CDD\|235544	PRK05647, purN, phosphoribosylglycinamide formyltransferase; Reviewed.	6.28927e-104
NC_008146.1\|WP_011561708.1\|4603984_4606342_-\|DNA-helicase-PcrA	gnl\|CDD\|273429	TIGR01073, ATP-dependent_DNA_helicase_PcrA, ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily. [DNA metabolism, DNA replication, recombination, and repair].	0
NC_008146.1\|WP_011561700.1\|4595062_4595950_-\|hypothetical-protein	gnl\|CDD\|375092	pfam17270, DUF5336, Family of unknown function (DUF5336). This Actinobacterial family of proteins has no known function. Most of the family members are predicted to have have 4 trans-membrane regions.	4.73071e-59
NC_008146.1\|WP_011561702.1\|4597326_4598175_+\|TIGR03619-family-F420-dependent-LLM-class-oxidoreductase	gnl\|CDD\|274680	TIGR03619, F420_Rv2161c, probable F420-dependent oxidoreductase, Rv2161c family. Coenzyme F420 has a limited phylogenetic distribution, including methanogenic archaea, Mycobacterium tuberculosis and related species, Colwellia psychrerythraea 34H, Rhodopseudomonas palustris HaA2, and others. Partial phylogenetic profiling identifies protein subfamilies, within the larger family called luciferase-like monooxygenanases (pfam00296), that appear only in F420-positive genomes and are likely to be F420-dependent. This model describes a domain found in a distinctive subset of bacterial luciferase homologs, found only in F420-biosynthesizing members of the Actinobacteria. [Unknown function, Enzymes of unknown specificity].	7.95963e-89
NC_008146.1\|WP_011561703.1\|4598246_4599776_-\|acetyl-CoA-acetyltransferase	gnl\|CDD\|236204	PRK08257, PRK08257, acetyl-CoA acetyltransferase; Validated.	0
NC_008146.1\|WP_011561715.1\|4614011_4614401_-\|phage-holin-family-protein	gnl\|CDD\|224861	COG1950, COG1950, Predicted membrane protein [Function unknown].	7.41776e-26
NC_008146.1\|WP_011561704.1\|4599921_4600824_-\|succinate--CoA-ligase-subunit-alpha	gnl\|CDD\|180194	PRK05678, PRK05678, succinyl-CoA synthetase subunit alpha; Validated.	0
NC_008146.1\|WP_011561714.1\|4613131_4613995_-\|Fpg/Nei-family-DNA-glycosylase	gnl\|CDD\|223344	COG0266, Nei, Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair].	7.29499e-67
NC_008146.1\|WP_011768365.1\|4596095_4597226_-\|dimethyl-sulfone-monooxygenase-SfnG	gnl\|CDD\|274923	TIGR04021, LLM_DMSO2_sfnG, dimethyl sulfone monooxygenase SfnG. This family of FMNH2-dependent members of the luciferase-like monooxygenase (LLM) family includes SfnG, a monooxygenase that converts dimethylsulphone (DMSO2) to methanesulphonate. This step can be followed immediately by methanesulfonate sulfonatase (an alkanesulfonate monooxygenase - see TIGR03565) for the FMNH2-dependent conversion an inorganic form. [Central intermediary metabolism, Sulfur metabolism].	0
NC_008146.1\|WP_011561709.1\|4606540_4606837_+\|chorismate-mutase	gnl\|CDD\|236117	PRK07857, PRK07857, chorismate mutase.	2.81797e-39
NC_008146.1\|WP_011561706.1\|4602260_4603343_+\|M23-family-peptidase	gnl\|CDD\|366703	pfam01551, Peptidase_M23, Peptidase family M23. Members of this family are zinc metallopeptidases with a range of specificities. The peptidase family M23 is included in this family, these are Gly-Gly endopeptidases. Peptidase family M23 are also endopeptidases. This family also includes some bacterial lipoproteins for which no proteolytic activity has been demonstrated. This family also includes leukocyte cell-derived chemotaxin 2 (LECT2) proteins. LECT2 is a liver-specific protein which is thought to be linked to hepatocyte growth although the exact function of this protein is unknown.	1.79122e-42
NC_008146.1\|WP_011561697.1\|4591357_4592941_-\|bifunctional-phosphoribosylaminoimidazolecarboxamide-formyltransferase/inosine-monophosphate-cyclohydrolase	gnl\|CDD\|234854	PRK00881, purH, bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional.	0

