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_017449	Francisella hispaniensis, complete sequence	2 crisprs	cas3,csa3,DEDDh,cas4,cas2,cas9	0	4	4	0

Results visualization

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CRISPR-Cas detection and classification

Crispr_ID: NC_017449_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_017449_1

1125563-1125754

TypeII

Consensus_repeat	Method
GTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAG	CRISPRCasFinder

2 spacers

cas4,cas2,cas9

The CRISPR arrays of NC_017449_1

>merge|NC_017449|1|1125563-1125754|CRISPRCasFinder
GTTTCAGTTACTAGATTATCTGATATACTATCTTAGGATTAGTCCAGCAAATGAAAAAAGATTAGCTGTAAGTTTCAGTAGCTAGATTATTTGGTACATACTAGTGTTATAGGGTTAGGATTAACCTAACATATAAAGAACAATTAGCTGTAAATTTTCGTTAATTAGGTTATTTGATATACTGCTTTCAAT

>NC_017449|1|1|1125563-1125754|CRISPRCasFinder
GTTTCAGTTACTAGATTATCTGATATACTATCTTAGG	ATTAGTCCAGCAAATGAAAAAAGATTAGCTGTAA
GTTTCAGTAGCTAGATTATTTGGTACATACTAGTGTT	ATAGGGTTAGGATTAACCTAACATATAAAGAACAATTAGCTGTAAA
TTTTCGTTAATTAGGTTATTTGATATACTGCTTTCAAT

Protein	Signature genes	Signature genes Name	Protein_function
NC_017449.1\|WP_014548414.1\|1124048_1125131_-\|radical-SAM-protein	unknown	unknown	gnl\|CDD\|275338
NC_017449.1\|WP_044247633.1\|1121809_1122778_+\|linear-amide-C-N-hydrolase	unknown	unknown	gnl\|CDD\|225591
NC_017449.1\|WP_014548411.1\|1122988_1123342_+\|hypothetical-protein	unknown	unknown	unknown
NC_017449.1\|WP_014548428.1\|1139693_1141067_-\|L-serine-ammonia-lyase	unknown	unknown	gnl\|CDD\|273233
NC_017449.1\|WP_014548423.1\|1136675_1136921_-\|YfhL-family-4Fe-4S-dicluster-ferredoxin	unknown	unknown	gnl\|CDD\|235941
NC_017449.1\|WP_014548405.1\|1116219_1117422_+\|multidrug-effflux-MFS-transporter	unknown	unknown	gnl\|CDD\|340878
NC_017449.1\|WP_014548417.1\|1128212_1128506_-\|CRISPR-associated-endonuclease-Cas2	cas2	pfam09827_cas2_CAS-I:CAS-II:CAS-III	gnl\|CDD\|187856
NC_017449.1\|WP_014548412.1\|1123357_1123807_-\|acyl-CoA-thioesterase	unknown	unknown	gnl\|CDD\|223894
NC_017449.1\|WP_014548425.1\|1137426_1137978_-\|putative-Fe-S-cluster-assembly-protein-SufT	unknown	unknown	gnl\|CDD\|213809
NC_017449.1\|WP_014548408.1\|1118871_1120821_-\|BCCT-family-transporter	unknown	unknown	gnl\|CDD\|376718
NC_017449.1\|WP_014548424.1\|1136926_1137415_-\|pantetheine-phosphate-adenylyltransferase	unknown	unknown	gnl\|CDD\|234674
NC_017449.1\|WP_014548413.1\|1123803_1124052_-\|glutaredoxin	unknown	unknown	gnl\|CDD\|239510
NC_017449.1\|WP_014548422.1\|1135394_1136573_-\|OmpA-family-protein	unknown	unknown	gnl\|CDD\|143586
NC_017449.1\|WP_014548426.1\|1137991_1138348_-\|iron-sulfur-cluster-assembly-accessory-protein	unknown	unknown	gnl\|CDD\|223393
NC_017449.1\|WP_014548406.1\|1117418_1118273_-\|bifunctional-methionine-sulfoxide-reductase-B/A-protein	unknown	unknown	gnl\|CDD\|235499
NC_017449.1\|WP_014548427.1\|1138368_1139592_-\|SufS-family-cysteine-desulfurase	unknown	unknown	gnl\|CDD\|131034
NC_017449.1\|WP_014548409.1\|1120960_1121713_+\|RNA-methyltransferase	unknown	unknown	gnl\|CDD\|349968
NC_017449.1\|WP_014548420.1\|1129527_1134468_-\|type-II-B-CRISPR-associated-RNA-guided-endonuclease-Cas9/Csx12	cas9	cd09704_cas9_CAS-II-B	gnl\|CDD\|274401
NC_017449.1\|WP_014548416.1\|1127641_1128226_-\|CRISPR-associated-protein-Cas4	cas4	cd09637_cas4_CAS-I:CAS-II:CAS-V	gnl\|CDD\|273040
NC_017449.1\|WP_014548407.1\|1118402_1118879_+\|tryptophan-rich-sensory-protein	unknown	unknown	gnl\|CDD\|320706

Protein	Function_ID	Function_description	E-value
NC_017449.1\|WP_014548414.1\|1124048_1125131_-\|radical-SAM-protein	gnl\|CDD\|275338	TIGR04545, rSAM_ahbD_hemeb, heme b synthase. Members of this family are AhbD (alternative heme biosynthetic protein D), a radical SAM enzyme in sulfate-reducing bacteria and methanogens that performs the last decarboxylations to synthesize heme b from Fe-coproporphyrin III. Members include DVU_0855, previously included in error in TIGR04055, the NirJ2 family thought to be involved in heme d1 biosynthesis. [Biosynthesis of cofactors, prosthetic groups, and carriers, Heme, porphyrin, and cobalamin].	2.51416e-140
NC_017449.1\|WP_044247633.1\|1121809_1122778_+\|linear-amide-C-N-hydrolase	gnl\|CDD\|225591	COG3049, COG3049, Penicillin V acylase and related amidases [Cell envelope biogenesis, outer membrane].	6.56565e-68
NC_017449.1\|WP_014548428.1\|1139693_1141067_-\|L-serine-ammonia-lyase	gnl\|CDD\|273233	TIGR00720, hypothetical_protein_NEICINOT_00681, L-serine dehydratase, iron-sulfur-dependent, single chain form. This enzyme is also called serine deaminase and L-serine dehydratase 1. L-serine ammonia-lyase converts serine into pyruvate in the gluconeogenesis pathway from serine. This enzyme is comprised of a single chain in Escherichia coli, Mycobacterium tuberculosis, and several other species, but has separate alpha and beta chains in Bacillus subtilis and related species. The beta and alpha chains are homologous to the N-terminal and C-terminal regions, respectively, but are rather deeply branched in a UPGMA tree. This enzyme requires iron and dithiothreitol for activation in vitro, and is a predicted 4Fe-4S protein. Escherichia coli Pseudomonas aeruginosa have two copies of this protein. [Energy metabolism, Amino acids and amines, Energy metabolism, Glycolysis/gluconeogenesis].	0
NC_017449.1\|WP_014548423.1\|1136675_1136921_-\|YfhL-family-4Fe-4S-dicluster-ferredoxin	gnl\|CDD\|235941	PRK07118, PRK07118, Fe-S cluster domain-containing protein.	1.36451e-07
NC_017449.1\|WP_014548405.1\|1116219_1117422_+\|multidrug-effflux-MFS-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.	4.09883e-74
NC_017449.1\|WP_014548417.1\|1128212_1128506_-\|CRISPR-associated-endonuclease-Cas2	gnl\|CDD\|187856	cd09725, Cas2_I_II_III, CRISPR/Cas system-associated protein Cas2. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Cas2 is present in majority of CRISPR/Cas systems along with Cas1; RNAse specific to U-rich regions; Possesses an RRM/ferredoxin fold.	1.30046e-06
NC_017449.1\|WP_014548412.1\|1123357_1123807_-\|acyl-CoA-thioesterase	gnl\|CDD\|223894	COG0824, FcbC, Predicted thioesterase [General function prediction only].	3.18898e-26
NC_017449.1\|WP_014548425.1\|1137426_1137978_-\|putative-Fe-S-cluster-assembly-protein-SufT	gnl\|CDD\|213809	TIGR03406, FeS_long_SufT, probable FeS assembly SUF system protein SufT. The function is unknown for this protein family, but members are found almost always in operons for the the SUF system of iron-sulfur cluster biosynthesis. The SUF system is present elsewhere on the chromosome for those few species where SUF genes are not adjacent. This family shares this property of association with the SUF system with a related family, TIGR02945. TIGR02945 consists largely of a DUF59 domain (see pfam01883), while this protein is about double the length, with a unique N-terminal domain and DUF59 C-terminal domain. A location immediately downstream of the cysteine desulfurase gene sufS in many contexts suggests the gene symbol sufT. Note that some other homologs of this family and of TIGR02945, but no actual members of this family, are found in operons associated with phenylacetic acid (or other ring-hydroxylating) degradation pathways. [Biosynthesis of cofactors, prosthetic groups, and carriers, Other].	8.00557e-98
NC_017449.1\|WP_014548408.1\|1118871_1120821_-\|BCCT-family-transporter	gnl\|CDD\|376718	pfam02028, BCCT, BCCT, betaine/carnitine/choline family transporter.	0
NC_017449.1\|WP_014548424.1\|1136926_1137415_-\|pantetheine-phosphate-adenylyltransferase	gnl\|CDD\|234674	PRK00168, coaD, phosphopantetheine adenylyltransferase; Provisional.	4.42998e-84
NC_017449.1\|WP_014548413.1\|1123803_1124052_-\|glutaredoxin	gnl\|CDD\|239510	cd03418, GRX_GRXb_1_3_like, Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide reductase. It contains a redox active CXXC motif in a TRX fold and uses a similar dithiol mechanism employed by TRXs for intramolecular disulfide bond reduction of protein substrates. Unlike TRX, GRX has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. The flow of reducing equivalents in the GRX system goes from NADPH -> GSH reductase -> GSH -> GRX -> protein substrates. By altering the redox state of target proteins, GRX is involved in many cellular functions including DNA synthesis, signal transduction and the defense against oxidative stress. Different classes are known including E. coli GRX1 and GRX3, which are members of this subfamily.	4.34897e-13
NC_017449.1\|WP_014548422.1\|1135394_1136573_-\|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.	9.19034e-21
NC_017449.1\|WP_014548426.1\|1137991_1138348_-\|iron-sulfur-cluster-assembly-accessory-protein	gnl\|CDD\|223393	COG0316, sufA, Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones].	1.42647e-27
NC_017449.1\|WP_014548406.1\|1117418_1118273_-\|bifunctional-methionine-sulfoxide-reductase-B/A-protein	gnl\|CDD\|235499	PRK05550, PRK05550, bifunctional methionine sulfoxide reductase B/A protein; Provisional.	0
NC_017449.1\|WP_014548427.1\|1138368_1139592_-\|SufS-family-cysteine-desulfurase	gnl\|CDD\|131034	TIGR01979, Probable_cysteine_desulfurase, cysteine desulfurases, SufSfamily. This model represents a subfamily of NifS-related cysteine desulfurases involved in FeS cluster formation needed for nitrogen fixation among other vital functions. Many cysteine desulfurases are also active as selenocysteine lyase and/or cysteine sulfinate desulfinase. This subfamily is associated with the six-gene SUF system described in E. coli and Erwinia as an FeS cluster formation system during oxidative stress. The active site Cys is this subfamily resembles GHHC with one or both His conserved. [Biosynthesis of cofactors, prosthetic groups, and carriers, Other].	0
NC_017449.1\|WP_014548409.1\|1120960_1121713_+\|RNA-methyltransferase	gnl\|CDD\|349968	cd18095, SpoU-like_rRNA-MTase, SAM-dependent rRNA methylase related to SpoU-TrmH. RNA 2'-O ribose methyltransferase catalyzes the methyltransfer from S-adenosyl-L-methionine (AdoMet) to the 2'-OH group of ribose in tRNA or rRNA. It is part of the SpoU family of MTases, a subfamily of the SPOUT methyltransferase superfamily. The SPOUT methyltransferase superfamily is a large class of S-adenosyl-L-methionine (AdoMet or SAM)-dependent RNA MTases which are structurally characterized by a deep trefoil knot.	3.39718e-51
NC_017449.1\|WP_014548420.1\|1129527_1134468_-\|type-II-B-CRISPR-associated-RNA-guided-endonuclease-Cas9/Csx12	gnl\|CDD\|274401	TIGR03031, cas_csx12, CRISPR system subtype II-B RNA-guided endonuclease Cas9/Csx12. Members of this family of CRISPR-associated (cas) protein are found, so far, in CRISPR/cas loci in Wolinella succinogenes DSM 1740, Legionella pneumophila str. Paris, and Francisella tularensis, where the last probably is an example of a degenerate CRISPR locus, having neither repeats nor a functional Cas1. The characteristic repeat length is 37 base pairs and period is about 72. One region of this large protein shows sequence similarity to pfam01844, HNH endonuclease.	0
NC_017449.1\|WP_014548416.1\|1127641_1128226_-\|CRISPR-associated-protein-Cas4	gnl\|CDD\|273040	TIGR00372, conserved_hypothetical_protein, CRISPR-associated protein Cas4. This model represents a family of proteins associated with CRISPR repeats in a wide set of prokaryotic genomes. This scope of this model has been broadened since it was first built to describe an archaeal subset only. The function of the protein is undefined. Distantly related proteins, excluded from this model, include ORFs from Mycobacteriophage D29 and Sulfolobus islandicus filamentous virus and a region of the Schizosaccharomyces pombe DNA replication helicase Dna2p.	3.66997e-25
NC_017449.1\|WP_014548407.1\|1118402_1118879_+\|tryptophan-rich-sensory-protein	gnl\|CDD\|320706	cd15904, TSPO_MBR, Translocator protein (TSPO)/peripheral-type benzodiazepine receptor (MBR) family. This family contains tryptophan-rich translocator protein (TSPO), an integral membrane protein that is highly conserved from bacteria to mammals. In eukaryotes, it is mainly found in the outer mitochondrial membranes of steroid-synthesizing cells of the nervous system where it transports cholesterol into mitochondria. It is known to be highly expressed in metastatic cancer, steriodogenic tissues, as well as inflammatory and neurological diseases such as Alzheimer's and Parkinson's. TSPO is also known as the peripheral benzodiazepine receptor (MBR) and its ligands include benzodiazepine drugs, implicated in regulating apoptosis. In human, a single polymorphism A147T is associated with psychiatric disorders; the mutation causes structural changes in a region implicated in cholesterol binding. TSPO is homologous to bacterial tryptophan-rich sensory proteins, and their tryptophan residues are believed to be functionally important. In bacteria, TSPO acts as a negative regulator of expression of specific photosynthesis genes in response to oxygen/light; it catalyzes a photooxidative degradation of Proto porphyrine (PpIX). R. sphaeroides TSPO (RsTSPO) is involved in porphyrin transport, similar to human, while Arabidopsis translocator protein (AtTSPO) is regulated at multiple levels in response to salt stress and perturbations in tetrapyrrole metabolism.	2.33234e-43

>NC_017449.1|WP_014548414.1|1124048_1125131_-|radical-SAM-protein
MKNQLKWMAWETTRRCNLKCVHCRSSSDCEVLGHPDFSTEEGFRIIDSIAAFANPVLVLSGGEPLLRTDIFELAQYGANKGLRMALATNGSLVTDEICEKIKSSSINIVSLSIDGATAATHDDFRGQEGAFEATVNAAKLFKKHRIPFLINSSFTKRNQHEIKDVYKLAKSLEATAWYLFIIVPTGRGEELMQELIDIDDYQAILNWHYDMEADEQDMLVRPTCAPHYYRIRFERNKEDSAKVRSRALSFGTGGGKGCIAGQSICLLDVDGNVYPCSYLPVSAGNVKEKSFVEIWQNSDVMNHMRDFSAYEGKCGACEFIKICGGCRARAYNIHGSYLAEEPFCNHMPIRMRNTEEKIRS
>NC_017449.1|WP_014548413.1|1123803_1124052_-|glutaredoxin
MSNFKNIVLYRMVTPEKVCPYGLKAKALFEQKGWSFEDNHLKTRAETDAFKAKYNLQTTPLIFIDGKQIGGYSDLLEFLGEK
>NC_017449.1|WP_014548412.1|1123357_1123807_-|acyl-CoA-thioesterase
MNQQLKYFVLSTQVLPEHIDPNKHLNNIVYLQWMQDVAIAHVKANGVFELTESQGLTWFARKHTIEYLSQGFLGDDIAVVTWVESITKISTFRKYHIYRKSDKTLLCKADTLWVMVNAHRGKPAKIPTELVEIFDKYNDFEIDDIKSLI
>NC_017449.1|WP_014548411.1|1122988_1123342_+|hypothetical-protein
MSKCKTHQNHEHKHQDDCGHTKIKHGDHYDYLHDGHLHHEHNGHYDEHTLEITEKNPDGCHPIKEDCSKHIHGPNCGHEAVPHGDHIDYIVDGRLHHPHGDHCDDHGPVEVIQNDKK
>NC_017449.1|WP_044247633.1|1121809_1122778_+|linear-amide-C-N-hydrolase
MFKKIIVTPLIILSFLQFSFGCTWFSFENDKGHYFIGRTMEWPGDLNTKITLVPRGYKFADFTTHYGFVGMSHNGNFSDGINEYGLAVSALWLSSSKYSDKKDANYNIAMLLPYVLGNTKTVAQAVEFIKKNKFYTSVLPEISDKLEITLHFAISDAQGNSVVVEFINGKAKIYNNKIKVLTNDPTYDQQLELLKKYQGDKFKQDRLIAFDYSPAGRFAKMASFNATKANTPDDLTAVNHAWSMINTVDIPQGSLYWKWVSSQPQFTSYSVVDDLSNRVYYFRTWDNYDIRKVDLSKIDFAKAEYQADTIFGQANYQEFKFK
>NC_017449.1|WP_014548409.1|1120960_1121713_+|RNA-methyltransferase
MKNLSQKLYKEIKKLHSSQGRKKSLYYVIEGFRCAQEALKRLPQQQIIAILVTEKTDSPNYALDKKYIITEKDFEALSQTQNPQGILILAEKPNSQELNFDDDFILVLDRIQDPGNIGTILRTAIAVGLKEIILINGTVDPFNPKAIRAGMGAQFSLKFSYLETLADLKNISKLQQRKIWLTTPHQGVSCYAKEFKLANSILVFGEEANGIEDFSIGEKTMIPTLSDIESLNVAQAATIYLFEGLRQRLK
>NC_017449.1|WP_014548408.1|1118871_1120821_-|BCCT-family-transporter
MQREKGAYAPVFYPAIVIAIVLSLLGILVPTSFANNIQIIQNLILEKFGWAYILAMSFFVCLCLILMFSRFGDIKLGQDHELPEYTNISWFAMLFAAGMGIGLMFYGVAEPLNHFLTPPNLSPDSLETLKQAMNTTFFHWGIQAWSVYAVVGLSLAYFAYRHNLPLLPRSVLYPILGDKIYGVIGHGIDIFAILGTLFGVATSLGFGAMQVSSGMSFLTGIADTQNMQVIYIIIIVALATISVALGLDKGIKALSNLNIILAIVLLVFILFLGDTAGLIRDYIQNIGYYLSTIVNQTFNLYAYNQNNQEWLKKWTLFYWGWWIAWSPFVGMFIAKVSKGRTIRQFIIGVLFIPVGFTFLWMTVFGNSAIEIVMSTKAQELINAANNNIPVALFEFLQHFPFATILSILAVLLVVTFFVTSADSGALVIDILATGNAQTSITTQRIAWSVLSGLLAISLILAGGLQALQSATIISAFPLLFILFLMSISLIKSLRLDYLRIKSIQRHSTVVQYVKADTSWQKRLAAIAYKPSKTQAIEFLQQVVTPAVLEVASEMQKNAINSEVTKDDDHIQLTINIESGDDFIYSVMLRSYQTKADSDNNRVEVLLGHGGQYYDIIGYSKDQVIADIVNQYDKHLHYLHLAVADKDIIN
>NC_017449.1|WP_014548407.1|1118402_1118879_+|tryptophan-rich-sensory-protein
MKQFKITKLLSLALFIVVILAIGYFIGMITSINIPSWFTHLESPFFAPPNWVFAPVWTILYIMIAISGWLIFQQGQFKEKAFIVYAIQLGLNFLWSFIFFCWHNIDLALLEMSILWIFVIWNIIIFKHISKLAGYLLVPYLLWITFAWILNLSYAVLN
>NC_017449.1|WP_014548406.1|1117418_1118273_-|bifunctional-methionine-sulfoxide-reductase-B/A-protein
MLKTKSLTPHEYDIIINKATERPFTGRYNNLDQKGVYICRNCGTPLFRADSKFISTCGWPSYDIHIDNNVKQLPDADGRRTEILCNNCDGHLGHIFHGEGYTKLNTRYCVNSASVDFIPAEDFGNTEEIIVAAGCFWGVEYYMKKLPGVLFAESGYCGGSEPYPDYKKVCQGDTGYLEVVRVIFDTSKVSLQQVLKYFFEIHDFEQVDGQGPDIGEQYKSAIFYYDDKQKQVAEDLIQILAQKGYKVATEIRAMKPYYVAEDYHLDYYMKKGTLPYCHSHKKIF
>NC_017449.1|WP_014548405.1|1116219_1117422_+|multidrug-effflux-MFS-transporter
MYEIRKGSKYLIFFVVIFVALPPFAIDTYIPAFGNIANFFSVNLNKVSISVSTYLVGFGLGMFFWGALSDRFGRKKILTIGMLIYIVSTILCSLTHSFDTLIVMRFLQGLGDSPAAVAAMAVLKDCYRGQKLMKMMATMVMVFMLAPIVAPIIGSLIIYTTGSWQDIFHFLTIYGVILLILTLIMPETHPSYKRSKNLVISFKTYLKHFMNIPFIVGTLTGGLCFGALFSFITASSNLIIGYFHLGYTQYCILFGLNICGVVFASNYIRRRVTAHNQRKLILNGYYFAIIIIIINILSSYIFDNIYIFIFLNALLTIGLAFVNITTTSKVIDLLKEGFAAGNAVIRLVKFTVAGAAGFFLSFLSISKLMIGIPAQQLGFILVSISLFLLIKNRLFPNQHN
>NC_017449.1|WP_014548416.1|1127641_1128226_-|CRISPR-associated-protein-Cas4
MDIFDNDLSIPINLIRQWCFCPRVVYYQELLAIKPHKPLWVAQGEEFHKKVEHLEKRRNFSRYGLDNAIRHFNVTIKSQNYKLHGIVDWVLEADNNVYVVEYKTNPNPNSLGHKLQIAAYALLAQEYFAKPCKTTFLTSDKKSYEIKITDELITKLVKTVNDILNALDSGNKPDSSASDHQCIQCEYLNFCNDR
>NC_017449.1|WP_014548417.1|1128212_1128506_-|CRISPR-associated-endonuclease-Cas2
MQLRKEYLIAYDIEDNRTRTIIYKQLLAYGLKAVQKSVFWGHISIAELNAIKRLFANSLTISDKIFITRVNMQEQKLEYSFGYDDKTFKDWEEYGHI
>NC_017449.1|WP_014548420.1|1129527_1134468_-|type-II-B-CRISPR-associated-RNA-guided-endonuclease-Cas9/Csx12
MNIKILPIAIDLGAKNTGVFSAFYQKGTSLESLDNKNGKVYELSKDSYTLLMNNRTARRHQRRGIDRKQLVKRLFKLIWTKQLNLEWNKDTQQTISFLLNRRGFSFITDGYSPEYLNIAPEAVKAILMSILDDYNGEDDLDSYLQSATENDSKIDELYNKLLQKALEFKLRKLCIDIKEDKVTTKTLKELSNTEFKLLANYLVDYDRILRTQKFSYTDKQGNLRELNYYHHDKYNIQEFLKRNIIINDVILEKLTDDLDIWNLNFDKFDFEKNLEKLENQEDKDYLQTHLHHFVFAVNKIKSEMASGGRHRSQYFQEITNVLVENNHQEGYLKNFCENLHNKKYSNLSVKNLVNLIGNLSNLELKPLRKYFNDKIHAKADYWDEQKFAETYSDWILGEWRVGAKDKDKKDGAKYSYKNLCDELKQKVGINQDGIINQTKSDFVDFLLELDPCRTIPPYLDNNNRKPPKCQSLILNPKFLDNKYPNWQQYLQELKKLQTVQNYLGNFEIDLKDLKSSKEQPYFVKYKSLNQQIASGQRDYKDLDARVLQFIFDRVKASDELLLNEIYSHAKKLKQNTSSELEKLELCKKLDEVIANSQLSQILKSQHVNGIFEQGTFLHLVCKYYKQRQRARDSRLYIMPEYRYDKKLDKYNNTGRFDDDNQLLTYCNHKPRQKRYQLLNDLAGVLQVSPNFLKDKIGSDDDLFISKWLVEHIRGFKKACEDSLKIQKDNRGLLNHKINIARNTKGKCEKEIFNLICKIEGSEDKKGNYKHGLAYELGVLLFGEPNQASKLEFDRKIKKFNSIYSFAQIQQIAFAERKGNANTCAVCSADNAHRMQQIKVAKPVEGNKDNIILSAKAQRLPAIPTRIVDGAVKKIATILARNIVDDNWDNIKQALSNNQQLHVPIITESNAFEFEPALADIKGKSLKDKRKKALERIDPENVFKDKNNRIKEFAKGISAYSDANLANGDFDGAKEELDHIIPRSHKKYGTLNDEANLICVTREDNQNRGNKAVFLYDLKPNYKLKQFNTTDDLEIEKKIADTIWDASKQDFKFGNYRSFINLTPQEQIAFRHALFLADKNPIKKAVIRAIDNRNRTFVNGTQRYFAEVLANNIYLRAKKENLATNRITFDYFGIETTNSNGRGIADVRKLYEKVDSDIQAYAKGDKPQDSYSHLIDAMIAFCVAADEHKNEGSIGLKMGNQYGLFPTPDKYDENTGEIISWHNDDIFRKIKVSDNQFSDKKLVRKKATEGFNTHRQMTRDGIYGESYLPILIHKNLNEVRKGYNWENSEEIKIFKGKKYDIQQLNNLVYCLKFVDKPISIDIQITTLEELRNILETNNISTTAEYYYINLKTQKLHEYYIENYNTALGYKKYTKEMEFLRSLAYRTERVKIKSIDDVSMILAKDSNFKAGKIELPFKTEWQRLYLEWQNTTIKDNHEFLKSYFSVKNATKQHKKVRKDFSLPISTNEGKLLVKRKTWDNNFIYQILNDSDSRADGTKPFIPAFDISKNEIVETIIKSFTSKNIFWLPKNIELQKVDNKSIFAIDTSRWFEVETPKDLIEIGVSTIQYKIDNNSRPKVRVKLDYVMDDDSKINYFMNHSLLKSRYPDKVLEILKQSTIIEFESSGFNKTIKEMLGMTLAGIYNETSNN
>NC_017449.1|WP_014548422.1|1135394_1136573_-|OmpA-family-protein
MRLKSIVIATTVLLGSATASIAAGSDNMDTSANTNSATTQSTGFAANNFIAPFANTYSALTNKDNTWGPQDRTGQWYLGVDANGLAGTPNSPSGAGANFTIGYNVNKYFAVQYNQLVGRVFAGLGEGVVNFSNSTMFTPYAAGGAGWANLAGQATGAWDVGGGLKFELSRNVQASVDYRYIQTMAPSNISGANGRAGTNMIGAGLTWFFGGKDTTNNDTGNIQDNGATTAAQTVAMPTIDESKYVLPTGIKQCEGNFNLTEDGVACYTVNGDDVTVYLDTKFAYDKATLNAKGKKAIASFVKFIKDSNIGSVTVKGYASQGQTGGEFDIYNQKLSKKRAEAVADYMKQLGLDSEKIITKGFGYDDTLGGIPKSDPRNQRVEASVSAPLKEAN
>NC_017449.1|WP_014548423.1|1136675_1136921_-|YfhL-family-4Fe-4S-dicluster-ferredoxin
MALLITDECINCDICEPECPNEAISQGEEYYEIDPNKCTECVGHFDESQCTKVCPIRCIIIDPNNIETHQQLLEKYNNLVS
>NC_017449.1|WP_014548424.1|1136926_1137415_-|pantetheine-phosphate-adenylyltransferase
MNKIAIYPGTFDPITNGHVDLVDRALNIFDQIVVAVSTAYGKNTLFDIATREQIIKEVFKDNQRVKVVSFQGLLVDTAVKHNACAIVRGLRAVSDFDYEFQMSSMNNKLNSNIQTIFLTPSEKFSCISSTLVRAVAIHNYKRVDEFVPECVFREIKLKYSKE
>NC_017449.1|WP_014548425.1|1137426_1137978_-|putative-Fe-S-cluster-assembly-protein-SufT
MKPTDVTIIRRQVKAIAVPFGNEVELMPGQEVLVTQDKGGSFTLNVNGNLLHLDGKDADAIGKQIVRYPVEEYDIKPGDPINMDAIWDQMRTVYDPEIPVNIVDLGLIYNIITRKLDNGNFHVIIDMTLTAPGCGMGPVLMTDVEKRVAMLPNVDKVDVVMVFDPPWNSEMMTEAAKLELGLF
>NC_017449.1|WP_014548426.1|1137991_1138348_-|iron-sulfur-cluster-assembly-accessory-protein
MVEVFDPNASSVLEVTDAAAKHFKKHLEKHNGCIGIYVGTKVMGCSGLAYDVDFVKQQPEDTQKVQQHGISFFVSNKSMNFLNGLKIDYVKHDFGLYKLEYTNPNESARCGCGESFTV
>NC_017449.1|WP_014548427.1|1138368_1139592_-|SufS-family-cysteine-desulfurase
MYDVNKIRQDFPFLAQKINNKSVLFFDTGASAQKPRAVIEFIAEAYAYDYANVHRGVYSLSQEASEKYENVRKIVQKFLNSKSADEIVITKGTTEAINLVASSIGKGIIRSDDEIVVTEMEHHANFVPWQMLCEDKQLAFKVAAIKDNGELDVENLLALVTAKTKILAITLCSNVLGTINPVKEIIKQVRQINPNIIILVDGAQAVIHTKVDVQDLDCDFFVFSGHKLYGPTGVGVLYGKYELLKQLPPYNYGGDMVEEVTISKTTFALPPYRFEAGTPNIVGAIGLGRAIEYVDSIGMSNIEEHEQKLLEYATSELSKITGLTIIGQAKYKAGVITFNIEGCNAGDIGELLAIKGICVRTGKHCAHPLMYRMGVTSTVRMSFGMYNTFEEIDLFVIALKKVISQLK
>NC_017449.1|WP_014548428.1|1139693_1141067_-|L-serine-ammonia-lyase
MESTFELFSIGVGPSSSHTIGPMRAGCNFINLNKEKLPQTTRVKIDLFGSLALTGKGHKTDYAVVLGVMGFLPESVNIELAKKLYDDCLRNKKLNLGQKFEIDFDYDKDLVFHYNEFLPEHANGMCFSLFDGDELLCEKEYFSIGGGFIVDKKQIKKDTVPTEVPCDKPYKFSTMAELRELCQRDNKTIDEIMFENEKTAYGEQQSLDKLAEIWHVMETSIEKGLTCAEATLPGGLKVRKRAPSMIRKLKEQNIVNTDFNYLNAFAIAVNEQNACGERVVTAPTNGAAGVIPAVLKYYLQTHEIVNQQELKEVVNKYLLVCAAIGILYKSGASISAAEVGCQGEVGVACSMAAAGYCALLGGDLDSIESAAEIGMEHNLGLTCDPIGGLVQIPCIERNAMGAVQAINAAKLAYLDTGEKRFVGLDYVIKVMYETGLDMSSKYKETSLGGLATNVPVC