>NC_008146.1|WP_011561706.1|4602260_4603343_+|M23-family-peptidase
MAAHRSSRSREGASTNARQRQGVSIPAERPAEVTDIIPFNEFGDLDDIDFRDSTAFDRDSQIIRAPELDDLHDTDDLIPLRLAIPAQFRAEGDPDTPRRSRAYRESHTDVSDGAAATDIIDLRGRRAAHRKEAEGPIKSRLVIAAMAAGATAAGAYSMTQNTAPATTDTVLASGETTVEGASITGSVDGMQIVSVASTANTAVHHEEIQKAAAFAQERAEREARQMRPLYVMPTKGVWTSGFGYRWGVLHGGIDIAGPIGTPILAAADGVVIDVGPTAGYGAWVKLRHADGTVTLYGHLNTWSVSMGEQVMAGDQIATMGNRGNSTGPHLHFEVMVGGSNRIDPVGWLSKRGISTGSYVG
>NC_008146.1|WP_011561705.1|4600834_4601998_-|succinyl-CoA-ligase-subunit-beta
MDLFEYQAKELFAKHNVPTTPGRVTDTAEDAKAIAEEIGKPVMVKAQVKVGGRGKAGGVKYAATADDAFTHAQNILGLDIKGHVVKKLLVAEASDIAEEYYISFLLDRANRTYLAMCSVEGGVEIEEVAATKPDRLARIPVDATKGVDEAFAREIAEKGHLPAEVLDAAAVTIAKLWEVFVGEDATLVEVNPLVRTPDDQILALDGKVTLDANADFRHPEHAEFEDRDATDPLELKAKENDLNYVKLDGQVGIIGNGAGLVMSTLDVVAYAGEKHNGVKPANFLDIGGGASAEVMANGLDVILNDSQVKSVFVNVFGGITACDAVANGIVKALEILGEEANKPLVVRLDGNRVEEGRKILADANHPLVVLAQTMDEGADKAAELANK
>NC_008146.1|WP_011561704.1|4599921_4600824_-|succinate--CoA-ligase-subunit-alpha
MSIFLNKDSKVIVQGITGGEGTKHTALMLKAGTQLVGGVNARKAGTTVSHVDKDGKDVELPVFGSVGDAMKETGADVSVVFVPPKFAKDAIIEAIDAEIPLLVVITEGIPVQDTAYAWAYNVEKGQKTRIIGPNCPGIITPGEALAGITPANITGSGPVGLVSKSGTLTYQMMYELRDFGFSTAIGIGGDPVIGTTHIDAIEAFEKDPDTKVIVMIGEIGGDAEERAADYIKDNVSKPVVGYVAGFTAPEGKTMGHAGAIVSGSSGTAAAKKEALEAAGVKVGKTPSETAQLAREILQNQ
>NC_008146.1|WP_011561703.1|4598246_4599776_-|acetyl-CoA-acetyltransferase
MVDPRTPVIVGVGQFTERIDDDGYRGLSAVDLATEATRAALSDTGADTAAVAQAIEVFAGLRQFEICTPFADPPLGASDNYLRSVAKRVGADPARAVLEPIGGNGPQKLMTEFAGAIAAGDIEVALVVGSEPGSTAKYFAKRDRKPDFTEHVGGQLEDRGYGFEQYMSDYTVAHGLTGAPVQYGLLDNARRAAKGLGVAEYRREMAELFAPFSAVAAKNPYSSSPVERSVDEIVTVTDENRMICDPYPRLLVARDTVNQGAAAIVMSVAAARRLGVPEGKWVYLRGHADQTEQDLLDRERLGVSVSAKQAVAEALRVAGIGIDDVATFDLYSCFPFPVFAVCDEFGLDADDPRGLTLTGGLPYFGGPGNSYSLHGIAETVAAMRDNPGSYGLVGANGGVMSKYSVGVYSTEPADWAADRSKELQADIAGLPKVPVTRHADGRGTVETYSVRYDWPVRTGIIIGRLDADGSRFLAISEDDDLVALMSDGDPLGAAIEVRPDGDKNRATSA
>NC_008146.1|WP_011561702.1|4597326_4598175_+|TIGR03619-family-F420-dependent-LLM-class-oxidoreductase
MDFGLVLFTSDRGIAPATAAKLADDHGFRTFYVPEHTHIPIKREAAHPTTGDETLPDDRYMRTLDPWVSLGTACAVTSRVRLSTAVALPVEHDPITLAKSIATLDHLSGGRVSLGVGFGWNTDELADHNVPPGRRRTMLREYLEAMRALWTQEEASYEGEFVNFGPSWAWPKPVQAHIPVLVGAAGTEKNFKWIAKSADGWITTPRDFDIDAPVKLLQDTWAGAGRDGAPQIVALDFKPDPDKLARWRELGVTEVLFGLPDKSEAEVAAYVERLAGKLSALV
>NC_008146.1|WP_011768365.1|4596095_4597226_-|dimethyl-sulfone-monooxygenase-SfnG
MSTERIADHVKFAYWVPNVSGGLVTSTIEQRTDWNYEYNKKLAQTAENNGFEYALSQVRYEASYGAEYQHESTSFSLALLLATERLKVIAAVHPGLWQPAVLAKLGATADQLSGGRFAVNVVSGWFKDEFTHLGEPWLEHDERYRRSAEFLQVLRKIWTEDDVDFRGDFYRIHDFTLKPKPVNTPERPNPELFQGGNSTAARRNGGRYADWYFSNGKDFDGITEQIVEVRDHAREVGREVKVGLNGFIIARDTEKEARDTLREIIEKADKPAVEGFRSAVQQAGNSTADKKGMWADSSFEDLVQYNDGFRTQLIGTPEQIAERIAAYRKRGVDLILGGFLHFQEEIEYFGARVLPLVREIEASDASSADAPALATV
>NC_008146.1|WP_011561700.1|4595062_4595950_-|hypothetical-protein
MTYSPGSPGYPPANQPTTQFSAPTQHFGKVPEQPAAGEGPNKLPAYLLMVVAALGLLVYLCNFGPIFEVSASDFLGQGGTVSGSTLGIGLAVISALTAGLLAGVTLLSKGRTYVAIAAVLSVLALLLVIAELINKPSEASIGWALYALIVLSLLQAGSAVAALLFDTGVLTPPTPRPKYDQQQQYGQYGGPGPYYGQPHSGAHQPQQLHTGSHQQAPQQQRPGYPSQYGGGYPGAGGPSTGGFQSSGQQSGPPTPPTGFPTYGQPQQQQGGGSGQGGSGQGQQPPTSQQSGQNPS
>NC_008146.1|WP_011561699.1|4593586_4595005_-|hypothetical-protein
MDNRPVGTRQARELLRVAFGPSVVALVVIAAVTLLQLLIANSDMTGAFGAIASMWLGVHLVPVSIGGSELGAMPLMPALMMVWGTARTTAAATPPHGSWFVTRWVVASALGGPLLIAAIALAVIHDAASVLTELQTPSALRAFGGVLVVHLIGAAIGVASRVGRRTVLTSPLPNWLPDAFRAAAAGVLALAGLCGVVIAGSLVVHWSTMHELFAITDSVFGQFSLTVLSLLYLPNVVVGAAAVAVGSSAHIGLATFSSFTVLGGDVPALPVLAAVPEPPLGPVWVALLIVGAAAAVAVGQQVARRPAPIHIAAAKLVVASAVAALTMALLGEAGGGRLGNFGQVGVDQTTFGPGVFLWFTVIGGLTVVMSGGIVRRPRRVRVTEPEPEPEPEAAPEQDLDDAETGPIVDPVAAAPEPVTAEPVAEPVPGEPDPALDPEEHFIVDDAGSPPNDSAPNDSPPNDSAPTDGEPRR
>NC_008146.1|WP_011561698.1|4592937_4593567_-|phosphoribosylglycinamide-formyltransferase
MQQPLRVPPSAPARLVVLASGTGSLLASLLESTVDDYPARVVAVGTDRTCAALDIAAAAQVPTYTVRLGEYPDRTAWDAAVTAATAEHEPDLVVSAGFMKILGPEFLNRFPGRVVNTHPALLPAFPGAHAVADSLAYGVRVTGCTVHLVDAGMDTGPILAQEAVAVRDGDDEATLHERIKVVERRLLVDVLAAMAQRGVTWTGRKATIG
>NC_008146.1|WP_011561697.1|4591357_4592941_-|bifunctional-phosphoribosylaminoimidazolecarboxamide-formyltransferase/inosine-monophosphate-cyclohydrolase
MSGDQGQAGAKRPIRRALISVYDKTGLIDLARGLHEAGVDIVSTGSTAKTIADKGIPVTPVEFVTGFPEVLDGRVKTLHPHIHAGLLADTRKPEHVEALAKLGIAPFDLVVVNLYPFSETVESGASVDECVEQIDIGGPSMVRAAAKNHPSVAVVVEPNGYDGVLAAVRTGGFTLAERKILASLAFRHTAEYDVAVASWMGSTLAPEEPAQKLPAWVGGTWRRAAVLRYGENPHQQAALYRDATAWPGLAQAEQLHGKEMSYNNYTDADAAWRAAFDHEEICVAIIKHANPCGIAISSVSVADAHRKAHECDPLSAFGGVIATNSSVSVEMAETVADIFTEVIVAPAYEPGAVEILSRKKNIRILVAAQPPTTGTELRPISGGLLLQQRDALDADGDDPVNWTLATGEPADPATLANLKFAWRSCRAVKSNAIVVVADGATVGVGMGQVNRVDAARLAVQRAGDRVRGAVAASDAFFPFPDGLETLTEAGVKAIVHPGGSMRDDVVTEAAAKAGISLYLTGARHFAH