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Crispr_ID: NC_017449_2

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_017449_2

1125862-1127188

TypeII

Consensus_repeat	Method
GTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAG	CRISPRCasFinder
GTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAG	CRT
TCAGTAGCTAGATTATTTGATATACTGCTGTTAG	PILER-CR

18 spacers

cas4,cas2,cas9

The CRISPR arrays of NC_017449_2

>merge|NC_017449|2|1125862-1127188|CRISPRCasFinder,CRT,PILER-CR
GTTTCGGTAGCTAGGTTATTTGATGTACAATAAAAACTTACCTGTTTGATGCTAGGTATTAGTGTTATTTATAAGTAGCTAGATTATTTGATATACTGCTGTTAGGGTATGACAATGACTATAACCAACACTCGTCCAGAGTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAGTTTTCTTAATCTTAGGGTATCTAAATACAAATTCTCTGTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAGAATAAGCATTTCAAGATATTTTATTTAATTTTTATGTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAGTCTAATGTAGAAGCTATATTATCTATTTCACAATTGTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAGCTGGTGGAGGCGGTCAAACTGGCGGCGAGGGTGAGTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAGAGTGCTTGAAACTTCAAGCCTGTTGTTGAAACGGGTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAGATAATATGCTTAACAATATGTTTTCTAGCGATATTGTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAGTTAAGCCAGATAATGAATATCAAGAGTATGTCGAGTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAGCAATTATGGAACGATTATGGGGATTGGTTAGATGAAGTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAGCTATATTGGGTTATAAAGTTCAACTTCGAGGCGTTAGTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAGTGCTATGAGCATTGCAGGCAAAACAAATAAAAAAAAGTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAGCTGCTGCCGATACGGGTACAATTCAGGTTATATGGTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAGTGCCATACGATACAGCATATATTTCTTTTTTAATGTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAGACCAAAGCAACATTGCAATTGCAGATAGTGCTGGGTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAGTTGTAGGCTGTAAAGGCTCAAAGGCTGTTATTACGTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAGCCTCAACTTTAGCCTTAGGCTCAGTCTTTTTGGCGTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAGTGTTACTGGTTTTGCTGAAGGTGGTTATACTGGCAAGTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAG

>NC_017449|2|2|1125862-1127188|CRISPRCasFinder
GTTTCGGTAGCTAGGTTATTTGATGTACAATAAAAAC	TTACCTGTTTGATGCTAGGTATTAGTGTTAT
TTATAAGTAGCTAGATTATTTGATATACTGCTGTTAG	GGTATGACAATGACTATAACCAACACTCGTCCAGA
GTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAG	TTTTCTTAATCTTAGGGTATCTAAATACAAATTCTCT
GTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAG	AATAAGCATTTCAAGATATTTTATTTAATTTTTAT
GTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAG	TCTAATGTAGAAGCTATATTATCTATTTCACAATT
GTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAG	CTGGTGGAGGCGGTCAAACTGGCGGCGAGGGTGA
GTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAG	AGTGCTTGAAACTTCAAGCCTGTTGTTGAAACGG
GTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAG	ATAATATGCTTAACAATATGTTTTCTAGCGATATT
GTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAG	TTAAGCCAGATAATGAATATCAAGAGTATGTCGA
GTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAG	CAATTATGGAACGATTATGGGGATTGGTTAGATGAA
GTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAG	CTATATTGGGTTATAAAGTTCAACTTCGAGGCGTTA
GTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAG	TGCTATGAGCATTGCAGGCAAAACAAATAAAAAAAA
GTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAG	CTGCTGCCGATACGGGTACAATTCAGGTTATATG
GTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAG	TGCCATACGATACAGCATATATTTCTTTTTTAAT
GTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAG	ACCAAAGCAACATTGCAATTGCAGATAGTGCTGG
GTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAG	TTGTAGGCTGTAAAGGCTCAAAGGCTGTTATTAC
GTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAG	CCTCAACTTTAGCCTTAGGCTCAGTCTTTTTGGC
GTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAG	TGTTACTGGTTTTGCTGAAGGTGGTTATACTGGCAA
GTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAG

>NC_017449|2|1|1125862-1127188|CRT
GTTTCGGTAGCTAGGTTATTTGATGTACAATAAAAAC	TTACCTGTTTGATGCTAGGTATTAGTGTTAT
TTATAAGTAGCTAGATTATTTGATATACTGCTGTTAG	GGTATGACAATGACTATAACCAACACTCGTCCAGA
GTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAG	TTTTCTTAATCTTAGGGTATCTAAATACAAATTCTCT
GTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAG	AATAAGCATTTCAAGATATTTTATTTAATTTTTAT
GTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAG	TCTAATGTAGAAGCTATATTATCTATTTCACAATT
GTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAG	CTGGTGGAGGCGGTCAAACTGGCGGCGAGGGTGA
GTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAG	AGTGCTTGAAACTTCAAGCCTGTTGTTGAAACGG
GTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAG	ATAATATGCTTAACAATATGTTTTCTAGCGATATT
GTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAG	TTAAGCCAGATAATGAATATCAAGAGTATGTCGA
GTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAG	CAATTATGGAACGATTATGGGGATTGGTTAGATGAA
GTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAG	CTATATTGGGTTATAAAGTTCAACTTCGAGGCGTTA
GTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAG	TGCTATGAGCATTGCAGGCAAAACAAATAAAAAAAA
GTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAG	CTGCTGCCGATACGGGTACAATTCAGGTTATATG
GTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAG	TGCCATACGATACAGCATATATTTCTTTTTTAAT
GTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAG	ACCAAAGCAACATTGCAATTGCAGATAGTGCTGG
GTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAG	TTGTAGGCTGTAAAGGCTCAAAGGCTGTTATTAC
GTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAG	CCTCAACTTTAGCCTTAGGCTCAGTCTTTTTGGC
GTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAG	TGTTACTGGTTTTGCTGAAGGTGGTTATACTGGCAA
GTTTCAGTAGCTAGATTATTTGATATACTGCTGTTAG

>NC_017449|2|1|1125935-1127188|PILER-CR
AGTAGCTAGATTATTTGATATACTGCTGTTAGGG	TATGACAATGACTATAACCAACACTCGTCCAGAGTTTC
AGTAGCTAGATTATTTGATATACTGCTGTTAGTT	TTCTTAATCTTAGGGTATCTAAATACAAATTCTCTGTTTC
AGTAGCTAGATTATTTGATATACTGCTGTTAGAA	TAAGCATTTCAAGATATTTTATTTAATTTTTATGTTTC
AGTAGCTAGATTATTTGATATACTGCTGTTAGTC	TAATGTAGAAGCTATATTATCTATTTCACAATTGTTTC
AGTAGCTAGATTATTTGATATACTGCTGTTAGCT	GGTGGAGGCGGTCAAACTGGCGGCGAGGGTGAGTTTC
AGTAGCTAGATTATTTGATATACTGCTGTTAGAG	TGCTTGAAACTTCAAGCCTGTTGTTGAAACGGGTTTC
AGTAGCTAGATTATTTGATATACTGCTGTTAGAT	AATATGCTTAACAATATGTTTTCTAGCGATATTGTTTC
AGTAGCTAGATTATTTGATATACTGCTGTTAGTT	AAGCCAGATAATGAATATCAAGAGTATGTCGAGTTTC
AGTAGCTAGATTATTTGATATACTGCTGTTAGCA	ATTATGGAACGATTATGGGGATTGGTTAGATGAAGTTTC
AGTAGCTAGATTATTTGATATACTGCTGTTAGCT	ATATTGGGTTATAAAGTTCAACTTCGAGGCGTTAGTTTC
AGTAGCTAGATTATTTGATATACTGCTGTTAGTG	CTATGAGCATTGCAGGCAAAACAAATAAAAAAAAGTTTC
AGTAGCTAGATTATTTGATATACTGCTGTTAGCT	GCTGCCGATACGGGTACAATTCAGGTTATATGGTTTC
AGTAGCTAGATTATTTGATATACTGCTGTTAGTG	CCATACGATACAGCATATATTTCTTTTTTAATGTTTC
AGTAGCTAGATTATTTGATATACTGCTGTTAGAC	CAAAGCAACATTGCAATTGCAGATAGTGCTGGGTTTC
AGTAGCTAGATTATTTGATATACTGCTGTTAGTT	GTAGGCTGTAAAGGCTCAAAGGCTGTTATTACGTTTC
AGTAGCTAGATTATTTGATATACTGCTGTTAGCC	TCAACTTTAGCCTTAGGCTCAGTCTTTTTGGCGTTTC
AGTAGCTAGATTATTTGATATACTGCTGTTAGTG	TTACTGGTTTTGCTGAAGGTGGTTATACTGGCAAGTTTC
AGTAGCTAGATTATTTGATATACTGCTGTTAG

Protein	Signature genes	Signature genes Name	Protein_function
NC_017449.1\|WP_014548414.1\|1124048_1125131_-\|radical-SAM-protein	unknown	unknown	gnl\|CDD\|275338
NC_017449.1\|WP_044247633.1\|1121809_1122778_+\|linear-amide-C-N-hydrolase	unknown	unknown	gnl\|CDD\|225591
NC_017449.1\|WP_014548411.1\|1122988_1123342_+\|hypothetical-protein	unknown	unknown	unknown
NC_017449.1\|WP_014548428.1\|1139693_1141067_-\|L-serine-ammonia-lyase	unknown	unknown	gnl\|CDD\|273233
NC_017449.1\|WP_014548423.1\|1136675_1136921_-\|YfhL-family-4Fe-4S-dicluster-ferredoxin	unknown	unknown	gnl\|CDD\|235941
NC_017449.1\|WP_014548405.1\|1116219_1117422_+\|multidrug-effflux-MFS-transporter	unknown	unknown	gnl\|CDD\|340878
NC_017449.1\|WP_014548417.1\|1128212_1128506_-\|CRISPR-associated-endonuclease-Cas2	cas2	pfam09827_cas2_CAS-I:CAS-II:CAS-III	gnl\|CDD\|187856
NC_017449.1\|WP_014548412.1\|1123357_1123807_-\|acyl-CoA-thioesterase	unknown	unknown	gnl\|CDD\|223894
NC_017449.1\|WP_014548425.1\|1137426_1137978_-\|putative-Fe-S-cluster-assembly-protein-SufT	unknown	unknown	gnl\|CDD\|213809
NC_017449.1\|WP_014548408.1\|1118871_1120821_-\|BCCT-family-transporter	unknown	unknown	gnl\|CDD\|376718
NC_017449.1\|WP_014548424.1\|1136926_1137415_-\|pantetheine-phosphate-adenylyltransferase	unknown	unknown	gnl\|CDD\|234674
NC_017449.1\|WP_014548413.1\|1123803_1124052_-\|glutaredoxin	unknown	unknown	gnl\|CDD\|239510
NC_017449.1\|WP_014548422.1\|1135394_1136573_-\|OmpA-family-protein	unknown	unknown	gnl\|CDD\|143586
NC_017449.1\|WP_014548426.1\|1137991_1138348_-\|iron-sulfur-cluster-assembly-accessory-protein	unknown	unknown	gnl\|CDD\|223393
NC_017449.1\|WP_014548406.1\|1117418_1118273_-\|bifunctional-methionine-sulfoxide-reductase-B/A-protein	unknown	unknown	gnl\|CDD\|235499
NC_017449.1\|WP_014548427.1\|1138368_1139592_-\|SufS-family-cysteine-desulfurase	unknown	unknown	gnl\|CDD\|131034
NC_017449.1\|WP_014548409.1\|1120960_1121713_+\|RNA-methyltransferase	unknown	unknown	gnl\|CDD\|349968
NC_017449.1\|WP_014548420.1\|1129527_1134468_-\|type-II-B-CRISPR-associated-RNA-guided-endonuclease-Cas9/Csx12	cas9	cd09704_cas9_CAS-II-B	gnl\|CDD\|274401
NC_017449.1\|WP_014548416.1\|1127641_1128226_-\|CRISPR-associated-protein-Cas4	cas4	cd09637_cas4_CAS-I:CAS-II:CAS-V	gnl\|CDD\|273040
NC_017449.1\|WP_014548407.1\|1118402_1118879_+\|tryptophan-rich-sensory-protein	unknown	unknown	gnl\|CDD\|320706