>NC_008146.1|WP_011561708.1|4603984_4606342_-|DNA-helicase-PcrA
MSVNVTEPSSRPDDRAEELLDGLNPQQRQAVLHEGSPLLIVAGAGSGKTAVLTRRIAYLLAARDVGVGQVLAITFTNKAAAEMRERVVHLVGPRARSMWVATFHSTCVRILRNQASLLPGLNSNFSIYDADDSRRLLLMIGKDMGLDTKKYSPRLLSNGISNLKNELIGPEQAAAEASEAADDLARIIADVYAEYQRRLRAANALDFDDLIGETVAVLQRFPQIAQYYRRRFRHILVDEYQDTNHAQYVLVRELVGGGAHDTGEVAPAELCVVGDADQSIYAFRGATIRNIEDFERDYPNATTILLEQNYRSTQTILNAANSVIARNAGRREKRLWTDSGHGELIVGYVADNEHDEARFVAQEIDRLADDGHSYNDFAVFYRTNNNSRALEEVFIRAGIPYKVVGGVRFYERREIRDIVAYLRVLDNPGDSVSMRRILNTPRRGIGDRAEACVAVYAENTGASFNDALQAAAEGKVPMLNTRSEKCIASFVQMLDDLRGRLGDELGELVEAVLDRTGYRAELEASNDPQDLARLDNLNELVSVAHEFSIDRANAAALAEDLDEPVDEDIPDTGVLAQFLERVSLVADADDIPEHGSGVVTMMTLHTAKGLEFPVVFVTGWEDGMFPHMRALGDPNELSEERRLAYVGITRARQRLYLSRAKVRSSWGQPMLNPESRFLREIPQELIDWRRTDPENRRPSFSAPSRMSSGSSGTSFGAPRPSPMRSGGGKKPLIVLEPGDRINHDKYGLGRVEEVSGVGESAMSLIDFGSAGRVKLMHNHAPVQKL
>NC_008146.1|WP_011561709.1|4606540_4606837_+|chorismate-mutase
MRPEPPHEESEMSIETDQSLDIDALRQEIDELDAAILAAVQRRTEVSKIIGRARMASGGTRLVHSREMKVIERYSVLGPEGKDLAMLLLRLGRGRLGH
>NC_008146.1|WP_011561710.1|4606889_4608935_-|acyltransferase-family-protein
MTAVTAAPVRVVARRRWVAPVAGRTRRGTAGRREIPALDGIRAVAVALVLADHGGVPGVSGGFLGVDVFFVLSGFLITSLLLDELGRTGRVDLRGFWIRRARRLLPALLAMVAAVVAARVFFPPDAVTTLRDDAVAAFFWVANWAFVAQHTDYFSQGSPPSPLQHTWSLGVEEQFYLVWPLLLIAVVGVLAIRRSAPTLRAVRWGAFGLAVVGGAASAAAAVLLTSEASANRVYFGTDTRVQALLIGAAAAALLVRDWSTVTMGTPIRARWGRWVARVLSVVGLAGLAVLAHHATGAPAEYRMGLFTAAAAAAVLVVATAALDQAGPVARLLALRPLVWLGTISYGVYLWHWPIFLFLNGERTGWTGWRLLIARCAATLAVAVLSYWLLERPIRRWRPATVPQLPLALATAATAAVVTISVVPVGVQPGDDLPPGGLLDINSAAAVLPERPIPVGAVGAQRPPGTRSVAVFGDSVAWTLMRYLPETPGLHFSNYTTIGCGIARGGPYKTTGQTLTQKPECETWPTRWAQRIGHDRPDVVLLMVGRWELVDRINEGKWTHVGDDAYDGYLRGELDRALDILGSTGARVVVTTAPYNRRAEQADGTLYPEDDPDRADAWNELLREATAKRPNVTVLDLNKKLSPRGYYTNRVEGIQMRDDGVHPTKEAVEWLTPWLTEALSKK
>NC_008146.1|WP_011768366.1|4609094_4610543_-|NAD-dependent-succinate-semialdehyde-dehydrogenase
MDTTALLKSVPTGLWIGGEEREAKSTFNVLDPSSDEVLVAVGDATAEDAVAALDAACAVQAEWAATPARKRGEILRSVFETLTDRADDIAALMTLEMGKVLAESKGEVTYGAEFFRWFAEEAVRIGGRYTPSPAGTGRIIVTKQPVGPCYAITPWNFPLAMGTRKMGPAFAAGCTMIVKPAQETPLTMLYLAKLMAEAGLPKGVLSVLPTSSPGPVTEALVDDGRLRKLTFTGSTGVGKSLVKQSADKLLRTSMELGGNAPFIVFDDADVDAAVDGAMLAKMRNGGEACTAANRFHVANSVREEFTEKLVKRMSEVTLGNGLDESATLGPLINNKQLQKVTELVSDAVSRGATVAVGGVAPGGPGNFYPATVLADVPADARILKEEVFGPVAPITGFDSEEEGVAAANDTEYGLAAYVYTRSLDRALRVAEAIESGMVGINRGVISDAAAPFGGIKESGFGREGGTEGIEEYLDTKYIALTK
>NC_008146.1|WP_011561712.1|4610594_4612259_+|glucose-6-phosphate-isomerase
MTADDQLTDISATSAWQALQRHHGEIAGRHLRELFAEDPSRGTELTVSVGDLYIDYSKHRVTRETLRLLVDLARAAGLEKRRDAMLSGVHINTSEDRAVLHTALRLPRDASLTVDGQDVVADVHEVLDRMGDFTDRLRSGEWTGATGERIRTVVNIGIGGSDLGPAMVYESLRHYADAGISARFVSNVDPADLVAKLDGLDPATTLFIVASKTFSTLETLTNATAARRWLTNTLGDAAVARHFVAVSTNQKLVDEFGIDTANMFGFWDWVGGRYSVDSAIGLSVMAAIGRERFAEFLAGFHLVDEHFRTAPLEANAPALLGLIGLWYSNFFGAQSRAVLPYSNDLSRFAAYLQQLTMESNGKSVRADGTPVSTDTGEIFWGEPGTNGQHAFYQLLHQGTRLVPADFIGFSQPTDDLPTADGTGSMHDLLMSNFFAQTQVLAFGKTAEEIAAEDTPADVVPHKVMPGNRPTTSILATKLTPSVVGQLIALYEHQVFTEGVVWGVDSFDQWGVELGKTQAKALLPVITADDSPAEQSDTSTDALVRRYRAERGRSA
>NC_008146.1|WP_011561713.1|4612308_4613058_-|short-chain-dehydrogenase
MTRQRILITGASSGLGAGMARAFAAKGRDLALCARRVDRLDELKAELKQRYPEITVAVAELDVNDHDQVPKVFAALSDELGGLDRVIVNAGLGKGAPLGSGKLWANKATIETNLVAALVQIETALEMFKRTGAGHLVLISSVLGNKGVPGVKAAYAASKAGVSSLGESLRAEYAKGPIRVTVLEPGYIESEMTSKSASTMLMTDTDTGVAAMVRVIEKEAGRAAVPWWPWAPLVQLMRVLPPRLTRLFA
>NC_008146.1|WP_011561714.1|4613131_4613995_-|Fpg/Nei-family-DNA-glycosylase
MPELPEVEALADHLRRHAVGLPIGRVDVSAFSVLKTFDPPITALHGREVTDAHRWGKYLGLQAGDLYLITHLSRAGWLRWSDKLAAAPLKPGKGPIALRVHLGTPGAAPGFDLTEAGTQKRLAVWLVSDPSAVPGIAALGPDALELTADELGVLLSKQSGRIKTVITDQKVLAGIGNAYSDEILHVAQLSPFATANKLTPEQVATLHDAMLSVLTDAVSRSVGQQAATLKGEKRSGLRVHARTGLPCPVCGDTVREVSFADKSFQYCPTCQTGGRVLADRRLSRLLK
>NC_008146.1|WP_011561715.1|4614011_4614401_-|phage-holin-family-protein
MGFLLRAAVTGVALWLVTQFVSGMEFVGGENTLQRVGIIFVVAVVFGLVNAIVKPIVQILSIPLYVVTLGLFHVVVNALMLWLTAWITEHTTHWGLYIDDFWWTAVWAGIVLSIVSWVLSVLSGNLIKR
>NC_008146.1|WP_011561716.1|4614419_4615184_-|precorrin-6A-synthase-(deacetylating)
MTRRIHVIGIGAGDPDYVTAQAVAALNDTDVFFAMDKGSRTRGGQQADTKDDLVALRRLICERFITEPGYRFVEMPDPVRAKSGDYRQAVDEWHAARARLWAEAIERELDDDGVGAFLAWGDPSLYDSTLRILDRVAAHVDIDYDVIPGVTAIQALTARHRIPLNDVGEPVLITTGRRLREQGLTGTAVVMLDADCAFTGTPAQTRIWWGAYLGTADELLVSGTVGEVGERIVALRAEARERHGWIMDTYLLRP
>NC_008146.1|WP_011561717.1|4615211_4616264_-|YihY/virulence-factor-BrkB-family-protein
MAEAASTKHRAPDPDDPRKPESPTDLTKPSAFYVLRKTAREFGHDQCTDLAAALTYYAVLSLFPAVLVMVSLLGVFGQGRRTTDALLDIVSDVAPASTVDTLRPTIEQLVESPSAGFALVIGILTALWSASGYVGAFGRAMNRIYEVAEGRPVWKLRPLQLVLTFAALLGAALVAFMLAVSGPVAEALGNAIGLGEAAVTAWSIGRWPVILLLVVVAVAVLYYATPNVQQPKFRWISLGAGLAILTWIVASVGFGFYVANFSSYNKTYGTLAGVIIFLLWLWITNLALLFGAELDAELERGRQLQAGLPAERELQLPPRDTRVIEKKEAAIEEDVERAKALRRSRGRDDG