Protein	Function_ID	Function_description	E-value
NC_017449.1\|WP_014548414.1\|1124048_1125131_-\|radical-SAM-protein	gnl\|CDD\|275338	TIGR04545, rSAM_ahbD_hemeb, heme b synthase. Members of this family are AhbD (alternative heme biosynthetic protein D), a radical SAM enzyme in sulfate-reducing bacteria and methanogens that performs the last decarboxylations to synthesize heme b from Fe-coproporphyrin III. Members include DVU_0855, previously included in error in TIGR04055, the NirJ2 family thought to be involved in heme d1 biosynthesis. [Biosynthesis of cofactors, prosthetic groups, and carriers, Heme, porphyrin, and cobalamin].	2.51416e-140
NC_017449.1\|WP_044247633.1\|1121809_1122778_+\|linear-amide-C-N-hydrolase	gnl\|CDD\|225591	COG3049, COG3049, Penicillin V acylase and related amidases [Cell envelope biogenesis, outer membrane].	6.56565e-68
NC_017449.1\|WP_014548428.1\|1139693_1141067_-\|L-serine-ammonia-lyase	gnl\|CDD\|273233	TIGR00720, hypothetical_protein_NEICINOT_00681, L-serine dehydratase, iron-sulfur-dependent, single chain form. This enzyme is also called serine deaminase and L-serine dehydratase 1. L-serine ammonia-lyase converts serine into pyruvate in the gluconeogenesis pathway from serine. This enzyme is comprised of a single chain in Escherichia coli, Mycobacterium tuberculosis, and several other species, but has separate alpha and beta chains in Bacillus subtilis and related species. The beta and alpha chains are homologous to the N-terminal and C-terminal regions, respectively, but are rather deeply branched in a UPGMA tree. This enzyme requires iron and dithiothreitol for activation in vitro, and is a predicted 4Fe-4S protein. Escherichia coli Pseudomonas aeruginosa have two copies of this protein. [Energy metabolism, Amino acids and amines, Energy metabolism, Glycolysis/gluconeogenesis].	0
NC_017449.1\|WP_014548423.1\|1136675_1136921_-\|YfhL-family-4Fe-4S-dicluster-ferredoxin	gnl\|CDD\|235941	PRK07118, PRK07118, Fe-S cluster domain-containing protein.	1.36451e-07
NC_017449.1\|WP_014548405.1\|1116219_1117422_+\|multidrug-effflux-MFS-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.	4.09883e-74
NC_017449.1\|WP_014548417.1\|1128212_1128506_-\|CRISPR-associated-endonuclease-Cas2	gnl\|CDD\|187856	cd09725, Cas2_I_II_III, CRISPR/Cas system-associated protein Cas2. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Cas2 is present in majority of CRISPR/Cas systems along with Cas1; RNAse specific to U-rich regions; Possesses an RRM/ferredoxin fold.	1.30046e-06
NC_017449.1\|WP_014548412.1\|1123357_1123807_-\|acyl-CoA-thioesterase	gnl\|CDD\|223894	COG0824, FcbC, Predicted thioesterase [General function prediction only].	3.18898e-26
NC_017449.1\|WP_014548425.1\|1137426_1137978_-\|putative-Fe-S-cluster-assembly-protein-SufT	gnl\|CDD\|213809	TIGR03406, FeS_long_SufT, probable FeS assembly SUF system protein SufT. The function is unknown for this protein family, but members are found almost always in operons for the the SUF system of iron-sulfur cluster biosynthesis. The SUF system is present elsewhere on the chromosome for those few species where SUF genes are not adjacent. This family shares this property of association with the SUF system with a related family, TIGR02945. TIGR02945 consists largely of a DUF59 domain (see pfam01883), while this protein is about double the length, with a unique N-terminal domain and DUF59 C-terminal domain. A location immediately downstream of the cysteine desulfurase gene sufS in many contexts suggests the gene symbol sufT. Note that some other homologs of this family and of TIGR02945, but no actual members of this family, are found in operons associated with phenylacetic acid (or other ring-hydroxylating) degradation pathways. [Biosynthesis of cofactors, prosthetic groups, and carriers, Other].	8.00557e-98
NC_017449.1\|WP_014548408.1\|1118871_1120821_-\|BCCT-family-transporter	gnl\|CDD\|376718	pfam02028, BCCT, BCCT, betaine/carnitine/choline family transporter.	0
NC_017449.1\|WP_014548424.1\|1136926_1137415_-\|pantetheine-phosphate-adenylyltransferase	gnl\|CDD\|234674	PRK00168, coaD, phosphopantetheine adenylyltransferase; Provisional.	4.42998e-84
NC_017449.1\|WP_014548413.1\|1123803_1124052_-\|glutaredoxin	gnl\|CDD\|239510	cd03418, GRX_GRXb_1_3_like, Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide reductase. It contains a redox active CXXC motif in a TRX fold and uses a similar dithiol mechanism employed by TRXs for intramolecular disulfide bond reduction of protein substrates. Unlike TRX, GRX has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. The flow of reducing equivalents in the GRX system goes from NADPH -> GSH reductase -> GSH -> GRX -> protein substrates. By altering the redox state of target proteins, GRX is involved in many cellular functions including DNA synthesis, signal transduction and the defense against oxidative stress. Different classes are known including E. coli GRX1 and GRX3, which are members of this subfamily.	4.34897e-13
NC_017449.1\|WP_014548422.1\|1135394_1136573_-\|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.	9.19034e-21
NC_017449.1\|WP_014548426.1\|1137991_1138348_-\|iron-sulfur-cluster-assembly-accessory-protein	gnl\|CDD\|223393	COG0316, sufA, Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones].	1.42647e-27
NC_017449.1\|WP_014548406.1\|1117418_1118273_-\|bifunctional-methionine-sulfoxide-reductase-B/A-protein	gnl\|CDD\|235499	PRK05550, PRK05550, bifunctional methionine sulfoxide reductase B/A protein; Provisional.	0
NC_017449.1\|WP_014548427.1\|1138368_1139592_-\|SufS-family-cysteine-desulfurase	gnl\|CDD\|131034	TIGR01979, Probable_cysteine_desulfurase, cysteine desulfurases, SufSfamily. This model represents a subfamily of NifS-related cysteine desulfurases involved in FeS cluster formation needed for nitrogen fixation among other vital functions. Many cysteine desulfurases are also active as selenocysteine lyase and/or cysteine sulfinate desulfinase. This subfamily is associated with the six-gene SUF system described in E. coli and Erwinia as an FeS cluster formation system during oxidative stress. The active site Cys is this subfamily resembles GHHC with one or both His conserved. [Biosynthesis of cofactors, prosthetic groups, and carriers, Other].	0
NC_017449.1\|WP_014548409.1\|1120960_1121713_+\|RNA-methyltransferase	gnl\|CDD\|349968	cd18095, SpoU-like_rRNA-MTase, SAM-dependent rRNA methylase related to SpoU-TrmH. RNA 2'-O ribose methyltransferase catalyzes the methyltransfer from S-adenosyl-L-methionine (AdoMet) to the 2'-OH group of ribose in tRNA or rRNA. It is part of the SpoU family of MTases, a subfamily of the SPOUT methyltransferase superfamily. The SPOUT methyltransferase superfamily is a large class of S-adenosyl-L-methionine (AdoMet or SAM)-dependent RNA MTases which are structurally characterized by a deep trefoil knot.	3.39718e-51
NC_017449.1\|WP_014548420.1\|1129527_1134468_-\|type-II-B-CRISPR-associated-RNA-guided-endonuclease-Cas9/Csx12	gnl\|CDD\|274401	TIGR03031, cas_csx12, CRISPR system subtype II-B RNA-guided endonuclease Cas9/Csx12. Members of this family of CRISPR-associated (cas) protein are found, so far, in CRISPR/cas loci in Wolinella succinogenes DSM 1740, Legionella pneumophila str. Paris, and Francisella tularensis, where the last probably is an example of a degenerate CRISPR locus, having neither repeats nor a functional Cas1. The characteristic repeat length is 37 base pairs and period is about 72. One region of this large protein shows sequence similarity to pfam01844, HNH endonuclease.	0
NC_017449.1\|WP_014548416.1\|1127641_1128226_-\|CRISPR-associated-protein-Cas4	gnl\|CDD\|273040	TIGR00372, conserved_hypothetical_protein, CRISPR-associated protein Cas4. This model represents a family of proteins associated with CRISPR repeats in a wide set of prokaryotic genomes. This scope of this model has been broadened since it was first built to describe an archaeal subset only. The function of the protein is undefined. Distantly related proteins, excluded from this model, include ORFs from Mycobacteriophage D29 and Sulfolobus islandicus filamentous virus and a region of the Schizosaccharomyces pombe DNA replication helicase Dna2p.	3.66997e-25
NC_017449.1\|WP_014548407.1\|1118402_1118879_+\|tryptophan-rich-sensory-protein	gnl\|CDD\|320706	cd15904, TSPO_MBR, Translocator protein (TSPO)/peripheral-type benzodiazepine receptor (MBR) family. This family contains tryptophan-rich translocator protein (TSPO), an integral membrane protein that is highly conserved from bacteria to mammals. In eukaryotes, it is mainly found in the outer mitochondrial membranes of steroid-synthesizing cells of the nervous system where it transports cholesterol into mitochondria. It is known to be highly expressed in metastatic cancer, steriodogenic tissues, as well as inflammatory and neurological diseases such as Alzheimer's and Parkinson's. TSPO is also known as the peripheral benzodiazepine receptor (MBR) and its ligands include benzodiazepine drugs, implicated in regulating apoptosis. In human, a single polymorphism A147T is associated with psychiatric disorders; the mutation causes structural changes in a region implicated in cholesterol binding. TSPO is homologous to bacterial tryptophan-rich sensory proteins, and their tryptophan residues are believed to be functionally important. In bacteria, TSPO acts as a negative regulator of expression of specific photosynthesis genes in response to oxygen/light; it catalyzes a photooxidative degradation of Proto porphyrine (PpIX). R. sphaeroides TSPO (RsTSPO) is involved in porphyrin transport, similar to human, while Arabidopsis translocator protein (AtTSPO) is regulated at multiple levels in response to salt stress and perturbations in tetrapyrrole metabolism.	2.33234e-43

>NC_017449.1|WP_014548414.1|1124048_1125131_-|radical-SAM-protein
MKNQLKWMAWETTRRCNLKCVHCRSSSDCEVLGHPDFSTEEGFRIIDSIAAFANPVLVLSGGEPLLRTDIFELAQYGANKGLRMALATNGSLVTDEICEKIKSSSINIVSLSIDGATAATHDDFRGQEGAFEATVNAAKLFKKHRIPFLINSSFTKRNQHEIKDVYKLAKSLEATAWYLFIIVPTGRGEELMQELIDIDDYQAILNWHYDMEADEQDMLVRPTCAPHYYRIRFERNKEDSAKVRSRALSFGTGGGKGCIAGQSICLLDVDGNVYPCSYLPVSAGNVKEKSFVEIWQNSDVMNHMRDFSAYEGKCGACEFIKICGGCRARAYNIHGSYLAEEPFCNHMPIRMRNTEEKIRS
>NC_017449.1|WP_014548413.1|1123803_1124052_-|glutaredoxin
MSNFKNIVLYRMVTPEKVCPYGLKAKALFEQKGWSFEDNHLKTRAETDAFKAKYNLQTTPLIFIDGKQIGGYSDLLEFLGEK
>NC_017449.1|WP_014548412.1|1123357_1123807_-|acyl-CoA-thioesterase
MNQQLKYFVLSTQVLPEHIDPNKHLNNIVYLQWMQDVAIAHVKANGVFELTESQGLTWFARKHTIEYLSQGFLGDDIAVVTWVESITKISTFRKYHIYRKSDKTLLCKADTLWVMVNAHRGKPAKIPTELVEIFDKYNDFEIDDIKSLI
>NC_017449.1|WP_014548411.1|1122988_1123342_+|hypothetical-protein
MSKCKTHQNHEHKHQDDCGHTKIKHGDHYDYLHDGHLHHEHNGHYDEHTLEITEKNPDGCHPIKEDCSKHIHGPNCGHEAVPHGDHIDYIVDGRLHHPHGDHCDDHGPVEVIQNDKK
>NC_017449.1|WP_044247633.1|1121809_1122778_+|linear-amide-C-N-hydrolase
MFKKIIVTPLIILSFLQFSFGCTWFSFENDKGHYFIGRTMEWPGDLNTKITLVPRGYKFADFTTHYGFVGMSHNGNFSDGINEYGLAVSALWLSSSKYSDKKDANYNIAMLLPYVLGNTKTVAQAVEFIKKNKFYTSVLPEISDKLEITLHFAISDAQGNSVVVEFINGKAKIYNNKIKVLTNDPTYDQQLELLKKYQGDKFKQDRLIAFDYSPAGRFAKMASFNATKANTPDDLTAVNHAWSMINTVDIPQGSLYWKWVSSQPQFTSYSVVDDLSNRVYYFRTWDNYDIRKVDLSKIDFAKAEYQADTIFGQANYQEFKFK
>NC_017449.1|WP_014548409.1|1120960_1121713_+|RNA-methyltransferase
MKNLSQKLYKEIKKLHSSQGRKKSLYYVIEGFRCAQEALKRLPQQQIIAILVTEKTDSPNYALDKKYIITEKDFEALSQTQNPQGILILAEKPNSQELNFDDDFILVLDRIQDPGNIGTILRTAIAVGLKEIILINGTVDPFNPKAIRAGMGAQFSLKFSYLETLADLKNISKLQQRKIWLTTPHQGVSCYAKEFKLANSILVFGEEANGIEDFSIGEKTMIPTLSDIESLNVAQAATIYLFEGLRQRLK
>NC_017449.1|WP_014548408.1|1118871_1120821_-|BCCT-family-transporter
MQREKGAYAPVFYPAIVIAIVLSLLGILVPTSFANNIQIIQNLILEKFGWAYILAMSFFVCLCLILMFSRFGDIKLGQDHELPEYTNISWFAMLFAAGMGIGLMFYGVAEPLNHFLTPPNLSPDSLETLKQAMNTTFFHWGIQAWSVYAVVGLSLAYFAYRHNLPLLPRSVLYPILGDKIYGVIGHGIDIFAILGTLFGVATSLGFGAMQVSSGMSFLTGIADTQNMQVIYIIIIVALATISVALGLDKGIKALSNLNIILAIVLLVFILFLGDTAGLIRDYIQNIGYYLSTIVNQTFNLYAYNQNNQEWLKKWTLFYWGWWIAWSPFVGMFIAKVSKGRTIRQFIIGVLFIPVGFTFLWMTVFGNSAIEIVMSTKAQELINAANNNIPVALFEFLQHFPFATILSILAVLLVVTFFVTSADSGALVIDILATGNAQTSITTQRIAWSVLSGLLAISLILAGGLQALQSATIISAFPLLFILFLMSISLIKSLRLDYLRIKSIQRHSTVVQYVKADTSWQKRLAAIAYKPSKTQAIEFLQQVVTPAVLEVASEMQKNAINSEVTKDDDHIQLTINIESGDDFIYSVMLRSYQTKADSDNNRVEVLLGHGGQYYDIIGYSKDQVIADIVNQYDKHLHYLHLAVADKDIIN
>NC_017449.1|WP_014548407.1|1118402_1118879_+|tryptophan-rich-sensory-protein
MKQFKITKLLSLALFIVVILAIGYFIGMITSINIPSWFTHLESPFFAPPNWVFAPVWTILYIMIAISGWLIFQQGQFKEKAFIVYAIQLGLNFLWSFIFFCWHNIDLALLEMSILWIFVIWNIIIFKHISKLAGYLLVPYLLWITFAWILNLSYAVLN
>NC_017449.1|WP_014548406.1|1117418_1118273_-|bifunctional-methionine-sulfoxide-reductase-B/A-protein
MLKTKSLTPHEYDIIINKATERPFTGRYNNLDQKGVYICRNCGTPLFRADSKFISTCGWPSYDIHIDNNVKQLPDADGRRTEILCNNCDGHLGHIFHGEGYTKLNTRYCVNSASVDFIPAEDFGNTEEIIVAAGCFWGVEYYMKKLPGVLFAESGYCGGSEPYPDYKKVCQGDTGYLEVVRVIFDTSKVSLQQVLKYFFEIHDFEQVDGQGPDIGEQYKSAIFYYDDKQKQVAEDLIQILAQKGYKVATEIRAMKPYYVAEDYHLDYYMKKGTLPYCHSHKKIF
>NC_017449.1|WP_014548405.1|1116219_1117422_+|multidrug-effflux-MFS-transporter
MYEIRKGSKYLIFFVVIFVALPPFAIDTYIPAFGNIANFFSVNLNKVSISVSTYLVGFGLGMFFWGALSDRFGRKKILTIGMLIYIVSTILCSLTHSFDTLIVMRFLQGLGDSPAAVAAMAVLKDCYRGQKLMKMMATMVMVFMLAPIVAPIIGSLIIYTTGSWQDIFHFLTIYGVILLILTLIMPETHPSYKRSKNLVISFKTYLKHFMNIPFIVGTLTGGLCFGALFSFITASSNLIIGYFHLGYTQYCILFGLNICGVVFASNYIRRRVTAHNQRKLILNGYYFAIIIIIINILSSYIFDNIYIFIFLNALLTIGLAFVNITTTSKVIDLLKEGFAAGNAVIRLVKFTVAGAAGFFLSFLSISKLMIGIPAQQLGFILVSISLFLLIKNRLFPNQHN
>NC_017449.1|WP_014548416.1|1127641_1128226_-|CRISPR-associated-protein-Cas4
MDIFDNDLSIPINLIRQWCFCPRVVYYQELLAIKPHKPLWVAQGEEFHKKVEHLEKRRNFSRYGLDNAIRHFNVTIKSQNYKLHGIVDWVLEADNNVYVVEYKTNPNPNSLGHKLQIAAYALLAQEYFAKPCKTTFLTSDKKSYEIKITDELITKLVKTVNDILNALDSGNKPDSSASDHQCIQCEYLNFCNDR
>NC_017449.1|WP_014548417.1|1128212_1128506_-|CRISPR-associated-endonuclease-Cas2
MQLRKEYLIAYDIEDNRTRTIIYKQLLAYGLKAVQKSVFWGHISIAELNAIKRLFANSLTISDKIFITRVNMQEQKLEYSFGYDDKTFKDWEEYGHI
>NC_017449.1|WP_014548420.1|1129527_1134468_-|type-II-B-CRISPR-associated-RNA-guided-endonuclease-Cas9/Csx12