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Crispr_ID: NC_008146_3

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_008146_3

5536988-5537088

Orphan

Consensus_repeat	Method
GGCCACGACGGCGGGGCCGACGGCACCGC	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_008146_3

>merge|NC_008146|3|5536988-5537088|CRISPRCasFinder
GGCCACGACGGCGGGGCCGACGGCACCGCTGACGCGGGCGAGGGAACCGCCGACGGCGGTTCGAACCCCGAAGGCCACGACGGCGGAGCCGACGGCACCGC

>NC_008146|3|3|5536988-5537088|CRISPRCasFinder
GGCCACGACGGCGGGGCCGACGGCACCGC	TGACGCGGGCGAGGGAACCGCCGACGGCGGTTCGAACCCCGAA
GGCCACGACGGCGGAGCCGACGGCACCGC

Protein	Signature genes	Signature genes Name	Protein_function
NC_008146.1\|WP_082948008.1\|5526791_5527439_-\|ANTAR-domain-containing-protein	unknown	unknown	gnl\|CDD\|198080
NC_008146.1\|WP_011562612.1\|5526026_5526776_-\|ANTAR-domain-containing-protein	unknown	unknown	gnl\|CDD\|379056
NC_008146.1\|WP_011562620.1\|5535739_5536195_-\|MarR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|197670
NC_008146.1\|WP_011562616.1\|5532293_5532881_+\|TetR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|366102
NC_008146.1\|WP_011562618.1\|5534213_5534705_+\|MarR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|224759
NC_008146.1\|WP_011562617.1\|5532846_5534124_-\|Bcr/CflA-family-drug-resistance-efflux-transporter	unknown	unknown	gnl\|CDD\|340878
NC_008146.1\|WP_011562621.1\|5536288_5536807_+\|VOC-family-protein	unknown	unknown	gnl\|CDD\|366361
NC_008146.1\|WP_011562625.1\|5539734_5540265_-\|PaaI-family-thioesterase	unknown	unknown	gnl\|CDD\|239527
NC_008146.1\|WP_011562629.1\|5543597_5544437_+\|nitrile-hydratase-subunit-beta	unknown	unknown	gnl\|CDD\|376740
NC_008146.1\|WP_011768420.1\|5527873_5530000_-\|5-oxoprolinase	unknown	unknown	gnl\|CDD\|376810
NC_008146.1\|WP_011768422.1\|5544500_5545163_+\|thiocyanate-hydrolase-subunit-gamma	unknown	unknown	gnl\|CDD\|188402
NC_008146.1\|WP_011562627.1\|5541465_5542056_+\|TetR/AcrR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|224228
NC_008146.1\|WP_011562623.1\|5538312_5539200_+\|sucrase-ferredoxin	unknown	unknown	gnl\|CDD\|227101
NC_008146.1\|WP_011562626.1\|5540267_5541230_-\|NmrA-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|187542
NC_008146.1\|WP_011562611.1\|5525745_5526024_+\|ANTAR-domain-containing-protein	unknown	unknown	gnl\|CDD\|377145
NC_008146.1\|WP_011562622.1\|5537101_5538316_+\|cupin	unknown	unknown	gnl\|CDD\|369647
NC_008146.1\|WP_011562631.1\|5545167_5545518_+\|hypothetical-protein	unknown	unknown	unknown
NC_008146.1\|WP_011562628.1\|5542058_5543435_-\|MFS-transporter	unknown	unknown	gnl\|CDD\|340925
NC_008146.1\|WP_011562619.1\|5534708_5535677_-\|dehydrogenase	unknown	unknown	gnl\|CDD\|187539
NC_008146.1\|WP_011562624.1\|5539239_5539722_-\|DUF302-domain-containing-protein	unknown	unknown	gnl\|CDD\|269820