MNIKILPIAIDLGAKNTGVFSAFYQKGTSLESLDNKNGKVYELSKDSYTLLMNNRTARRHQRRGIDRKQLVKRLFKLIWTKQLNLEWNKDTQQTISFLLNRRGFSFITDGYSPEYLNIAPEAVKAILMSILDDYNGEDDLDSYLQSATENDSKIDELYNKLLQKALEFKLRKLCIDIKEDKVTTKTLKELSNTEFKLLANYLVDYDRILRTQKFSYTDKQGNLRELNYYHHDKYNIQEFLKRNIIINDVILEKLTDDLDIWNLNFDKFDFEKNLEKLENQEDKDYLQTHLHHFVFAVNKIKSEMASGGRHRSQYFQEITNVLVENNHQEGYLKNFCENLHNKKYSNLSVKNLVNLIGNLSNLELKPLRKYFNDKIHAKADYWDEQKFAETYSDWILGEWRVGAKDKDKKDGAKYSYKNLCDELKQKVGINQDGIINQTKSDFVDFLLELDPCRTIPPYLDNNNRKPPKCQSLILNPKFLDNKYPNWQQYLQELKKLQTVQNYLGNFEIDLKDLKSSKEQPYFVKYKSLNQQIASGQRDYKDLDARVLQFIFDRVKASDELLLNEIYSHAKKLKQNTSSELEKLELCKKLDEVIANSQLSQILKSQHVNGIFEQGTFLHLVCKYYKQRQRARDSRLYIMPEYRYDKKLDKYNNTGRFDDDNQLLTYCNHKPRQKRYQLLNDLAGVLQVSPNFLKDKIGSDDDLFISKWLVEHIRGFKKACEDSLKIQKDNRGLLNHKINIARNTKGKCEKEIFNLICKIEGSEDKKGNYKHGLAYELGVLLFGEPNQASKLEFDRKIKKFNSIYSFAQIQQIAFAERKGNANTCAVCSADNAHRMQQIKVAKPVEGNKDNIILSAKAQRLPAIPTRIVDGAVKKIATILARNIVDDNWDNIKQALSNNQQLHVPIITESNAFEFEPALADIKGKSLKDKRKKALERIDPENVFKDKNNRIKEFAKGISAYSDANLANGDFDGAKEELDHIIPRSHKKYGTLNDEANLICVTREDNQNRGNKAVFLYDLKPNYKLKQFNTTDDLEIEKKIADTIWDASKQDFKFGNYRSFINLTPQEQIAFRHALFLADKNPIKKAVIRAIDNRNRTFVNGTQRYFAEVLANNIYLRAKKENLATNRITFDYFGIETTNSNGRGIADVRKLYEKVDSDIQAYAKGDKPQDSYSHLIDAMIAFCVAADEHKNEGSIGLKMGNQYGLFPTPDKYDENTGEIISWHNDDIFRKIKVSDNQFSDKKLVRKKATEGFNTHRQMTRDGIYGESYLPILIHKNLNEVRKGYNWENSEEIKIFKGKKYDIQQLNNLVYCLKFVDKPISIDIQITTLEELRNILETNNISTTAEYYYINLKTQKLHEYYIENYNTALGYKKYTKEMEFLRSLAYRTERVKIKSIDDVSMILAKDSNFKAGKIELPFKTEWQRLYLEWQNTTIKDNHEFLKSYFSVKNATKQHKKVRKDFSLPISTNEGKLLVKRKTWDNNFIYQILNDSDSRADGTKPFIPAFDISKNEIVETIIKSFTSKNIFWLPKNIELQKVDNKSIFAIDTSRWFEVETPKDLIEIGVSTIQYKIDNNSRPKVRVKLDYVMDDDSKINYFMNHSLLKSRYPDKVLEILKQSTIIEFESSGFNKTIKEMLGMTLAGIYNETSNN
>NC_017449.1|WP_014548422.1|1135394_1136573_-|OmpA-family-protein
MRLKSIVIATTVLLGSATASIAAGSDNMDTSANTNSATTQSTGFAANNFIAPFANTYSALTNKDNTWGPQDRTGQWYLGVDANGLAGTPNSPSGAGANFTIGYNVNKYFAVQYNQLVGRVFAGLGEGVVNFSNSTMFTPYAAGGAGWANLAGQATGAWDVGGGLKFELSRNVQASVDYRYIQTMAPSNISGANGRAGTNMIGAGLTWFFGGKDTTNNDTGNIQDNGATTAAQTVAMPTIDESKYVLPTGIKQCEGNFNLTEDGVACYTVNGDDVTVYLDTKFAYDKATLNAKGKKAIASFVKFIKDSNIGSVTVKGYASQGQTGGEFDIYNQKLSKKRAEAVADYMKQLGLDSEKIITKGFGYDDTLGGIPKSDPRNQRVEASVSAPLKEAN
>NC_017449.1|WP_014548423.1|1136675_1136921_-|YfhL-family-4Fe-4S-dicluster-ferredoxin
MALLITDECINCDICEPECPNEAISQGEEYYEIDPNKCTECVGHFDESQCTKVCPIRCIIIDPNNIETHQQLLEKYNNLVS
>NC_017449.1|WP_014548424.1|1136926_1137415_-|pantetheine-phosphate-adenylyltransferase
MNKIAIYPGTFDPITNGHVDLVDRALNIFDQIVVAVSTAYGKNTLFDIATREQIIKEVFKDNQRVKVVSFQGLLVDTAVKHNACAIVRGLRAVSDFDYEFQMSSMNNKLNSNIQTIFLTPSEKFSCISSTLVRAVAIHNYKRVDEFVPECVFREIKLKYSKE
>NC_017449.1|WP_014548425.1|1137426_1137978_-|putative-Fe-S-cluster-assembly-protein-SufT
MKPTDVTIIRRQVKAIAVPFGNEVELMPGQEVLVTQDKGGSFTLNVNGNLLHLDGKDADAIGKQIVRYPVEEYDIKPGDPINMDAIWDQMRTVYDPEIPVNIVDLGLIYNIITRKLDNGNFHVIIDMTLTAPGCGMGPVLMTDVEKRVAMLPNVDKVDVVMVFDPPWNSEMMTEAAKLELGLF
>NC_017449.1|WP_014548426.1|1137991_1138348_-|iron-sulfur-cluster-assembly-accessory-protein
MVEVFDPNASSVLEVTDAAAKHFKKHLEKHNGCIGIYVGTKVMGCSGLAYDVDFVKQQPEDTQKVQQHGISFFVSNKSMNFLNGLKIDYVKHDFGLYKLEYTNPNESARCGCGESFTV
>NC_017449.1|WP_014548427.1|1138368_1139592_-|SufS-family-cysteine-desulfurase
MYDVNKIRQDFPFLAQKINNKSVLFFDTGASAQKPRAVIEFIAEAYAYDYANVHRGVYSLSQEASEKYENVRKIVQKFLNSKSADEIVITKGTTEAINLVASSIGKGIIRSDDEIVVTEMEHHANFVPWQMLCEDKQLAFKVAAIKDNGELDVENLLALVTAKTKILAITLCSNVLGTINPVKEIIKQVRQINPNIIILVDGAQAVIHTKVDVQDLDCDFFVFSGHKLYGPTGVGVLYGKYELLKQLPPYNYGGDMVEEVTISKTTFALPPYRFEAGTPNIVGAIGLGRAIEYVDSIGMSNIEEHEQKLLEYATSELSKITGLTIIGQAKYKAGVITFNIEGCNAGDIGELLAIKGICVRTGKHCAHPLMYRMGVTSTVRMSFGMYNTFEEIDLFVIALKKVISQLK
>NC_017449.1|WP_014548428.1|1139693_1141067_-|L-serine-ammonia-lyase
MESTFELFSIGVGPSSSHTIGPMRAGCNFINLNKEKLPQTTRVKIDLFGSLALTGKGHKTDYAVVLGVMGFLPESVNIELAKKLYDDCLRNKKLNLGQKFEIDFDYDKDLVFHYNEFLPEHANGMCFSLFDGDELLCEKEYFSIGGGFIVDKKQIKKDTVPTEVPCDKPYKFSTMAELRELCQRDNKTIDEIMFENEKTAYGEQQSLDKLAEIWHVMETSIEKGLTCAEATLPGGLKVRKRAPSMIRKLKEQNIVNTDFNYLNAFAIAVNEQNACGERVVTAPTNGAAGVIPAVLKYYLQTHEIVNQQELKEVVNKYLLVCAAIGILYKSGASISAAEVGCQGEVGVACSMAAAGYCALLGGDLDSIESAAEIGMEHNLGLTCDPIGGLVQIPCIERNAMGAVQAINAAKLAYLDTGEKRFVGLDYVIKVMYETGLDMSSKYKETSLGGLATNVPVC