Protein	Function_ID	Function_description	E-value
NC_008146.1\|WP_082948008.1\|5526791_5527439_-\|ANTAR-domain-containing-protein	gnl\|CDD\|198080	smart01012, ANTAR, ANTAR (AmiR and NasR transcription antitermination regulators) is an RNA-binding domain found in bacterial transcription antitermination regulatory proteins. The majority of the domain consists of a coiled-coil.	4.10416e-09
NC_008146.1\|WP_011562612.1\|5526026_5526776_-\|ANTAR-domain-containing-protein	gnl\|CDD\|379056	pfam13185, GAF_2, GAF domain.	2.43975e-11
NC_008146.1\|WP_011562620.1\|5535739_5536195_-\|MarR-family-transcriptional-regulator	gnl\|CDD\|197670	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein.	2.10488e-20
NC_008146.1\|WP_011562616.1\|5532293_5532881_+\|TetR-family-transcriptional-regulator	gnl\|CDD\|366102	pfam00440, TetR_N, Bacterial regulatory proteins, tetR family.	2.06619e-13
NC_008146.1\|WP_011562618.1\|5534213_5534705_+\|MarR-family-transcriptional-regulator	gnl\|CDD\|224759	COG1846, MarR, Transcriptional regulators [Transcription].	7.04348e-10
NC_008146.1\|WP_011562617.1\|5532846_5534124_-\|Bcr/CflA-family-drug-resistance-efflux-transporter	gnl\|CDD\|340878	cd17320, MFS_MdfA_MDR_like, Multidrug transporter MdfA and similar multidrug resistance (MDR) transporters of the Major Facilitator Superfamily. This family is composed of bacterial multidrug resistance (MDR) transporters including several proteins from Escherichia coli such as MdfA (also called chloramphenicol resistance pump Cmr), EmrD, MdtM, MdtL, bicyclomycin resistance protein (also called sulfonamide resistance protein), and the uncharacterized inner membrane transport protein YdhC. EmrD is a proton-dependent secondary transporter, first identified as an efflux pump for uncouplers of oxidative phosphorylation. It expels a range of drug molecules and amphipathic compounds across the inner membrane of E. coli. Similarly, MdfA is a secondary multidrug transporter that exports a broad spectrum of structurally and electrically dissimilar toxic compounds. These MDR transporters are drug/H+ antiporters (DHA) belonging to the Major Facilitator Superfamily (MFS) of membrane transport proteins, which are thought to function through a single substrate binding site, alternating-access mechanism involving a rocker-switch type of movement.	8.89162e-92
NC_008146.1\|WP_011562621.1\|5536288_5536807_+\|VOC-family-protein	gnl\|CDD\|366361	pfam00903, Glyoxalase, Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily.	2.7476e-16
NC_008146.1\|WP_011562625.1\|5539734_5540265_-\|PaaI-family-thioesterase	gnl\|CDD\|239527	cd03443, PaaI_thioesterase, PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not been determined. Sequence similarity between PaaI, E. coli medium chain acyl-CoA thioesterase II, and human thioesterase III suggests they all belong to the same thioesterase superfamily. The conserved fold present in these thioesterases is referred to as an asymmetric hot dog fold, similar to those of 4-hydroxybenzoyl-CoA thioesterase (4HBT) and the beta-hydroxydecanoyl-ACP dehydratases (FabA/FabZ).	7.56492e-32
NC_008146.1\|WP_011562629.1\|5543597_5544437_+\|nitrile-hydratase-subunit-beta	gnl\|CDD\|376740	pfam02211, NHase_beta, Nitrile hydratase beta subunit. Nitrile hydratases EC:4.2.1.84 are unusual metalloenzymes that catalyze the hydration of nitriles to their corresponding amides. They are used as biocatalysts in acrylamide production, one of the few commercial scale bioprocesses, as well as in environmental remediation for the removal of nitriles from waste streams. Nitrile hydratases are composed of two subunits, alpha and beta, and they contain one iron atom per alpha beta unit.	1.21835e-71
NC_008146.1\|WP_011768420.1\|5527873_5530000_-\|5-oxoprolinase	gnl\|CDD\|376810	pfam02538, Hydantoinase_B, Hydantoinase B/oxoprolinase. This family includes N-methylhydaintoinase B which converts hydantoin to N-carbamyl-amino acids, and 5-oxoprolinase EC:3.5.2.9 which catalyzes the formation of L-glutamate from 5-oxo-L-proline. These enzymes are part of the oxoprolinase family and are related to pfam01968.	8.33943e-146
NC_008146.1\|WP_011768422.1\|5544500_5545163_+\|thiocyanate-hydrolase-subunit-gamma	gnl\|CDD\|188402	TIGR03887, Thiocyanate_hydrolase_subunit_gamma, thiocyanate hydrolase, gamma subunit. Members of this family are the gamma subunit of thiocyanate hydrolase. This family is closely related to the nitrile hydratase, alpha subunit (TIGR01323).	1.30952e-135
NC_008146.1\|WP_011562627.1\|5541465_5542056_+\|TetR/AcrR-family-transcriptional-regulator	gnl\|CDD\|224228	COG1309, AcrR, Transcriptional regulator [Transcription].	2.4469e-12
NC_008146.1\|WP_011562623.1\|5538312_5539200_+\|sucrase-ferredoxin	gnl\|CDD\|227101	COG4759, COG4759, Uncharacterized protein conserved in bacteria containing thioredoxin-like domain [Posttranslational modification, protein turnover, chaperones].	1.07244e-24
NC_008146.1\|WP_011562626.1\|5540267_5541230_-\|NmrA-family-transcriptional-regulator	gnl\|CDD\|187542	cd05231, NmrA_TMR_like_1_SDR_a, NmrA (a transcriptional regulator) and triphenylmethane reductase (TMR) like proteins, subgroup 1, atypical (a) SDRs. Atypical SDRs related to NMRa, TMR, and HSCARG (an NADPH sensor). This subgroup resembles the SDRs and has a partially conserved characteristic [ST]GXXGXXG NAD-binding motif, but lacks the conserved active site residues. NmrA is a negative transcriptional regulator of various fungi, involved in the post-translational modulation of the GATA-type transcription factor AreA. NmrA lacks the canonical GXXGXXG NAD-binding motif and has altered residues at the catalytic triad, including a Met instead of the critical Tyr residue. NmrA may bind nucleotides but appears to lack any dehydrogenase activity. HSCARG has been identified as a putative NADP-sensing molecule, and redistributes and restructures in response to NADPH/NADP ratios. Like NmrA, it lacks most of the active site residues of the SDR family, but has an NAD(P)-binding motif similar to the extended SDR family, GXXGXXG. 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. Atypical SDRs are distinct from classical SDRs. 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.	1.13689e-79
NC_008146.1\|WP_011562611.1\|5525745_5526024_+\|ANTAR-domain-containing-protein	gnl\|CDD\|377145	pfam03861, ANTAR, ANTAR domain. ANTAR (AmiR and NasR transcription antitermination regulators) is an RNA-binding domain found in bacterial transcription antitermination regulatory proteins. The majority of the domain consists of a coiled-coil.	1.06248e-10
NC_008146.1\|WP_011562622.1\|5537101_5538316_+\|cupin	gnl\|CDD\|369647	pfam08007, Cupin_4, Cupin superfamily protein. This family contains many hypothetical proteins that belong to the cupin superfamily.	1.13072e-36
NC_008146.1\|WP_011562628.1\|5542058_5543435_-\|MFS-transporter	gnl\|CDD\|340925	cd17367, MFS_KgtP, Alpha-ketoglutarate permease of the Major Facilitator Superfamily of transporters. This subfamily includes Escherichia coli alpha-ketoglutarate permease (KgtP) and similar proteins. KgtP is a constitutively expressed proton symporter that functions in the uptake of alpha-ketoglutarate across the boundary membrane. Also included is a putative transporter from Pseudomonas aeruginosa named dicarboxylic acid transporter PcaT. The KgtP 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.	1.59775e-173
NC_008146.1\|WP_011562619.1\|5534708_5535677_-\|dehydrogenase	gnl\|CDD\|187539	cd05228, AR_FR_like_1_SDR_e, uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs. This subgroup contains proteins of unknown function related to aldehyde reductase and flavonoid reductase of the extended SDR-type. Aldehyde reductase I (aka carbonyl reductase) is an NADP-binding SDR; it has an NADP-binding motif consensus that is slightly different from the canonical SDR form and lacks the Asn of the extended SDR active site tetrad. Aldehyde reductase I catalyzes the NADP-dependent reduction of ethyl 4-chloro-3-oxobutanoate to ethyl (R)-4-chloro-3-hydroxybutanoate. The related flavonoid reductases act in the NADP-dependent reduction of flavonoids, ketone-containing plant secondary metabolites. Extended SDRs are distinct from classical SDRs. In addition to the Rossmann fold (alpha/beta folding pattern with a central beta-sheet) core region typical of all SDRs, extended SDRs have a less conserved C-terminal extension of approximately 100 amino acids. Extended SDRs are a diverse collection of proteins, and include isomerases, epimerases, oxidoreductases, and lyases; they typically have a TGXXGXXG cofactor binding motif. SDRs are a functionally diverse family of oxidoreductases that have a single domain with a structurally conserved Rossmann fold, an NAD(P)(H)-binding region, and a structurally diverse C-terminal region. Sequence identity between different SDR enzymes is typically in the 15-30% range; they catalyze a wide range of activities including the metabolism of steroids, cofactors, carbohydrates, lipids, aromatic compounds, and amino acids, and act in redox sensing. Classical SDRs have an TGXXX[AG]XG cofactor binding motif and a YXXXK active site motif, with the Tyr residue of the active site motif serving as a critical catalytic residue (Tyr-151, human 15-hydroxyprostaglandin dehydrogenase numbering). In addition to the Tyr and Lys, there is often an upstream Ser and/or an Asn, contributing to the active site; while substrate binding is in the C-terminal region, which determines specificity. The standard reaction mechanism is a 4-pro-S hydride transfer and proton relay involving the conserved Tyr and Lys, a water molecule stabilized by Asn, and nicotinamide. Atypical SDRs generally lack the catalytic residues characteristic of the SDRs, and their glycine-rich NAD(P)-binding motif is often different from the forms normally seen in classical or extended SDRs. Complex (multidomain) SDRs such as ketoreductase domains of fatty acid synthase have a GGXGXXG NAD(P)-binding motif and an altered active site motif (YXXXN). Fungal type ketoacyl reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.	2.12142e-45
NC_008146.1\|WP_011562624.1\|5539239_5539722_-\|DUF302-domain-containing-protein	gnl\|CDD\|269820	cd14797, DUF302, Uncharacterized domain family DUF302. These domains are mostly found in bacterial single-domain proteins and have been shown to form homodimers; they may also bind zinc. Also characterized as COG3439.	2.02908e-05