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Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity
NC_017449_2	2.6\|1126257\|34\|NC_017449\|CRISPRCasFinder,CRT	1126257-1126290	34	NZ_CP016905	Ralstonia solanacearum strain KACC 10709 plasmid unnamed1	2111623-2111656	7	0.794
NC_017449_2	2.6\|1126257\|34\|NC_017449\|CRISPRCasFinder,CRT	1126257-1126290	34	NZ_CP022791	Ralstonia solanacearum strain SL3103 plasmid unnamed, complete sequence	1040479-1040512	7	0.794
NC_017449_2	2.4\|1126113\|35\|NC_017449\|CRISPRCasFinder,CRT	1126113-1126147	35	MN694533	Marine virus AFVG_250M233, complete genome	18803-18837	8	0.771
NC_017449_2	2.18\|1127116\|36\|NC_017449\|CRISPRCasFinder,CRT	1127116-1127151	36	KT588073	Acinetobacter phage Ab105-3phi, partial genome	49791-49826	9	0.75
NC_017449_2	2.14\|1126832\|34\|NC_017449\|CRISPRCasFinder,CRT	1126832-1126865	34	CP048748	Buchnera aphidicola (Microlophium carnosum) isolate MCAR-56B plasmid pLeu, complete sequence	3194-3227	10	0.706
NC_017449_2	2.14\|1126832\|34\|NC_017449\|CRISPRCasFinder,CRT	1126832-1126865	34	KC954775	UNVERIFIED: Cronobacter phage S13, complete genome	170176-170209	11	0.676
NC_017449_2	2.14\|1126832\|34\|NC_017449\|CRISPRCasFinder,CRT	1126832-1126865	34	NC_028773	Cronobacter phage S13, complete genome	170176-170209	11	0.676

1. spacer 2.6|1126257|34|NC_017449|CRISPRCasFinder,CRT matches to NZ_CP016905 (Ralstonia solanacearum strain KACC 10709 plasmid unnamed1) position: , mismatch: 7, identity: 0.794

ctggtggaggcggtcaaactggcg-gcgagggtga	CRISPR spacer
ctggtcgaggcggtcaacctggcgctcgcgcatg-	Protospacer
***** *********** ******  ** * .**

2. spacer 2.6|1126257|34|NC_017449|CRISPRCasFinder,CRT matches to NZ_CP022791 (Ralstonia solanacearum strain SL3103 plasmid unnamed, complete sequence) position: , mismatch: 7, identity: 0.794

ctggtggaggcggtcaaactggcg-gcgagggtga	CRISPR spacer
ctggtcgaggcggtcaacctggcgctcgcgcatg-	Protospacer
***** *********** ******  ** * .**

3. spacer 2.4|1126113|35|NC_017449|CRISPRCasFinder,CRT matches to MN694533 (Marine virus AFVG_250M233, complete genome) position: , mismatch: 8, identity: 0.771

aataagcatttcaagatattttatttaatttttat	CRISPR spacer
cattacattatcaagatcttttattttatttttat	Protospacer
 ** *   * ******* ******** ********

4. spacer 2.18|1127116|36|NC_017449|CRISPRCasFinder,CRT matches to KT588073 (Acinetobacter phage Ab105-3phi, partial genome) position: , mismatch: 9, identity: 0.75

tgttactggttttgctgaaggtggttatactggcaa	CRISPR spacer
agatcaaggttttgctgaaggtggttatacaggtcg	Protospacer
 * *   *********************** **. .

5. spacer 2.14|1126832|34|NC_017449|CRISPRCasFinder,CRT matches to CP048748 (Buchnera aphidicola (Microlophium carnosum) isolate MCAR-56B plasmid pLeu, complete sequence) position: , mismatch: 10, identity: 0.706

tgccatacgatacagcatatatttcttttttaat	CRISPR spacer
ttgtatacgattcagtatatatttctttaccaca	Protospacer
*  .******* ***.************ ..*

6. spacer 2.14|1126832|34|NC_017449|CRISPRCasFinder,CRT matches to KC954775 (UNVERIFIED: Cronobacter phage S13, complete genome) position: , mismatch: 11, identity: 0.676

tgccatacgatacagcatatatttcttttttaat	CRISPR spacer
aatcatacgattcaacatatatttctttgcagga	Protospacer
 ..******** **.************* . ..

7. spacer 2.14|1126832|34|NC_017449|CRISPRCasFinder,CRT matches to NC_028773 (Cronobacter phage S13, complete genome) position: , mismatch: 11, identity: 0.676

tgccatacgatacagcatatatttcttttttaat	CRISPR spacer
aatcatacgattcaacatatatttctttgcagga	Protospacer
 ..******** **.************* . ..