>NC_008146.1|WP_011562621.1|5536288_5536807_+|VOC-family-protein
MHLRRVNHVVLSVSDLDRSLTFYRDLLGLLPVAELPGSEHWPAMVFLRSPAPSSNHHDLALIANAEAPAPTSAPRPAGMFHVALEVGTLDELAAVQQTLDSAGVLRGAVDQGMHLSVYTADPDGIEVEIIWRAPDDAWSYDDALTRRPLDVASARERWGGHLATGSAAGAPA
>NC_008146.1|WP_011562620.1|5535739_5536195_-|MarR-family-transcriptional-regulator
MAERAERSGVPTPAELSDDFFAAAKALRAHANATLREQGFTLARGKLLSILQRNGATRVSVLARKLDITTRSVTEAVDALERDGLVRRAPDPADRRAVLVSLTDRGSAVIDAAVQPRRAAMKRTFGALSPSQRTELAELLAILTASTRDPG
>NC_008146.1|WP_011562619.1|5534708_5535677_-|dehydrogenase
MLIGVTGGTGYVGAHCVRALLADGHRVRLLVGPDAEGAPVLEHLAELGDVDVFSGDIRDAMTIDLLLDGCDAVLHGAGVVGTDNRRAALMWEVNAYATEALLTQAVRAGLDPVISVSSYSSLFPPPDGIIGPDTPPANGRSAYAKTKGYADRVARRLQAEGAPVVVTYPSSVVGPAFHTAPGVTERGWAPIVRFGVAPRLRGGMQMIDVRDVAAVHAAAMKPGRGPRRYVCGGELITFDGMIDALERGSGRRFRRIPVSQAVFRGMSRIGDTLAGIVPLGDGLSYEAALLLTAATPTDDSATLADFGLTWRSPTDAIIASFA
>NC_008146.1|WP_011562618.1|5534213_5534705_+|MarR-family-transcriptional-regulator
MPVVTEPTDQYRDLALVLHDLSWRLARFGPAQVGLEPLPASELAVLRAVMEAPGRSVSEVAAVTNMQSSNVSTAVRSLMERGLLDKHADPRDRRVSLLEPTARALTEREAIENAIARSVSTALTALPGADVEALVAAVPAIRALTTHVAAALTGRADLAQRGA
>NC_008146.1|WP_011562617.1|5532846_5534124_-|Bcr/CflA-family-drug-resistance-efflux-transporter
MSQKIAAVASPPSAVLIAVLALLNAVTPFSIDMYLSAFPEMASEFGVSPSTIQLSLTTFLIGLAVGQLIIGTLSDRYGRRRPLIIGTVACVAVSVACAVAPSIALLIGLRFAQGFCGAAGVVISRAVIADRSRGSRAARLFAVMMLIGVLAPITAPILGGVIVTGFGWRAVFLALAVLNLATLLGVVLTVRESLSEEHRRPGGLKALGVSARTVLGNRHYLGYTLVMAFAAAAMFGYISASPFVVQNILGFSPAAYSVTFGSCALAVGAGSLISARLVRTVAPRRVLMGGVTALLVVATLMLLNVTAGHVIGWATIALMACFMGSIGFVYANATALALGEVPRAAGTGSAVLGFLQYGMGAITPPLVGLAGQSSAVPMGLVMFGAATLAALSMFVLTRGHVPFGDEDDDAGDAPVTVSAGGTTSR
>NC_008146.1|WP_011562616.1|5532293_5532881_+|TetR-family-transcriptional-regulator
MATLREAQKQRTRGLLLECGLESFASKGYQATTIDDIAAAAGTTRATFYLHFSSKAQLMRQLIDDVDAILTAADDPPLTEVVASGSRDLLREWLSRKFDQWPAIRPYMLVVHDAEFSEPEVAAVLDKWFDGTVEAMRAGLDAAGRFDAESRRPRCLLAFGQFEFVSRQWFRRGWQVEREVLLETLTDSWCHLLTQ
>NC_008146.1|WP_011768420.1|5527873_5530000_-|5-oxoprolinase
MNTLTDTPVDVDVITYEVVRNRLTAIVAQQSAVLKNVSGSPLVTEANDCNTGVYLAGGEVVAMGPHNLFHSGSMETVVNHIIADCTDTVGIEEGDVFITNDPYKGVLHMPDVTMIEPVFHEGVRIGWVGTCAHVLDIGGMTPSSWSPAAREVYQEGLILPPTKIISGGRTRHDVWNLILAASRLPANLGLDLKAMIAANNHARQGMLRLVDRYGADVVTTVMTTMLDRSEAQVRERLLAVPDGTTRARTYFDHDGHKSTLARVEVELRKDGDRLVFDYGRTAEQLPGFFNCTMSGLRGGVFSAILPVLAHDIPWNSGVMRAIEVTAPEGTIVNARHPAPCGASTTGATTIVESTAGSALSTLVSAHDELRGEARAVTTGGLMVFHIAGRNQYGEPYGGAMTEVLAGGAGANVNRNGVDYRGPNEILTGQFNNVEGEEAVFPLLYLNRSANTDGGGAGRHHGGVSVSSSFVLHDTDALHGVMAGHSMSMPNSLGLHGGLPGSTHQVTIVRGGEPVVYTGSPGEIHLAAGDVVDWSFHGGGGWGDPLDADPDEVLADVTAGRISTESASRLYGVVLTAGAVDREETTARRNRERARRRLWARHRVFGARQLDMVGDARRIGDRLVLTHDGVSAVYACDCGNVIAPADENWKDYAAHSRLSEHDLGPKVRLHPGLRADAYACAGCGTLLAVEIRAHEDEPLRDLELAGQSG
>NC_008146.1|WP_082948008.1|5526791_5527439_-|ANTAR-domain-containing-protein
MAIHEACVMLLGIDAAAISLVFDGANTGTLGASGTLARSCDELQFTLGEGPCLDTVTHRAPVFVVDLADPDETRWPVYGPAMLDMRIRGVFAMPVLIAGEYVGALDLFRTEPGGLRAGQLAGAIAAAELAGIPLLDLLDTDLRAAVDEPGSDAWAELNALSRTEVSQATGMLVAQLGVDPPEALLRLRAHAYSTGRSASDVARDILERRLRLEAD
>NC_008146.1|WP_011562612.1|5526026_5526776_-|ANTAR-domain-containing-protein
MTDPSRETRVLDAVVTLVDSLLDDFDVVDLLTELTERCADLLDVAAAGFLLVDPMDRLRLLAATTDQAEALELFQLQSDEGPCVDCYRTGLPVSVADLTGAGQRWPRFVPAAREAGFASVHAVPMRAAGIVLGALGLFGSRPGALNEADLLVSQTLAHVACVAILQEHPPTPATVLPQLRSALTSRIVVEQAKGFLREIFDVPVEEAFTLLRTYARSRGEHLTDVARALMGDRLVRPVMIAALTEMVER
>NC_008146.1|WP_011562611.1|5525745_5526024_+|ANTAR-domain-containing-protein
MYAFPAADDQRFAGQRSTVAALRRPGREDGRALASRAVIDQAIGIIRSRSGVSGEEAFARLTRISQSENVKLHIVAERLVEEAVRRAQARRQ
>NC_008146.1|WP_011562622.1|5537101_5538316_+|cupin
MLSRCIATDPHTFATEYWGRRPLLSRSGALPRDFADLLSPGMVDELIAERGVRAPFIRLAKEGDVLAKDCYLGPAGFGAEMPDQVDSAKVLTQFSAGATIVLQGLHRLWPPVIDLVRHLVDDLGHPVQANAYITPPSNRGFDPHYDVHDVFLLQTAGEKRWVVHEPVHPHPLPSQPWTQHRDAIAERAAGEPVIDTVLAPGDALYLPRGWVHSAHALDTTSIHLTIGVSAVTGVDVARAVVDALADSAAFRAPLPMGGDPADRDEIIAAVTKVMAQMVETMRDDATALSGAAADRLTRTHASRTRPVAVRPLATLDAAAHADTTTVQWRHGLVATADTAGDRIELRLTDRVLSFPASCAPAVLALQRGLAADAGSLPGLDRADGTVLIRRLLREAVVTPVPATA
>NC_008146.1|WP_011562623.1|5538312_5539200_+|sucrase-ferredoxin
MTLRKRAPCSDQSLLRRDPMYGTASAGSSWVLLELPGGWGPSAFLQSPAVIDPELGRAIVRRVEGAKMRIAAIRRHGRRTDTPRWRWFIARAVVGGEALYAGEVDNPRDYLDLALDGSDGTLSTDPVVAVCAHGRHDQCCAVRGRGAIAAIADAYPEMAWECSHLGGDRFAATMLILPEGLCYGRVDSTDAAELVRLYLDGRLDNRYLRGRTSLPHAVQAAQYFAREKYGDDRIAGLPTLSAEHTDHRHRVVLGGESGPVEVTVEEGWSEPLLSQCHAKVPGRVKIFSLVSITPA
>NC_008146.1|WP_011562624.1|5539239_5539722_-|DUF302-domain-containing-protein
MTEPTTVVDYVARRILVALPDAYDEARARYEQLVPIVDLEACSSAGSWAAVLAAVEVQAPNGFMRYYRGDVTSVVAGSPSRWKATQYLMGNHTIAETMFRHDPSVMVYAPLRTLIYEDPAGRTRPDAPGWPSTSPACSSPASVTPGSPRSASVSTLSCRG
>NC_008146.1|WP_011562625.1|5539734_5540265_-|PaaI-family-thioesterase
MTQDATLTARSGHWGAENTRTVSWHDPGPTTNEGLRMAGIDYLRAMLDGRLPPPPIANLLQMGLTAVEPGRVTFTCTPDQSTYNPIGAVHGGLVCTLLDSAAGCAMHSVLAAGRGYTSVEIKVNYLRGVRLDTGRLTATGTVIKAGARVGFTEATVTDDTGTLIASASSTLLIFDL
>NC_008146.1|WP_011562626.1|5540267_5541230_-|NmrA-family-transcriptional-regulator
MTPTNPILVIGATGRHGNTGEHLVTRLREEGRAVRVLARTFGERTDRLADLGAEIVRGDLQDRGSLVAALADVDLAYFTYPIADGVVPAAANYASAVREVGRNPRTVVMSMGPANPNHPSDLGKGQWLAEQVMEWAGLDLLILRIAALFHENLLVLHAPSIRKDAVFRNSFGASVIGWISGRDAADLSVAALLHPQRFDGPVTYPRGSEQFTHADIAALLSEVLGTPVGFTPVCEAAWRDELLELADNDADGVVNPAMAQHISAVGAAISRSGAAIPADPATLRDLIGREPVSLREYLVANREAFEPIGVHTLVAAKAGE
>NC_008146.1|WP_011562627.1|5541465_5542056_+|TetR/AcrR-family-transcriptional-regulator
MLPPVTTAPAGRRGRGARERIIRAASALFYRRGIHATGVDLLTQEAQVSKRTFYQHFPSKVELVETYLREIAENGGSPAERRLDLPGLGPRERLLAIFDASAVKRFRGCPFHNAAVESAGALECVDEIVREHKRWFADRLAQVSTEAGARDPYLLGEQLLVLFEGATALSTSMGDTAPMVHARSAAAQLIDDACRV
>NC_008146.1|WP_011562628.1|5542058_5543435_-|MFS-transporter
MSDGETLSSSTGPTRAPTSTRRAVLNTIRGSAGNLVEWYDVYVYTVFATYFEAQFFDQDDENSTLYIYAIFAVTFVMRPVGSWFFGRFADRRGRKAALMVSITVMSSCSFVVAVMPTREVIGYWAAVILIAARLLQGFATGGEYGTSATYMSEAATPRRRGFLSSFQYVTLVGGHVLAQFTLLIALSVLDVEAVTAWGWRIGFFIGGIAALVVLWMRRSMDESLSDSHLEAIREGNDREAGSVKALFTTHWRALLLCFLITAGGTVAFYTYTINAPAIVKSTFGSDRALTGTWINLLGLIFLMLLQPLGGLLSDKVGRKPLLISFAVGGILYTYVLLTYLPQTTSPLTAFALTAVGYIILTGYTSVNAIVKAELFPADVRALGVGLGYALANSAFGGTAPLLYQGAKSSDQIGWFIVYVTVVIGVSLSVYVFGLKNKGITALDREQGSAWRVPEPAAR
>NC_008146.1|WP_011562629.1|5543597_5544437_+|nitrile-hydratase-subunit-beta
MSTAADRAAQLNLVARLKSAYPELPDAPTPDLLDHGRITAYLKPVHDVGGEPDAPMKYENKQYEQWEEATYVICEVLAWRGIWLSEERRRIGNVDVGRAQYLGLPYYGRWLLAVARVLVEKHHIGLTELTERMAEVKARYADGLDGGKPEAQPKFEGDGSQVKRNEHHRHAVGKGDPQVYAGLAGQPKFAVGDAVRVRELPVLFYTRTPEYTRGATGVIAKVAYESPAAEDETWDRPDATPEWFYVVRFNQSELWHGYTGTATDTLQTELPERWLEAAS
>NC_008146.1|WP_011768422.1|5544500_5545163_+|thiocyanate-hydrolase-subunit-gamma
MVDEITDFEVLEIALRELCIEKGIFTAEEHRHFTEFAEQIGPTPAARLVARAWLDPDFKDLALREPMTASKEVGVDWMEPTGFGTPSDFTAFEILADTPGLHHVIVCALCSCYPRPILGNSPEWYRTPNYRRRLVRWPRQVLAEFGLYLPDDVEVRVQDSNQKHRFMVMPMRPEGTDGWTEDQLAEIVTRDCLIGVALPKPGVTTNVIVDTRPAVHPITD
>NC_008146.1|WP_011562631.1|5545167_5545518_+|hypothetical-protein
MTAPEPIETLARIVERGQVWPRMAAKYGVENPVPPWKTSLDGLCDALDHGACRDTNVPTFKERRDEEDSLSATVYADLPYPENQLVSLAHSLLARGVIDEAELRQRLSSIRARLEA

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_008146_2	2.1\|4603435\|33\|NC_008146\|CRISPRCasFinder	4603435-4603467	33	NC_015727	Cupriavidus necator N-1 plasmid pBB1, complete sequence	522395-522427	8	0.758

1. spacer 2.1|4603435|33|NC_008146|CRISPRCasFinder matches to NC_015727 (Cupriavidus necator N-1 plasmid pBB1, complete sequence) position: , mismatch: 8, identity: 0.758

cccagcccgtcgtgccgagcgcccaacagaccg	CRISPR spacer
ccttgatggtcgtgccgagcgccaaatagacct	Protospacer
**. * . *************** **.*****

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

1952719 : 1960445

Bacillus_phage(16.67%)

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

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_011559210.1\|1952719_1953577_+	short chain dehydrogenase	W8CYX9	Bacillus_phage	2.9e-06	37.2
WP_011559211.1\|1953584_1954757_-	ATP-binding protein	A0A077SLJ9	Escherichia_phage	1.4e-56	35.7
WP_011559212.1\|1954766_1955834_-	DNA polymerase IV	F1C5A5	Cronobacter_phage	1.0e-13	26.5
WP_011559213.1\|1955837_1956440_-	TetR/AcrR family transcriptional regulator	NA	NA	NA	NA
WP_011559214.1\|1956535_1957102_+	NAD(P)H-dependent oxidoreductase	A0A2P0ZL77	Lactobacillus_phage	1.2e-08	33.1
WP_011559215.1\|1957567_1957819_+	NrdH-redoxin	V5UN81	Mycobacterium_phage	1.6e-21	64.5
WP_011559216.1\|1957851_1958310_+	class Ib ribonucleoside-diphosphate reductase assembly flavoprotein NrdI	NA	NA	NA	NA
WP_082947857.1\|1958276_1960445_+	class 1b ribonucleoside-diphosphate reductase subunit alpha	V9VI16	Lactococcus_phage	1.5e-205	51.0

DBSCAN-SWA_2

3068724 : 3081958

Streptomyces_phage(22.22%)

capsid,portal,integrase,terminase

attL 3065599:3065614|attR 3081089:3081104

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
3065599:3065614	attL	NA	NA	NA	NA
WP_011768245.1\|3068724_3069183_-	transglycosylase	A0A1J0GVU2	Streptomyces_phage	1.8e-26	58.7
WP_011560302.1\|3069612_3069933_-	hypothetical protein	NA	NA	NA	NA
WP_011560303.1\|3069932_3070778_-\|capsid	phage major capsid protein	Q7Y410	Yersinia_phage	5.6e-10	24.2
WP_011560304.1\|3071024_3071480_-	hypothetical protein	NA	NA	NA	NA
WP_011560305.1\|3071476_3072067_-	hypothetical protein	NA	NA	NA	NA
WP_011560306.1\|3072063_3073383_-\|portal	phage portal protein	A0A1B3B111	Gordonia_phage	3.2e-36	30.5
WP_011560307.1\|3073379_3074849_-\|terminase	terminase	Q9T214	Streptomyces_phage	2.6e-55	35.4
WP_011560308.1\|3074848_3075223_-	HNH endonuclease	U5PTU3	Clavibacter_phage	3.0e-16	53.7
WP_011560309.1\|3075602_3075848_-	hypothetical protein	NA	NA	NA	NA
WP_011560310.1\|3075844_3076189_-	hypothetical protein	NA	NA	NA	NA
WP_041309710.1\|3076181_3076364_-	hypothetical protein	NA	NA	NA	NA
WP_011560311.1\|3076360_3077461_-	hypothetical protein	A0A2P1CJ11	Microbacterium_phage	5.5e-10	29.3
WP_011560312.1\|3077457_3077733_-	hypothetical protein	NA	NA	NA	NA
WP_011560313.1\|3077729_3078098_-	hypothetical protein	NA	NA	NA	NA
WP_011560314.1\|3078094_3078364_-	DNA-binding protein	A0A2D1GF53	Mycobacterium_phage	4.8e-08	58.2
WP_011560315.1\|3078375_3079017_+	hypothetical protein	NA	NA	NA	NA
WP_011560316.1\|3079013_3080153_+\|integrase	site-specific integrase	A0A023ZX87	Mycobacterium_phage	1.2e-87	47.2
WP_011560317.1\|3080380_3081958_+	deoxyribodipyrimidine photo-lyase	A0A1V0CPG0	Kaumoebavirus	1.1e-40	32.7
3081089:3081104	attR	NA	NA	NA	NA

DBSCAN-SWA_3

4374561 : 4382747

Gordonia_phage(16.67%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_011561485.1\|4374561_4375797_+	exodeoxyribonuclease VII large subunit	A0A1B3AYB4	Gordonia_phage	1.3e-68	51.9
WP_011561486.1\|4375783_4375996_+	exodeoxyribonuclease VII small subunit	NA	NA	NA	NA
WP_011561487.1\|4376059_4377175_+	steroid Delta-isomerase	Q76TT0	Molluscum_contagiosum_virus	9.2e-29	33.0
WP_011561488.1\|4377184_4377505_-	hypothetical protein	NA	NA	NA	NA
WP_011561489.1\|4377579_4378296_-	MgtC/SapB family protein	G3MA03	Bacillus_virus	1.4e-14	44.4
WP_083775455.1\|4378381_4378651_+	hypothetical protein	NA	NA	NA	NA
WP_011561491.1\|4378610_4380155_+	arylsulfatase	A0A2P0VMN7	Tetraselmis_virus	9.4e-157	52.1
WP_011561492.1\|4380154_4381063_+	haloacid dehalogenase-like hydrolase	NA	NA	NA	NA
WP_011561493.1\|4381055_4381931_+	formylglycine-generating enzyme family protein	A0A075BSL8	Microcystis_phage	2.3e-14	28.9
WP_011561494.1\|4381976_4382747_+	NAD(P)-dependent oxidoreductase	A0A0M4JSW6	Mollivirus	2.1e-11	42.5

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_008147

Click the left colored region to show detailed information

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

139057 : 180428

Mycobacterium_phage(36.36%)

protease,integrase,transposase

attL 156232:156251|attR 160178:160197

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_011562855.1\|139057_140440_-\|protease	type VII secretion-associated serine protease mycosin	V5UPA7	Mycobacterium_phage	4.7e-75	40.1
WP_011562854.1\|140439_141858_-	type VII secretion integral membrane protein EccD	NA	NA	NA	NA
WP_011767998.1\|141860_143519_-	plasmid partitioning protein ParA	NA	NA	NA	NA
WP_011562852.1\|143549_144380_-	ESX secretion-associated protein EspG	NA	NA	NA	NA
WP_011562851.1\|144372_144612_-	hypothetical protein	NA	NA	NA	NA
WP_011562850.1\|145240_146899_+	chromosome partitioning protein ParB	I3NLC2	Bifidobacterium_phage	1.9e-09	29.1
WP_011562849.1\|147023_147893_+	ParA family protein	NA	NA	NA	NA
WP_011562848.1\|147885_148137_+	hypothetical protein	NA	NA	NA	NA
WP_011562847.1\|148571_148931_+	hypothetical protein	NA	NA	NA	NA
WP_083775489.1\|149242_150646_+	recombinase family protein	A0A2D1GQ20	Mycobacterium_phage	5.2e-61	37.6
WP_041310603.1\|150865_151822_+	ATPase AAA	A0A0R6PCP6	Moraxella_phage	2.2e-10	31.5
WP_041310606.1\|151818_154431_+	peptidase S8	NA	NA	NA	NA
WP_011562843.1\|154728_155166_-	hypothetical protein	NA	NA	NA	NA
156232:156251	attL	NA	NA	NA	NA
WP_085975522.1\|156267_157467_+\|integrase	integrase	A0A220NQQ9	Corynebacterium_phage	1.3e-12	33.3
WP_011562840.1\|157511_159677_+\|integrase	integrase	NA	NA	NA	NA
WP_011562839.1\|159666_160077_+	hypothetical protein	NA	NA	NA	NA
WP_011562837.1\|160414_161491_-	hypothetical protein	NA	NA	NA	NA
160178:160197	attR	NA	NA	NA	NA
WP_085975518.1\|161877_163172_-\|transposase	IS3 family transposase	Q8W6R2	Burkholderia_virus	7.6e-59	51.2
WP_085975518.1\|165102_166396_+\|transposase	IS3 family transposase	Q8W6R2	Burkholderia_virus	7.6e-59	51.2
WP_011562832.1\|166473_166791_-	hypothetical protein	NA	NA	NA	NA
WP_085975523.1\|166959_168122_-	hypothetical protein	A0A0P0I4A4	Acinetobacter_phage	9.3e-32	32.2
WP_011562829.1\|168173_168767_-	hypothetical protein	NA	NA	NA	NA
WP_011562828.1\|168759_170202_-	cell division protein FtsK	G1FGP1	Mycobacterium_phage	6.2e-09	28.1
WP_011562827.1\|170291_170630_-	hypothetical protein	NA	NA	NA	NA
WP_011562825.1\|171674_172142_+	NUDIX domain-containing protein	NA	NA	NA	NA
WP_041310618.1\|172151_172688_-	HD domain-containing protein	NA	NA	NA	NA
WP_011562823.1\|173235_173805_+	TetR/AcrR family transcriptional regulator	NA	NA	NA	NA
WP_011562822.1\|173894_174359_-	hypothetical protein	NA	NA	NA	NA
WP_085975524.1\|174355_177211_-	MMPL family RND transporter	NA	NA	NA	NA
WP_011562820.1\|177189_177633_-	hypothetical protein	NA	NA	NA	NA
WP_083775482.1\|178134_179139_+	hypothetical protein	A0A2P1JR32	Mycobacterium_phage	2.4e-36	40.7
WP_011562043.1\|179003_180428_+\|transposase	IS30 family transposase	W5R8L2	Staphylococcus_phage	6.9e-37	31.7

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_008146

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

Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection

2. NC_008147

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