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

91039 : 100972

Staphylococcus_phage(42.86%)

tRNA

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_014547427.1\|91039_92824_+	elongation factor 4	A0A2K9L6L3	Tupanvirus	4.2e-23	42.6
WP_014547428.1\|92839_93262_+	NUDIX domain-containing protein	NA	NA	NA	NA
WP_014547429.1\|93313_94390_+\|tRNA	tRNA 2-thiouridine(34) synthase MnmA	NA	NA	NA	NA
WP_014547430.1\|94406_95396_-	hypothetical protein	NA	NA	NA	NA
WP_080555288.1\|95489_96014_-	peptide deformylase	A0A067XQZ3	Caulobacter_phage	1.2e-15	37.5
WP_014547432.1\|96010_96454_-	6,7-dimethyl-8-ribityllumazine synthase	A0A2H4PQS3	Staphylococcus_phage	4.9e-26	45.7
WP_014547433.1\|96463_97675_-	3,4-dihydroxy-2-butanone-4-phosphate synthase	A0A2H4PQS2	Staphylococcus_phage	2.8e-87	44.3
WP_014547434.1\|97667_98273_-	riboflavin synthase	A0A2H4PQS5	Staphylococcus_phage	8.5e-29	36.6
WP_014547435.1\|98265_99333_-	bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase RibD	A0A1V0SE20	Indivirus	9.7e-52	36.2
WP_014547436.1\|99721_100972_+	sodium:proton antiporter	A0A2H4J178	uncultured_Caudovirales_phage	1.2e-13	28.4

DBSCAN-SWA_2

366747 : 375816

Enterococcus_phage(16.67%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_014547700.1\|366747_367614_+	bifunctional methylenetetrahydrofolate dehydrogenase/methenyltetrahydrofolate cyclohydrolase FolD	A0A249XZQ2	Enterococcus_phage	1.4e-29	38.4
WP_014547701.1\|367738_368782_+	phosphoribosylformylglycinamidine cyclo-ligase	A0A1D7SQF5	Cyanophage	3.5e-54	36.0
WP_014547702.1\|368781_371094_+	phosphoribosylamine--glycine ligase	A0A0M4JBD3	Mollivirus	1.8e-26	30.8
WP_014547703.1\|371097_371676_+	phosphoribosylglycinamide formyltransferase	E3SNR5	Prochlorococcus_phage	1.6e-21	35.8
WP_014547704.1\|371786_372278_+	5-(carboxyamino)imidazole ribonucleotide mutase	A0A2P0VNU7	Tetraselmis_virus	1.7e-19	40.5
WP_014547705.1\|372280_373378_+	5-(carboxyamino)imidazole ribonucleotide synthase	NA	NA	NA	NA
WP_014547706.1\|373374_373728_-	YraN family protein	NA	NA	NA	NA
WP_014547707.1\|373809_375816_-	M3 family metallopeptidase	A0A1V0SID3	Klosneuvirus	4.3e-53	26.4

DBSCAN-SWA_3

1007379 : 1045870

Escherichia_phage(15.79%)

plate,tail,terminase,tRNA,capsid,integrase,portal

attL 1024450:1024465|attR 1048331:1048346

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_014548283.1\|1007379_1008321_-\|tRNA	methionyl-tRNA formyltransferase	E3SNR5	Prochlorococcus_phage	4.4e-08	32.0
WP_044247356.1\|1008325_1008724_-	hypothetical protein	NA	NA	NA	NA
WP_014548285.1\|1008824_1010978_-	bifunctional 23S rRNA (guanine(2069)-N(7))-methyltransferase RlmK/23S rRNA (guanine(2445)-N(2))-methyltransferase RlmL	NA	NA	NA	NA
WP_014548286.1\|1011049_1011604_-	fatty acid hydroxylase	NA	NA	NA	NA
WP_014548287.1\|1012012_1012606_-	hypothetical protein	NA	NA	NA	NA
WP_014548288.1\|1012677_1013904_-\|tail	phage-related tail protein	A0A219YB01	Aeromonas_phage	2.5e-19	25.2
WP_044247358.1\|1013897_1014101_-\|tail	tail protein	Q8H9M2	Vibrio_phage	3.5e-11	58.9
WP_044247360.1\|1014097_1014514_-	hypothetical protein	NA	NA	NA	NA
WP_014548291.1\|1014516_1016340_-	hypothetical protein	A0A1J0GWA6	Alteromonas_phage	9.8e-20	31.4
WP_014548292.1\|1016460_1016730_-\|tail	phage tail assembly protein	NA	NA	NA	NA
WP_014548293.1\|1016742_1017222_-\|tail	phage major tail tube protein	K4I1G5	Acidithiobacillus_phage	8.0e-22	32.9
WP_014548294.1\|1017241_1018399_-\|tail	tail protein	V5YTI0	Pseudomonas_phage	5.7e-90	42.1
WP_014548295.1\|1018564_1018885_+	hypothetical protein	NA	NA	NA	NA
WP_014548296.1\|1018898_1019144_+	hypothetical protein	NA	NA	NA	NA
WP_014548297.1\|1019136_1019337_+	hypothetical protein	NA	NA	NA	NA
WP_014548298.1\|1019474_1020071_-\|plate	phage baseplate assembly protein V	A0A1B2LRU5	Wolbachia_phage	6.4e-21	36.7
WP_014548299.1\|1020060_1020552_-	hypothetical protein	NA	NA	NA	NA
WP_014548300.1\|1020548_1021049_-	hypothetical protein	NA	NA	NA	NA
WP_014548301.1\|1021029_1021365_-	hypothetical protein	NA	NA	NA	NA
WP_014548302.1\|1021364_1021556_-	hypothetical protein	NA	NA	NA	NA
WP_014548303.1\|1021636_1023439_-\|capsid	phage major capsid protein	D5LH01	Escherichia_phage	4.5e-102	36.9
WP_014548304.1\|1023401_1024823_-\|portal	phage portal protein	A0A193GYC1	Enterobacter_phage	1.1e-66	35.7
1024450:1024465	attL	NA	NA	NA	NA
WP_014548305.1\|1024822_1025089_-	hypothetical protein	NA	NA	NA	NA
WP_014548306.1\|1025304_1025637_-	DUF1353 domain-containing protein	NA	NA	NA	NA
WP_014548307.1\|1025611_1026163_-	DUF4376 domain-containing protein	NA	NA	NA	NA
WP_044247364.1\|1026176_1027181_-	hypothetical protein	NA	NA	NA	NA
WP_014548309.1\|1027190_1027778_-\|tail	phage tail protein I	NA	NA	NA	NA
WP_014548310.1\|1027779_1028625_-\|plate	phage-related baseplate assembly protein	A0A0M3LPQ9	Mannheimia_phage	7.5e-23	28.8
WP_044247366.1\|1028621_1028963_-	hypothetical protein	A0A088FV58	Escherichia_phage	6.3e-21	46.8
WP_014548312.1\|1029037_1029433_-	hypothetical protein	NA	NA	NA	NA
WP_044247369.1\|1029500_1030073_-	hypothetical protein	NA	NA	NA	NA
WP_014548314.1\|1030053_1031862_-\|terminase	phage terminase large subunit family protein	A0A193GYX7	Enterobacter_phage	3.3e-153	48.6
WP_014548315.1\|1031870_1033886_-	hypothetical protein	A0A220YLA0	Alteromonas_virus	1.2e-05	74.3
WP_014548316.1\|1033887_1034169_-	hypothetical protein	NA	NA	NA	NA
WP_014548317.1\|1034168_1034687_-	hypothetical protein	NA	NA	NA	NA
WP_014548318.1\|1034926_1035313_-	hypothetical protein	NA	NA	NA	NA
WP_014548319.1\|1035459_1036728_-\|integrase	site-specific integrase	A0A1B0VMI6	Pseudomonas_phage	1.1e-33	31.3
WP_044247371.1\|1036749_1037070_-	hypothetical protein	NA	NA	NA	NA
WP_014548321.1\|1037066_1037285_-	hypothetical protein	NA	NA	NA	NA
WP_044247373.1\|1037289_1037475_-	hypothetical protein	NA	NA	NA	NA
WP_044247374.1\|1037474_1037702_-	hypothetical protein	NA	NA	NA	NA
WP_014548322.1\|1037713_1038436_-	phage antirepressor	M1PS05	Streptococcus_phage	1.0e-41	60.5
WP_014548323.1\|1038437_1038800_-	hypothetical protein	A0A1W6JPZ1	Staphylococcus_phage	2.0e-09	41.3
WP_014548324.1\|1038796_1039099_-	hypothetical protein	NA	NA	NA	NA
WP_014548325.1\|1039205_1039463_-	hypothetical protein	NA	NA	NA	NA
WP_014548326.1\|1039472_1040111_-	hypothetical protein	NA	NA	NA	NA
WP_014548327.1\|1040110_1040833_-	Gp49-like protein	A9D9L3	Lactobacillus_prophage	3.9e-20	60.5
WP_014548328.1\|1040835_1041006_-	hypothetical protein	NA	NA	NA	NA
WP_014548329.1\|1041156_1041954_+	helix-turn-helix domain-containing protein	NA	NA	NA	NA
WP_123951806.1\|1041959_1042835_+	hypothetical protein	NA	NA	NA	NA
WP_123951808.1\|1042831_1043149_+	STAS-like domain-containing protein	NA	NA	NA	NA
WP_044247376.1\|1043123_1043486_+	hypothetical protein	NA	NA	NA	NA
WP_123951810.1\|1043541_1044318_+	hypothetical protein	NA	NA	NA	NA
WP_014548333.1\|1044348_1044741_+	PH domain-containing protein	A0A249Y2R5	Serratia_phage	2.2e-14	37.0
WP_014548334.1\|1044742_1045870_-\|integrase	site-specific integrase	G8C7S0	Escherichia_phage	4.3e-18	28.4
1048331:1048346	attR	NA	NA	NA	NA

DBSCAN-SWA_4

1095348 : 1104423

Alteromonas_phage(16.67%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_014548385.1\|1095348_1097121_+	ribonucleoside-diphosphate reductase subunit alpha	R4W390	Alteromonas_phage	3.0e-183	57.6
WP_014548386.1\|1097125_1097386_+	glutaredoxin	A0A2L0UZP1	Agrobacterium_phage	1.2e-11	41.3
WP_014548387.1\|1097392_1098625_+	ribonucleotide-diphosphate reductase subunit beta	Q678G9	Lymphocystis_disease_virus	1.5e-101	53.4
WP_014548388.1\|1098621_1100514_-	ATP-binding cassette domain-containing protein	A0A2K9L0W2	Tupanvirus	2.6e-68	33.9
WP_014548389.1\|1100624_1101227_+	DJ-1/PfpI family protein	NA	NA	NA	NA
WP_014548390.1\|1101231_1102287_+	DNA polymerase IV	F1C5A5	Cronobacter_phage	8.2e-11	21.8
WP_014548392.1\|1102867_1103437_-	hypothetical protein	NA	NA	NA	NA
WP_014548393.1\|1103457_1104423_-	transaldolase	I3ULK3	Synechococcus_phage	9.5e-14	33.8

Anti-CRISPR protein detection

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

Overview of predicted results

Overview of the results

Cas Category Instructions

Results visualization

1. NC_017449

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

Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection