CRISPRimmunity

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Overview of predicted results

Overview of the results

Contig_ID	Contig_def	CRISPR array number	Contig Signature genes	Target MGE spacer number	Prophage number
NC_003903	Streptomyces coelicolor A3(2) plasmid SCP1, complete sequence	1 crisprs	NA	4	0
NC_003888	Streptomyces coelicolor A3(2) chromosome, complete genome	7 crisprs	csa3,DEDDh,WYL,cas4,Cas9_archaeal,Cas14u_CAS-V,cas3,c2c9_V-U4,DinG	1	4
NC_003904	Streptomyces coelicolor A3(2) plasmid SCP2, complete sequence	0 crisprs	NA	0	0

Results visualization

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CRISPR-Cas detection and classification

Crispr_ID: NC_003903_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_003903_1

229589-229860

Orphan

I-E

Consensus_repeat	Method
CTGCTCCCCGCACCCGCGGGGATGGTCCC	CRISPRCasFinder

4 spacers

The CRISPR arrays of NC_003903_1

>merge|NC_003903|1|229589-229860|CRISPRCasFinder
CTGCTCCCCGCACTCGCGGGGATGGCCCCAACGTGGGGCGGGCGGGCATCTCAGGCCTTCGCTGTTCCCCGCACCCGCGGAGGTGGTCCTCCGGGTTCCGTACGACGTCGACCCGGTTACCCTGTTCCTCGCACCCGCGGGGATGGTCCCCTGTTGGGCCCCGCCCCCTGGACCGATGCCACCTGCTCCCCGCACCCGCGGGGATGGTCCCAGGGTGTGGGCCGTGACCGTGGACGAGACCGGCTGCTCCCCGCACCAGCGGGGATGGTCCC

>NC_003903|1|1|229589-229860|CRISPRCasFinder
CTGCTCCCCGCACTCGCGGGGATGGCCCC	AACGTGGGGCGGGCGGGCATCTCAGGCCTTCG
CTGTTCCCCGCACCCGCGGAGGTGGTCCT	CCGGGTTCCGTACGACGTCGACCCGGTTACC
CTGTTCCTCGCACCCGCGGGGATGGTCCC	CTGTTGGGCCCCGCCCCCTGGACCGATGCCAC
CTGCTCCCCGCACCCGCGGGGATGGTCCC	AGGGTGTGGGCCGTGACCGTGGACGAGACCGG
CTGCTCCCCGCACCAGCGGGGATGGTCCC

Protein	Signature genes	Signature genes Name	Protein_function
NC_003903.1\|NP_639830.1\|223999_224353_-\|hypothetical-protein	unknown	unknown	unknown
NC_003903.1\|NP_639824.1\|217464_217674_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|238042
NC_003903.1\|NP_639843.1\|238241_239240_+\|3-oxoacyl-ACP-synthase-III	unknown	unknown	gnl\|CDD\|236475
NC_003903.1\|NP_639840.1\|234673_235837_+\|enoyl-reductase,-mmye	unknown	unknown	gnl\|CDD\|240095
NC_003903.1\|NP_639839.1\|233950_234604_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|224996
NC_003903.1\|NP_639827.1\|219980_220502_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|368218
NC_003903.1\|NP_639831.1\|224349_227991_-\|DNA-polymerase-III-subunit-alpha	unknown	unknown	gnl\|CDD\|235554
NC_003903.1\|NP_639844.1\|239303_239552_+\|acyl-carrier-protein,-mmya	unknown	unknown	gnl\|CDD\|376348
NC_003903.1\|NP_639836.1\|231675_232200_-\|oxidoreductase,-mmyf	unknown	unknown	gnl\|CDD\|214900
NC_003903.1\|NP_639832.1\|228781_229135_+\|hypothetical-protein	unknown	unknown	unknown
NC_003903.1\|NP_639842.1\|237540_238245_+\|atp/GTP-binding-protein,-mmyx	unknown	unknown	gnl\|CDD\|379235
NC_003903.1\|NP_639841.1\|236409_237429_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|368545
NC_003903.1\|NP_639833.1\|229131_229518_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|350262
NC_003903.1\|NP_639829.1\|222644_223790_+\|plasmid-partitioning-protein,-parb2	unknown	unknown	gnl\|CDD\|275105
NC_003903.1\|NP_639835.1\|230262_230964_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|187575
NC_003903.1\|NP_639825.1\|217948_219094_-\|hypothetical-protein	unknown	unknown	unknown
NC_003903.1\|NP_639838.1\|232922_233864_+\|DNA-binding-protein,-mmyb	unknown	unknown	gnl\|CDD\|375319
NC_003903.1\|NP_639837.1\|232230_232692_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|379275
NC_003903.1\|NP_639828.1\|221484_222648_+\|plasmid-partitioning-protein,-para2	unknown	unknown	gnl\|CDD\|224113
NC_003903.1\|NP_639826.1\|219313_219700_-\|hypothetical-protein	unknown	unknown	unknown

Protein	Function_ID	Function_description	E-value
NC_003903.1\|NP_639824.1\|217464_217674_+\|hypothetical-protein	gnl\|CDD\|238042	cd00090, HTH_ARSR, Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to dissociate from DNA in the presence of metal ions.	0.000192123
NC_003903.1\|NP_639840.1\|234673_235837_+\|enoyl-reductase,-mmye	gnl\|CDD\|240095	cd04747, OYE_like_5_FMN, Old yellow enzyme (OYE)-related FMN binding domain, group 5. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as electron acceptors in the catalytic reaction. Other members of OYE family include trimethylamine dehydrogenase, 2,4-dienoyl-CoA reductase, enoate reductase, pentaerythriol tetranitrate reductase, xenobiotic reductase, and morphinone reductase.	0
NC_003903.1\|NP_639839.1\|233950_234604_+\|hypothetical-protein	gnl\|CDD\|224996	COG2085, COG2085, Predicted dinucleotide-binding enzymes [General function prediction only].	4.95463e-45
NC_003903.1\|NP_639827.1\|219980_220502_+\|hypothetical-protein	gnl\|CDD\|368218	pfam04978, DUF664, Protein of unknown function (DUF664). This family is commonly found in Streptomyces coelicolor and is of unknown function. These proteins contain several conserved histidines at their N-terminus that may form a metal binding site.	6.17976e-43
NC_003903.1\|NP_639831.1\|224349_227991_-\|DNA-polymerase-III-subunit-alpha	gnl\|CDD\|235554	PRK05673, dnaE, DNA polymerase III subunit alpha; Validated.	0
NC_003903.1\|NP_639844.1\|239303_239552_+\|acyl-carrier-protein,-mmya	gnl\|CDD\|376348	pfam00550, PP-binding, Phosphopantetheine attachment site. A 4'-phosphopantetheine prosthetic group is attached through a serine. This prosthetic group acts as a a 'swinging arm' for the attachment of activated fatty acid and amino-acid groups. This domain forms a four helix bundle. This family includes members not included in Prosite. The inclusion of these members is supported by sequence analysis and functional evidence. The related domain of the anguibactin system regulator AngR has the attachment serine replaced by an alanine.	9.98923e-09
NC_003903.1\|NP_639836.1\|231675_232200_-\|oxidoreductase,-mmyf	gnl\|CDD\|214900	smart00903, Flavin_Reduct, Flavin reductase like domain. This entry represents the FMN-binding domain found in NAD(P)H-flavin oxidoreductases (flavin reductases), a class of enzymes capable of producing reduced flavin for bacterial bioluminescence and other biological processes. This domain is also found in various other oxidoreductase and monooxygenase enzymes... This domain consists of a beta-barrel with Greek key topology, and is related to the ferredoxin reductase-like FAD-binding domain. The flavin reductases have a different dimerisation mode than that found in the PNP oxidase-like family, which also carries an FMN-binding domain with a similar topology.	2.86679e-50
NC_003903.1\|NP_639842.1\|237540_238245_+\|atp/GTP-binding-protein,-mmyx	gnl\|CDD\|379235	pfam13521, AAA_28, AAA domain.	0.00036325
NC_003903.1\|NP_639841.1\|236409_237429_+\|hypothetical-protein	gnl\|CDD\|368545	pfam05655, AvrD, Pseudomonas avirulence D protein (AvrD). This family consists of several avirulence D (AvrD) proteins primarily found in Pseudomonas syringae.	8.38198e-160
NC_003903.1\|NP_639833.1\|229131_229518_+\|hypothetical-protein	gnl\|CDD\|350262	cd18695, PIN_VapC-like, uncharacterized subfamily of the VapC (virulence-associated protein C)-like family of the PIN domain superfamily. VapC is the PIN-domain ribonuclease toxin from prokaryotic VapBC toxin-antitoxin (TA) systems. VapB is a transcription factor-like protein antitoxin acting as an inhibitor. Other members of the VapC-like nuclease family include FitB toxin of the FitAB TA system, eukaryotic ribonucleases such as Smg6, ribosome assembly factor NOB1, exosome subunit Rrp44 endoribonuclease and rRNA-processing protein Fcf1. The PIN domain belongs to a large nuclease superfamily. The structural properties of the PIN (PilT N terminus) domain indicate its active center, consisting of three highly conserved catalytic residues which coordinate metal ions, in some members, additional metal coordinating residues can be found. Some members of the superfamily lack several of these key catalytic residues. The PIN active site is geometrically similar in the active center of structure-specific 5' nucleases, PIN-domain ribonucleases of eukaryotic rRNA editing proteins, and bacterial toxins of toxin-antitoxin (TA) operons. Matelska et al. recently classified PIN-like domains into distinct groups; this subgroup includes some sequences belonging to one of these, PIN_13.	1.33208e-08
NC_003903.1\|NP_639829.1\|222644_223790_+\|plasmid-partitioning-protein,-parb2	gnl\|CDD\|275105	TIGR04285, parB-like_partition_protein, nucleoid occlusion protein. This model describes nucleoid occlusion protein, a close homolog to ParB chromosome partitioning proteins including Spo0J in Bacillus subtilis. Its gene often is located near the gene for the Spo0J ortholog. This protein bind a specific DNA sequence and blocks cytokinesis from happening until chromosome segregation is complete.	9.7503e-27
NC_003903.1\|NP_639835.1\|230262_230964_-\|hypothetical-protein	gnl\|CDD\|187575	cd05265, SDR_a1, atypical (a) SDRs, subgroup 1. Atypical SDRs in this subgroup are poorly defined and have been identified putatively as isoflavones reductase, sugar dehydratase, mRNA binding protein etc. Atypical SDRs are distinct from classical SDRs. Members of this subgroup retain the canonical active site triad (though not the upstream Asn found in most SDRs) but have an unusual putative glycine-rich NAD(P)-binding motif, GGXXXXG, in the usual location. 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. Atypical SDRs include biliverdin IX beta reductase (BVR-B,aka flavin reductase), NMRa (a negative transcriptional regulator of various fungi), progesterone 5-beta-reductase like proteins, phenylcoumaran benzylic ether and pinoresinol-lariciresinol reductases, phenylpropene synthases, eugenol synthase, triphenylmethane reductase, isoflavone reductases, and others. SDRs are a functionally diverse family of oxidoreductases that have a single domain with a structurally conserved Rossmann fold, an NAD(P)(H)-binding region, and a structurally diverse C-terminal region. Sequence identity between different SDR enzymes is typically in the 15-30% range; they catalyze a wide range of activities including the metabolism of steroids, cofactors, carbohydrates, lipids, aromatic compounds, and amino acids, and act in redox sensing. Classical SDRs have an TGXXX[AG]XG cofactor binding motif and a YXXXK active site motif, with the Tyr residue of the active site motif serving as a critical catalytic residue (Tyr-151, human 15-hydroxyprostaglandin dehydrogenase numbering). In addition to the Tyr and Lys, there is often an upstream Ser and/or an Asn, contributing to the active site; while substrate binding is in the C-terminal region, which determines specificity. The standard reaction mechanism is a 4-pro-S hydride transfer and proton relay involving the conserved Tyr and Lys, a water molecule stabilized by Asn, and nicotinamide. In addition to the Rossmann fold core region typical of all SDRs, extended SDRs have a less conserved C-terminal extension of approximately 100 amino acids, and typically have a TGXXGXXG cofactor binding motif. Complex (multidomain) SDRs such as ketoreductase domains of fatty acid synthase have a GGXGXXG NAD(P)-binding motif and an altered active site motif (YXXXN). Fungal type ketoacyl reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.	7.91193e-26
NC_003903.1\|NP_639837.1\|232230_232692_-\|hypothetical-protein	gnl\|CDD\|379275	pfam13577, SnoaL_4, SnoaL-like domain. This family contains a large number of proteins that share the SnoaL fold.	4.7028e-30
NC_003903.1\|NP_639843.1\|238241_239240_+\|3-oxoacyl-ACP-synthase-III	gnl\|CDD\|236475	PRK09352, PRK09352, beta-ketoacyl-ACP synthase 3.	4.90561e-148
NC_003903.1\|NP_639828.1\|221484_222648_+\|plasmid-partitioning-protein,-para2	gnl\|CDD\|224113	COG1192, Soj, ATPases involved in chromosome partitioning [Cell division and chromosome partitioning].	2.00128e-34
NC_003903.1\|NP_639838.1\|232922_233864_+\|DNA-binding-protein,-mmyb	gnl\|CDD\|375319	pfam17765, MLTR_LBD, MmyB-like transcription regulator ligand binding domain. This domain is found in a family of actinobacterial transcription factors. The structure shows it has a PAS domain like fold and it is bound to Myristic acid.	1.45223e-32

>NC_003903.1|NP_639833.1|229131_229518_+|hypothetical-protein
MIVEHYVLDNRTLLALGGNKQVSGLIHIAAGDPTVRLWVPIVCALEAERERAGIVDYLGILDVLHTLDADYAAAHSVADLYRRNVPFGVGAAVHATQPTLDRPDGAVVATVAPADYDGLEAPVLDLNR
>NC_003903.1|NP_639832.1|228781_229135_+|hypothetical-protein
MAPKQGLLKIADLTPGPVGIHGGILSGVDTTIKIGAETRDKLAALAEARNMSMRALIEEFAATALTPAQLRERAERTDAFLAAEFGHRVSDDEAGALRERMRQAQNAGQTRARGTAA
>NC_003903.1|NP_639831.1|224349_227991_-|DNA-polymerase-III-subunit-alpha
MRLHETALGGARLVADSFVHLHNHTEYSMLDGAQKLKPMFAEVDRQGMPAVAMSDHGNMFGAYEFQQVAKGFGSVKPIIGIEAYVAPSSRRNRRQEFWGPGGQRAVSDDGEGSKDVSGGGRFTHMTMWATGAQGLRNLFYMSTEASYTGQFPAGKPRMDMELIAEHAEGVVATTGCPSGAVQTRLRLNQYDEARQVASAYQDIFGKENYFLELMDHGLSIERDVREGLLRLARELSLPLLATNDAHYIHESQADAHDNLLCIGVGKNKADEKRFRFSGSGYYLKTAAEMRALFAELPEACDNTLLIAERVGSYDEVFDNVDEMPQFPDVPDGETQESWLRKEVLTGLAMRYGDPVPTEVLERFETEMSVIGPMGFSSYFLVVADICKYARDNGVPVGPGRGSATGSIVAYATRITELCPLEHGLLFERFLNPERINPPDVDLDFDDRQRDKMVRYVTEKYGDEYTAMVNTFGKIKAKNAIKDSSRILGYPFSHGERITKALPPDIMGKSIPLDGIFDPEHPRHGEAGEIRTMYENEPDVKTVIDTARGVEGLTRGTGVHAAAVILSKTRLTDRIPLHMRASDGVKITGFDYPSCENMGLVKMDFLGLRNLGVIDHAIENIRENRGVRLATVDPMDGDSGTVVIPLDDKKTFELLGRGDTFGVFQLDGGGMRALLKLMEPSRFEDIAAALALYRPGPMAANAHTNYALRQNGKQEPDPIHPELKEVLDPILGSTHHLLIFQEQIMAIARILAGYTLGGADMLRRAMGKKKPEVLAAEWEKFHDGMKANDYSEEAIKAIWDVMLPFSGYAFNKSHTAGYGLVSYWTAYLKANYPAEYMAALLTSVGDDKDKAGIYLADARKLGVTVLPPDVNESVAEFTAVGDDVRFGLRSVRNVGDNVIDTVITARKTKGKFTSFADFLDKADLPALNKRAVESLIKAGAFDSLGHTRRGLCAVHETAIDAVVPLKKAAAYGQDDLFAGLGGGTGDDGESGFGLDVRIDDGEWSRKQLLSTEREMLGMYVSAHPLDGTEHILAAHRDTTIPDLLASGRTEGTVRLSGLITGVQNKVTKQGNAWAIVNLADRDGTIEVLFFPAAYQLVLGALVEDSVISVQGRINDRDGAISIFGQELKVLDVTAAERNGAAPVQLAFPYHRVNEPMVSELRRIMGAHPGESPVHLFVRGPQKTTVYLLRSTVNAATIASDIKGSFGQDTWHGVA
>NC_003903.1|NP_639830.1|223999_224353_-|hypothetical-protein
MTDSEEINFRFDQVPPCARCGGEALLRVRFGHSWTNITGHLVEGFREADLCPACDSGTTPADDLLALFAVAERVPPTHLAEFGCRVVAWVESVRQPRVDMVRLRGEEDAHRHNGELP
>NC_003903.1|NP_639829.1|222644_223790_+|plasmid-partitioning-protein,-parb2
MSKADTLGSAPAFGAARGVRSSRRNLIDQTIAGEESTTAAITELPVTLISDNPDNPRNHLRNLDETVQSVREVGLIIPIAVATVDAYLRNRSDRAGDLDDGAQYIVVDGHRRLEAARRVGLATIPVRVDNGRVATDESLLEAAFVANYHREDMTDLEEAHALKSLVDYYGSQTKAAKRLGIPQNTISSKLSLLKLAPELQKDLVTGARKVEHVRNLGKLSAEEQRAKADERAEAARKKAETESRREVVERSAGPADYHGVIIPETSADQATALPVTASATSQASTPRPSAPTPATEREQAASEAIPEPRAGAGEPGPANAEAAEPKQPKRLPYDDAFYCVHHLHQKMTPETFVQGTRVWMDILRDQHPEAYKALLVELGAK
>NC_003903.1|NP_639828.1|221484_222648_+|plasmid-partitioning-protein,-para2
MASPYPDGDREKVASKLPSALQQALKVRAAELSLDIQDAVEAAINDWRHGTSGGAEVDTAGARSFSTWLPPGLYEQFKETCTDRGVSYTQGLAQSIRGWLDANPSPQHGARGTDPERKIVGNQKGGVGKTAISAGIGEAYAEAGKRVLIVDFDPQGHLSEQLGVPQIEPDHDSLVSHMCGDGSGDLRDLVVEIKDPRFEKRLHVLPACFDGFLLDAKIAVVAMQKRGFQKEAALELALRPLEADYDVIIVDCPPSLGIAMDAALYYGRRRRGEAAGGSGVVIPVLAEDSSATAYGMLAQQIEDLCEDLSLDIDYLGLVVNLYDSRRGYVATSSLDNWKSLGDPKVLAVIGDLKEQREAVRKRMPLLSYAPQSDQAEAMRQVARGATR
>NC_003903.1|NP_639827.1|219980_220502_+|hypothetical-protein
MRRPVNAELDALKGALDHQREHVLGILEGLSEKDLRRPVLPSGWSCLALVRHLTLDVERFWFPGVIAGEPDVTAQLAAGAEAHWYVPEGMGTEEVFADYRAAIARADAVLATATPEQEPAAWPVEIWPAWRLPDVRHILIHVLTEVACHSGHLDATRELIDGTTWLGGNPYAG
>NC_003903.1|NP_639826.1|219313_219700_-|hypothetical-protein
MNVTFCDRFSFDADSVHYAVELRAPALNARVDEVVAWIWDSDLTTFLEELAAEYRGWDGERIWQTNDRDLTLSAVFRSGGHVGLTWSLRPWPQAVGGWGASVTTWLEAGEQMTSLAADVRHFLTGEQP
>NC_003903.1|NP_639825.1|217948_219094_-|hypothetical-protein
MPSFPAGGHVIVFVCAGCGAELTAPLSQVALPAHAHQKYGNGVQLPVLMEPGTFAVESESESWRPSWPSWEKGAPDAADGPGIHASADGLLSGDAADSSVIAPGDTRGTVLIPEKSGGYCCGLDGADGPNMACEVCGLPVASRIEDCSLWQAVWLAPNTVRRHAIGDASPAPLPWADLTAGAMGTPPYEPITSWGGRHFGLYHRWSWSPRWEAAAGRGLAHLLAASGGRPVSVPHGLTAEVFQRALDALLSADGPPLHAALAGPNLPAPDTDADLLLVPEHPQTGETWAPAGGTLAYLVPLPLGVWLWLAFPEPHLPADPPPQVLPAELLRDDPLSPRPGHLFRIDAGVFRHTLLRLPAAGDPWLREVLENLPTYARTGLF
>NC_003903.1|NP_639824.1|217464_217674_+|hypothetical-protein
MDNSVERTAAELAELIGVPAPHFSRARRELEAAGYLECTHTMGQVKFFRLGEAASARQVVVPLLNRPTG
>NC_003903.1|NP_639835.1|230262_230964_-|hypothetical-protein
MDEADHVADVEVLLRCPADADGSFGHTGEDGSPTKYGFQKAGGERAVTEAFGDEAVFLRPGVILGPGEYVGRLPWWLERAQRGGRVLAPAPEEQRIQPVDVRDVAAFAVRLAAGAGRGAFNVTHPDGISFGDFLAECLRVTGSDGAPVWVDPAVLTEHGVKQWTEVPLWRTHAGVWAVDSRRAVEAGLRCRPIADTVRDAWEWWAGEGRPVDHPRPAEHGIAAEKEARILASL
>NC_003903.1|NP_639836.1|231675_232200_-|oxidoreductase,-mmyf
MATDVTTATAKPPLATIDSAHFRRVLGHFPTGVVVITAMADGEPAGLAVGSFASVSLDPPMVGFFPGKSSTSWPLVQRAGSFVVNVLGDHQQDVCRAFATSGGDKFTGIPWRRASNGAPALHDVIAWIECDIDTVTDAGDHWFVLGRVRDLALSTNTESPLLFFQGRYARVGAA
>NC_003903.1|NP_639837.1|232230_232692_-|hypothetical-protein
MTDQQLRDRYAIIELCTRMAWHLDHCEWDQLVDLFTDEIRLDYTSLNGGEPVTLPRKDVIGKWRSNREGLQATQHLLSNHLVTVDGATAHTTAMFQATHLLPNPFGGPTWTLGGEYRYGLVRTADGWRISALTMNILWADGNRHIRDLALQDG
>NC_003903.1|NP_639838.1|232922_233864_+|DNA-binding-protein,-mmyb
MASVDGVAKDSTVCSPKRQREALRHFLRSRRARLSPDDVGLLATGRRHTPGLRREEVAVIAGVSASWYTWLEQGRDIKVSDGVLNAISQALRLDDTERAHLYRLAGVNPPQSVPATAGQTETSRLQLIVDGWLPAPAFVVDRYWNTLAANQAARSALGVGAGDQNYLAAFFTEPTARARYLDWDKLATRLVGQFRVQAARFPEDPRFDRIARQLCATDHAFADLWARHETCDTAMTSVRVRPPGEESMRFEHLILALLENADLRLMLYMPRGAHISAEAGLRLVPADPLTRNSLLQLPGRPMTSRPVERHIHP
>NC_003903.1|NP_639839.1|233950_234604_+|hypothetical-protein
MTNTSTSLRIGVLGAGNIGRPIGRHWAVAGHEVAFGSRTPDQLTEFAGALRPAARATTLAEAVETSDVLLLSVPYSAWDDLLQAVGDRLAGKLVIDATNPMGLSEEGRIISTLDQGITQGRNSAKLLPEATVVRAFTHIMDELLWSRGTQQKHFWGMAYAGDDVDAKEVVARLIHDAGFSPVDLGGLDDSAALDPGGAIFPHMFTPADLRAAAGLSA
>NC_003903.1|NP_639840.1|234673_235837_+|enoyl-reductase,-mmye
MHVPSTAPPPATAAPLFGPFTVGSLALENRIVMAPMTRELSPGGVPGPEVAAYYARRARNGVGLIITEGAAIGHPSSERRAAVPRIHSADALAGWTRVTQAVHAAGGRIAAQLMHVGLDPLLWGMTPAEMDAASPAGFELLSPSGVDPSQPAAATVGREMSDVDISSVIEAYARAAAEARQAGFDAIELHAAHGYLIDQFFWAVTNRRKDRYGGDLSARTRFGADVVRACRHAVGEDFPIFLRFSQWKVGHYAARLADSPDELAAVLGPLVQAGVDAFHCSTRRFWQPEFEGSDLNLAGWTKKVTGRPVIAVGSVGLKDSDFLSYLDGKGADVGDVSVVADRLAQGEFDLVAVGRALIADPAWPAKVRGGRSADLIPFDARMLTSLH
>NC_003903.1|NP_639841.1|236409_237429_+|hypothetical-protein
MPVSGSLSQKLFHRSVDDVLGPRERRFFGEGFKRAEHRLRHIFVTYGPEGRAQADARVSVDYPSDWSRKGDADQRPHLSTVDVLVIGAQLSEVHLAHVLGLSPDQRARAVLQRVRIKAGRSPVEEDLAGFAASAQLVATIPSDRVVGLFLSTVECVVGTLRMRCEIRHEAGVPHQAAGSYDSLRGLLGDPRLRLFGEGFTSRRQLVEDVVIDPQARQAAAAVRVIRDEDAPSPATGLEGAHHDRASAIDAFVIGLQLGQVLLYTLDEVPRAQSNTLWMRETILELDPLRPPLPATAPVTTRLDRCKRLETGKGDIWRSADIVGEFLGVRLRCSVAHRLP
>NC_003903.1|NP_639842.1|237540_238245_+|atp/GTP-binding-protein,-mmyx
MNLAISGTYSVGKTLTTMAVSHLTGLPRSAAKTMRELLPISVPGKTLEECTASEIIMLIMRRNQERAVNESHLPRGFVSDGSSLHEWCYGTVRVLVGINPNDSVNLENVEMTDDIRFFSQVMDQMGVPAKQHAKASYNSFVHLPIEFPLVEDGHRPVNERFRSLADEMLLKVLDELQIPVHIVGGTIPERLQKIMDIYDFTPQMSIDEAITRAQEDYAKIDTTSETDRAPVAAA
>NC_003903.1|NP_639843.1|238241_239240_+|3-oxoacyl-ACP-synthase-III
MSGAGVLAGLGTALPARLVTNEELSRHLDTDDEWIRSRTGIGQRYWSDGASTGDLAVEAGQRALKAAGTDTVDLVVLATTTPDHPCPATAPDVADRLGLSGVAAYDIAAVCSGFIYGLASAVAHITAGLVGSALVIGAETYSTILDPLDRTTSVIFGDGAGAVVLRSGSVDERGAFLGFDLGSDGALKDLIVIPGGGSRERAAAERPQPAGAYFTMQGKPVFRHAVTRMTSSAGALLDRTGWSPASVDRFVGHQANARILHAVADQLRIDGARTVIDLDRVGNTSAASIPLALSRACGEGLLSPGDRVLLSAFGGGLTWGSTALLWPDITAL
>NC_003903.1|NP_639844.1|239303_239552_+|acyl-carrier-protein,-mmya
MTESTVARIIAIICEHFDTGDTEVSAATDFESLEFDSLVLVELAVILTREFGVEVTDDELADGRTIGEAAAVVARKSTALAR

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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_003903_1	1.1\|229618\|32\|NC_003903\|CRISPRCasFinder	229618-229649	32	NC_003903	Streptomyces coelicolor A3(2) plasmid SCP1, complete sequence	229618-229649	0	1.0
NC_003903_1	1.2\|229679\|31\|NC_003903\|CRISPRCasFinder	229679-229709	31	NC_003903	Streptomyces coelicolor A3(2) plasmid SCP1, complete sequence	229679-229709	0	1.0
NC_003903_1	1.3\|229739\|32\|NC_003903\|CRISPRCasFinder	229739-229770	32	NC_003903	Streptomyces coelicolor A3(2) plasmid SCP1, complete sequence	229739-229770	0	1.0
NC_003903_1	1.4\|229800\|32\|NC_003903\|CRISPRCasFinder	229800-229831	32	NC_003903	Streptomyces coelicolor A3(2) plasmid SCP1, complete sequence	229800-229831	0	1.0
NC_003903_1	1.2\|229679\|31\|NC_003903\|CRISPRCasFinder	229679-229709	31	CP054917	Streptomyces sp. NA02950 plasmid unnamed, complete sequence	67720-67750	5	0.839
NC_003903_1	1.4\|229800\|32\|NC_003903\|CRISPRCasFinder	229800-229831	32	NZ_CP015097	Pelagibaca abyssi strain JLT2014 plasmid pPABY7, complete sequence	51480-51511	6	0.812
NC_003903_1	1.1\|229618\|32\|NC_003903\|CRISPRCasFinder	229618-229649	32	MN304824	Catenulispora phage 69_17, complete genome	19687-19718	7	0.781
NC_003903_1	1.3\|229739\|32\|NC_003903\|CRISPRCasFinder	229739-229770	32	NZ_CP014599	Yangia sp. CCB-MM3 plasmid unnamed3, complete sequence	240892-240923	7	0.781
NC_003903_1	1.1\|229618\|32\|NC_003903\|CRISPRCasFinder	229618-229649	32	NZ_CP016621	Microvirga ossetica strain V5/3m plasmid unnamed5, complete sequence	46169-46200	9	0.719
NC_003903_1	1.2\|229679\|31\|NC_003903\|CRISPRCasFinder	229679-229709	31	NZ_CP027299	Streptomyces sp. SGAir0924 plasmid unnamed_5	132958-132988	9	0.71
NC_003903_1	1.4\|229800\|32\|NC_003903\|CRISPRCasFinder	229800-229831	32	NZ_CP047145	Streptomyces sp. HF10 plasmid plas1, complete sequence	9641-9672	9	0.719
NC_003903_1	1.4\|229800\|32\|NC_003903\|CRISPRCasFinder	229800-229831	32	NC_014007	Sphingobium japonicum UT26S plasmid pCHQ1, complete sequence	165860-165891	9	0.719
NC_003903_1	1.3\|229739\|32\|NC_003903\|CRISPRCasFinder	229739-229770	32	NC_017958	Tistrella mobilis KA081020-065 plasmid pTM3, complete sequence	1113315-1113346	10	0.688
NC_003903_1	1.4\|229800\|32\|NC_003903\|CRISPRCasFinder	229800-229831	32	NZ_CP015096	Pelagibaca abyssi strain JLT2014 plasmid pPABY8, complete sequence	24748-24779	10	0.688
NC_003903_1	1.4\|229800\|32\|NC_003903\|CRISPRCasFinder	229800-229831	32	NC_019411	Caulobacter phage CcrSwift, complete genome	99579-99610	10	0.688

1. spacer 1.1|229618|32|NC_003903|CRISPRCasFinder matches to NC_003903 (Streptomyces coelicolor A3(2) plasmid SCP1, complete sequence) position: , mismatch: 0, identity: 1.0

aacgtggggcgggcgggcatctcaggccttcg	CRISPR spacer
aacgtggggcgggcgggcatctcaggccttcg	Protospacer
********************************

2. spacer 1.2|229679|31|NC_003903|CRISPRCasFinder matches to NC_003903 (Streptomyces coelicolor A3(2) plasmid SCP1, complete sequence) position: , mismatch: 0, identity: 1.0

ccgggttccgtacgacgtcgacccggttacc	CRISPR spacer
ccgggttccgtacgacgtcgacccggttacc	Protospacer
*******************************

3. spacer 1.3|229739|32|NC_003903|CRISPRCasFinder matches to NC_003903 (Streptomyces coelicolor A3(2) plasmid SCP1, complete sequence) position: , mismatch: 0, identity: 1.0

ctgttgggccccgccccctggaccgatgccac	CRISPR spacer
ctgttgggccccgccccctggaccgatgccac	Protospacer
********************************

4. spacer 1.4|229800|32|NC_003903|CRISPRCasFinder matches to NC_003903 (Streptomyces coelicolor A3(2) plasmid SCP1, complete sequence) position: , mismatch: 0, identity: 1.0

agggtgtgggccgtgaccgtggacgagaccgg	CRISPR spacer
agggtgtgggccgtgaccgtggacgagaccgg	Protospacer
********************************

5. spacer 1.2|229679|31|NC_003903|CRISPRCasFinder matches to CP054917 (Streptomyces sp. NA02950 plasmid unnamed, complete sequence) position: , mismatch: 5, identity: 0.839

ccgggttccgtacgacgtcgacccggttacc	CRISPR spacer
ccgggttccatacgacgtcgacgcgttcgcc	Protospacer
*********.************ ** *..**

6. spacer 1.4|229800|32|NC_003903|CRISPRCasFinder matches to NZ_CP015097 (Pelagibaca abyssi strain JLT2014 plasmid pPABY7, complete sequence) position: , mismatch: 6, identity: 0.812

agggtgtgggcc---gtgaccgtggacgagaccgg	CRISPR spacer
---ctctgtgccgcggtgaccgtggacgagaccgg	Protospacer
    * ** ***   ********************

7. spacer 1.1|229618|32|NC_003903|CRISPRCasFinder matches to MN304824 (Catenulispora phage 69_17, complete genome) position: , mismatch: 7, identity: 0.781

aacgtggggcgggcgggcatctcaggccttcg	CRISPR spacer
ttgatagggcgggcgggcatctcaggcctcca	Protospacer
   .*.***********************.*.

8. spacer 1.3|229739|32|NC_003903|CRISPRCasFinder matches to NZ_CP014599 (Yangia sp. CCB-MM3 plasmid unnamed3, complete sequence) position: , mismatch: 7, identity: 0.781

ctgttgggccccgccccctggaccgatgccac	CRISPR spacer
gagctttgccccgcgccctggaccgatgccgc	Protospacer
  *.*  ******* ***************.*

9. spacer 1.1|229618|32|NC_003903|CRISPRCasFinder matches to NZ_CP016621 (Microvirga ossetica strain V5/3m plasmid unnamed5, complete sequence) position: , mismatch: 9, identity: 0.719

aacgtggggcgggcgggcatctcaggccttcg	CRISPR spacer
ctcatggcgcgggcgagcatctcaggcgactg	Protospacer
  *.*** *******.***********  ..*

10. spacer 1.2|229679|31|NC_003903|CRISPRCasFinder matches to NZ_CP027299 (Streptomyces sp. SGAir0924 plasmid unnamed_5) position: , mismatch: 9, identity: 0.71

ccgggttccgtacgacgtcgacccggttacc	CRISPR spacer
tccggtcccgtacgacgtcgacgcggcccga	Protospacer
.* ***.*************** ***..

11. spacer 1.4|229800|32|NC_003903|CRISPRCasFinder matches to NZ_CP047145 (Streptomyces sp. HF10 plasmid plas1, complete sequence) position: , mismatch: 9, identity: 0.719

agggtgtgggccgtgaccgtggacgagaccgg	CRISPR spacer
ctgctcgacgccgtgatcgtcgacgagaccgg	Protospacer
  * *  . *******.*** ***********

12. spacer 1.4|229800|32|NC_003903|CRISPRCasFinder matches to NC_014007 (Sphingobium japonicum UT26S plasmid pCHQ1, complete sequence) position: , mismatch: 9, identity: 0.719

agggtgtgggccgtgaccgtggacgagaccgg	CRISPR spacer
ctcgccggtgcctggaccgtggacgagaccgg	Protospacer
   *.  * ***  ******************

13. spacer 1.3|229739|32|NC_003903|CRISPRCasFinder matches to NC_017958 (Tistrella mobilis KA081020-065 plasmid pTM3, complete sequence) position: , mismatch: 10, identity: 0.688

ctgttgggccccgccccctggaccgatgccac	CRISPR spacer
accgcgcgccccggcccctggaccgaggcccg	Protospacer
 .  .* ****** ************ ***

14. spacer 1.4|229800|32|NC_003903|CRISPRCasFinder matches to NZ_CP015096 (Pelagibaca abyssi strain JLT2014 plasmid pPABY8, complete sequence) position: , mismatch: 10, identity: 0.688

agggtgtgggccgtgaccgtggacgagaccgg	CRISPR spacer
gagaccgaggccgagaccgaggacgagaccga	Protospacer
..*..  .***** ***** ***********.

15. spacer 1.4|229800|32|NC_003903|CRISPRCasFinder matches to NC_019411 (Caulobacter phage CcrSwift, complete genome) position: , mismatch: 10, identity: 0.688

agggtgtgggccgtgaccgtggacgagaccgg	CRISPR spacer
gccgcccggaccgtgacggtggacgagaccac	Protospacer
.  *. .**.******* ************.

Prophage detection

Region	Region Position	Protein_number	Hit_taxonomy	Key_proteins	Att_site	Prophage annotation

Anti-CRISPR protein detection

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

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Crispr_ID: NC_003888_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_003888_1

3660298-3660395

Orphan

Consensus_repeat	Method
GGTCCCGGACACCGACGCGGAGG	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_003888_1

>merge|NC_003888|1|3660298-3660395|CRISPRCasFinder
GGTCCCGGACACCGACGCGGAGGCGGACGGGGCGGACGTGGACGCGCTCGGGCCCGGGCTCGTCGACCCCGGCCCGGTCGCGGTCCCGGACACCGACG

>NC_003888|1|1|3660298-3660395|CRISPRCasFinder
GGTCCCGGACACCGACGCGGAGG	CGGACGGGGCGGACGTGGACGCGCTCGGGCCCGGGCTCGTCGACCCCGGCCC
GGTCGCGGTCCCGGACACCGACG

Protein	Signature genes	Signature genes Name	Protein_function
NC_003888.3\|NP_627528.1\|3669716_3670676_-\|porphobilinogen-deaminase	unknown	unknown	gnl\|CDD\|234612
NC_003888.3\|NP_627513.1\|3650704_3652006_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|378511
NC_003888.3\|NP_627522.1\|3663565_3663976_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|176874
NC_003888.3\|NP_627527.1\|3668022_3669720_-\|uroporphyrin-III-C-methyltransferase/uroporphyrinogen-III-synthase	unknown	unknown	gnl\|CDD\|376850
NC_003888.3\|NP_627524.1\|3665179_3666136_-\|dehydrogenase	unknown	unknown	gnl\|CDD\|176228
NC_003888.3\|NP_627515.1\|3656070_3657396_+\|acyltransferase	unknown	unknown	gnl\|CDD\|224748
NC_003888.3\|NP_627510.1\|3647354_3648548_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|376465
NC_003888.3\|NP_627520.1\|3661736_3661991_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|379419
NC_003888.3\|NP_733599.1\|3652258_3654001_-\|lysyl-tRNA-synthetase	unknown	unknown	gnl\|CDD\|234829
NC_003888.3\|NP_627519.1\|3661177_3661555_-\|hypothetical-protein	unknown	unknown	unknown
NC_003888.3\|NP_627509.1\|3646538_3647321_+\|oxidoreductase	unknown	unknown	gnl\|CDD\|187604
NC_003888.3\|NP_627511.1\|3648647_3649631_+\|hypothetical-protein	unknown	unknown	unknown
NC_003888.3\|NP_627517.1\|3658634_3659537_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|252734
NC_003888.3\|NP_627521.1\|3662049_3663042_-\|delta-aminolevulinic-acid-dehydratase	unknown	unknown	gnl\|CDD\|236450
NC_003888.3\|NP_627523.1\|3663972_3664890_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|281995
NC_003888.3\|NP_627514.1\|3654174_3655935_+\|arginyl-tRNA-synthetase	unknown	unknown	gnl\|CDD\|215160
NC_003888.3\|NP_627525.1\|3666264_3666957_+\|transcriptional-regulator	unknown	unknown	gnl\|CDD\|366102
NC_003888.3\|NP_627512.1\|3649763_3650615_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|378803
NC_003888.3\|NP_627516.1\|3657328_3658543_-\|aminotransferase	unknown	unknown	gnl\|CDD\|224089
NC_003888.3\|NP_627526.1\|3666979_3667756_-\|dehydrogenase	unknown	unknown	gnl\|CDD\|235546

Protein	Function_ID	Function_description	E-value
NC_003888.3\|NP_627528.1\|3669716_3670676_-\|porphobilinogen-deaminase	gnl\|CDD\|234612	PRK00072, hemC, porphobilinogen deaminase; Reviewed.	1.57935e-132
NC_003888.3\|NP_627513.1\|3650704_3652006_+\|hypothetical-protein	gnl\|CDD\|378511	pfam10935, DUF2637, Protein of unknown function (DUF2637). This family of proteins has no known function.	7.1123e-46
NC_003888.3\|NP_627527.1\|3668022_3669720_-\|uroporphyrin-III-C-methyltransferase/uroporphyrinogen-III-synthase	gnl\|CDD\|376850	pfam02602, HEM4, Uroporphyrinogen-III synthase HemD. This family consists of uroporphyrinogen-III synthase HemD EC:4.2.1.75 also known as Hydroxymethylbilane hydrolyase (cyclizing) from eukaryotes, bacteria and archaea. This enzyme catalyzes the reaction: Hydroxymethylbilane <=> uroporphyrinogen-III + H(2)O. Some members of this family are multi-functional proteins possessing other enzyme activities related to porphyrin biosynthesis, such as HemD with pfam00590, however the aligned region corresponds with the uroporphyrinogen-III synthase EC:4.2.1.75 activity only. Uroporphyrinogen-III synthase is the fourth enzyme in the heme pathway. Mutant forms of the Uroporphyrinogen-III synthase gene cause congenital erythropoietic porphyria in humans a recessive inborn error of metabolism also known as Gunther disease.	4.49139e-61
NC_003888.3\|NP_627524.1\|3665179_3666136_-\|dehydrogenase	gnl\|CDD\|176228	cd08267, MDR1, Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family. This group is a member of the medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family, but lacks the zinc-binding sites of the zinc-dependent alcohol dehydrogenases. The medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family, which contains the zinc-dependent alcohol dehydrogenase (ADH-Zn) and related proteins, is a diverse group of proteins related to the first identified member, class I mammalian ADH. MDRs display a broad range of activities and are distinguished from the smaller short chain dehydrogenases (~ 250 amino acids vs. the ~ 350 amino acids of the MDR). The MDR proteins have 2 domains: a C-terminal NAD(P)-binding Rossmann fold domain of a beta-alpha form and an N-terminal catalytic domain with distant homology to GroES. The MDR group contains a host of activities, including the founding alcohol dehydrogenase (ADH), quinone reductase, sorbitol dehydrogenase, formaldehyde dehydrogenase, butanediol DH, ketose reductase, cinnamyl reductase, and numerous others. The zinc-dependent alcohol dehydrogenases (ADHs) catalyze the NAD(P)(H)-dependent interconversion of alcohols to aldehydes or ketones. Active site zinc has a catalytic role, while structural zinc aids in stability. ADH-like proteins typically form dimers (typically higher plants, mammals) or tetramers (yeast, bacteria), and generally have 2 tightly bound zinc atoms per subunit. The active site zinc is coordinated by a histidine, two cysteines, and a water molecule. The second zinc seems to play a structural role, affects subunit interactions, and is typically coordinated by 4 cysteines.	9.68359e-97
NC_003888.3\|NP_627515.1\|3656070_3657396_+\|acyltransferase	gnl\|CDD\|224748	COG1835, COG1835, Predicted acyltransferases [Lipid metabolism].	1.34367e-34
NC_003888.3\|NP_627510.1\|3647354_3648548_-\|hypothetical-protein	gnl\|CDD\|376465	pfam01139, RtcB, tRNA-splicing ligase RtcB. This family of RNA ligases (EC:6.5.1.3) join 2',3'-cyclic phosphate and 5'-OH ends. They catalyze the splicing of tRNA and may also participate in tRNA repair and recovery from stress-induced RNA damage.	1.22741e-175
NC_003888.3\|NP_733599.1\|3652258_3654001_-\|lysyl-tRNA-synthetase	gnl\|CDD\|234829	PRK00750, lysK, lysyl-tRNA synthetase; Reviewed.	0
NC_003888.3\|NP_627522.1\|3663565_3663976_+\|hypothetical-protein	gnl\|CDD\|176874	cd08865, SRPBCC_10, Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins. Uncharacterized group of the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily. SRPBCC domains have a deep hydrophobic ligand-binding pocket and they bind diverse ligands. SRPBCC domains include the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of mammalian STARD1-STARD15, the C-terminal catalytic domains of the alpha oxygenase subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases (RHOs_alpha_C), Class I and II phosphatidylinositol transfer proteins (PITPs), Bet v 1 (the major pollen allergen of white birch, Betula verrucosa), CoxG, CalC, and related proteins. Other members of the superfamily include PYR/PYL/RCAR plant proteins, the aromatase/cyclase (ARO/CYC) domains of proteins such as Streptomyces glaucescens tetracenomycin, and the SRPBCC domains of Streptococcus mutans Smu.440 and related proteins.	0.00535884
NC_003888.3\|NP_627520.1\|3661736_3661991_+\|hypothetical-protein	gnl\|CDD\|379419	pfam14016, DUF4232, Protein of unknown function (DUF4232). This family of proteins is functionally uncharacterized. This family of proteins is found in bacteria. Proteins in this family are typically between 177 and 242 amino acids in length. Many members of this family are lipoproteins.	1.6188e-08
NC_003888.3\|NP_627517.1\|3658634_3659537_-\|hypothetical-protein	gnl\|CDD\|252734	pfam04672, Methyltransf_19, S-adenosyl methyltransferase. This family contains a SAM (S-adenosyl methyltransferase) domain, with a central beta sheet with 3 alpha-helices on both sides. Crystal packing analysis of the structure Structure 3giw suggests that a monomer is the solution state oligomeric form. An unidentified ligand (UNL, cyan) was found at the putative active site surrounded by the residues His57, His170, Phe171, Tyr216 and Met22. The UNL is likely to be a phenylalanine or phenylalanine-like molecule. (details derived from TOPSAN).	2.30889e-134
NC_003888.3\|NP_627521.1\|3662049_3663042_-\|delta-aminolevulinic-acid-dehydratase	gnl\|CDD\|236450	PRK09283, PRK09283, porphobilinogen synthase.	0
NC_003888.3\|NP_627523.1\|3663972_3664890_-\|hypothetical-protein	gnl\|CDD\|281995	pfam04075, F420H2_quin_red, F420H(2)-dependent quinone reductase. This family of proteins is found in the genera Mycobacterium and Streptomyces. Member protein Rv3547 has been characterized as a deazaflavin-dependent nitroreductase. Rv1558 is an F420H(2)-dependent quinone reductase involved in oxidative stress protection.	6.80466e-53
NC_003888.3\|NP_627514.1\|3654174_3655935_+\|arginyl-tRNA-synthetase	gnl\|CDD\|215160	PLN02286, PLN02286, arginine-tRNA ligase.	0
NC_003888.3\|NP_627525.1\|3666264_3666957_+\|transcriptional-regulator	gnl\|CDD\|366102	pfam00440, TetR_N, Bacterial regulatory proteins, tetR family.	1.42295e-10
NC_003888.3\|NP_627512.1\|3649763_3650615_+\|hypothetical-protein	gnl\|CDD\|378803	pfam12079, DUF3558, Protein of unknown function (DUF3558). This family of proteins is functionally uncharacterized. This protein is found in bacteria. Proteins in this family are typically between 177 to 195 amino acids in length.	2.22151e-06
NC_003888.3\|NP_627509.1\|3646538_3647321_+\|oxidoreductase	gnl\|CDD\|187604	cd05346, SDR_c5, classical (c) SDR, subgroup 5. These proteins are members of the classical SDR family, with a canonical active site tetrad and a typical Gly-rich NAD-binding motif. 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.	1.03581e-87
NC_003888.3\|NP_627516.1\|3657328_3658543_-\|aminotransferase	gnl\|CDD\|224089	COG1167, ARO8, Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism].	4.59613e-132
NC_003888.3\|NP_627526.1\|3666979_3667756_-\|dehydrogenase	gnl\|CDD\|235546	PRK05653, fabG, 3-oxoacyl-ACP reductase FabG.	7.64369e-59

>NC_003888.3|NP_627517.1|3658634_3659537_-|hypothetical-protein
MPGDALSQDPAELRRRIDSSKAHPARVYDVFLGGKDHYPADLAAAAAGLAANPRGYLDVRHNRDFLRRAVTALAREDGIRQFLDIGTGLPTAENVHQIAQRIAPESRVVYVDDDPVVLAHARALLTSGPEGRTDYIDADLKSPAQILEQAAATLDFDQPVALCLVAILHFVEDEEAYPIVRELMDALPAGSRLVLSHLTEDLNPENIRAVQRTYTERGFTFVLRSRKDVERFFTEAGLELAEPGVVPVHHWRPDHAAPVPEQPEESYLAGLDDIEKVRYRDINDVTDADINVYGGLGAKG
>NC_003888.3|NP_627516.1|3657328_3658543_-|aminotransferase
MTVTENVPAATASLPPLAARARSIGGSPVRDILAVTARPEVINFAGGLPAPELFDAEGIAAAYRDVLAETPARALQYSTTEGEPALRAALAARTSARGLATDADDILVTTGSQQALSLLATALLEPGDTVLVERPCYLAALQAFGFAGARVVAVPGDEHGIDPGALEELVVRERPKLLYTVPTFSNPTGRTVPAARRAAVAEVAGRCGLWIVEDDPYGELRFEGERVPWIASYEGARDRTVLLGSFSKVMAPGLRLGWLRAPAELRRACAVAKQAADLHTPTVNQLAAARYLADRDLDAHVARVAAVYGERRDAMLAGLADALPAGSVWTRPEGGMFLWARLPQGYDTTALLPEVVRHDVAYVPGAPFHAGEPDRATLRLCFVTQTPDEIAEGLRRLGEGLRAA
>NC_003888.3|NP_627515.1|3656070_3657396_+|acyltransferase
MRIGKASAGSKPADAPRGSVGQQAPRGRIGILDGLRLCAALMVVLYHYVAFGGGWEGSQAQLFPVLFRPSAYGWLGVELFFMISGFVICMSSWGRSVSHFFTSRVIRLFPAYWLAIAVTTAVVFFMPGGITPLPWRDLLVNLTMLQRPMGVDEVEGVYWTLWAEMRFYLLFALVVWRGVTYRRVVVFCCVWATAAVVAKRGEANPISDLVMAQDCWFFIAGLAFYLMYRFGQNLLLWGMIAFCFAMGNYTAMTTWRATLDNVGDNVPDWGVAVVLTVFFVTMAGVALGWFRRVDWRWLPTAGALTYPLYLLHESIGWEVFHRYQYTVNQWVLVGGTLAGVLVLSYLVHRLVEKPMSKRLKTGLAKAFDQIRAEGATHHERPPTPVGPVRPEPGPPGSGPPGSAPLPQGSGPDLDSPTRTLRLPAAPPPASAAPPRSRPVSG
>NC_003888.3|NP_627514.1|3654174_3655935_+|arginyl-tRNA-synthetase
MASVTSLSDSVQQHLASALTATRPEAAGADPLLRRSDRADYQANGILALAKKTKANPRELAAEVVARITTGDELIEDVEVSGPGFLNITVADRAITANLAARLADGERLGVPLKQDAGTTVVDYAQPNVAKEMHVGHLRSAVIGDALRSMLDFTGEKTIGRHHIGDWGTQFGMLIQYLFEHPGELAPAGDIDGEQAMSNLNRVYKASRAVFDTDEEFKERARRRVVALQSGDKETLDLWQQFVDESKVYFYSVFEKLDMEIRDEEIVGESAYNDGMPETARLLEEMGVAVRSEGALVVFFDEIRGKDDQPVPLIVQKADGGFGYAASDLTAIRNRVQDLHATTLLYVVDVRQSLHFRMVFETARRAGWLGDEVTAHNMGYGTVLGADGKPFKTRAGETVRLEDLLDEAVQRAAEVVREKARDLTEDEIQERAAQVGIGAVKYADLSTSPNRDYKFDLDQMVSLNGDTSVYLQYAYARIQSILRKAGEVRPAAHPELALHEAERALGLHLDAFGPTVFEAAAEYAPHKLAAYLYQLASLYTTFYDKCPVLKAETPEQVENRLFLCDLTARTLHRGMALLGIRTPERL
>NC_003888.3|NP_733599.1|3652258_3654001_-|lysyl-tRNA-synthetase
MPIVAQSTETTDWVSRFADEVIAESERRAPGKPGVVVASGLSPSGPIHLGNLREVMTPHLVADEVRRRGHEVRHLISWDDYDRYRKVPAGVPGVDESWAEHIGKPLTSVPAPKGSPHPNWAEHFKAAMVDSLAEMGVEFDGISQTAQYTSGVYREQILHAMKHRRDIDAILDQYRTKKAPAKKSQKPLDEAELEAAEGSGAAAEDDGSSGSAGYFPYKPYCGNCEKDLTTVTAYDDDSTELTYACTACGFSETVRLSEFNRGKLVWKVDWPMRWAYEGVVFEPSGVDHSSPGSSFQVGGQIVGIFGGEQPIGPMYAFVGISGMAKMSSSKGGVPTPADALKIMEPQLLRWLYARRRPNQSFKIAFDQEIQRLYDEWDRLDAKVADGSALPADAAAHARAVGTAAGELPRTPRPLPYRTLASVADITAGHEDQALRILGELDPANPIASLDEARPRYDKAEAWINTHVPADQRTIVRQEPDAELLKSLDEPSRQSLRLLLDGLADHWSLDGLTHHVYGVPKVQAGFPADATPKELPPEIKTAQRTFFALLYHLLVGRDTGPRLPTLLLAVGQDRVRTLLGE
>NC_003888.3|NP_627513.1|3650704_3652006_+|hypothetical-protein
MAAPLQLTRTHRVLIGLVVFGAVIIAGIGFAGSYAAVRELALKKGFGNFSYVFPIGIDAGICVLLALDLLLTWIRIPFPLLRQTAWLLTAATIAFNGAAAWPDPLGVGMHGVIPILFVVSVEAARHAIGRIADITADKHMEGVRLTRWLLSPVPTFLLWRRMKLWELRSYEQVIKLEQERLVYRARLRSRFGRAWRRKAPVESLMPLRLARYGVPLAQTGPAGLAAAGIEPALLPPVPRQLQETDPQAPAGEQRAELVKGPEADRPRPAEPSGPEGPSPQGAGEEDGPEQSPWFNTRQVAYQGGYDPSYDPGEQYAQWYEEQQQADEYRDQYEEEPPLQEPSPEETGSFPIPVVPGRTRELGEGAGPAEPAPTEEDYYTVFRKSIDGSYPTVAQFRGDVEATFGVPLAPREADRMVKAFSERHMRELQEEHIA
>NC_003888.3|NP_627512.1|3649763_3650615_+|hypothetical-protein
MQLRAQRDQRDPQAKRAKRLTRVLVGAAAVPVMLVAAGCSSDSGSDDGKDKAAEESAASKSASPSPTVKAAAYGKLPEPCSVVSKKTLDDLVPKADSGKEGSSNDTAMRAGCSWDSLDDNGVKGSQFRWLSVSMLRFESDVTRGEGEKLAHDYYLKQLKDAQPAQGAKSLKTAPVSRTGNEASVVSYDLKKKEGTFKQQTVVARVENVVVTLDFNGAGLAGDKTPDAGDLVKDAQKAAKEAVAAVMKANDTSAGGTPSGTPQGSGSPSKPASETSSKAPSKSS
>NC_003888.3|NP_627511.1|3648647_3649631_+|hypothetical-protein
MRYTLSPGDAPARQANNQRGHWSTDHSHTGERSRTVQRKAYVPGVAALLAALLAGCTGGSGGGATADDSNPGQPGVATEAAEPGKYRTLPEPCAVVGHKALDTLLPGIEEIADEEQRARAYSGEPTLAYDTDRKVGCRWKVESAEATDHLFVDFERVVSYDGSVSDAGEAEELFAQQVEAADLPEPVVSESGSAASDSPSGSPSSSSGKSGEPGESGEPAGGAGGTPSSSASAPSSSPSSSSTASPAEVQPRLLDDLGDEAFVDDALSSSGSTAKRRTVTVAFRTSNVMVTIEYAEQSATLGVVPDSEEMQDMARNLASQLADSLGG
>NC_003888.3|NP_627510.1|3647354_3648548_-|hypothetical-protein
MSYVEMPGAKVPIRMWADPATVEEGALQQLRNVATLPWIKGLAVMPDVHYGKGATVGSVIAMRGAVCPAAVGVDIGCGMSAVKTSLTANDLPGDLSRLRSKIEQAIPVGRGMHDSPLEPGRFHGLATGGWDDFWGRFDGVAEAVKFRHERAGKQMGTLGGGNHFVEVCTDTTGSVWLMLHSGSRNIGKELAEHHIGVAQKLPHNQGLVDRDLAVFVADTPQMAAYRNDLFWAQEYAKYNRTLMMALLKDVVRKEFKKAKPIFEQEISAHHNYVAEERYDGMDLLVTRKGAIRAGSGDFGIIPGSMGTGSYIVKGLGNAKSFNSASHGAGRRMSRNAAKRRFSTKDLEEQTRGVECRKDSGVVDEIPGAYKPIDQVIDQQRDLVEVVAKLKQVVCVKG
>NC_003888.3|NP_627509.1|3646538_3647321_+|oxidoreductase
MATAAAAPSAASRIAVVTGASSGIGAATARQLAAAGYRVVLTARRKDRIEALAGEIEAAGHKATAYPLDVTDREAVDEFATAFKTVGVLVNNAGGALGADPVATGDPDDWRRMYETNVIGTLNLTQALLPKLEASGDGTVVVVSSTAGLSTYEGGAGYVAAKHGEHVLAETLRLEIVGRPVRVVEIAPGMVKTDEFALTRFAGDQDKAAKVYQGVAAPLTADDVADTITWAVTRPAHVNIDLLVVRPRAQASNTKVHREA
>NC_003888.3|NP_627519.1|3661177_3661555_-|hypothetical-protein
MLEPEAEPEPEPDALSLPAEPFEAVDPFEPVEPVDSFEPVDPSTPFALPAGWTLFPSADAEAVESGAGEPVSSSPSQAVRESAASATVVAANRRVRVMRRADMEVLLRKWGVEASRSTVLRERLL
>NC_003888.3|NP_627520.1|3661736_3661991_+|hypothetical-protein
MPPVAKSSKPQSLTTLAPGESGYAGVRLSSGDGSGENGYDANTLTIPFEDGSIATVKLPSGGVYVDTALMVTYWQTDASNALEY
>NC_003888.3|NP_627521.1|3662049_3663042_-|delta-aminolevulinic-acid-dehydratase
MTTYGSFPGARPRRLRTTPVMRRMVAETRLHPADFILPAFVREGVSEPVPIAAMPGVVQHTRDTLKKAAAEAVEAGVSGIMLFGVPEDGKKDAAGTAGTDPDGILQVALRDVRAEVGDELLVMSDLCLDEFTDHGHCGVLDGQGRVDNDATLERYAEMAQVQADAGAHVVGPSGMMDGQIGVIRDALDQIGREDVAILAYTAKYASAFYGPFREAVGSSLKGDRKTYQQDSANARESLRELALDLEEGADMVMVKPAGPYLDILAKVAEASDVPVAAYQISGEYSMIEAAAEKGWIDRDRAILESLTGIKRAGARNILTYWATEVARTLR
>NC_003888.3|NP_627522.1|3663565_3663976_+|hypothetical-protein
MNSTGRASRHLGIHIDRTATDVYAYASDPANLPAWAHGLGGTIERVADAWIADSSPLGRVKVTFVPRNDLGVLDHHVTLPSGETVYNPVRVIADGTASEVVFTLRRQPGTTDADFERDAGMVAADLARLKELLESA
>NC_003888.3|NP_627523.1|3663972_3664890_-|hypothetical-protein
MPTSFHQSVIDEFRANEGKVGGPFEGGDLLLLTTTGARSGASRTTPLGYVRHGESLLVVGSNLGGPRHPGWYYNLLAHPLVRVEVGAAGFEALAVPAEGERREELFAHVVREAPGYGDYQAGTSRPLPVVVLEQAEPEEWVGRPREVRTLADKLVEVHTWLRGQLRQVRAEVEAHFAAPGAAGAPPSLGLQIRQRCLAFCQVLEFHHDSEDGHLFPGTARHHPRLAPVFDRLAEEHRTVARVQGELAALLAGVSVAEPGRFRRELAAMSAELNAHLDHEEEVLLPLLADVPWPPVAPSAGPPTAR
>NC_003888.3|NP_627524.1|3665179_3666136_-|dehydrogenase
MGEMKAVLFDRYGPPEVLYVGRRPVPAIGPDEVLVRVRAAGVNGGDLHDRTGKVRLVTGRAFPKGCGIDFAGEVAGVGASVRGVREGRRVWGLLGRRTGSMAEYVAVSPRRIAPAPDNLTPEEAVSLLAGATTALTALRDKAALQPGERLLVRGGSGGVGSVAVQVGRVLGARVVALAGGRNLDFVRGLGAEEALDHRTTALSALGRFDVVLDTVGTEQARVRRLLAPGGRMVAVAPDLDRPLAWLGTVLGSAVHGKGRIRFFSGNPDSALLAEAARLAEHGDIVPVVDTVHPLDGVADAQRALAAGGVRGKHVVRVR
>NC_003888.3|NP_627525.1|3666264_3666957_+|transcriptional-regulator
MPDQPSHNPAEHTTGEAPAPDALRADARRNRERVLEAAREVFSARGVDAPMSAVARRAGVGVATLYRRFPTRSSLVAAAFDDQLTVCAAAFDEALADPDPGHGLYTLLRKVCTTLVTDRGFETVFMAGFPASLDYDRERACAEERLAHLVRRARDAGRLREDFSPADIPLLLLAVSGLASQPPETAVPAAHRLLTYLFQSFQADPPPRPAPLPPAPTLDLSGLHRPAERP
>NC_003888.3|NP_627526.1|3666979_3667756_-|dehydrogenase
MTGLGRLDGKRTLVIGGGGAGIGRSIVRSCAAAGAAVAVADVDAARATEAADELRAAGHVAHALSGDVRSREQLEDVIVGAADRLGGLDVLITVVGGQVAFVPAVRLHEMADADWDTVYELNLRYVARAVRRVLRLFLEQGTGGNIVGIGSVTGFMAAPMQAGYGAAKAGLHSLARTVAAEYAADGIRMNVVAGGAISTAVNAGPSDAWVPEIPAGRYGTSEEMAAAAVYLASDESRYVTGQQIVLDGGVSVRGPFPE
>NC_003888.3|NP_627527.1|3668022_3669720_-|uroporphyrin-III-C-methyltransferase/uroporphyrinogen-III-synthase
MSPTTLPAGPEHGHVTFLGAGPGDPGLLTLRAVEALAHADVLVAEHEVLDVVRTHAKQGVSEVHTDADPSDPGTGAPQLTVVDGASTTFGAPAVRDAAHLVMEAARGGRRVVRAVTGDPGLDAYAAEEMLACAAAGVPFEVVPGIANAVGVPAYAGVPLRDAEGADVRFVDARTASDRCWTEVGASDGTVVVSTTLDSVAAAAGELVSAGRKPDTPLTVTIAGTTTRQRTWTATLGTVAQTLKQAKVLPSPDGGRPVIAVVGERSSAARRDQLSWFESKPLFGWKVLVPRTKEQAASLSDQLRSYGAVPSEVPTIAVEPPRTPQQMERAVKGLVTGRYEWIAFTSVNAVKAVREKFEEYGLDARAFAGIKVAAVGEQTANALIAFGVKPDLVPSGEQSAAGLLEDWPPYDPVFDPIDRVFLPRADIATETLVAGLIELGWEVDDVTAYRTVRASPPPATTREAIKGGGFDAVLFTSSSTVRNLVGIAGKPHNVTVIACIGPATAKTAEEHGLRVDVMSPEPSVTKLAEALADFGLRRRAAALEAGDPVTRPSERRPGSRRRRSST
>NC_003888.3|NP_627528.1|3669716_3670676_-|porphobilinogen-deaminase
MTEKALRLGTRRSKLAMAQSGQVADAVSQVTGRPVELVEITTYGDTSREHLAQIGGTGVFVAALRDALLRGEVDFAVHSLKDLPTAQHEGLVVAAIPEREDPRDVVVARDARKLTDLPRGARVGTGAPRRMAQLNAYARTHGMEIETVPIRGNVDTRIGYVRSGELDAVVLAAAGLNRVGRIDEVTDFLSVDTVLPAPGQGALAVECAADNASLIAALAELDDPFTRAAVTAERSLLAALEAGCSAPVGALADLLADGQTVKEMRLRGVVGTTDGSTLVQLSTTGPVPETHEAALALGGELAAEMLAQGAAGLMGERAQ

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Crispr_ID: NC_003888_2

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_003888_2

4589538-4589639

Orphan

Consensus_repeat	Method
TGGCGCAGGAGCAGCTACAGCAAC	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_003888_2

>merge|NC_003888|2|4589538-4589639|CRISPRCasFinder
TGGCGCAGGAGCAGCTACAGCAACTCAAGCGGTGGCAACTGCGTCGAGGTCTCCGACGATCTCCTCCGCGCTGCGGACTGGCGCAAGAGCAGCTACAGCAAC

>NC_003888|2|2|4589538-4589639|CRISPRCasFinder
TGGCGCAGGAGCAGCTACAGCAAC	TCAAGCGGTGGCAACTGCGTCGAGGTCTCCGACGATCTCCTCCGCGCTGCGGAC
TGGCGCAAGAGCAGCTACAGCAAC

Protein	Signature genes	Signature genes Name	Protein_function
NC_003888.3\|NP_628360.1\|4593680_4594349_+\|aerial-mycelium-formation-protein	unknown	unknown	unknown
NC_003888.3\|NP_733630.1\|4597039_4597225_-\|hypothetical-protein	unknown	unknown	unknown
NC_003888.3\|NP_628356.1\|4590560_4590998_+\|iron-uptake-regulatory-protein	unknown	unknown	gnl\|CDD\|133478
NC_003888.3\|NP_628357.1\|4591018_4591984_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|223431
NC_003888.3\|NP_628352.1\|4588683_4589526_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|379262
NC_003888.3\|NP_628355.1\|4589969_4590545_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|378046
NC_003888.3\|NP_628346.1\|4584934_4585840_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|237030
NC_003888.3\|NP_628362.1\|4595604_4596861_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|234945
NC_003888.3\|NP_628348.1\|4586585_4587461_+\|hypothetical-protein	unknown	unknown	unknown
NC_003888.3\|NP_628350.1\|4587871_4588123_-\|hypothetical-protein	unknown	unknown	unknown
NC_003888.3\|NP_628343.1\|4582547_4583216_-\|TetR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|188483
NC_003888.3\|NP_628359.1\|4592458_4593478_-\|transposase	unknown	unknown	gnl\|CDD\|366234
NC_003888.3\|NP_628347.1\|4585836_4586589_+\|hypothetical-protein	unknown	unknown	unknown
NC_003888.3\|NP_628351.1\|4588119_4588512_-\|hypothetical-protein	unknown	unknown	unknown
NC_003888.3\|NP_628361.1\|4594465_4595476_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|377601
NC_003888.3\|NP_628345.1\|4584105_4584870_+\|oxidoreductase	unknown	unknown	gnl\|CDD\|187600
NC_003888.3\|NP_628344.1\|4583237_4584065_+\|oxidoreductase	unknown	unknown	gnl\|CDD\|235546
NC_003888.3\|NP_628354.1\|4589845_4589944_+\|small-membrane-protein	unknown	unknown	unknown
NC_003888.3\|NP_628349.1\|4587480_4587828_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|224955
NC_003888.3\|NP_628358.1\|4592010_4592436_-\|D-tyrosyl-tRNA(Tyr)-deacylase	unknown	unknown	gnl\|CDD\|235383

Protein	Function_ID	Function_description	E-value
NC_003888.3\|NP_628356.1\|4590560_4590998_+\|iron-uptake-regulatory-protein	gnl\|CDD\|133478	cd07153, Fur_like, Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators. Ferric uptake regulator (Fur) and related metalloregulatory proteins are iron-dependent, DNA-binding repressors and activators mainly involved in iron metabolism. A general model for Fur repression under iron-rich conditions is that activated Fur (a dimer having one Fe2+ coordinated per monomer) binds to specific DNA sequences (Fur boxes) in the promoter region of iron-responsive genes, hindering access of RNA polymerase, and repressing transcription. Positive regulation by Fur can be direct or indirect, as in the Fur repression of an anti-sense regulatory small RNA. Some members sense metal ions other than Fe2+. For example, the zinc uptake regulator (Zur) responds to Zn2+, the manganese uptake regulator (Mur) responds to Mn2+, and the nickel uptake regulator (Nur) responds to Ni2+. Other members sense signals other than metal ions. For example, PerR, a metal-dependent sensor of hydrogen peroxide. PerR regulates DNA-binding activity through metal-based protein oxidation, and co-ordinates Mn2+ or Fe2+ at its regulatory site. Fur family proteins contain an N-terminal winged-helix DNA-binding domain followed by a dimerization domain; this CD spans both those domains.	4.18235e-32
NC_003888.3\|NP_628352.1\|4588683_4589526_+\|hypothetical-protein	gnl\|CDD\|379262	pfam13560, HTH_31, Helix-turn-helix domain. This domain is a helix-turn-helix domain that probably binds to DNA.	2.69597e-06
NC_003888.3\|NP_628355.1\|4589969_4590545_+\|hypothetical-protein	gnl\|CDD\|378046	pfam08768, DUF1794, Domain of unknown function (DUF1794). This domain forms a beta barrel structure but the function is unknown. The GO annotation for this protein indicates that the protein has a function in nematode larval development and has a positive regulation on growth rate.	3.73174e-59
NC_003888.3\|NP_628346.1\|4584934_4585840_+\|hypothetical-protein	gnl\|CDD\|237030	PRK12270, kgd, multifunctional oxoglutarate decarboxylase/oxoglutarate dehydrogenase thiamine pyrophosphate-binding subunit/dihydrolipoyllysine-residue succinyltransferase subunit.	0.000236058
NC_003888.3\|NP_628362.1\|4595604_4596861_+\|hypothetical-protein	gnl\|CDD\|234945	PRK01346, PRK01346, enhanced intracellular survival protein Eis.	2.30928e-172
NC_003888.3\|NP_628343.1\|4582547_4583216_-\|TetR-family-transcriptional-regulator	gnl\|CDD\|188483	TIGR03968, transcriptional_regulator_TetR_family, mycofactocin system transcriptional regulator. Members of this family are TetR family putative transcriptional regulators that occur in genome contexts near proteins of the mycofactocin system. These include the precursor peptide (TIGR03969), a radical SAM peptide maturase (TIGR03962), and a putative carrier protein (TIGR03967). [Regulatory functions, DNA interactions].	1.81047e-16
NC_003888.3\|NP_628359.1\|4592458_4593478_-\|transposase	gnl\|CDD\|366234	pfam00665, rve, Integrase core domain. Integrase mediates integration of a DNA copy of the viral genome into the host chromosome. Integrase is composed of three domains. The amino-terminal domain is a zinc binding domain pfam02022. This domain is the central catalytic domain. The carboxyl terminal domain that is a non-specific DNA binding domain pfam00552. The catalytic domain acts as an endonuclease when two nucleotides are removed from the 3' ends of the blunt-ended viral DNA made by reverse transcription. This domain also catalyzes the DNA strand transfer reaction of the 3' ends of the viral DNA to the 5' ends of the integration site.	1.01127e-24
NC_003888.3\|NP_628357.1\|4591018_4591984_+\|hypothetical-protein	gnl\|CDD\|223431	COG0354, COG0354, Predicted aminomethyltransferase related to GcvT [General function prediction only].	1.04908e-52
NC_003888.3\|NP_628361.1\|4594465_4595476_+\|hypothetical-protein	gnl\|CDD\|377601	pfam06089, Asparaginase_II, L-asparaginase II. This family consists of several bacterial L-asparaginase II proteins. L-asparaginase (EC:3.5.1.1) catalyzes the hydrolysis of L-asparagine to L-aspartate and ammonium. Rhizobium etli possesses two asparaginases: asparaginase I, which is thermostable and constitutive, and asparaginase II, which is thermolabile, induced by asparagine and repressed by the carbon source.	3.74502e-141
NC_003888.3\|NP_628345.1\|4584105_4584870_+\|oxidoreductase	gnl\|CDD\|187600	cd05341, 3beta-17beta-HSD_like_SDR_c, 3beta17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs. This subgroup includes members identified as 3beta17beta hydroxysteroid dehydrogenase, 20beta hydroxysteroid dehydrogenase, and R-alcohol dehydrogenase. These proteins exhibit the canonical active site tetrad and glycine rich NAD(P)-binding motif of the classical SDRs. 17beta-dehydrogenases are a group of isozymes that catalyze activation and inactivation of estrogen and androgens, and include members of the SDR family. 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 have a 3-glycine N-terminal NAD(P)(H)-binding pattern (typically, TGxxxGxG in classical SDRs and TGxxGxxG in extended SDRs), while substrate binding is in the C-terminal region. A critical catalytic Tyr residue (Tyr-151, human 15-hydroxyprostaglandin dehydrogenase (15-PGDH) numbering), is often found in a conserved YXXXK pattern. 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) or additional Ser, contributing to the active site. Substrates for these enzymes include sugars, steroids, alcohols, and aromatic compounds. The standard reaction mechanism is a proton relay involving the conserved Tyr and Lys, as well as Asn (or Ser). Some SDR family members, including 17 beta-hydroxysteroid dehydrogenase contain an additional helix-turn-helix motif that is not generally found among SDRs.	2.58154e-116
NC_003888.3\|NP_628344.1\|4583237_4584065_+\|oxidoreductase	gnl\|CDD\|235546	PRK05653, fabG, 3-oxoacyl-ACP reductase FabG.	1.28677e-64
NC_003888.3\|NP_628349.1\|4587480_4587828_-\|hypothetical-protein	gnl\|CDD\|224955	COG2044, COG2044, Predicted peroxiredoxins [General function prediction only].	1.62753e-14
NC_003888.3\|NP_628358.1\|4592010_4592436_-\|D-tyrosyl-tRNA(Tyr)-deacylase	gnl\|CDD\|235383	PRK05273, PRK05273, D-tyrosyl-tRNA(Tyr) deacylase; Provisional.	2.42175e-79

>NC_003888.3|NP_628352.1|4588683_4589526_+|hypothetical-protein
MPQRRAITGRSQEPRARFAEELRLLRNGRGVSLRGVAEVVGWDASQFGKMEHGHTLGGPEIVEALDQYYGTGGMLLTLWELAVADPTQFREQYRRYMILEAEAISLWYYAVSAPPGLLQTAGYAREALAAGWLTVPELEQQVEARLGRRQLLEGDTPPPFRVILSEAVLRTLLRDMGAWREQLTHLVEMSERANITLHVLPFSAGRHGLTNTDVMFLRLPNGRVVAYIENDLRGELVEENASVELLQRRYDSTRDLALSPAESREFILRTLEEAPCEPST
>NC_003888.3|NP_628351.1|4588119_4588512_-|hypothetical-protein
MRTEPATYEPGTVLYDTAAAKVGEYRGRSGARVLLRPLGGGREWEAEPPVLRPATDRERLGASLRAANDRTLATPPAPAELERPPLPVPGCEACAWLAERRETARAAFDHSAVTDANVLLRQHQRKEHEG
>NC_003888.3|NP_628350.1|4587871_4588123_-|hypothetical-protein
MTYDGGLPYEECRRAQRLAPRRDRAPLSPGFAMPPFHPDHPPRPAPRHKARSRRRAGLDGATVSGLLTVLCVATLLVTITFAV
>NC_003888.3|NP_628349.1|4587480_4587828_-|hypothetical-protein
MIKVTAGADAPERCSQAFTVAAVAVASGVDVSLWLTGESAWFAVPGRAAEFELPHAAPLPDLLDSLLAGGRVTLCTQCAARRDLTEKDVIEGVRIAGAQVFVQEALADDTQALVY
>NC_003888.3|NP_628348.1|4586585_4587461_+|hypothetical-protein
MTEQAEQAEQPAQPSMEPDIAPPVAEPAAAAVPPPVRKDRRILRGVLRWTAAVAVFAAVGSATAYGVTGMDRTDVPGLATRTDGRWTYPELTAPPLPTGSPRPFARTNPAGTHYADLRKLVLPAPEGAEPDKRLRGKDGWLATDEFLKEYGDTSEQDELRQLFVDYGLRHIAAHGWTTSDGTHTRVYLLHFDTAAVVDELRNSHLASYSEPAYAVRGTDLSFPDEKFPTEAVSDDLYYSVYVEPEPYGAEQVRQAYLGAGDVLAVVLQTRKGGAAAVPFQQTVALQSRLLG
>NC_003888.3|NP_628347.1|4585836_4586589_+|hypothetical-protein
MSGQRTRRGRATAAAGGLLLAVVVGAVGYTVDTVKDADRASGAPVWTPPGAPTDDEKEAPATGLSGALVPYRSDGWTRGPDLGEFGADAALTGAHAAALTKESLSDLPRSQRKELEKEIDRLHITGVAMRSYATTGGLHSGEQTGAATLSIVLTRMDRRAARSGASDRNEAFESLEVFEAGPSIKGHKNARCYRLPGESDEELDVMFCTASQGDVLVSATAEGVRPFGAEGVAALLTEQLDRLGETGVAV
>NC_003888.3|NP_628346.1|4584934_4585840_+|hypothetical-protein
MCAHTERALHVLWGDVMEEEPARPAAPAAPTPPDAPQTAAAPEPPPVDEAAPVDEAAPDAAAGGSRRRGRTTLLIAAAAVLGLVAGTCTGVLVQAGREPTKLPPLSQAALTRGEGAAPKPLPADQDRRVRTDGDLRELLLKKPRGAREIEWLDGVDGWMDLATYVGTFGSPSEQFSEYVHDDFRRAAVTRWKTGATRTVEIRLIQFHQEEVLSALEGSDTGRHWAGWGREDDTDRWPVPGTGDGEVFVHNRPESVDGSPPLYSAEAHAWRGDIEMEIWMADTERIGKDQIMDLARRQMERL
>NC_003888.3|NP_628345.1|4584105_4584870_+|oxidoreductase
MHDLTGKNVIITGGARGLGAEAARQAVAAGAHVLITDVLDDDGENAARELGDRARFLHHDVTSEEDWSRAADFAVTEFGALHGLVNNAGISTGTPLESESVDHFRKVLDVNLTGVFIGMKTVVPALKEAGGGSIVNISSAAGLMGLALTAGYGASKWGVRGLTKIGAVEWGTARVRVNSVHPGMTYTPMTAAVGIERGEGKYPNTPMGRVGEADEIAGAVVFLLSDAASYVTGAELAVDGGWTTGPTVAYVMGQ
>NC_003888.3|NP_628344.1|4583237_4584065_+|oxidoreductase
MPLRRTVTDMDMNYAHRYEGRRALVTGGGSGIGQATVLRLLAEGGSVVAADVSEPGLKDTVEKAGAHAERLTTLVVDIADETSVREGVRAATEALGGLDVLVNAAGILRSSHTGQTSLADFTRVLTVNLVGTFLVIREAVPALLEGRDAAVVNFSSTSAAFAHPYMAAYAASKGGIQSMTHALAAEYAGRGIRFTAVQPGSISSGMTDGSGASGQSVGPGLPEDADMALFAKLSPALGRGFAGPETVASVVAMLASEDGRFITGTEVRVDGGTHF
>NC_003888.3|NP_628343.1|4582547_4583216_-|TetR-family-transcriptional-regulator
MPPGGRRPYASRVSNEPPPPTLTERRKAATQLDIAHAAAELFATRGPEATTAEEIARRAGVALRTFYRYFRSKQDAVGPLLTDGADRWRALLAEAPPGSALGPALRGAVEQALATPDPQAVEALLRTRGLLRAAADDPALRAVWYRVNQESEELLVPVIARLTDGHRDPLEVRLVAAAATDAIRIALETWSGTEAATEGPDSPADLAVRCLRSLLGAGDDTP
>NC_003888.3|NP_628354.1|4589845_4589944_+|small-membrane-protein
MEIFFEALLVLVCVGVLAFAGLTVKKLYQGQR
>NC_003888.3|NP_628355.1|4589969_4590545_+|hypothetical-protein
MIEIPSDLHKDLVPLVFLLGDWAGAGVHDFPGAEKCNFGQEVSFTHDGRDFLEYQSHTWVLDNDGNKVRPLESEHGFWRIDANRKVEVTMTRDDGVIEIWYGELADQKPQIDLVTDAVARTAASQPYTGGKRLYGYVKSDLMWVGEKQTPEVELRPYMSAHLKKVVTPEDVERWAKALPDDMPDDGIAFFK
>NC_003888.3|NP_628356.1|4590560_4590998_+|iron-uptake-regulatory-protein
MVSTDWKSDLRQRGYRLTPQRQLVLEAVDTLEHATPDDILGEVRKTASGINISTVYRTLELLEELGLVSHAHLGHGAPTYHLADRHHHIHLVCRDCTNVIEADLSVAADFTAKLREQFGFDTDMKHFAIFGRCESCSLKGSTTDS
>NC_003888.3|NP_628357.1|4591018_4591984_+|hypothetical-protein
MKSPLLSLPGAVPAEGVDEGVAAHYGDLFREQRALADGTGFVDLSHRGVLAVTGDDRLSWLHLLLTQHVSDLPAGQATEALILSANGHIEHALYLVDDGTTVWAHVEPGSQEALIAYLESMKFFYRVEVADRTADTALVHLPAGSIAQAPASAVVRETPYGRDLFLPREELEAFAAQAGPAAGILAHEALRVEQHRPRLGFETDHRTIPHELGWIGTAVHLQKGCYRGQETVARVQNLGKPPRRLVFLHLDGSEVHLPPNGAEIRLADDGPDGRKIGFVTTSVRHHELGPVALALVKRNVPVDARLMAEETAAAQETVVEP
>NC_003888.3|NP_628358.1|4592010_4592436_-|D-tyrosyl-tRNA(Tyr)-deacylase
MRAVVQRVDGASVVVDGETVGAIDGEGLCVLVGVTHDDTKEKAAQLARKLWSVRILHDEKSCSDLDAPLLVISQFTLYGDARKGRRPTWNAAAPGDVAEPLVDEVVAQLRALGATVATGRFGAQMRVSLTNDGPFTVLVEV
>NC_003888.3|NP_628359.1|4592458_4593478_-|transposase
MGEGLQVRCGLRHLHRVQEALVVHRNAPLTETGRLRLARCVVEDGWPVRRAAERFQVSHTTASRWARRYRQLGVTGMSDRSSRPHHQPRRTAAAVEEHVLRLRREHRIGPLRLAVRCGIAASTAHRILVRHGLPPLAALDRATGEPVRRYERARPGELVHIDVKKLGRIPDGGGHKTLGRAEGHRSRTNGAGWAYLHTALDDHSRIAYTEDLPDETAPTCAAFLVRATAYFASLGIRIERVLTDNAWAYSKNTWRNTCRDLDISPRWTRPWRPQTNGKVERFHRTLLDEWAYQKPYTSDHERREAFTHWLHWYNYHRPHTGIGGHTPASRGTNLSEQHT
>NC_003888.3|NP_628360.1|4593680_4594349_+|aerial-mycelium-formation-protein
MSTPSTGRSFGTAALTCPSGRGGPSGPAGLGGLEAPRAPVQRTDSPELPADAPQGDLTALSLPELRTLRRDAQREEADLSYVRRLLQGRIDILRAELAGRGPATPSSSVVTTAATGSVVERLSEILADAPARQRSSARHVTLATPRSEECRRLAAEMMGEVELSDLTARTDVELTAGMGRLVRYEQQVSRSRQRLQRTADGCSAEIARRYREGEAQVDDLLV
>NC_003888.3|NP_628361.1|4594465_4595476_+|hypothetical-protein
MQPSHPSQPSHADRAAPTSALAPVVPPVLAEVVRSGFVEGRHRGSLVVLGADGAVELALGEVTAPVFPRSSNKPMQAAGVLRAGLDLAGERLALAAASHSGEPFHRDLVRKMLDEYGLDPALLQCPPDLPLDAEERETYLASGAEPDRVTMNCSGKHTAMLAVCAQQGWPLETYLDPEHPLQRVIHRVVEDAAGEPVAAVGTDGCGAPLMAISLVGLARAFRSFVAAEPGSAERRVADAMRAHPEYVAGSRRADTWLMREVPGSLSKMGAEAVQAVALPDGRALAFKIEDGATRALGPVLARALTLLGVDAPVVGRIGRAPLLGGGREVGEIRASF
>NC_003888.3|NP_628362.1|4595604_4596861_+|hypothetical-protein
MSRRTEIDVRPITEAEFPDWNRALNTGFLRPPAVAEEQLEARRNEFVPGRSLGAFDGDRCVATFRSFDQELTAVGGGLVRADAVSNVTVTATHRRRGLLTRMMAQDLAAAKERGDVVATLIAAEYRIYGRYGFGPATSMTEWAVDVPRAGLDPRWAAPEDGGRIDLVDGADVRRLGPELHERLRRAQPGAVSRTELWWRYRTGVIDWNGSPWTEPCYALYRSADGEVEGMASYRTDDRWGDAKQPLNTATVDWLLAVTPAAERALWHYLCSIDWVQTVKSGWRSPDDLLPHLLPDPRAARITTQADWLWVRILDVARALEARTYEGQGSVVLEVVDRGGLTGGRWRLEAGPDGASCAPTTESAHFVLDVGDLAALWLGDESAVRLAALGRVREERAGAARVVDALLRTSRRPWCPDMF
>NC_003888.3|NP_733630.1|4597039_4597225_-|hypothetical-protein
MPLIAIVVAALAIGFEQLVQWKYGPMGIIAFVALSIGIKAKNTMIGGVGAVILVMLLAQSG

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Crispr_ID: NC_003888_3

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_003888_3

5867793-5867949

Orphan

Consensus_repeat	Method
GCGGCCTCGGTGCGCAGCCGCTCG	CRISPRCasFinder

2 spacers

The CRISPR arrays of NC_003888_3

>merge|NC_003888|3|5867793-5867949|CRISPRCasFinder
GAAGCCTCCGAGCGCAGCCGTACGGCGACGGCCTCGCCCTCCGCGCGGGAGGCGGACGCGTCCGCGGCGGCCTCGGTGCGCAGCCGCTCGGCCTCCGTCTCGGCCTGCTGCTGGAGGGTACGGACCCGCTCCGCGGCCTCGGTGCGCAGCCGCTCGC

>NC_003888|3|3|5867793-5867949|CRISPRCasFinder
GAAGCCTCCGAGCGCAGCCGTACG	GCGACGGCCTCGCCCTCCGCGCGGGAGGCGGACGCGTCCGCG
GCGGCCTCGGTGCGCAGCCGCTCG	GCCTCCGTCTCGGCCTGCTGCTGGAGGGTACGGACCCGCTCC
GCGGCCTCGGTGCGCAGCCGCTCGC

Protein	Signature genes	Signature genes Name	Protein_function
NC_003888.3\|NP_629526.1\|5854719_5857344_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|236090
NC_003888.3\|NP_629541.1\|5874399_5875173_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|377032
NC_003888.3\|NP_629531.1\|5860493_5861363_-\|ABC-transporter	unknown	unknown	gnl\|CDD\|372253
NC_003888.3\|NP_629533.1\|5862779_5863556_-\|ABC-transporter	unknown	unknown	gnl\|CDD\|372253
NC_003888.3\|NP_629546.1\|5878758_5879418_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|376704
NC_003888.3\|NP_629530.1\|5860152_5860485_+\|ATP/GTP-binding-protein	unknown	unknown	unknown
NC_003888.3\|NP_629543.1\|5875962_5877399_+\|two-component-sensor-kinase	unknown	unknown	gnl\|CDD\|223715
NC_003888.3\|NP_629537.1\|5870022_5870463_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|213772
NC_003888.3\|NP_629534.1\|5863552_5864593_-\|ABC-transporter-ATP-binding-protein	unknown	unknown	gnl\|CDD\|213235
NC_003888.3\|NP_629528.1\|5858396_5858789_+\|hypothetical-protein	unknown	unknown	unknown
NC_003888.3\|NP_629545.1\|5877985_5878762_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|224924
NC_003888.3\|NP_629539.1\|5871854_5872811_+\|transport-system-kinase	unknown	unknown	gnl\|CDD\|224617
NC_003888.3\|NP_629544.1\|5877407_5877884_-\|transcriptional-regulator	unknown	unknown	gnl\|CDD\|197670
NC_003888.3\|NP_629540.1\|5873152_5874457_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|340863
NC_003888.3\|NP_629535.1\|5864668_5865601_-\|cellulose-binding-protein	unknown	unknown	gnl\|CDD\|274008
NC_003888.3\|NP_629529.1\|5858867_5859896_-\|alkanal-monooxygenase	unknown	unknown	gnl\|CDD\|366009
NC_003888.3\|NP_629527.1\|5857444_5858200_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|235114
NC_003888.3\|NP_629532.1\|5861359_5862631_-\|ABC-transporter-ATP-binding-protein	unknown	unknown	gnl\|CDD\|213235
NC_003888.3\|NP_629542.1\|5875297_5875966_+\|two-component-system-response-regulator	unknown	unknown	gnl\|CDD\|223816
NC_003888.3\|NP_629538.1\|5870612_5871818_+\|acetyl-CoA-acetyltransferase	unknown	unknown	gnl\|CDD\|180261

Protein	Function_ID	Function_description	E-value
NC_003888.3\|NP_629526.1\|5854719_5857344_+\|hypothetical-protein	gnl\|CDD\|236090	PRK07764, PRK07764, DNA polymerase III subunits gamma and tau; Validated.	5.33517e-06
NC_003888.3\|NP_629541.1\|5874399_5875173_-\|hypothetical-protein	gnl\|CDD\|377032	pfam03413, PepSY, Peptidase propeptide and YPEB domain. This region is likely to have an protease inhibitory function (personal obs:C Yeats). This model is likely to miss some members of this family as the separation from signal to noise is not clear. The name is derived from Peptidase & Bacillus subtilis YPEB.	7.01616e-09
NC_003888.3\|NP_629531.1\|5860493_5861363_-\|ABC-transporter	gnl\|CDD\|372253	pfam12679, ABC2_membrane_2, ABC-2 family transporter protein. This family is related to the ABC-2 membrane transporter family.	0.00562229
NC_003888.3\|NP_629546.1\|5878758_5879418_-\|hypothetical-protein	gnl\|CDD\|376704	pfam01987, AIM24, Mitochondrial biogenesis AIM24. In eukaryotes, this domain is involved in mitochondrial biogenesis. Its function in prokaryotes in unknown.	9.14239e-42
NC_003888.3\|NP_629533.1\|5862779_5863556_-\|ABC-transporter	gnl\|CDD\|372253	pfam12679, ABC2_membrane_2, ABC-2 family transporter protein. This family is related to the ABC-2 membrane transporter family.	0.000169164
NC_003888.3\|NP_629543.1\|5875962_5877399_+\|two-component-sensor-kinase	gnl\|CDD\|223715	COG0642, BaeS, Signal transduction histidine kinase [Signal transduction mechanisms].	3.03986e-47
NC_003888.3\|NP_629537.1\|5870022_5870463_-\|hypothetical-protein	gnl\|CDD\|213772	TIGR03081, Methylmalonyl-CoA_epimerase_mitochondrial, methylmalonyl-CoA epimerase. Members of this protein family are the enzyme methylmalonyl-CoA epimerase (EC 5.1.99.1), also called methylmalonyl-CoA racemase. This enzyme converts (2R)-methylmalonyl-CoA to (2S)-methylmalonyl-CoA, which is then a substrate for methylmalonyl-CoA mutase (TIGR00642). It is known in bacteria, archaea, and as a mitochondrial protein in animals. It is closely related to lactoylglutathione lyase (TIGR00068), which is also called glyoxylase I, and is also a homodimer.	1.03599e-51
NC_003888.3\|NP_629534.1\|5863552_5864593_-\|ABC-transporter-ATP-binding-protein	gnl\|CDD\|213235	cd03268, ABC_BcrA_bacitracin_resist, ATP-binding cassette domain of the bacitracin-resistance transporter. The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance. Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multi-enzyme complex BcrABC. Bacitracin has potent antibiotic activity against gram-positive bacteria. The inhibition of peptidoglycan biosynthesis is the best characterized bacterial effect of bacitracin. The bacitracin resistance of B. licheniformis is mediated by the ABC transporter Bcr which is composed of two identical BcrA ATP-binding subunits and one each of the integral membrane proteins, BcrB and BcrC. B. subtilis cells carrying bcr genes on high-copy number plasmids develop collateral detergent sensitivity, a similar phenomenon in human cells with overexpressed multi-drug resistance P-glycoprotein.	2.24825e-95
NC_003888.3\|NP_629532.1\|5861359_5862631_-\|ABC-transporter-ATP-binding-protein	gnl\|CDD\|213235	cd03268, ABC_BcrA_bacitracin_resist, ATP-binding cassette domain of the bacitracin-resistance transporter. The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance. Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multi-enzyme complex BcrABC. Bacitracin has potent antibiotic activity against gram-positive bacteria. The inhibition of peptidoglycan biosynthesis is the best characterized bacterial effect of bacitracin. The bacitracin resistance of B. licheniformis is mediated by the ABC transporter Bcr which is composed of two identical BcrA ATP-binding subunits and one each of the integral membrane proteins, BcrB and BcrC. B. subtilis cells carrying bcr genes on high-copy number plasmids develop collateral detergent sensitivity, a similar phenomenon in human cells with overexpressed multi-drug resistance P-glycoprotein.	5.96558e-94
NC_003888.3\|NP_629545.1\|5877985_5878762_-\|hypothetical-protein	gnl\|CDD\|224924	COG2013, COG2013, Uncharacterized conserved protein [Function unknown].	2.24968e-07
NC_003888.3\|NP_629544.1\|5877407_5877884_-\|transcriptional-regulator	gnl\|CDD\|197670	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein.	1.14855e-13
NC_003888.3\|NP_629540.1\|5873152_5874457_+\|hypothetical-protein	gnl\|CDD\|340863	cd06173, MFS_MefA_like, Macrolide efflux protein A and similar proteins of the Major Facilitator Superfamily of transporters. This family is composed of Streptococcus pyogenes macrolide efflux protein A (MefA) and similar transporters, many of which remain uncharacterized. Some members may be multidrug resistance (MDR) transporters, which are drug/H+ antiporters (DHAs) that mediate the efflux of a variety of drugs and toxic compounds, conferring resistance to these compounds. MefA confers resistance to 14-membered macrolides including erythromycin and to 15-membered macrolides. It functions as an efflux pump to regulate intracellular macrolide levels. The MefA-like family belongs 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.	4.95716e-25
NC_003888.3\|NP_629535.1\|5864668_5865601_-\|cellulose-binding-protein	gnl\|CDD\|274008	TIGR02168, Chromosome_partition_protein_Smc, chromosome segregation protein SMC, common bacterial type. SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle. [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins].	7.77687e-06
NC_003888.3\|NP_629539.1\|5871854_5872811_+\|transport-system-kinase	gnl\|CDD\|224617	COG1703, ArgK, Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism].	7.13792e-122
NC_003888.3\|NP_629527.1\|5857444_5858200_-\|hypothetical-protein	gnl\|CDD\|235114	PRK03298, PRK03298, endonuclease NucS.	2.40953e-177
NC_003888.3\|NP_629529.1\|5858867_5859896_-\|alkanal-monooxygenase	gnl\|CDD\|366009	pfam00296, Bac_luciferase, Luciferase-like monooxygenase.	1.11813e-54
NC_003888.3\|NP_629542.1\|5875297_5875966_+\|two-component-system-response-regulator	gnl\|CDD\|223816	COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription].	8.25815e-82
NC_003888.3\|NP_629538.1\|5870612_5871818_+\|acetyl-CoA-acetyltransferase	gnl\|CDD\|180261	PRK05790, PRK05790, putative acyltransferase; Provisional.	0

>NC_003888.3|NP_629535.1|5864668_5865601_-|cellulose-binding-protein
MSDTSPYGFELVRRGYDRAQVDERISKLVSDRDSALARITALEKRIEELHLETQNAQAQVNDAEPSYAGLGARVEKILRLAEEEAKDLREEARRAAEQHRELAESSAQQVRNDAESYAAERKAKAEDEGVRIVEKAKGDASQLRSEAQKDAQSKRDEADALFEETRAKAAQAAADFETNLAKRREQSERDLASRQAKAEKRLAEIEHRAEQLRLEAEKLRTDAERRARQTVETAQRQSEDIVADANAKADRIRSESERELAALTNRRDSINAQLTNVREMLASLTGAAVAAAPSVEDESVSRGVPAQQSR
>NC_003888.3|NP_629534.1|5863552_5864593_-|ABC-transporter-ATP-binding-protein
MSLGWQRASSRSSVVAMIELEGLTKRYGEKVAVNNLSFTVRPGIITGFLGPNGAGKSTTMRMVLGLDRPTAGDVRIDGKHYDELKDPLTYIGALLEAKAWHGGRSAYNHLLCLAQSNGIPASRVRQVLDTVGLSAVARKKTKGFSLGMGQRLGIAGALLGDPRILMFDEPVNGLDPEGIHWIRNLMKTLASQGRTVFVSSHLMSEMALTADHLVVIGQGRLLADTSMAEFIAENSRSYVRIRTPQREQLLDALHAAGVTVVESGEGVLEVDGDKSETVGELAARHQVVLYELSPQRASLEEAFMQLTAESVEYHAHDGQPPGAVPQQQQPPGQPPQQPWGSDWKRG
>NC_003888.3|NP_629533.1|5862779_5863556_-|ABC-transporter
MSMAATQVVRSEWTKIRSVASTVWTLGLAVVVTIALGMLISALSKNEFGDMSRRDQLSFDPTFISFAGTSLGQLAMIVFGVLVVGNEYSSGMIRTSLAAVPRRGTFLFSKIAVATALALVVAMVTSFATFFLGQAMLGDLKASIGDPGVLRAVFGGGLYMTLIAMFSMGVAAMLRSPMLSLGILMPFFFLISNILGNVPATEKVGRFLPDQAGSKIMQVVTPIDDDVPYGPWGGLGIMALWVIAALVGGYAVLKRRDA
>NC_003888.3|NP_629532.1|5861359_5862631_-|ABC-transporter-ATP-binding-protein
MIEAVGLTKRYGDKTAVYNLSFQVRPGAVTGFLGPNGSGKSTTMRMILGLDNPTAGHVTIGGHPYRRLPNAARHVGALLDAKAVHGGRAARNHLLSLAQLSGIPARRVDEVLGVVGLQDVAKRRSKGFSLGMGQRLGIAAALLGDPQVLLFDEPVNGLDPEGIHWVRNLMKALAAEGRTVFVSSHLMSEMALTADHLIVIGRGQLMADMSVTDFISANSADFARVRTPDTEPQLREKLTSALTEAGGHVLPEQDGALRVTGLALPRISDIAHDTDVRLWELSPHQASLEEAYMRMTQGAVDYRSTADQKAGLQQPLPPGAQPPMPVAGQGQPGWYAPPPPQQGGQPFAAPQGAPGQAPAGPYGAPVAPGAVPGGQPANPYAARQAPQAPPMPQAPAGAPTPPAAGPAPAAAPVTDPTKPEDAR
>NC_003888.3|NP_629531.1|5860493_5861363_-|ABC-transporter
MSTPQPPTQQAAPDWHAAPGSPFPTYTSPIPVVRTTLVHALASEWTKIKSVRSTLWTLGVFVLLVLGIGLLTGAVVASSDSDLAGESALSLGFFGLLLGSMCVITLGVLTTASEYGTGMIRTTMTACPSRGRVLAAKGIVFFLVAFVVTLICATLVGLAHVSMLEGNGAENPTGAEWLKGTVGVALYVALLGLLSLAMGSIIRHSAGAITIMIGVLLAPLVIALFMFSESLKDVQQALFEYSIPNQMSIFYANSLSESGPSGWDPLWIVLGVTAAAFAAAFALLEKRDV
>NC_003888.3|NP_629530.1|5860152_5860485_+|ATP/GTP-binding-protein
MSPRRNRPKGAGSSGRSAEEDGSGRYGGWQSAENWQGEEWSVRHVAGASAQGKSYRCPGCDQLIPDGVPHVVAWPAHSGVDDRRHWHKACWNAKDRRTTRVQRSRNAPRF
>NC_003888.3|NP_629529.1|5858867_5859896_-|alkanal-monooxygenase
MRVGSFVLGAQFPGQGQGEALHRAVRSAEVAEEAGLDTVWLAEHHFVPYGTCPSAVTLAALLLGRTRRVRVGTAVSVLPTVHPVALGEQAALLHVTSGGRFSLGVGRGGPWVDLEVFGAGLEAYEKGFPDSLDLLLRWLREPAVGASGDRYRFREVPVVPRPSESLSEEPGPEVVVACTSPSSVRMAAERGLPMLLGMHVGDEEKAEMVALWRRHARAAGRPAAEIHGAGHVSAGVCQIADRRTDAAETLLKAMPGWLRQGLGAHVTVDGRARQMRDPHAYTELLCGLHPVGTPRLCADRLAATGERTGISRFALLVEGSGDLAATEENVRRLGAEVLPQLR
>NC_003888.3|NP_629528.1|5858396_5858789_+|hypothetical-protein
MSLDVSPALLEQAERGEVDEADFVDCVRTSLPYAWEMVSSLVAQLKVDGGAFADNQTPPPDEQARGQLLRALASDAIRGALQRHFGVRLAFQNCHRVAVFPLDSSVDETLTKFTSVRSQLLNQSPELRDC
>NC_003888.3|NP_629527.1|5857444_5858200_-|hypothetical-protein
MGEVGQRTPVPGYGRIASGPARRVALPTMRLVIARCSVDYAGRLTAHLPSAPRLILVKADGSVSIHADDRAYKPLNWMSPPCALKEGTGEEEGVWTVVNKAGEKLIITMEEILHDSSHELGVDPGLIKDGVEAHLQELLADRIDTLGEGYTLIRREYMTAIGPVDILCRDAQGGTVAVEIKRRGEIDGVEQLTRYLELLNRDPHLAPVRGVFAAQEIKPQARVLATDRGIGCQVLDYDALRGIEDDKLRLF
>NC_003888.3|NP_629526.1|5854719_5857344_+|hypothetical-protein
MDPNNRGPEEYGQDGDHQAPRPRPHRDPITSDFGQHAPALARTVQLVSGDFLLTVNPVDGSEIEVCPPAERPARPEKLTAAERADAERAARPPVPPGPVRTVLGLLAREDERERLVRLLARGRSVRLTGPAGSGRTSLLDVVAEDCAGLAPDGVVRLNGHHRTADDLLHDLFYAVHGAPLHRPGRTELLGHLREVGAVVVLDDAEFGGTALDELLDATPECAFVIGTTPDVAPPSADSAVEEVFLTGLDRSDGVELLERAAGRTLTEEEANWAGDLWFESEGLPLRFVQAGALLRRRDRERAGADAVDEFGVFADARPADTRPADDSPYDAAETDDVPLPSLGEAAAPAPLLASRLSASARATLEFAVALGGEVPHQAHLPALVGETHADAALGELADCGLVSPVASRYRLAAGVLTQLESAGYADAVRERATAAAQHYAWWAGHPSVTPERVCAEADAVLAALAVLVPATTRTTEDEESPAVQLARTAAPAFAAGLHWSAWERALRSGTEASRLAGDVAEQAYFHHELGVLALCEGQLDRARTELEASVGLRGALSDRRGAVAGRRALALVADRTGDTPGLGSGAGAFAAAAPAAGPGAVGAGLGPTVGEEVPDARNEESASPSAGVPAPFPPLQPRPQSPTLVTRREPDEEPSRTVAGGIKGFARRNLVAAGAGALLVAVLGTVVTLGATSENDGGDPSNEVGVNPSASQGVDDGSLGADRPSDDGQGQETPGAPTGSATPGTSGAPTATESGAPSQGPSSTGSTDPGDDESPDAPGSPDEPSKSPSSPTTKPTSPKPTDTEPTDPGTPTESDGTSPTPTETETTSPSTPETSDTASGADSPPATVSQSSTEDTGTGTGAPAGSDPATGQII
>NC_003888.3|NP_629537.1|5870022_5870463_-|hypothetical-protein
MLTRIDHIGIACHDLDATVEFYRATYGFEVFHTEVNEEQGVREAMLKINDTSDGGASYLQLLEPTREDSAVGKWLAKNGEGVHHIAFGTADVDADAADIRDKGVRVLYDEPRRGSMGSRITFLHPKDCHGVLTELVTSAAVESPEH
>NC_003888.3|NP_629538.1|5870612_5871818_+|acetyl-CoA-acetyltransferase
MSSASNGTTSVIVAGARTPMGRLLGSLKSFSGADLGSFAIKAALGRAGIGGDQVQYVIMGQVLQAGAGQIPARQAAVKAGIPMSVPALTINKVCLSGLDAIALADQLIRAGEFDVIVAGGQESMTNAPHLLPKSREGYKYGAVQMIDAMAYDGLTDSFEDIAMGESTEKHNTRLGIERAAQDEIAALSHQRAAAAQKNGVFDAEITPVEIPQRKGDPVLFAKDEGIRGDTTAESLGKLRPAFAKDGTITAGSSSQISDGAAAVVVMSRAKAEELGLEWIAEIGAHGNVAGPDNSLQSQPSNAIRHALKKEGLEVADLDLVEINEAFAAVAVQSMKDLGVSTEKVNVNGGAIALGHPIGMSGARLVLHLALELKRRGGGVGAAALCGGGGQGDALIVRVPGA
>NC_003888.3|NP_629539.1|5871854_5872811_+|transport-system-kinase
MQDVSSLVAQAREGRPRAVARLISLVEGASPQLREVMEALAPLTGNAYVVGLTGSPGVGKSTSTSALVTAYRKQGRRVGVLAVDPSSPFSGGALLGDRVRMSEHASDPGVYIRSMATRGHLGGLAWAAPQAIRVLDAAGCDVVLVETVGVGQSEVEIASQADTSVVLLAPGMGDGIQAAKAGILEIGDVYVVNKADRDGADATARELNHMLGLGEARAAGDWRPPIVKTVAARGEGVDEVVEALEKHRAWMEERDVLTERRRARAAREVETIAVTTLRERIGDLHGDRRLGALAERIVAGELDPYRAADELVAGLTRG
>NC_003888.3|NP_629540.1|5873152_5874457_+|hypothetical-protein
MSTPLSRPSYAAVLRVPHARRTFSAALVGRLSYGTVSLSLMLSLTRSTGSYAVAGLVMALFGATSVFLSPYRASLVDRLGPRRALLPMALLYAALLCVLAGACRRPGTSEAVLAVTAGLAGACTPPLGPTMRAVWAELLPDRRLLQRAYSVDGVAEELLFVSGPLLVGGIVAVASPVVGVVLSAVLVAVGTLAFVTSPATAALRPAGREKSDGPAAGRGGPGQGRALLQPVVVAAAVGVSVSAVDLLVVAFAGERGLGDGTVAWVLAALSVGSAVGGLVNGAVAWSSPTRARLPFFAAGVGLCLAAAGLAPGLGTLVLAVMCAGLFVAPALTTAYLIADESVAPGFRVRAGAWCNTAVNAGMSVGAAAVGLLVERLPLPVCFAVAGAVAAAAALVPGYRRGAARPAGRAGGTGGAAQSSSVSSELPESSASSES
>NC_003888.3|NP_629541.1|5874399_5875173_-|hypothetical-protein
MKRNIVIAAVTAAALIGGGTATALATTGDDDRGTASRADVADVADAPAVTVSDDGGVRDEADDRDDDRRDDDRRDDSRAAAAKVTAADAVAAALADTPGTAVSAELDDEDDDGDDGDDRRERAAWEVDVLAGDGTWHSVRVDPATGKVLGSERDDDEDDTAEVRAALKGASVDAAEAAKAAAGHGTVTSVELDDDGDHGDGRPAWEVETRASGEGGQDWRVDLKTGKVTADRSDEAHGSHDSDDADDSGSSDDTDDD
>NC_003888.3|NP_629542.1|5875297_5875966_+|two-component-system-response-regulator
MRLLIVEDEKRLAVSLAKGLTAEGYAVDVVHDGLEGLHRAGEGVYDLVILDIMLPGLNGYRVCAALRAAGHDVPILMLTAKDGEYDEAEGLDTGADDYLTKPFSYVVLVARVKALLRRRGQGAGASPVHVHGDLRVDTAARRVFLGEDEATLTAKEFAVLEQLVVRAGQVVSKAEILEHVWDFAYDGDPNIVEVYVSALRRKLRAGLIRTVRGAGYRLETGR
>NC_003888.3|NP_629543.1|5875962_5877399_+|two-component-sensor-kinase
MSRLFASVRARATLAATLVVAVALVAAGTAVLLSLRSNLLGEAGTQAERSAREVATELAVGTPYADLSLDVDDRPVQVVDDDGVLVAASEDLERISGTGVDAVKPRPAASPGGEDDDADDDSGESLEPGEIGGRITVSDGSATIDGDTEDYRFAAVPVKTEDRGTLTVYAGAPLSAEHGAVNTALTVMLIGFPLLLAVVAWVTWLVTRRALRPVEGIRREMAAITASEDLARRVPVPGTHDEVARLATTTNETLAALESSVERQRGFVADASHELRSPIASLRTQLEVAAAHPELLDLDGAVADTVRLQRLAADLLLLARLDAGERPADARVDLAALAREAAEGRAGVRVRGDEGVVSAAGSRGQLGRVLANLLDNAERHARSVVEVSVRWDGDTALVAVTDDGEGVPAADRERIFERFVRLDDARSRDDGGAGLGLAIARDVAVRHGGTLTVHDAPAGGALFELRLPGDRAGTARDM
>NC_003888.3|NP_629544.1|5877407_5877884_-|transcriptional-regulator
METETATRWLTDTEQCAWRTHLEVNRLLTHQLEKDLQPFGLTMNDYEILVNLSESEGDRMRMSDLATATMQSKSRLSHQITRMENANLVRRENCESDRRGLFAVLTEHGLETMRKVAPHHVASVRRHFIDLLAPEDLTELDKALKPIAEHLRGQRGRP
>NC_003888.3|NP_629545.1|5877985_5878762_-|hypothetical-protein
MSTVHHDPATLPADDNVNAYTFCVELKGSQWFLQKGKMIAYYGTIDFNGIGHGRLDRLVRTSFHSPLHASDWVVAEGSGKMLLADRAFDVNSYDLEDGNLTIRSGNLLAFQPSLALKQSIVPGFLTLIGTGKFVAASNGPVVFMEPPIRVDPQALVGWADCPSPCHHYDHGYMTGLLGGLRAMTGLGGASGEEHQFEFVGAGTVLLQSSEALMAEQAVGAPPQQAGVPGAGAPGASGGRSGVPGLPGQLGDLQRRFGL
>NC_003888.3|NP_629546.1|5878758_5879418_-|hypothetical-protein
MCEMAFEEINSKMVRATVAPGQRLFSQRGAMLAYQGEVSFTPNLRGGQGGVMSMIGRRVANEDTPLMTVEGSGTVLFGHGGHHVQVINLSGDTLYVEADRLLAFEGTLEQSTVFLGSQGGVMGMVRGQVSGQGLFTTSLKGHGSVAVMAHGGVFEVPITPQRPVRVDPQAYVAHHGDVRNKLSTALGWRDMVGRGSGEAFQLELSGSGTVFVQASEEKL

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Crispr_ID: NC_003888_4

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_003888_4

5868252-5868407

Orphan

Consensus_repeat	Method
GCGGCCTCGGTGCGCAGCCGCTCG	CRISPRCasFinder

2 spacers

The CRISPR arrays of NC_003888_4

>merge|NC_003888|4|5868252-5868407|CRISPRCasFinder
ATGGCCTCGGCGCGGACCTTCTCGCCGTCCGCCGTCGCGGTCTGCCGCAGCTCGTCGGCGTCCGCCTTGGCCTTGGCGAGCAGCTCCTCGGCGGTCTTCGCCGCCTCCTCGATCTGCGCCACGGCCTCCTTGCGGGCCTCGGCGCGGATCTTCTCG

>NC_003888|4|4|5868252-5868407|CRISPRCasFinder
ATGGCCTCGGCGCGGACCTTCTCG	CCGTCCGCCGTCGCGGTCTGCCGCAGCTCGTCGGCGTCCGCC
TTGGCCTTGGCGAGCAGCTCCTCG	GCGGTCTTCGCCGCCTCCTCGATCTGCGCCACGGCCTCCTTG
CGGGCCTCGGCGCGGATCTTCTCG

Protein	Signature genes	Signature genes Name	Protein_function
NC_003888.3\|NP_629526.1\|5854719_5857344_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|236090
NC_003888.3\|NP_629541.1\|5874399_5875173_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|377032
NC_003888.3\|NP_629531.1\|5860493_5861363_-\|ABC-transporter	unknown	unknown	gnl\|CDD\|372253
NC_003888.3\|NP_629533.1\|5862779_5863556_-\|ABC-transporter	unknown	unknown	gnl\|CDD\|372253
NC_003888.3\|NP_629546.1\|5878758_5879418_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|376704
NC_003888.3\|NP_629530.1\|5860152_5860485_+\|ATP/GTP-binding-protein	unknown	unknown	unknown
NC_003888.3\|NP_629543.1\|5875962_5877399_+\|two-component-sensor-kinase	unknown	unknown	gnl\|CDD\|223715
NC_003888.3\|NP_629537.1\|5870022_5870463_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|213772
NC_003888.3\|NP_629534.1\|5863552_5864593_-\|ABC-transporter-ATP-binding-protein	unknown	unknown	gnl\|CDD\|213235
NC_003888.3\|NP_629528.1\|5858396_5858789_+\|hypothetical-protein	unknown	unknown	unknown
NC_003888.3\|NP_629545.1\|5877985_5878762_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|224924
NC_003888.3\|NP_629539.1\|5871854_5872811_+\|transport-system-kinase	unknown	unknown	gnl\|CDD\|224617
NC_003888.3\|NP_629544.1\|5877407_5877884_-\|transcriptional-regulator	unknown	unknown	gnl\|CDD\|197670
NC_003888.3\|NP_629540.1\|5873152_5874457_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|340863
NC_003888.3\|NP_629535.1\|5864668_5865601_-\|cellulose-binding-protein	unknown	unknown	gnl\|CDD\|274008
NC_003888.3\|NP_629529.1\|5858867_5859896_-\|alkanal-monooxygenase	unknown	unknown	gnl\|CDD\|366009
NC_003888.3\|NP_629527.1\|5857444_5858200_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|235114
NC_003888.3\|NP_629532.1\|5861359_5862631_-\|ABC-transporter-ATP-binding-protein	unknown	unknown	gnl\|CDD\|213235
NC_003888.3\|NP_629542.1\|5875297_5875966_+\|two-component-system-response-regulator	unknown	unknown	gnl\|CDD\|223816
NC_003888.3\|NP_629538.1\|5870612_5871818_+\|acetyl-CoA-acetyltransferase	unknown	unknown	gnl\|CDD\|180261

Protein	Function_ID	Function_description	E-value
NC_003888.3\|NP_629526.1\|5854719_5857344_+\|hypothetical-protein	gnl\|CDD\|236090	PRK07764, PRK07764, DNA polymerase III subunits gamma and tau; Validated.	5.33517e-06
NC_003888.3\|NP_629541.1\|5874399_5875173_-\|hypothetical-protein	gnl\|CDD\|377032	pfam03413, PepSY, Peptidase propeptide and YPEB domain. This region is likely to have an protease inhibitory function (personal obs:C Yeats). This model is likely to miss some members of this family as the separation from signal to noise is not clear. The name is derived from Peptidase & Bacillus subtilis YPEB.	7.01616e-09
NC_003888.3\|NP_629531.1\|5860493_5861363_-\|ABC-transporter	gnl\|CDD\|372253	pfam12679, ABC2_membrane_2, ABC-2 family transporter protein. This family is related to the ABC-2 membrane transporter family.	0.00562229
NC_003888.3\|NP_629546.1\|5878758_5879418_-\|hypothetical-protein	gnl\|CDD\|376704	pfam01987, AIM24, Mitochondrial biogenesis AIM24. In eukaryotes, this domain is involved in mitochondrial biogenesis. Its function in prokaryotes in unknown.	9.14239e-42
NC_003888.3\|NP_629533.1\|5862779_5863556_-\|ABC-transporter	gnl\|CDD\|372253	pfam12679, ABC2_membrane_2, ABC-2 family transporter protein. This family is related to the ABC-2 membrane transporter family.	0.000169164
NC_003888.3\|NP_629543.1\|5875962_5877399_+\|two-component-sensor-kinase	gnl\|CDD\|223715	COG0642, BaeS, Signal transduction histidine kinase [Signal transduction mechanisms].	3.03986e-47
NC_003888.3\|NP_629537.1\|5870022_5870463_-\|hypothetical-protein	gnl\|CDD\|213772	TIGR03081, Methylmalonyl-CoA_epimerase_mitochondrial, methylmalonyl-CoA epimerase. Members of this protein family are the enzyme methylmalonyl-CoA epimerase (EC 5.1.99.1), also called methylmalonyl-CoA racemase. This enzyme converts (2R)-methylmalonyl-CoA to (2S)-methylmalonyl-CoA, which is then a substrate for methylmalonyl-CoA mutase (TIGR00642). It is known in bacteria, archaea, and as a mitochondrial protein in animals. It is closely related to lactoylglutathione lyase (TIGR00068), which is also called glyoxylase I, and is also a homodimer.	1.03599e-51
NC_003888.3\|NP_629534.1\|5863552_5864593_-\|ABC-transporter-ATP-binding-protein	gnl\|CDD\|213235	cd03268, ABC_BcrA_bacitracin_resist, ATP-binding cassette domain of the bacitracin-resistance transporter. The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance. Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multi-enzyme complex BcrABC. Bacitracin has potent antibiotic activity against gram-positive bacteria. The inhibition of peptidoglycan biosynthesis is the best characterized bacterial effect of bacitracin. The bacitracin resistance of B. licheniformis is mediated by the ABC transporter Bcr which is composed of two identical BcrA ATP-binding subunits and one each of the integral membrane proteins, BcrB and BcrC. B. subtilis cells carrying bcr genes on high-copy number plasmids develop collateral detergent sensitivity, a similar phenomenon in human cells with overexpressed multi-drug resistance P-glycoprotein.	2.24825e-95
NC_003888.3\|NP_629532.1\|5861359_5862631_-\|ABC-transporter-ATP-binding-protein	gnl\|CDD\|213235	cd03268, ABC_BcrA_bacitracin_resist, ATP-binding cassette domain of the bacitracin-resistance transporter. The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance. Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multi-enzyme complex BcrABC. Bacitracin has potent antibiotic activity against gram-positive bacteria. The inhibition of peptidoglycan biosynthesis is the best characterized bacterial effect of bacitracin. The bacitracin resistance of B. licheniformis is mediated by the ABC transporter Bcr which is composed of two identical BcrA ATP-binding subunits and one each of the integral membrane proteins, BcrB and BcrC. B. subtilis cells carrying bcr genes on high-copy number plasmids develop collateral detergent sensitivity, a similar phenomenon in human cells with overexpressed multi-drug resistance P-glycoprotein.	5.96558e-94
NC_003888.3\|NP_629545.1\|5877985_5878762_-\|hypothetical-protein	gnl\|CDD\|224924	COG2013, COG2013, Uncharacterized conserved protein [Function unknown].	2.24968e-07
NC_003888.3\|NP_629544.1\|5877407_5877884_-\|transcriptional-regulator	gnl\|CDD\|197670	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein.	1.14855e-13
NC_003888.3\|NP_629540.1\|5873152_5874457_+\|hypothetical-protein	gnl\|CDD\|340863	cd06173, MFS_MefA_like, Macrolide efflux protein A and similar proteins of the Major Facilitator Superfamily of transporters. This family is composed of Streptococcus pyogenes macrolide efflux protein A (MefA) and similar transporters, many of which remain uncharacterized. Some members may be multidrug resistance (MDR) transporters, which are drug/H+ antiporters (DHAs) that mediate the efflux of a variety of drugs and toxic compounds, conferring resistance to these compounds. MefA confers resistance to 14-membered macrolides including erythromycin and to 15-membered macrolides. It functions as an efflux pump to regulate intracellular macrolide levels. The MefA-like family belongs 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.	4.95716e-25
NC_003888.3\|NP_629535.1\|5864668_5865601_-\|cellulose-binding-protein	gnl\|CDD\|274008	TIGR02168, Chromosome_partition_protein_Smc, chromosome segregation protein SMC, common bacterial type. SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle. [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins].	7.77687e-06
NC_003888.3\|NP_629539.1\|5871854_5872811_+\|transport-system-kinase	gnl\|CDD\|224617	COG1703, ArgK, Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism].	7.13792e-122
NC_003888.3\|NP_629527.1\|5857444_5858200_-\|hypothetical-protein	gnl\|CDD\|235114	PRK03298, PRK03298, endonuclease NucS.	2.40953e-177
NC_003888.3\|NP_629529.1\|5858867_5859896_-\|alkanal-monooxygenase	gnl\|CDD\|366009	pfam00296, Bac_luciferase, Luciferase-like monooxygenase.	1.11813e-54
NC_003888.3\|NP_629542.1\|5875297_5875966_+\|two-component-system-response-regulator	gnl\|CDD\|223816	COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription].	8.25815e-82
NC_003888.3\|NP_629538.1\|5870612_5871818_+\|acetyl-CoA-acetyltransferase	gnl\|CDD\|180261	PRK05790, PRK05790, putative acyltransferase; Provisional.	0

>NC_003888.3|NP_629535.1|5864668_5865601_-|cellulose-binding-protein
MSDTSPYGFELVRRGYDRAQVDERISKLVSDRDSALARITALEKRIEELHLETQNAQAQVNDAEPSYAGLGARVEKILRLAEEEAKDLREEARRAAEQHRELAESSAQQVRNDAESYAAERKAKAEDEGVRIVEKAKGDASQLRSEAQKDAQSKRDEADALFEETRAKAAQAAADFETNLAKRREQSERDLASRQAKAEKRLAEIEHRAEQLRLEAEKLRTDAERRARQTVETAQRQSEDIVADANAKADRIRSESERELAALTNRRDSINAQLTNVREMLASLTGAAVAAAPSVEDESVSRGVPAQQSR
>NC_003888.3|NP_629534.1|5863552_5864593_-|ABC-transporter-ATP-binding-protein
MSLGWQRASSRSSVVAMIELEGLTKRYGEKVAVNNLSFTVRPGIITGFLGPNGAGKSTTMRMVLGLDRPTAGDVRIDGKHYDELKDPLTYIGALLEAKAWHGGRSAYNHLLCLAQSNGIPASRVRQVLDTVGLSAVARKKTKGFSLGMGQRLGIAGALLGDPRILMFDEPVNGLDPEGIHWIRNLMKTLASQGRTVFVSSHLMSEMALTADHLVVIGQGRLLADTSMAEFIAENSRSYVRIRTPQREQLLDALHAAGVTVVESGEGVLEVDGDKSETVGELAARHQVVLYELSPQRASLEEAFMQLTAESVEYHAHDGQPPGAVPQQQQPPGQPPQQPWGSDWKRG
>NC_003888.3|NP_629533.1|5862779_5863556_-|ABC-transporter
MSMAATQVVRSEWTKIRSVASTVWTLGLAVVVTIALGMLISALSKNEFGDMSRRDQLSFDPTFISFAGTSLGQLAMIVFGVLVVGNEYSSGMIRTSLAAVPRRGTFLFSKIAVATALALVVAMVTSFATFFLGQAMLGDLKASIGDPGVLRAVFGGGLYMTLIAMFSMGVAAMLRSPMLSLGILMPFFFLISNILGNVPATEKVGRFLPDQAGSKIMQVVTPIDDDVPYGPWGGLGIMALWVIAALVGGYAVLKRRDA
>NC_003888.3|NP_629532.1|5861359_5862631_-|ABC-transporter-ATP-binding-protein
MIEAVGLTKRYGDKTAVYNLSFQVRPGAVTGFLGPNGSGKSTTMRMILGLDNPTAGHVTIGGHPYRRLPNAARHVGALLDAKAVHGGRAARNHLLSLAQLSGIPARRVDEVLGVVGLQDVAKRRSKGFSLGMGQRLGIAAALLGDPQVLLFDEPVNGLDPEGIHWVRNLMKALAAEGRTVFVSSHLMSEMALTADHLIVIGRGQLMADMSVTDFISANSADFARVRTPDTEPQLREKLTSALTEAGGHVLPEQDGALRVTGLALPRISDIAHDTDVRLWELSPHQASLEEAYMRMTQGAVDYRSTADQKAGLQQPLPPGAQPPMPVAGQGQPGWYAPPPPQQGGQPFAAPQGAPGQAPAGPYGAPVAPGAVPGGQPANPYAARQAPQAPPMPQAPAGAPTPPAAGPAPAAAPVTDPTKPEDAR
>NC_003888.3|NP_629531.1|5860493_5861363_-|ABC-transporter
MSTPQPPTQQAAPDWHAAPGSPFPTYTSPIPVVRTTLVHALASEWTKIKSVRSTLWTLGVFVLLVLGIGLLTGAVVASSDSDLAGESALSLGFFGLLLGSMCVITLGVLTTASEYGTGMIRTTMTACPSRGRVLAAKGIVFFLVAFVVTLICATLVGLAHVSMLEGNGAENPTGAEWLKGTVGVALYVALLGLLSLAMGSIIRHSAGAITIMIGVLLAPLVIALFMFSESLKDVQQALFEYSIPNQMSIFYANSLSESGPSGWDPLWIVLGVTAAAFAAAFALLEKRDV
>NC_003888.3|NP_629530.1|5860152_5860485_+|ATP/GTP-binding-protein
MSPRRNRPKGAGSSGRSAEEDGSGRYGGWQSAENWQGEEWSVRHVAGASAQGKSYRCPGCDQLIPDGVPHVVAWPAHSGVDDRRHWHKACWNAKDRRTTRVQRSRNAPRF
>NC_003888.3|NP_629529.1|5858867_5859896_-|alkanal-monooxygenase
MRVGSFVLGAQFPGQGQGEALHRAVRSAEVAEEAGLDTVWLAEHHFVPYGTCPSAVTLAALLLGRTRRVRVGTAVSVLPTVHPVALGEQAALLHVTSGGRFSLGVGRGGPWVDLEVFGAGLEAYEKGFPDSLDLLLRWLREPAVGASGDRYRFREVPVVPRPSESLSEEPGPEVVVACTSPSSVRMAAERGLPMLLGMHVGDEEKAEMVALWRRHARAAGRPAAEIHGAGHVSAGVCQIADRRTDAAETLLKAMPGWLRQGLGAHVTVDGRARQMRDPHAYTELLCGLHPVGTPRLCADRLAATGERTGISRFALLVEGSGDLAATEENVRRLGAEVLPQLR
>NC_003888.3|NP_629528.1|5858396_5858789_+|hypothetical-protein
MSLDVSPALLEQAERGEVDEADFVDCVRTSLPYAWEMVSSLVAQLKVDGGAFADNQTPPPDEQARGQLLRALASDAIRGALQRHFGVRLAFQNCHRVAVFPLDSSVDETLTKFTSVRSQLLNQSPELRDC
>NC_003888.3|NP_629527.1|5857444_5858200_-|hypothetical-protein
MGEVGQRTPVPGYGRIASGPARRVALPTMRLVIARCSVDYAGRLTAHLPSAPRLILVKADGSVSIHADDRAYKPLNWMSPPCALKEGTGEEEGVWTVVNKAGEKLIITMEEILHDSSHELGVDPGLIKDGVEAHLQELLADRIDTLGEGYTLIRREYMTAIGPVDILCRDAQGGTVAVEIKRRGEIDGVEQLTRYLELLNRDPHLAPVRGVFAAQEIKPQARVLATDRGIGCQVLDYDALRGIEDDKLRLF
>NC_003888.3|NP_629526.1|5854719_5857344_+|hypothetical-protein
MDPNNRGPEEYGQDGDHQAPRPRPHRDPITSDFGQHAPALARTVQLVSGDFLLTVNPVDGSEIEVCPPAERPARPEKLTAAERADAERAARPPVPPGPVRTVLGLLAREDERERLVRLLARGRSVRLTGPAGSGRTSLLDVVAEDCAGLAPDGVVRLNGHHRTADDLLHDLFYAVHGAPLHRPGRTELLGHLREVGAVVVLDDAEFGGTALDELLDATPECAFVIGTTPDVAPPSADSAVEEVFLTGLDRSDGVELLERAAGRTLTEEEANWAGDLWFESEGLPLRFVQAGALLRRRDRERAGADAVDEFGVFADARPADTRPADDSPYDAAETDDVPLPSLGEAAAPAPLLASRLSASARATLEFAVALGGEVPHQAHLPALVGETHADAALGELADCGLVSPVASRYRLAAGVLTQLESAGYADAVRERATAAAQHYAWWAGHPSVTPERVCAEADAVLAALAVLVPATTRTTEDEESPAVQLARTAAPAFAAGLHWSAWERALRSGTEASRLAGDVAEQAYFHHELGVLALCEGQLDRARTELEASVGLRGALSDRRGAVAGRRALALVADRTGDTPGLGSGAGAFAAAAPAAGPGAVGAGLGPTVGEEVPDARNEESASPSAGVPAPFPPLQPRPQSPTLVTRREPDEEPSRTVAGGIKGFARRNLVAAGAGALLVAVLGTVVTLGATSENDGGDPSNEVGVNPSASQGVDDGSLGADRPSDDGQGQETPGAPTGSATPGTSGAPTATESGAPSQGPSSTGSTDPGDDESPDAPGSPDEPSKSPSSPTTKPTSPKPTDTEPTDPGTPTESDGTSPTPTETETTSPSTPETSDTASGADSPPATVSQSSTEDTGTGTGAPAGSDPATGQII
>NC_003888.3|NP_629537.1|5870022_5870463_-|hypothetical-protein
MLTRIDHIGIACHDLDATVEFYRATYGFEVFHTEVNEEQGVREAMLKINDTSDGGASYLQLLEPTREDSAVGKWLAKNGEGVHHIAFGTADVDADAADIRDKGVRVLYDEPRRGSMGSRITFLHPKDCHGVLTELVTSAAVESPEH
>NC_003888.3|NP_629538.1|5870612_5871818_+|acetyl-CoA-acetyltransferase
MSSASNGTTSVIVAGARTPMGRLLGSLKSFSGADLGSFAIKAALGRAGIGGDQVQYVIMGQVLQAGAGQIPARQAAVKAGIPMSVPALTINKVCLSGLDAIALADQLIRAGEFDVIVAGGQESMTNAPHLLPKSREGYKYGAVQMIDAMAYDGLTDSFEDIAMGESTEKHNTRLGIERAAQDEIAALSHQRAAAAQKNGVFDAEITPVEIPQRKGDPVLFAKDEGIRGDTTAESLGKLRPAFAKDGTITAGSSSQISDGAAAVVVMSRAKAEELGLEWIAEIGAHGNVAGPDNSLQSQPSNAIRHALKKEGLEVADLDLVEINEAFAAVAVQSMKDLGVSTEKVNVNGGAIALGHPIGMSGARLVLHLALELKRRGGGVGAAALCGGGGQGDALIVRVPGA
>NC_003888.3|NP_629539.1|5871854_5872811_+|transport-system-kinase
MQDVSSLVAQAREGRPRAVARLISLVEGASPQLREVMEALAPLTGNAYVVGLTGSPGVGKSTSTSALVTAYRKQGRRVGVLAVDPSSPFSGGALLGDRVRMSEHASDPGVYIRSMATRGHLGGLAWAAPQAIRVLDAAGCDVVLVETVGVGQSEVEIASQADTSVVLLAPGMGDGIQAAKAGILEIGDVYVVNKADRDGADATARELNHMLGLGEARAAGDWRPPIVKTVAARGEGVDEVVEALEKHRAWMEERDVLTERRRARAAREVETIAVTTLRERIGDLHGDRRLGALAERIVAGELDPYRAADELVAGLTRG
>NC_003888.3|NP_629540.1|5873152_5874457_+|hypothetical-protein
MSTPLSRPSYAAVLRVPHARRTFSAALVGRLSYGTVSLSLMLSLTRSTGSYAVAGLVMALFGATSVFLSPYRASLVDRLGPRRALLPMALLYAALLCVLAGACRRPGTSEAVLAVTAGLAGACTPPLGPTMRAVWAELLPDRRLLQRAYSVDGVAEELLFVSGPLLVGGIVAVASPVVGVVLSAVLVAVGTLAFVTSPATAALRPAGREKSDGPAAGRGGPGQGRALLQPVVVAAAVGVSVSAVDLLVVAFAGERGLGDGTVAWVLAALSVGSAVGGLVNGAVAWSSPTRARLPFFAAGVGLCLAAAGLAPGLGTLVLAVMCAGLFVAPALTTAYLIADESVAPGFRVRAGAWCNTAVNAGMSVGAAAVGLLVERLPLPVCFAVAGAVAAAAALVPGYRRGAARPAGRAGGTGGAAQSSSVSSELPESSASSES
>NC_003888.3|NP_629541.1|5874399_5875173_-|hypothetical-protein
MKRNIVIAAVTAAALIGGGTATALATTGDDDRGTASRADVADVADAPAVTVSDDGGVRDEADDRDDDRRDDDRRDDSRAAAAKVTAADAVAAALADTPGTAVSAELDDEDDDGDDGDDRRERAAWEVDVLAGDGTWHSVRVDPATGKVLGSERDDDEDDTAEVRAALKGASVDAAEAAKAAAGHGTVTSVELDDDGDHGDGRPAWEVETRASGEGGQDWRVDLKTGKVTADRSDEAHGSHDSDDADDSGSSDDTDDD
>NC_003888.3|NP_629542.1|5875297_5875966_+|two-component-system-response-regulator
MRLLIVEDEKRLAVSLAKGLTAEGYAVDVVHDGLEGLHRAGEGVYDLVILDIMLPGLNGYRVCAALRAAGHDVPILMLTAKDGEYDEAEGLDTGADDYLTKPFSYVVLVARVKALLRRRGQGAGASPVHVHGDLRVDTAARRVFLGEDEATLTAKEFAVLEQLVVRAGQVVSKAEILEHVWDFAYDGDPNIVEVYVSALRRKLRAGLIRTVRGAGYRLETGR
>NC_003888.3|NP_629543.1|5875962_5877399_+|two-component-sensor-kinase
MSRLFASVRARATLAATLVVAVALVAAGTAVLLSLRSNLLGEAGTQAERSAREVATELAVGTPYADLSLDVDDRPVQVVDDDGVLVAASEDLERISGTGVDAVKPRPAASPGGEDDDADDDSGESLEPGEIGGRITVSDGSATIDGDTEDYRFAAVPVKTEDRGTLTVYAGAPLSAEHGAVNTALTVMLIGFPLLLAVVAWVTWLVTRRALRPVEGIRREMAAITASEDLARRVPVPGTHDEVARLATTTNETLAALESSVERQRGFVADASHELRSPIASLRTQLEVAAAHPELLDLDGAVADTVRLQRLAADLLLLARLDAGERPADARVDLAALAREAAEGRAGVRVRGDEGVVSAAGSRGQLGRVLANLLDNAERHARSVVEVSVRWDGDTALVAVTDDGEGVPAADRERIFERFVRLDDARSRDDGGAGLGLAIARDVAVRHGGTLTVHDAPAGGALFELRLPGDRAGTARDM
>NC_003888.3|NP_629544.1|5877407_5877884_-|transcriptional-regulator
METETATRWLTDTEQCAWRTHLEVNRLLTHQLEKDLQPFGLTMNDYEILVNLSESEGDRMRMSDLATATMQSKSRLSHQITRMENANLVRRENCESDRRGLFAVLTEHGLETMRKVAPHHVASVRRHFIDLLAPEDLTELDKALKPIAEHLRGQRGRP
>NC_003888.3|NP_629545.1|5877985_5878762_-|hypothetical-protein
MSTVHHDPATLPADDNVNAYTFCVELKGSQWFLQKGKMIAYYGTIDFNGIGHGRLDRLVRTSFHSPLHASDWVVAEGSGKMLLADRAFDVNSYDLEDGNLTIRSGNLLAFQPSLALKQSIVPGFLTLIGTGKFVAASNGPVVFMEPPIRVDPQALVGWADCPSPCHHYDHGYMTGLLGGLRAMTGLGGASGEEHQFEFVGAGTVLLQSSEALMAEQAVGAPPQQAGVPGAGAPGASGGRSGVPGLPGQLGDLQRRFGL
>NC_003888.3|NP_629546.1|5878758_5879418_-|hypothetical-protein
MCEMAFEEINSKMVRATVAPGQRLFSQRGAMLAYQGEVSFTPNLRGGQGGVMSMIGRRVANEDTPLMTVEGSGTVLFGHGGHHVQVINLSGDTLYVEADRLLAFEGTLEQSTVFLGSQGGVMGMVRGQVSGQGLFTTSLKGHGSVAVMAHGGVFEVPITPQRPVRVDPQAYVAHHGDVRNKLSTALGWRDMVGRGSGEAFQLELSGSGTVFVQASEEKL

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Crispr_ID: NC_003888_5

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_003888_5

6730822-6730906

Orphan

Consensus_repeat	Method
GCCGCTGTAGCTCGACTTGAACCAC	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_003888_5

>merge|NC_003888|5|6730822-6730906|CRISPRCasFinder
GCCGCTGTAGCTCGACTTGAACCACTCGTATGCGACTTCGATGCAGTTGCCGCCCTCGCTGCCGCTGTAGCTCGACTTGAACCAC

>NC_003888|5|5|6730822-6730906|CRISPRCasFinder
GCCGCTGTAGCTCGACTTGAACCAC	TCGTATGCGACTTCGATGCAGTTGCCGCCCTCGCT
GCCGCTGTAGCTCGACTTGAACCAC

Protein	Signature genes	Signature genes Name	Protein_function
NC_003888.3\|NP_630240.1\|6735855_6736854_-\|regulatory-protein	unknown	unknown	gnl\|CDD\|223786
NC_003888.3\|NP_733689.1\|6738551_6739466_-\|homocysteine-methyltransferase	unknown	unknown	gnl\|CDD\|181899
NC_003888.3\|NP_630228.1\|6726362_6726809_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|378020
NC_003888.3\|NP_630227.1\|6725691_6726270_-\|transcriptional-regulator	unknown	unknown	gnl\|CDD\|379115
NC_003888.3\|NP_630231.1\|6728080_6728752_+\|membrane-lipoprotein	unknown	unknown	unknown
NC_003888.3\|NP_630226.1\|6725135_6725624_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|368218
NC_003888.3\|NP_630230.1\|6727702_6728032_+\|hypothetical-protein	unknown	unknown	unknown
NC_003888.3\|NP_630232.1\|6728773_6729088_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|132914
NC_003888.3\|NP_630233.1\|6729230_6730739_+\|carboxylesterase	unknown	unknown	gnl\|CDD\|365897
NC_003888.3\|NP_630243.1\|6739545_6740469_+\|transmembrane-protein	unknown	unknown	gnl\|CDD\|376806
NC_003888.3\|NP_630235.1\|6730922_6731834_-\|DNA-binding-protein	unknown	unknown	gnl\|CDD\|238045
NC_003888.3\|NP_630224.1\|6723321_6724296_+\|AraC-family-transcription-regulator	unknown	unknown	gnl\|CDD\|378976
NC_003888.3\|NP_630236.1\|6731916_6732270_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|340413
NC_003888.3\|NP_630239.1\|6734476_6735859_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|224635
NC_003888.3\|NP_630242.1\|6737521_6738541_-\|transmembrane-protein	unknown	unknown	gnl\|CDD\|379261
NC_003888.3\|NP_630225.1\|6724306_6724990_+\|AraC-family-transcription-regulator	unknown	unknown	gnl\|CDD\|197666
NC_003888.3\|NP_630238.1\|6733883_6734480_-\|hypothetical-protein	unknown	unknown	unknown
NC_003888.3\|NP_630237.1\|6732335_6733691_-\|carboxypeptidase	unknown	unknown	gnl\|CDD\|334815
NC_003888.3\|NP_630229.1\|6726882_6727275_-\|quinone-binding-protein	unknown	unknown	gnl\|CDD\|319901
NC_003888.3\|NP_630241.1\|6736850_6737525_-\|hypothetical-protein	unknown	unknown	unknown

Protein	Function_ID	Function_description	E-value
NC_003888.3\|NP_630240.1\|6735855_6736854_-\|regulatory-protein	gnl\|CDD\|223786	COG0714, COG0714, MoxR-like ATPases [General function prediction only].	3.26377e-96
NC_003888.3\|NP_733689.1\|6738551_6739466_-\|homocysteine-methyltransferase	gnl\|CDD\|181899	PRK09485, mmuM, homocysteine methyltransferase; Provisional.	1.63396e-148
NC_003888.3\|NP_630228.1\|6726362_6726809_+\|hypothetical-protein	gnl\|CDD\|378020	pfam08592, DUF1772, Domain of unknown function (DUF1772). This domain is of unknown function.	7.02612e-11
NC_003888.3\|NP_630227.1\|6725691_6726270_-\|transcriptional-regulator	gnl\|CDD\|379115	pfam13305, WHG, WHG domain. This presumed domain is around 80 amino acids in length. It is found to the C-terminus of a DNA-binding helix-turn-helix domain. This domain may be involved in binding to an as yet unknown ligand that allows a transcriptional regulation response to that molecule. The domain is named WHG after three conserved residues near the C-terminus of the domain.	3.87411e-11
NC_003888.3\|NP_630226.1\|6725135_6725624_+\|hypothetical-protein	gnl\|CDD\|368218	pfam04978, DUF664, Protein of unknown function (DUF664). This family is commonly found in Streptomyces coelicolor and is of unknown function. These proteins contain several conserved histidines at their N-terminus that may form a metal binding site.	4.21417e-39
NC_003888.3\|NP_630232.1\|6728773_6729088_-\|hypothetical-protein	gnl\|CDD\|132914	cd07043, STAS_anti-anti-sigma_factors, Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation. Anti-anti-sigma factors play an important role in the regulation of several sigma factors and their corresponding anti-sigma factors. Upon dephosphorylation they bind the anti-sigma factor and induce the release of the sigma factor from the anti-sigma factor. In a feedback mechanism the anti-anti-sigma factor can be inactivated via phosphorylation by the anti-sigma factor. Well studied examples from Bacillus subtilis are SpoIIAA (regulating sigmaF and sigmaC which play an important role in sporulation) and RsbV (regulating sigmaB involved in the general stress response). The STAS domain is also found in the C- terminal region of sulphate transporters and stressosomes.	2.48086e-07
NC_003888.3\|NP_630233.1\|6729230_6730739_+\|carboxylesterase	gnl\|CDD\|365897	pfam00135, COesterase, Carboxylesterase family.	7.42452e-105
NC_003888.3\|NP_630243.1\|6739545_6740469_+\|transmembrane-protein	gnl\|CDD\|376806	pfam02517, Abi, CAAX protease self-immunity. Members of this family are probably proteases (after a isoprenyl group is attached to the Cys residue in the C-terminal CAAX motif of a protein to attach it to the membrane, the AAX tripeptide being removed by one of the CAAX prenyl proteases). The family contains the CAAX prenyl protease. The proteins contain a highly conserved Glu-Glu motif at the amino end of the alignment. The alignment also contains two histidine residues that may be involved in zinc binding. While they are involved in membrane anchoring of proteins in eukaryotes, little is known about their function in prokaryotes. In some known bacteriocin loci, Abi genes have been found downstream of bacteriocin structural genes where they are probably involved in self-immunity. Investigation of the bacteriocin-like loci in the Gram positive bacteria locus from Lactobacillus sakei 23K confirmed that the bacteriocin-like genes (sak23Kalphabeta) exhibited antimicrobial activity when expressed in a heterologous host and that the associated Abi gene (sak23Ki) conferred immunity against the cognate bacteriocin. Interestingly, the immunity genes from three similar systems conferred a high degree of cross-immunity against each other's bacteriocins, suggesting the recognition of a common receptor. Site-directed mutagenesis demonstrated that the conserved motifs constituting the putative proteolytic active site of the Abi proteins are essential for the immunity function of Sak23Ki - thus a new concept in self-immunity.	1.41998e-14
NC_003888.3\|NP_630235.1\|6730922_6731834_-\|DNA-binding-protein	gnl\|CDD\|238045	cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators.	7.43456e-06
NC_003888.3\|NP_630224.1\|6723321_6724296_+\|AraC-family-transcription-regulator	gnl\|CDD\|378976	pfam12852, Cupin_6, Cupin. This is a family of bacterial and eukaryotic proteins that belong to the Cupin superfamily. Some of the proteins in this family are annotated as being members of the AraC family of transcription factors, in which case this domain corresponds to the ligand binding domain.	1.26475e-44
NC_003888.3\|NP_630236.1\|6731916_6732270_+\|hypothetical-protein	gnl\|CDD\|340413	cd16936, HATPase_RsbW-like, Histidine kinase-like ATPase domain of RsbW, an anti sigma-B factor and serine-protein kinase involved in regulating sigma-B during stress in Bacilli, and related domains. This family includes histidine kinase-like ATPase (HATPase) domain of RsbW, an anti sigma-B factor as well as a serine-protein kinase involved in regulating sigma-B during stress in Bacilli. The alternative sigma factor sigma-B is an important regulator of the general stress response of Bacillus cereus and B. subtilis. RsbW is an anti-sigma factor while RsbV is an anti-sigma factor antagonist (anti-anti-sigma factor). RsbW can also act as a kinase on RsbV. In a partner-switching mechanism, RsbW, RsbV, and sigma-B participate as follows: in non-stressed cells, sigma-B is present in an inactive form complexed with RsbW; in this form, sigma-B is unable to bind to RNA polymerase. Under stress, RsbV binds to RsbW, forming an RsbV-RsbW complex, and sigma-B is released to bind to RNA polymerase. RsbW may then act as a kinase on RsbV, phosphorylating a serine residue; RsbW is then released to bind to sigma-B, hence blocking its ability to bind RNA polymerase. A phosphatase then dephosphorylates RsbV so that it can again form a complex with RsbW, leading to the release of sigma-B.	1.24087e-21
NC_003888.3\|NP_630239.1\|6734476_6735859_-\|hypothetical-protein	gnl\|CDD\|224635	COG1721, COG1721, Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only].	1.4494e-29
NC_003888.3\|NP_630242.1\|6737521_6738541_-\|transmembrane-protein	gnl\|CDD\|379261	pfam13559, DUF4129, Domain of unknown function (DUF4129). This presumed domain is found at the C-terminus of proteins that contain a transglutaminase core domain. The function of this domain is unknown. The domain has a conserved TXXE motif.	6.66559e-10
NC_003888.3\|NP_630225.1\|6724306_6724990_+\|AraC-family-transcription-regulator	gnl\|CDD\|197666	smart00342, HTH_ARAC, helix_turn_helix, arabinose operon control protein.	4.37885e-15
NC_003888.3\|NP_630237.1\|6732335_6733691_-\|carboxypeptidase	gnl\|CDD\|334815	pfam02113, Peptidase_S13, D-Ala-D-Ala carboxypeptidase 3 (S13) family.	1.71464e-129
NC_003888.3\|NP_630229.1\|6726882_6727275_-\|quinone-binding-protein	gnl\|CDD\|319901	cd07235, MRD, Mitomycin C resistance protein (MRD). Mitomycin C (MC) is a naturally occurring antibiotic, and antitumor agent used in the treatment of cancer. Its antitumor activity is exerted primarily through monofunctional and bifunctional alkylation of DNA. MRD binds to MC and functions as a component of the MC exporting system. MC is bound to MRD by a stacking interaction between a His and a Trp. MRD adopts a structural fold similar to bleomycin resistance protein, glyoxalase I, and extradiol dioxygenases; and it has binding sites at an identical location to binding sites in these evolutionarily related enzymes.	5.20368e-72

>NC_003888.3|NP_630233.1|6729230_6730739_+|carboxylesterase
MRSGQTNPVVRTVHGAVGGRYEHDVAVFRGIPYAAPPFGPGRFRPPLPPEPWDGVRDAGSFGPTAPKPPYSEAFARYLSDPAIPGDDCLNLNVWTPEPGPGARLPVLVWLHGGALTRGSSAVPVYDGSTFARDGVVCVSVNYRLGVEGYGLFPDAPANAGLRDQIAALQWVRDNIAAFGGDPDRVTVAGQSAGAISTGALLAAPRARGLFRRAVLQSGAPEAADRDKVRRMVRRMASRLKIPATAEAFAAADRDQLLRAQAEVGRFSSPVLGGPGFGLVVDGDVLPRDPLEALVDGDAAPGVDLMMGWTRDEYRLWLVPGGLVERVDRLGAVALAGARARCHCGNEVVRGYRAARPGAGTAEIVGQLVTDHLLRIPMHRVADARPGSSHVYEFAWPSNLPDLGACHALELGFVFDSGDGPDARRLAGEGAPQELADAMHGAWVRFAETGDPGWQAWDAAHPVRVFGDGAPHTAYGPLDPEYDLWKADVTVPRGTRPRRLVRR
>NC_003888.3|NP_630232.1|6728773_6729088_-|hypothetical-protein
MTDAPVRIAEADGQHAVLAFSGDLDAPALVVLEELLLDPRLREPRAWTLEMSGLDHIDLACAYALLRTVTRAPEPVALTIRGARPAVHRTLRQAGLDTVAAFTA
>NC_003888.3|NP_630231.1|6728080_6728752_+|membrane-lipoprotein
MIRHVRVLPVLVLAPLLLTACGSEKAGDPGPSASASAPASAAGPAAAPGTGELASRAQAMGVAPELVYVTEAPGFTLAQQSVGVLGDEGFSATWVDGGTNALLRLAVDRGTITVGTCPEQPVGDMPGEHTTCERDGKAWYRTGAGRHEYALPEEGHVVRVSAEQDAVPRDVLRAAALAAHRPDAAETDRLLPSAEPAPATPVERGDLPPFGDGAPDNHVDVGG
>NC_003888.3|NP_630230.1|6727702_6728032_+|hypothetical-protein
MFGRLAPPELNVLVLRDTDVVAHGIRQALAEATPEERPGLERAAALVEQAAAEPDTALLARWVRERLAAAGHVGPVDSVRAVKTLREAAPGLSLRQAVKLTKDAAAHHP
>NC_003888.3|NP_630229.1|6726882_6727275_-|quinone-binding-protein
MTPQFNAISLIVSDMAASVAFYRRLGFAFPEGSEGQPHAEAALPGGIRLLLDTEESIRSFTPGWEPPAGGGRHSLALLCDTPAEVDAFYAELTGAGCKGEREPWDAPWGQRYAVLGDPDGHGVDLFAPLA
>NC_003888.3|NP_630228.1|6726362_6726809_+|hypothetical-protein
MLNALEVFTTVIVGLMVGVEFSVAFVMNRIFNALPEDSGQLARAHGGRMLGALMPFWYIGSLVLSAVWAVAGWDRSGAGLVVIAAALLIVSVIMSLLLLVPINDRGKTWTPENRPADWKEQMNRWDRYHYVRVAVIVAAFACLVTALV
>NC_003888.3|NP_630227.1|6725691_6726270_-|transcriptional-regulator
MSVQERKQRERAERERLIVATARELAEQQGWDAVTTRRLAERIEYSQPVLYSHFRGKREIIGAVALQGATELAAAVRTATSATDGPRERVAALARTYLGFAARNPAVYDALFQLDGGLAYAREDTPEPLKDAFAALLESLAEVAGDGVHPGLFTEVFWASLHGLATLTRAGRLLPEDAAQRVELLVDRLAVV
>NC_003888.3|NP_630226.1|6725135_6725624_+|hypothetical-protein
MDSESTEKKTLSAFLAAQRASVLAIVDGLDPQALTTSVLPSGWTPLGLIEHLGHAERHWFQEIVTGAAEPLPWPDDHAPLTTPREPQVVFAFYDDQCRRSDAVIARTPLSARPQGRHPEPLGDEFGDLRGIIMHVVEETARHAGHLDIARELLDGRTGLGPR
>NC_003888.3|NP_630225.1|6724306_6724990_+|AraC-family-transcription-regulator
MYAERASRLSGAVVWTDTPSGPGPGRVLPDGCMDLLWYDGRLLVAGPDTRAHVTEGGAGAWAGVRFCPGTAPALLGVPADALRDRRVELTDLWPTARARRLAARVNAAADPATGLDEAALARAAEAGPPDPLLARVVAALDAGRPVAATADALGIGARRLHRRSLAAFGYGPKTLARVLRLQRALALARNGTPLAETAARTGYADQAHLTRDVRELAGATPLELLRG
>NC_003888.3|NP_630224.1|6723321_6724296_+|AraC-family-transcription-regulator
MTPRGPNRDTGTVDALAGLLEGPRARGAFMIRACFDPPWAVRVADRAPLTVMLMVRGGAWIVPDTGERLRLRAGDLAIARGPDPYVCADDPGTAPQAVILPGGACSYPDGRPLNGSMDLGVRTWGDRADSEAVLLIGTYLVRGEIGGRLLDALPPLLSLTSQAWDNPLTPLLMTEVTRDEPGQEVVLDRLLDLLVIAALRAWFARPSAEAPAWYRALGDPVVGRALRLLQDDPAHPWTVASLAAEAGVSRAALARRFTDLVGEPPMGYLTGWRLALAADRLRDSEDTLGAIARQVGYGSAFALSTAFKRAYGISPQEYRVPAPA
>NC_003888.3|NP_630235.1|6730922_6731834_-|DNA-binding-protein
MVMMEQCAWPYIRSVRVRVGERTRAGGEFDLMGTTTRRNASAMKMVGALLALYRQAAGHTQRSLGERFVIGEQQIASIEQGRRPLKPDLAEQLDELLGTKGALSTALSKMPEVDLVPLWAEEFLDREREAIAISSYENQVLPGLLQTEAYAWAVFRSRVPFYDEDTIARLAAARIERQGILQGKEPPITCFVVWEPVVRAPIGGRTVWREQLQRLRACSELPGLMLQVLPQDRTSHAGLNGPFVLLETPEHQRLAYTENQRGSQLIADADEVAILTQKCAMLRSQALTPEDTRDLLDRLLGEQ
>NC_003888.3|NP_630236.1|6731916_6732270_+|hypothetical-protein
MPAARAFAREALADWGVRGRADDVVLCVSELATNALLHGVPPGRGFLLRLWLLPCGDGVRVEVHDSGDGVPAVPLESGGSDEGGRGLLLVSELADKWGVAEREPGKVVWFECGVPAD
>NC_003888.3|NP_630237.1|6732335_6733691_-|carboxypeptidase
MTGTPEETPTNAFAPGGRRRHRRARVSRIGARRALVLAMAVPVASATLAGTSAFAADDSSPRPQGISVDDLAADDAQLVKNLDERLADERLGTDVSGVVLDADSDTALWDHNGSTALMPASNAKLATATTALTLLGANHEFTTKVVYGEGTLTLVGGGDRTLTGEDVAELARTAADGLRAAGRTDVQVRVDDSLFADPSLAEGWNEGYYPTEVAPVRSLVVDGAAVQDTSIDAGKVFAKKLAAQGITVTGEVGRQTAKQSDVPVAQHKSAPLSDIVKKMLKTSDNNIAETLLRMTAVELGKPGTFEAGTALVRQVLSSYGISLDNFEMHDGSGLSRADRIPAATLAQLLDAITESPALGSILEGLPVSGEAGASLGPEWGRFDDPNSECAVGKVHAKTGTLTGAIALSGVTRTDDGDWRIFSFIENNSTADPSDIKDAMDGLAATVNGCWA
>NC_003888.3|NP_630238.1|6733883_6734480_-|hypothetical-protein
MTALDARVGLREYLGYWIGTVPVRVLGAAAVVTAWRPWATVDTAGAAVPFVCAVAFALWAAPSLDRRPSVEAVWWSYRLLRHRTTLLASGVVVIAAFREPAWWEGACVVALLVAYLVTSETWPWRWGRGSARVWGEAAAACAGAGVVAAAAAVPVSGTGSGLGRLIAAAAVAGLAVAGGAVLRARRQNDAPKSRAPGN
>NC_003888.3|NP_630239.1|6734476_6735859_-|hypothetical-protein
MTAPAPRPAPAPAVAPDPGPRPSPAVVRALEGRTAPTQPPAPPPGGPRPSERTLRLLTVAVVALAAALLTGRAWLLALAAAPLVLLALALPRAHARRTETSTTVEPGRCFEGDTVTVRIALAHDGEAVRLDPGVTLGPGLRLDEVVVGPSTVTLRHTALHWGRWSLGPVDVDVYDPGGTVRRTVRVEAAEVSVFPRATQARFTPIPVRLPQRLGEHASPQSGEGVEVIGVGPWVPGERQRRIHWPSTTRRGAVQLHRFAAERAADTVMLVDAFGDVVDPVTGLSSLDETVRAAAGLARAYLRTHDRVGVVSTGGTTRWLAPGTGDAAFYRIVESVLDVRKDRGFGGDGLERVPSPALPEGALVYVFTPLSDARILQVLRDLQARGRRPVVVEIPSGDPVVEPGDEAGGLGLRLWRAERDAMRFALRDSGVPVLRHTEGEPLDLALAPLLAGRVGGRGRAR
>NC_003888.3|NP_630240.1|6735855_6736854_-|regulatory-protein
MTTTSTNRLRTAEQVGEQAGAVLREIGRAVVGKPDALEHVMLAVLAGGHVLVEDLPGLGKTLLARSFATTLGLDFRRIQFTPDLLPSDVTGTPLYDQRSGEMVFHPGPVFTHLLLADEINRTPPKTQAALLEAMAESQVTVDGETRPLADPFLVIATANPVEYEGTYSLPEAQLDRFQLRVRMGYLAAREELAMLRARIDRAAPEAVLERLAGPDDVVAWRAVVERVEIDDDLLEYAVALVGATRDHPQISIGASPRGGLALVQLARARAVLDGRDYVVPEDVKGLAVPALAHRVSLRPELWVREMSTDDVLREIVDSVGTPTTRRTAAASS
>NC_003888.3|NP_630241.1|6736850_6737525_-|hypothetical-protein
MNRPAEETSLTQTSVAQTSVAQTSVAQTSVARTSEDDMLSLPRLGLLGGAVAGSGVLLVLLFDGPVAAGALVALLVAVAVLAARYVAGAGALDSAYRDEVRLLRTRAPGMGEWRRNVGTSTGPDGAHYYRAVLRTELRRLYAAALAEHHHVSLEHQPERAAELVGPELWPWLGPVPPGTGPDGEVPLDVLRRLVDRLEALGSPRSPGARTPSTRTPRTGKDQAT
>NC_003888.3|NP_630242.1|6737521_6738541_-|transmembrane-protein
MCQDCREQAFGGGDGFGGGHGMGRGGRTGHGVAPGVLVAAAVVGTLAVAALALRPAQGLLHSGRGPLGHWGFVAIGASVAWTFGTWTVVQRLRPRFGADRLSLPPGEERLREAAAPLLLAATGVIGVLALVLHRFSTGGNTTGPPPPLAREPAPTPTFLTPPPQQRHGSTDHSSLPLYLVLALLAAVAVVVVVVAVVRRLRRFGMRVPQRPGPPGTVAQDDDARLLLSAVDSGRRALAGTDDDARAAVIACYAAMEDALAASGVPRHASDSPADLLTRAAGTGFAPGPAAPRLTALFREARYSSHPMDGSHRKAAADALEEIASLLRDRDADAVREAGR
>NC_003888.3|NP_733689.1|6738551_6739466_-|homocysteine-methyltransferase
MTSDFADALASGPLVLDGGLSNQLEAAGHDLGDALWSARLLAEDPEAITRAHLAYFEAGAEVAITSSYQATFEGFARRGIGRERAAELLALSVASAREAARRARTARPERALWVAASAGPYGAMLADGSEYRGRYGLGRGALERFHRPRLEVLAAARPDVLALETVPDTDEAAALLRAVRGLDVPAWLSYTVAGDRTRAGQPLDEAFALAADVDEVIAVGVNCCAPEDVSGAVETAARVTGKPVVAYPNSGETWDAKSRGWRGRSSYTAERVRDWRERGARLVGGCCRVGPETITSIARALPRE
>NC_003888.3|NP_630243.1|6739545_6740469_+|transmembrane-protein
MTISGRRIRSVRCSPRHSSHGPDEGVPVRFVWQFLAVLVAYAIGGIAVQAVKDNDWLTLVVGLTSVALVVFVYAWVVRRTERREALDVALDGAAAKAGWGTLIGFGLFGAVITNLFASGYYEVDGLGSVQGAIGLVGFMAAAAATEEVVFRGVLFRIIEEHIGTYLALGLTGLVFGLMHLLNEDATLWGALAIAIEAGFMLAAAYAATRNLWLTIGVHFGWNFAAGGVFSTVVSGNGDSEGLLDATMSGPKLLTGGDFGPEGSVYSVGFGVLLTLVFLWLAHRRGNIVAFGSRRRAAGANSAATLPR

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Crispr_ID: NC_003888_6

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_003888_6

7387688-7387768

Unclear

Consensus_repeat	Method
GCCCTCCGCCGGGCCGGTCGCCGA	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_003888_6

>merge|NC_003888|6|7387688-7387768|CRISPRCasFinder
GCCCTCCGCCGGGCCGGTCGCCGAGGGGCAGGGGCAGGGGCGGTTCGGCGCCGGGCGGCCCTCCGCCGGGTCGGTCGCCGA

>NC_003888|6|6|7387688-7387768|CRISPRCasFinder
GCCCTCCGCCGGGCCGGTCGCCGA	GGGGCAGGGGCAGGGGCGGTTCGGCGCCGGGCG
GCCCTCCGCCGGGTCGGTCGCCGA

Protein	Signature genes	Signature genes Name	Protein_function
NC_003888.3\|NP_630720.1\|7378996_7380508_+\|solute-binding-lipoprotein	unknown	unknown	gnl\|CDD\|173855
NC_003888.3\|NP_630718.1\|7377776_7378070_-\|hypothetical-protein	unknown	unknown	unknown
NC_003888.3\|NP_630719.1\|7378333_7378888_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|366181
NC_003888.3\|NP_630723.1\|7383631_7384426_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|227383
NC_003888.3\|NP_630722.1\|7382318_7383629_+\|transport-system-permease	unknown	unknown	gnl\|CDD\|340887
NC_003888.3\|NP_630729.1\|7389678_7390500_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|376872
NC_003888.3\|NP_630725.1\|7384870_7385545_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|176217
NC_003888.3\|NP_630737.1\|7399382_7400528_-\|transaldolase	unknown	unknown	gnl\|CDD\|235117
NC_003888.3\|NP_630734.1\|7395030_7396683_-\|glucose-6-phosphate-isomerase	unknown	unknown	gnl\|CDD\|234679
NC_003888.3\|NP_630731.1\|7391231_7392461_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|365903
NC_003888.3\|NP_733710.1\|7386054_7387293_+\|glycosyl-transferase	unknown	unknown	gnl\|CDD\|340831
NC_003888.3\|NP_630733.1\|7394147_7395029_-\|6-phosphogluconate-dehydrogenase	unknown	unknown	gnl\|CDD\|237116
NC_003888.3\|NP_630732.1\|7392552_7394136_-\|hypothetical-protein	unknown	unknown	unknown
NC_003888.3\|NP_630726.1\|7385659_7386058_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|376501
NC_003888.3\|NP_630735.1\|7396675_7397611_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|213538
NC_003888.3\|NP_630724.1\|7384535_7384874_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|176196
NC_003888.3\|NP_630721.1\|7380511_7382317_+\|transport-system-permease	unknown	unknown	gnl\|CDD\|224094
NC_003888.3\|NP_630728.1\|7388671_7389874_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|377103
NC_003888.3\|NP_630736.1\|7397607_7399386_-\|glucose-6-phosphate-1-dehydrogenase	unknown	unknown	gnl\|CDD\|235579
NC_003888.3\|NP_630730.1\|7390535_7391201_+\|GTP-cyclohydrolase-II	unknown	unknown	gnl\|CDD\|238348

Protein	Function_ID	Function_description	E-value
NC_003888.3\|NP_630720.1\|7378996_7380508_+\|solute-binding-lipoprotein	gnl\|CDD\|173855	cd08490, PBP2_NikA_DppA_OppA_like_3, The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold. This CD represents the substrate-binding domain of an uncharacterized ATP-binding cassette (ABC) type nickel/dipeptide/oligopeptide-like transporter. The oligopeptide-binding protein OppA and the dipeptide-binding protein DppA show significant sequence similarity to NikA, the initial nickel receptor. The DppA binds dipeptides and some tripeptides and is involved in chemotaxis toward dipeptides, whereas the OppA binds peptides of a wide range of lengths (2-35 amino acid residues) and plays a role in recycling of cell wall peptides, which precludes any involvement in chemotaxis. Most of other periplasmic binding proteins are comprised of only two globular subdomains corresponding to domains I and III of the dipeptide/oligopeptide binding proteins. The structural topology of these domains is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase domains. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis. Besides transport proteins, the PBP2 superfamily includes the ligand-binding domains from ionotropic glutamate receptors, LysR-type transcriptional regulators, and unorthodox sensor proteins involved in signal transduction.	1.3742e-160
NC_003888.3\|NP_630731.1\|7391231_7392461_-\|hypothetical-protein	gnl\|CDD\|365903	pfam00144, Beta-lactamase, Beta-lactamase. This family appears to be distantly related to pfam00905 and PF00768 D-alanyl-D-alanine carboxypeptidase.	3.15696e-66
NC_003888.3\|NP_630719.1\|7378333_7378888_+\|hypothetical-protein	gnl\|CDD\|366181	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family. This family contains proteins with N-acetyltransferase functions such as Elp3-related proteins.	1.85359e-11
NC_003888.3\|NP_630723.1\|7383631_7384426_-\|hypothetical-protein	gnl\|CDD\|227383	COG5050, EPT1, sn-1,2-diacylglycerol ethanolamine- and cholinephosphotranferases [Lipid metabolism].	3.84991e-08
NC_003888.3\|NP_630722.1\|7382318_7383629_+\|transport-system-permease	gnl\|CDD\|340887	cd17329, MFS_MdtH_MDR_like, Multidrug resistance protein MdtH and similar multidrug resistance (MDR) transporters of the Major Facilitator Superfamily. This family is composed of Escherichia coli MdtH and similar multidrug resistance (MDR) transporters from bacteria and archaea, many of which remain uncharacterized. MDR transporters are drug/H+ antiporters (DHA) that mediate the efflux of a variety of drugs and toxic compounds, and confer resistance to these compounds. MdtH confers resistance to norfloxacin and enoxacin. MdtH-like MDR transporters belong to the Major Facilitator Superfamily (MFS) of membrane transport proteins, which are thought to function through a single substrate binding site, alternating-access mechanism involving a rocker-switch type of movement.	4.44605e-78
NC_003888.3\|NP_630729.1\|7389678_7390500_-\|hypothetical-protein	gnl\|CDD\|376872	pfam02633, Creatininase, Creatinine amidohydrolase. Creatinine amidohydrolase (EC:3.5.2.10), or creatininase, catalyzes the hydrolysis of creatinine to creatine.	2.18324e-72
NC_003888.3\|NP_630725.1\|7384870_7385545_+\|hypothetical-protein	gnl\|CDD\|176217	cd08255, 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_like, 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members. This subgroup of the medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family has members identified as 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide A dehydrogenase and alcohol dehydrogenases. The medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family, which contains the zinc-dependent alcohol dehydrogenase (ADH-Zn) and related proteins, is a diverse group of proteins related to the first identified member, class I mammalian ADH. MDRs display a broad range of activities and are distinguished from the smaller short chain dehydrogenases (~ 250 amino acids vs. the ~ 350 amino acids of the MDR). The MDR proteins have 2 domains: a C-terminal NAD(P) binding-Rossmann fold domain of a beta-alpha form and an N-terminal catalytic domain with distant homology to GroES. The MDR group contains a host of activities, including the founding alcohol dehydrogenase (ADH), quinone reductase, sorbitol dehydrogenase, formaldehyde dehydrogenase, butanediol DH, ketose reductase, cinnamyl reductase, and numerous others. The zinc-dependent alcohol dehydrogenases (ADHs) catalyze the NAD(P)(H)-dependent interconversion of alcohols to aldehydes or ketones. Active site zinc has a catalytic role, while structural zinc aids in stability.	1.02275e-50
NC_003888.3\|NP_630737.1\|7399382_7400528_-\|transaldolase	gnl\|CDD\|235117	PRK03343, PRK03343, transaldolase; Validated.	0
NC_003888.3\|NP_630734.1\|7395030_7396683_-\|glucose-6-phosphate-isomerase	gnl\|CDD\|234679	PRK00179, pgi, glucose-6-phosphate isomerase; Reviewed.	0
NC_003888.3\|NP_630733.1\|7394147_7395029_-\|6-phosphogluconate-dehydrogenase	gnl\|CDD\|237116	PRK12490, PRK12490, 6-phosphogluconate dehydrogenase-like protein; Reviewed.	0
NC_003888.3\|NP_733710.1\|7386054_7387293_+\|glycosyl-transferase	gnl\|CDD\|340831	cd03801, GT4_PimA-like, phosphatidyl-myo-inositol mannosyltransferase. This family is most closely related to the GT4 family of glycosyltransferases and named after PimA in Propionibacterium freudenreichii, which is involved in the biosynthesis of phosphatidyl-myo-inositol mannosides (PIM) which are early precursors in the biosynthesis of lipomannans (LM) and lipoarabinomannans (LAM), and catalyzes the addition of a mannosyl residue from GDP-D-mannose (GDP-Man) to the position 2 of the carrier lipid phosphatidyl-myo-inositol (PI) to generate a phosphatidyl-myo-inositol bearing an alpha-1,2-linked mannose residue (PIM1). Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate residue. This group of glycosyltransferases is most closely related to the previously defined glycosyltransferase family 1 (GT1). The members of this family may transfer UDP, ADP, GDP, or CMP linked sugars. The diverse enzymatic activities among members of this family reflect a wide range of biological functions. The protein structure available for this family has the GTB topology, one of the two protein topologies observed for nucleotide-sugar-dependent glycosyltransferases. GTB proteins have distinct N- and C- terminal domains each containing a typical Rossmann fold. The two domains have high structural homology despite minimal sequence homology. The large cleft that separates the two domains includes the catalytic center and permits a high degree of flexibility. The members of this family are found mainly in certain bacteria and archaea.	4.93857e-43
NC_003888.3\|NP_630726.1\|7385659_7386058_+\|hypothetical-protein	gnl\|CDD\|376501	pfam01242, PTPS, 6-pyruvoyl tetrahydropterin synthase. 6-Pyruvoyl tetrahydrobiopterin synthase catalyzes the conversion of dihydroneopterin triphosphate to 6-pyruvoyl tetrahydropterin, the second of three enzymatic steps in the synthesis of tetrahydrobiopterin from GTP. The functional enzyme is a hexamer of identical subunits.	2.7344e-28
NC_003888.3\|NP_630735.1\|7396675_7397611_-\|hypothetical-protein	gnl\|CDD\|213538	TIGR00534, Putative_OxPP_cycle_protein_OpcA, glucose-6-phosphate dehydrogenase assembly protein OpcA. The opcA gene is found immediately downstream of zwf, the glucose-6-phosphate dehydrogenase (G6PDH) gene, in a number of species, including Mycobacterium tuberculosis, Streptomyces coelicolor, Nostoc punctiforme, and Synechococcus sp. PCC 7942. In the latter, disruption of opcA was shown to block assembly of G6PDH into active oligomeric forms. [Protein fate, Protein folding and stabilization].	1.12622e-138
NC_003888.3\|NP_630724.1\|7384535_7384874_+\|hypothetical-protein	gnl\|CDD\|176196	cd08234, threonine_DH_like, L-threonine dehydrogenase. L-threonine dehydrogenase (TDH) catalyzes the zinc-dependent formation of 2-amino-3-ketobutyrate from L-threonine, via NAD(H)-dependent oxidation. THD is a member of the zinc-requiring, medium chain NAD(H)-dependent alcohol dehydrogenase family (MDR). MDRs have a NAD(P)(H)-binding domain in a Rossmann fold of a beta-alpha form. NAD(P)(H)-dependent oxidoreductases are the major enzymes in the interconversion of alcohols and aldehydes, or ketones. The N-terminal region typically has an all-beta catalytic domain. These proteins typically form dimers (typically higher plants, mammals) or tetramers (yeast, bacteria), and have 2 tightly bound zinc atoms per subunit. Sorbitol and aldose reductase are NAD(+) binding proteins of the polyol pathway, which interconverts glucose and fructose.	0.00010614
NC_003888.3\|NP_630721.1\|7380511_7382317_+\|transport-system-permease	gnl\|CDD\|224094	COG1173, DppC, ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism].	2.04142e-43
NC_003888.3\|NP_630728.1\|7388671_7389874_+\|hypothetical-protein	gnl\|CDD\|377103	pfam03706, LPG_synthase_TM, Lysylphosphatidylglycerol synthase TM region. LPG_synthase_TM is the N-terminal region of this family of bacterial phosphatidylglycerol lysyltransferases. The function of the family is to add lysyl groups to membrane lipids, and this region is the transmembrane domain of 7xTMs. In order to counteract attack by membrane-damaging external cationic antimicrobial molecules - from host immune systems, bacteriocins, defencins, etc - bacteria modify their anionic membrane phosphatidylglycerol with positively-charged L-lysine; this results in repulsion of the foreign cationic peptides.	3.48007e-23
NC_003888.3\|NP_630736.1\|7397607_7399386_-\|glucose-6-phosphate-1-dehydrogenase	gnl\|CDD\|235579	PRK05722, PRK05722, glucose-6-phosphate 1-dehydrogenase; Validated.	0
NC_003888.3\|NP_630730.1\|7390535_7391201_+\|GTP-cyclohydrolase-II	gnl\|CDD\|238348	cd00641, GTP_cyclohydro2, GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the precursor molecule for the synthesis of the coenzymes flavin mononucleotide (FMN) and flavin adenine dinucleotide (FAD) which are essential to cell metabolism. The enzyme is present in plants and numerous pathogenic bacteria, especially gram negative organisms, who are dependent on endogenous synthesis of the vitamin because they lack an appropriate uptake system. For animals and humans, which lack this biosynthetic pathway, riboflavin is the essential vitamin B2. GTP cyclohydrolase II requires magnesium ions for activity and has a bound catalytic zinc. The functionally active form is thought to be a homodimer. A paralogous protein is encoded in the genome of Streptomyces coelicolor, which converts GTP to 2-amino-5-formylamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate (FAPy), an activity that has otherwise been reported for unrelated GTP cyclohydrolases III.	6.16504e-104

>NC_003888.3|NP_733710.1|7386054_7387293_+|glycosyl-transferase
MTGTTAAGRTRLAHVPAQLPGTAQAQAQAQASIPVPVPVPRNGGIVPMSLRAVHFVMPGGVDDPAAPSGGNAYDRRVRLDLPGFGWRVRGLPVPGDWPRPDDAARAELARVLRRLPDGAVVLLDGLVACGVPEVVVPEAERLRMAVLVHLPLGDETGLDPAVAAGLDARERTVLRAVPAVVATSDWAVRRLVSHHGLDPGRVHVAAPGADIAPLAPGTDGVSKLVCVAAVTPRKGQHRLVEALAAVSDLPWSCVCVGGLAQDPEYVDRLRSLIARHGLQERLVLAGPRAGADLDATYAAADLMVLTSYAETYGMAVTEALARGIPVLATDVGGLPEAVGRAPDGGVPGILVPPEDPGALAAELRGWFGEPDVRRRLKAAARGRRAALNGWASTAQSLAGVLHRLPGEPRRAA
>NC_003888.3|NP_630726.1|7385659_7386058_+|hypothetical-protein
MFSITVRDHIMIAHSFRGDVFGPAQRLHGATFLVDATFRREQLDEDNIVVDIGLATQELGAVVGALNYRNLDNEPDFAGVNTSTEFLAKVIADRLAERVHKGALGEGARGLAGLTVTLHESHVAWASYERAL
>NC_003888.3|NP_630725.1|7384870_7385545_+|hypothetical-protein
MTPVPPSVPAGRAVLAGTVETAVNALWDAAPLIGDRVSVVGGGMVGCSVAALLARFPGVRVELVDADPARAEVAEALGAGFASPEDAAGDRDLVVHASATEAGLARSLELLRPEGTVVELSWYGDRRVALPLGEAFHSRRLTLRGSQVGTVSPARATTRTYADRLALALELLADPALDALVTGESAFAELPELMPRLASGALPALCHRIRYDEEDTGTDARSGA
>NC_003888.3|NP_630724.1|7384535_7384874_+|hypothetical-protein
MARMARAFWLEAPGRGAIREVELPVPGADEVLVRALFSGVSRGTETLVFGGRVPENQYTAMRAPFQEGDFPGPVKYGYLGVGVGRRGRSGSSGAPCSVSTRTRPGTSSPPRP
>NC_003888.3|NP_630723.1|7383631_7384426_-|hypothetical-protein
MALINLNHTDDGYDAYDACPARSVQQETAVGAGAQILLLALLGTAIGMGTAGWLTGLAFAFASWAVLSRALHRSRLPSFGPANRVTLGRATLVGGVTALVADSFRSAPPLSLLVGLTAVALILDGVDGRVARRTGTSTPLGARFDMEVDAFLILVLSVYVALDLGPWVLLIGGMRYVFVAAARVWPWLTAPLPPSTARKTVAALQGVLLLLAGAELLPRPGNAGVVAVALGLLVWSFGRDVRWLWRRSRVPAAPVTAVRELVAQ
>NC_003888.3|NP_630722.1|7382318_7383629_+|transport-system-permease
MTSTPAPAGGRAGQVPGRRTAPFATLSPLLRLLILTQLAFNIGFFAVLPFLAEHLGQSVGMAGWLVGFVLGLRTFSQQGLFVVGGALADRYGIRPVVLAGCVLRIAGFAWLGFAERTWAVVSAVLLIGFAAALFSPAVESEVARQAVGWEEEGGGDRTRVLALFTVAGQAGAFVGPLLGALLLAVDFRTACLAGAGVFVLVLAGHAWLLPQRVPGRAQVRMKGGARLVLRNRRFLALCCAYGAYLLAYNQLYLALPAEVERAAGSQAPLAWLFALSSLLVVIAQLPVTRWAGERLARRRSMVTGLVLIAVGFAVVGLARPAGWTGTGGLLPAAGFVVLLTLGQMLVAPVARAWVPDLAEDGRLGLYTGALSSVSGLIVLAGSSATGLLLDTGLPVAVPWLVLAAVPLVAAATLPRWPHRGAGATAPTPSTAGSGRS
>NC_003888.3|NP_630721.1|7380511_7382317_+|transport-system-permease
MWQRVAGAGWRILLAVGLVCGVGLLPWLTRTDPAYTVLKARSAEREPTPEVLADIRRQLGIDGGPLHVLTGWLGGLVRGDAGRSWISGADVLPDVTRALGVSLLLMGVALLVAVLTAGLICARTLRLGARRRLGGRRGGGSLSAVLASLPEFLVASVLATVVGVQLGWLPALGWYGPQWTLLPALALGLPAGAVLGRLLDDLLPGAFGEPWALAAAARGLTGRSIARQALRRCVPALLPNFGLFVVGLTGGAVAVEQVFDIPGLGRTTLQAALAQDLPVLQSGTLALVLLAGLATGATRVAARLLTGPALRDGALSSLHRPAPPAGGLLPLLYGALLLAVVGFGLTRDPLALDTGQRLRAPSLDHPFGTDALGRDLLARVGHGALDTLALAAAISAAALLAGVLLGLVPRVSAPLVDTVNAVPPVLVALLVTAVAGSGAATPALAVGAVAWAPLAAHTSSLLRQERATLHITATKGLGAGPVHLLRHELLPAVVPPVLRHALLRLPGVALALASLGFLGLGAQPPSPEWGLLLAENQPYAERAPWAVLAPAAVLALLGALAVSAAGGLRRRPTRSSPRQTDAAGQRPVAEAEREPAGFGAR
>NC_003888.3|NP_630720.1|7378996_7380508_+|solute-binding-lipoprotein
MRSHRRPRLLAPFLLVPLMAGCFASGGGDDSASGDGGDGDGARLRVALAFPPAENLSPYGADATLLSRLGVTEGLTSLDANGSAAPALAESWRRDGDRTWEFSLRDATFQDGGEVTPAAVAASLTHATDAEPAPAALAGVTLSAEAGGDRVVRITTAEPDPVLPLRLSSPSLAILSKGAYGKGSRVDPVGHATGPFELTKVNGATSASLDRFDDYWGGRAQASGIDARFIADGTARANALRTGELDIAEAVPVAQAASLDEKTRRDTATTRTTSLLLNASSGPFKDAGLRAAARGALDTSVFAKDVYEGYGDPGAGVYGPAVTWAEGKRTAPVGRASAKKPGDGDTVNLATYDNRPELPEVAQVVKQQLEKAGFTVKLTVREYSRLEGDALDGKFDAFVLARNTLLDTGDPVAVLASDYTCDGGFNIAQLCDKGVDRAVADAEKIADTAKRQDAAMAAEARILGSDAVVPLVHQRIITGVAGSVQGVVLDPYERALVGTGTRR
>NC_003888.3|NP_630719.1|7378333_7378888_+|hypothetical-protein
MRTTDYTIRTATSADVPPARAVMLDTVYRDFRTGYVPRWHGDVIDPAGAYLTPARHTLLVAVAADGEVVGTGALDSRGPAHPPNPPHVAERFPSGVTAQLRRIYVRPEHRRRGLARRLVDELLAFAVADGGYRAVYLHTDPAVTGAEPFWRSLAKVVHDEREDAGGGQGIVHFEVPMAGWRGAR
>NC_003888.3|NP_630718.1|7377776_7378070_-|hypothetical-protein
MASAQSGQQRFVRRRLQVDEDEDLSLIVRMQTGQFPAHPPTQISPSHRCSGACGILEEDAHAVGKRFQGFRIQPGYCASSDGDAFGGPVCRLIRPGG
>NC_003888.3|NP_630728.1|7388671_7389874_+|hypothetical-protein
MSAPTLPTVSTVPAAVPPTPVRPHAPTGVAAPRRRALRAHLGTLAGTAVLAVLLWRLGTGAFLDGLRRIDGPAVLAALGIGLVTTVFSAWRWALVARGLRIRLPLAAAVADYYRALFLNAALPGGVLGDVHRAVRHGRSTGDLGRGVRAVVLERVAGQLALIGAGAGVLLTMPSPVRAEVRHLAPLVALALAGALAVVLALRWNRAPARRGRAVRTALGEARHGLLSRRNLPGIVLSSAIVLAGHLTMFVVAARVAGSAASVAVLTPLAVLALLAMGLPLNVGGWGPREGVTAWAFGAAGLGAGTGLGVAVVYGVLSLVASLPGVVVLVGRRYAARYPRSPSEPSEASESSEPSDVDGVPAVSAVSSATYSPKESARLSSSSFPFSADPSEGRPMTPESV
>NC_003888.3|NP_630729.1|7389678_7390500_-|hypothetical-protein
MKGRAGMDVSLVPADTSDDVRERGSGLPRQVAVLPVGSFEQHGPYLPLATDTLVACAVARAVADAYPVHLLPPVTIGCSHEHADWPGTVSISAVTLHAVVRDIADSLRRSGVGALVVVNGHGGNYVLGNVVQESSARGERMALFPAAEDWETARRRAGVVTSLLTDMHAGEIETSILLHKHPELVRPGYEAADFVADDRRHLLSLGMSAYTDSGVIGRPSLGSAEKGKELLESLADSFGEYVALLTAETAGTPSTSEGSDDSEASDGSDGERG
>NC_003888.3|NP_630730.1|7390535_7391201_+|GTP-cyclohydrolase-II
MTEKIGVLGKKTTQRTDVERIVVTPLPTVYGKFRAFGYFDHERGDEQVALVHGDLGAEDVLTRLHSECLTGDAFGSQHCECGAQLASALRQVADAGSGIVVYLRGHEGRGIGLLAKLRAMALQAEGLDTVEANLALGLPVDARDYGVAARILDDLGVRSVRLMSNNPRKREALVRHGIRVAEQVPLLIPPCESNITYLRTKRERLDHHLPHLDAAMAHVSS
>NC_003888.3|NP_630731.1|7391231_7392461_-|hypothetical-protein
MPPLRQEVEAGAAGLDPGALARLDLHFARQVDEGRLPGFLVAVARGGRVAHLTVHGLRDVAAGLPVTADTLWRIYSMTKPVTSVAVLTLVEEGRLALDDPVDRYLPAFAEPRVYVGGTGENVVTRPATGPVRVRHLMTHTAGLTFGFYRTHPVDALYRAAGVESSVRPGADLAETVDLYASLPLQFDPGTEWNYSVASNVLGRLVEVVSGQPLDVFCAERIFGPLGMTDTGFHVADAQAGRLAELYGETEDGGIAPVPGLPLLGRPRFLSGSGGLASSAYDVHRFAELLRRRGELDGVRLLAPATVDLMTRNHLPGDADLRSFGSRPAHDERGNDGVGFGLGVSVVTDPSRTRSPSGLGTYGWSGVATTTFWVDPGRDLTVQFMTQVRPRSSHAVYPDLKRLVHEALTD
>NC_003888.3|NP_630732.1|7392552_7394136_-|hypothetical-protein
MGGPESALTCSAGSGQSPSLMEINDLTPAESRLWRAFASGTDVDFRATNPPAPGSSATDPSGGADPSGADSDDPARGDTWGPERTVRASVLRSLLLDGPREDGRVAALSLAGARVTGRLDVQYATVDHPVRLRHCHFDEAPRFYGARLRELNLSESVLPGLISHAVRVEGVLRLTRARFSGTVRLAGAEVTGSLYLESTRIEAPDTEGPVLQLNQAVLGADLWAPGLRTAGEVRLTGARVAGTVNLNDAVLDRPGGTAVHAETLATEADVLLRRADVRGRLELRGARIPGRLDLSHARLANAGNTALRASSCVIGELWLREGPAVQGALNLRRAQVDVLFLQPEVVPAWVQLNDLTYTSLIPHEPAGRRLPMLEKGDRYLPFTYEQLTAAYRRIGDDDAARLVQLAKQRRRRRTLPWYGRLWGHLQDIAVGYGFRPLRAGGWLLSLLAVGSVVYGLHHPPPLKPQEAPGFNPVFYTLDLLLPVISFGQESAFSPQGGYQTLSYVLVITGWILATTVITGLTRTVSRQ
>NC_003888.3|NP_630733.1|7394147_7395029_-|6-phosphogluconate-dehydrogenase
MQIGLVGLGKMGGNMRERLRNAGHTVVGYDTNPDRADVDSLVELVDRLERPRAVWVMVPAGGATQHVIDQLATLLKPGDTVIDGGNSRWTDDEKHAEELGKRGINFVDAGVSGGVWGLKNGYALMVGGDKETVDDLKPVFDALKPDGPYGYVHAGKVGAGHFSKMVHNGIEYAMMQAYAEGWELLEKVDSVDNVREVFRSWQEGTVIRSWLLDLAVNALDDDHHLEKLRGYADDSGEGRWTVEAAIDNAVPLPAITASLFARFASRQEDSPQMKMVAALRNQFGGHAVESAKK
>NC_003888.3|NP_630734.1|7395030_7396683_-|glucose-6-phosphate-isomerase
MSDTPKLNQRPEWTALADHAKGTLPHPDLRELFAQDPGRAERYVVRVGDLRIDYSKHLVTDETLALLQELAAATGVSGLRDAMFRGERINITEDRAVLHTALRAPRDAVIEVDGENVVPQVHAVLDKMAGFADRVRSGEWTGHTGRRIRNVVNIGIGGSDLGPAMAYEALRAFTDRSLTLRFVSNVDGADLHEAVRDLDPAETLFIIASKTFTTIETITNATSARSWLLDGLGGDEKAVAKHFVALSTNAEKVADFGIDTANMFEFWDWVGGRYSFDSAIGLSLMIAIGPDRFREMLDGFRIVDEHFRNAEAPANAPLLLGLLGVWYGDFLGAQSHAVLPYSHYLSKFTAYLQQLDMESNGKSVDREGNPVQWQTGPVVWGTPGTNGQHAYYQLIHQGTKLIPADFIGFARPVDELSEELKAQHDLLMANFFAQTQALAFGKTPDEVRAEGVPEELVPHKTFRGNHPTTTVLAAELTPSVLGQLIALYEHKVFVQGAIWNIDSFDQWGVELGKVLAKRVEPALTEGADVPGLDPSTAALVAAYRELKEVH
>NC_003888.3|NP_630735.1|7396675_7397611_-|hypothetical-protein
MRIDLTDTTASKINKALVQGRRAIGTPAVGMVLTLVIVTDEENAYDATKAAEEASHEHPSRTLVVIKRHPRNLRDRTRSHLDAEVRVGSEAGTGETVVLRTYGEVSEHADSVVLPLLLPDAPVVVWWPVEAPDNPAKDPLGALAQRRITDLYTVERPMEVLERRVRAYAPGDTDLAWTRLTLWRSMLAAALDQARVPVTSAVVEAEADNPAAELLARWMEARLGVRVDRVVTDGPVVTAVRLGTANGEIVVDRPEGPLATMTLPGQPSRSVALKVRPTSELIAEELRRLDADEMYAVALRGKAGKETPVHV
>NC_003888.3|NP_630736.1|7397607_7399386_-|glucose-6-phosphate-1-dehydrogenase
MSEELPAGAPQETKATKEAKETRTAQEAAGPLHAEEAEEARAAEAAKASGRAKAPRGAKKSATNRAAKEAKGKGAAGEGVEPVAPLDWSNPLRDPQDRRLPRIAGPSGLVIFGVTGDLSRKKLMPAVYDLANRGLLPPGFSLVGFARRDWEDQDFAEVVHDAVREHARTPFREEVWQQLSEGMRFIPGDFDDDNAFEQLRKAVEELDASRGTSGNYAFYLSVPPKFFPKVVQQLKKHGLTDAPAGSWRRAVIEKPFGHDLDSARDLNALVHEVFDPEQVFRIDHYLGKETVQNILALRFANQMYEPIWNRSYVDHVQITMAEDIGIGGRAGYYDGIGAARDVIQNHLLQLMALTAMEEPAAFDARSLLTEKLKVLRAVRLPDDLGEHTVRGQYAGGWQGGAQVPGYLEEEGIDPASTTDTYAAIKLGIDNRRWAGVPFYLRTGKRLGRRVTEIAVVFQRAPHSPFDSTATEELGENAIVIRVQPDEGMTVRFGSKVPGTSMEIRDVSMDFAYGESFTESSPEAYERLILDVLLGDANLFPRHQEVEESWRILDPIEEYWASHDKPAQYASGGWGPREADEMLARDGRSWRRP
>NC_003888.3|NP_630737.1|7399382_7400528_-|transaldolase
MITVTEATATAGALQRLADQGVSVWLDDLSRRRIESGNLAELIRTKNVVGVTTNPSIFQAAIGSGEGYEEQLADLATRGVTVDEAVRMMTTADVRAAADVLRGVYDASGGRDGRVSIEVDPRLAHDTAATVAEARQLSWLVDRPNVMIKIPATKAGLPAITEVIGAGISVNVTLIFSLERYREVMDAYLAGLEKAQAAGIDLAGIHSVASFFVSRVDSEIDKRLSLLGTEEALGLRGRAALANARLAYEAYENVFAGDRFTALAGARANAQRPLWASTGVKDPAFRDTLYVEELVAPGTVNTMPEATLDAAADHGDVRGDTVTGGYAQARADLAAVERLGVSYDEVVEQLEQEGVAKFEAAWQELLAAVTKSLDSKGVDGE

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Crispr_ID: NC_003888_7

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_003888_7

8094791-8094888

Orphan

Consensus_repeat	Method
GGCCGCCACGAAGGCGTCCGGGT	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_003888_7

>merge|NC_003888|7|8094791-8094888|CRISPRCasFinder
GGCCGCCACGAAGGCGTCCGGGTCGTCGCCGCAGGGGATGGACTCGGCGACGTCGTCCGGCGTCACGAACTGGGTGGCCGCCTCGAAGGCGTCCGGGT

>NC_003888|7|7|8094791-8094888|CRISPRCasFinder
GGCCGCCACGAAGGCGTCCGGGT	CGTCGCCGCAGGGGATGGACTCGGCGACGTCGTCCGGCGTCACGAACTGGGT
GGCCGCCTCGAAGGCGTCCGGGT

Protein	Signature genes	Signature genes Name	Protein_function
NC_003888.3\|NP_631351.1\|8103556_8103910_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|366940
NC_003888.3\|NP_631340.1\|8089934_8090642_+\|ribonuclease-H	unknown	unknown	gnl\|CDD\|260010
NC_003888.3\|NP_631342.1\|8092022_8093006_+\|oxidoreducatse	unknown	unknown	gnl\|CDD\|381312
NC_003888.3\|NP_631353.1\|8105396_8107073_-\|thioredoxin-reductase	unknown	unknown	gnl\|CDD\|381126
NC_003888.3\|NP_631352.1\|8103906_8105400_-\|two-component-sensor-histidine-kinase	unknown	unknown	gnl\|CDD\|340419
NC_003888.3\|NP_631344.1\|8093541_8094045_+\|hypothetical-protein	unknown	unknown	unknown
NC_003888.3\|NP_631350.1\|8100523_8103490_-\|LuxR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|226415
NC_003888.3\|NP_631355.1\|8108172_8109405_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|379077
NC_003888.3\|NP_631354.1\|8107217_8108156_+\|stress-inducible-protein	unknown	unknown	gnl\|CDD\|366180
NC_003888.3\|NP_631336.1\|8087019_8087622_-\|ATP-dependent-Clp-protease-proteolytic-subunit-2	unknown	unknown	gnl\|CDD\|178955
NC_003888.3\|NP_631345.1\|8094133_8094562_-\|regulator	unknown	unknown	gnl\|CDD\|377399
NC_003888.3\|NP_631339.1\|8089105_8089903_+\|hydroxylase	unknown	unknown	gnl\|CDD\|319911
NC_003888.3\|NP_631347.1\|8097453_8098413_-\|threonine-dehydratase	unknown	unknown	gnl\|CDD\|107205
NC_003888.3\|NP_631341.1\|8090744_8092010_+\|hydroxylase	unknown	unknown	gnl\|CDD\|236203
NC_003888.3\|NP_733728.1\|8095689_8097306_-\|Ser/Thr-protein-kinase	unknown	unknown	gnl\|CDD\|270916
NC_003888.3\|NP_631338.1\|8088495_8088978_+\|DNA-binding-protein	unknown	unknown	gnl\|CDD\|369157
NC_003888.3\|NP_631343.1\|8093033_8093387_-\|hypothetical-protein	unknown	unknown	unknown
NC_003888.3\|NP_631349.1\|8099127_8100432_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|349398
NC_003888.3\|NP_631348.1\|8098438_8099116_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|376704
NC_003888.3\|NP_631337.1\|8087623_8088277_-\|ATP-dependent-Clp-protease-proteolytic-subunit	unknown	unknown	gnl\|CDD\|237133

Protein	Function_ID	Function_description	E-value
NC_003888.3\|NP_631351.1\|8103556_8103910_-\|hypothetical-protein	gnl\|CDD\|366940	pfam02148, zf-UBP, Zn-finger in ubiquitin-hydrolases and other protein.	1.08598e-12
NC_003888.3\|NP_631340.1\|8089934_8090642_+\|ribonuclease-H	gnl\|CDD\|260010	cd09278, RNase_HI_prokaryote_like, RNase HI family found mainly in prokaryotes. Ribonuclease H (RNase H) is classified into two evolutionarily unrelated families, type 1 (prokaryotic RNase HI, eukaryotic RNase H1 and viral RNase H) and type 2 (prokaryotic RNase HII and HIII, and eukaryotic RNase H2). RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner. RNase H is involved in DNA replication, repair and transcription. RNase H is widely present in various organisms, including bacteria, archaea and eukaryotes and most prokaryotic and eukaryotic genomes contain multiple RNase H genes. Despite the lack of amino acid sequence homology, type 1 and type 2 RNase H share a main-chain fold and steric configurations of the four acidic active-site (DEDD), residues and have the same catalytic mechanism and functions in cells. One of the important functions of RNase H is to remove Okazaki fragments during DNA replication. Prokaryotic RNase H varies greatly in domain structures and substrate specificities. Prokaryotes and some single-cell eukaryotes do not require RNase H for viability.	4.13885e-53
NC_003888.3\|NP_631342.1\|8092022_8093006_+\|oxidoreducatse	gnl\|CDD\|381312	cd19086, AKR_AKR11C1, AKR11C family of aldo-keto reductase (AKR). Bacillus subtilis uncharacterized oxidoreductase YqkF is a founding member of aldo-keto reductase family 11 member C1 (AKR11C1). It may function as oxidoreductase. This family also includes Bacillus halodurans AKR11C1, an NADPH-dependent 4-hydroxy-2,3-trans-nonenal reductase.	1.87515e-101
NC_003888.3\|NP_631353.1\|8105396_8107073_-\|thioredoxin-reductase	gnl\|CDD\|381126	cd17595, REC_TrxB, phosphoacceptor receiver (REC) domain a fused response regulator with a thioredoxin reductase output domain. This family is composed of uncharacterized fusion proteins containing a REC domain and a thioredoxin reductase domain. Thioredoxin reductase catalyzes the reduction of thioredoxin and is thus a central component in the thioredoxin system. Fusion proteins containing REC and thioredoxin reductase domains could play an important role in the environmental regulation of the cellular dithiol-disulfide ratio. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.	3.8595e-79
NC_003888.3\|NP_631352.1\|8103906_8105400_-\|two-component-sensor-histidine-kinase	gnl\|CDD\|340419	cd16943, HATPase_AtoS-like, Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Escherichia coli K-12 AtoS. This family includes the histidine kinase-like ATPase (HATPase) domains of various histidine kinases (HKs) of two-component signal transduction systems (TCSs) such as Escherichia coli AtoS, an HK of the AtoS-AtoC TCS. Proteins having this HATPase domain also contain a histidine kinase dimerization and phosphoacceptor domain (HisKA); some have accessory domains such as HAMP or PAS sensor domains or CBS-pair domains.	2.87792e-54
NC_003888.3\|NP_631350.1\|8100523_8103490_-\|LuxR-family-transcriptional-regulator	gnl\|CDD\|226415	COG3899, COG3899, Predicted ATPase [General function prediction only].	4.28887e-37
NC_003888.3\|NP_631354.1\|8107217_8108156_+\|stress-inducible-protein	gnl\|CDD\|366180	pfam00582, Usp, Universal stress protein family. The universal stress protein UspA is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. UspA enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae UspA reveals an alpha/beta fold similar to that of the Methanococcus jannaschii MJ0577 protein, which binds ATP, though UspA lacks ATP-binding activity.	2.64262e-22
NC_003888.3\|NP_631336.1\|8087019_8087622_-\|ATP-dependent-Clp-protease-proteolytic-subunit-2	gnl\|CDD\|178955	PRK00277, clpP, ATP-dependent Clp protease proteolytic subunit; Reviewed.	6.26359e-101
NC_003888.3\|NP_631345.1\|8094133_8094562_-\|regulator	gnl\|CDD\|377399	pfam04686, SsgA, Streptomyces sporulation and cell division protein, SsgA. The precise function of SsgA is unknown. It has been found to be essential for spore formation, and to stimulate cell division.	1.52579e-29
NC_003888.3\|NP_631339.1\|8089105_8089903_+\|hydroxylase	gnl\|CDD\|319911	cd07247, SgaA_N_like, N-terminal domain of Streptomyces griseus SgaA and similar domains. SgaA suppresses the growth disturbances caused by high osmolarity and a high concentration of A-factor, a microbial hormone, during the early growth phase in Streptomyces griseus. A-factor (2-isocapryloyl-3R-hydroxymethyl-gamma-butyrolactone) controls morphological differentiation and secondary metabolism in Streptomyces griseus. It is a chemical signaling molecule that at a very low concentration acts as a switch for yellow pigment production, aerial mycelium formation, streptomycin production, and streptomycin resistance. The structure and amino acid sequence of SgaA are closely related to a group of antibiotics resistance proteins, including bleomycin resistance protein, mitomycin resistance protein, and fosfomycin resistance proteins. SgaA might also function as a streptomycin resistance protein.	2.03782e-30
NC_003888.3\|NP_631347.1\|8097453_8098413_-\|threonine-dehydratase	gnl\|CDD\|107205	cd01562, Thr-dehyd, Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly converted into NH4+. The direct deamination is catalyzed by threonine dehydratase, in which pyridoxal phosphate (PLP) is the prosthetic group. Threonine dehydratase is widely distributed in all three major phylogenetic divisions.	2.82551e-113
NC_003888.3\|NP_631341.1\|8090744_8092010_+\|hydroxylase	gnl\|CDD\|236203	PRK08255, PRK08255, bifunctional salicylyl-CoA 5-hydroxylase/oxidoreductase.	1.32789e-135
NC_003888.3\|NP_733728.1\|8095689_8097306_-\|Ser/Thr-protein-kinase	gnl\|CDD\|270916	cd14014, STKc_PknB_like, Catalytic domain of bacterial Serine/Threonine kinases, PknB and similar proteins. STKs catalyze the transfer of the gamma-phosphoryl group from ATP to serine/threonine residues on protein substrates. This subfamily includes many bacterial eukaryotic-type STKs including Staphylococcus aureus PknB (also called PrkC or Stk1), Bacillus subtilis PrkC, and Mycobacterium tuberculosis Pkn proteins (PknB, PknD, PknE, PknF, PknL, and PknH), among others. S. aureus PknB is the only eukaryotic-type STK present in this species, although many microorganisms encode for several such proteins. It is important for the survival and pathogenesis of S. aureus as it is involved in the regulation of purine and pyrimidine biosynthesis, cell wall metabolism, autolysis, virulence, and antibiotic resistance. M. tuberculosis PknB is essential for growth and it acts on diverse substrates including proteins involved in peptidoglycan synthesis, cell division, transcription, stress responses, and metabolic regulation. B. subtilis PrkC is located at the inner membrane of endospores and functions to trigger spore germination. Bacterial STKs in this subfamily show varied domain architectures. The well-characterized members such as S. aureus and M. tuberculosis PknB, and B. subtilis PrkC, contain an N-terminal cytosolic kinase domain, a transmembrane (TM) segment, and mutliple C-terminal extracellular PASTA domains. The PknB subfamily is part of a larger superfamily that includes the catalytic domains of other protein STKs, protein tyrosine kinases, RIO kinases, aminoglycoside phosphotransferase, choline kinase, and phosphoinositide 3-kinase.	3.16663e-43
NC_003888.3\|NP_631338.1\|8088495_8088978_+\|DNA-binding-protein	gnl\|CDD\|369157	pfam06983, 3-dmu-9_3-mt, 3-demethylubiquinone-9 3-methyltransferase. This family represents a conserved region approximately 100 residues long within a number of bacterial and archaeal 3-demethylubiquinone-9 3-methyltransferases (EC:2.1.1.64). Note that some family members contain more than one copy of this region, and that many members are hypothetical proteins.	1.40882e-72
NC_003888.3\|NP_631348.1\|8098438_8099116_-\|hypothetical-protein	gnl\|CDD\|376704	pfam01987, AIM24, Mitochondrial biogenesis AIM24. In eukaryotes, this domain is involved in mitochondrial biogenesis. Its function in prokaryotes in unknown.	1.79747e-35
NC_003888.3\|NP_631349.1\|8099127_8100432_-\|hypothetical-protein	gnl\|CDD\|349398	cd05379, CAP_bacterial, Bacterial CAP (cysteine-rich secretory proteins, antigen 5, and pathogenesis-related 1 proteins) domain proteins. Little is known about bacterial and archaeal members of the CAP (cysteine-rich secretory proteins, antigen 5, and pathogenesis-related 1 proteins) domain family. The wider family of CAP domain containing proteins includes plant pathogenesis-related protein 1 (PR-1), cysteine-rich secretory proteins (CRISPs), and allergen 5 from vespid venom, among others. Studies of eukaryotic proteins show that CAP domains have several functions, including the binding of cholesterol, lipids and heparan sulfate. This group includes Borrelia burgdorferi outer surface protein BB0689, which does not bind to cholesterol, lipids, or heparan sulfate, and whose function is unknown.	9.96248e-46
NC_003888.3\|NP_631355.1\|8108172_8109405_-\|hypothetical-protein	gnl\|CDD\|379077	pfam13224, DUF4032, Domain of unknown function (DUF4032). This presumed domain is functionally uncharacterized. This domain family is found in bacteria, and is approximately 170 amino acids in length. The family is found in association with pfam06293.	1.00067e-83
NC_003888.3\|NP_631337.1\|8087623_8088277_-\|ATP-dependent-Clp-protease-proteolytic-subunit	gnl\|CDD\|237133	PRK12553, PRK12553, ATP-dependent Clp protease proteolytic subunit; Reviewed.	1.79565e-103

>NC_003888.3|NP_631345.1|8094133_8094562_-|regulator
MNTVVHKTLVVQLQAGGTADRFPVLAHLAYDAADPFALTVVFSHDGRVLARWTLDREMVAEGLTRPVGVGDVRLRPESRGMWDELRIELLGDGRADGERHRAVVFVWAAAVEAFLRETHAVVRPGREEVRVDDFLAELTAEG
>NC_003888.3|NP_631344.1|8093541_8094045_+|hypothetical-protein
MRDAEAAEGSGRRRGRNETEEERADRMWTELIQEVRVAQMGVQILFGFLLTVVFQPKYDTLSDTDQMIYLITVVLGAVTTGALIGPVSLHRLVSGRRVKPQAVRWASRLTVLGLVLLLATTACSLLLILRVATHDGFVPYLVTGVVLWYLLCWFGIPLWTRHRHTAR
>NC_003888.3|NP_631343.1|8093033_8093387_-|hypothetical-protein
MSDTRLTVTLDGGGIDDARAIVRALEGVFGAPDGRPADEGATVHTATFDAPDARHTPDASSAPAPGGALSAPVTVTVQGTPQAVEAASETLSRAFTARNEGAASGDQERERQLLLVP
>NC_003888.3|NP_631342.1|8092022_8093006_+|oxidoreducatse
MDERTFGRSDQHASVIGLGTWQLGADWGDVDDKEALAVLEAAAESGVTFFDTADVYGDGRSEQTIATFLASRPDLHVLVATKMGRRVDQIPQNYVLDNFREWNDRSRRNLGVDRLDLVQLHCPPTPVYSSDEVFDALDTLVEEERVAAYGVSVETCEEALTAIARPNVASVQVILNPFRMKPLREVLPAAREAGVGIIARVPLASGLLTGKYTKDTVFAANDHRTFNRHGEAFDQGETFSGVDFATGVEAAAEFAALAPEGYTPAQLALRWIVQQPGVTSVIPGARSPEQARANTDAARLPELSEDTLAAIRDLYDRRVKDQVEGRW
>NC_003888.3|NP_631341.1|8090744_8092010_+|hydroxylase
MCVKVACVGGGPAGLYLSILLKRQDPAHDVTVYERDPEGSTYGWGVTYWRGLLDRLRELDPGSARAVEEHSVRWRDGVAHVGGLATRHHGDEGFGIGRHRLLAILAARARELGVRLEFEHPVTGANPPAADLVVAADGAGSALRTHHADHFGTEITGGRDHYVWLGTTKVFDAFTFAFVETDHGWIWAYGYGFGPEGSTCVVECAPGTWTGLGLDRADEAEGLGLLEKLFADVLDGHPLSARSSGRASAAWPVFRTLTNRTWSRDNLVLLGDAAHTTHYSIGAGTTLALEDAMALATALRERDTLPDALAHYERERRAALLPVQSAARLSAQWYENLPRYIHLPPEQMFALLGQRHSPLLPHLPPRLYYRIDRAAGRLETLRRVKRRLGPVIARTVQARRLAAGDGRARSGRPDAVPAHRG
>NC_003888.3|NP_631340.1|8089934_8090642_+|ribonuclease-H
MIERMRERAVAACDGASKGNPGPAGWAWVVADASENPVRWEAGPLGKATNNIAELTALERLLASTDPDVPLEVRMDSQYAMKAVTTWLPGWKRNGWKTAAGKPVANRELVVRIDELLDGRSVEFRYVPAHQVDGDRLNDFADRAASQAAVVQEAAGSALGSPEPPPAPDVPAARRAPRRGSSGAARKGGGGSSARTIKAKFPGRCLCGRPYAAGEPIAKNDQGWGHPECRTVAAG
>NC_003888.3|NP_631339.1|8089105_8089903_+|hydroxylase
MAVQPQGAPCWADAMFTDVEGAKSFYGDVLGWTFGESSTEFGNYTQCYADGKAVAAVVPPPPGHEDQSQWCLYFASPDAAATAGRIREAGGELLLEPMKVGDFGTMCLARDPSGVVFGVWQGDEHEGFEATAVPGAYCWAEVFTREPAKSDAFFPAVFSYRARQMQDDQVDFRLFDLGDDPVLGRMAMTEDFPPEVPPHINVYFTVGDCDAAVARATERGGMLRFGPVTTPFGRFAALSDPQGASFSVIDITTTEGEMPEVTDVS
>NC_003888.3|NP_631338.1|8088495_8088978_+|DNA-binding-protein
MSTDGFTTCLWFDGDAEDAAHFYVSVFKNSGIGAVTRYPEGAPQPAGSVLTVEFTANGQKFVGLNGGPQFKFNEAISFQVTCEDQDEVDHYWTRLTEGGGEDGPCGWLKDRFGVSWQVVPRRLEEMFRDPDPARVARANKAMMSMRKLDIAALEQAYAGE
>NC_003888.3|NP_631337.1|8087623_8088277_-|ATP-dependent-Clp-protease-proteolytic-subunit
MSPFTAGPAPARTPRAEEGDTPATRFDDRLAEQLLDQRIVLLGTQVDEVSANRVCAQLLILSAQDPRTDISLYVNSPGGSVHAGLAIYDTMRLIPNDVSTLAMGFAASMGQFLLSVGTAGKRYALPNARIMMHQPSAGIGGTTADIEIQADNLDFTKRTIERITAEHTGQSPETISRDGDRDRWFTAEEAREYGMVDQVVQSLADVRPAATRRRMGL
>NC_003888.3|NP_631336.1|8087019_8087622_-|ATP-dependent-Clp-protease-proteolytic-subunit-2
MGSYTIPNVVERTPQGERSYDVFSRLLSERIIFLGTEIDDGVANVVIAQLLHLESSAPESEIAVYINSPGGSFTSLMAIYDTMTFVQAPISTFCVGQAASTAAVLLAGGDPGRRFVLEHARVLLGQPASGGRQGTVSDLALQAKEMVRIRSQVEEVLARHTHHDVATLRADMDRDKVFTAQEAVAYGLADEVLARRLTRV
>NC_003888.3|NP_733728.1|8095689_8097306_-|Ser/Thr-protein-kinase
MGRAHVSTHELVAGRYRLFEVVQRETNRVCWSGEDATTGRPCLVTRIELPEGRAGEAARRAPGRVIRTGETMASLCPGRIAPVLDAVVADGMLWTVTEWVAGVPLGDLLDRRGAFGCARAARVGLELLAVLEAAHTHGVTHGELSPGQVFVREEGSVLVTGFGLAGATLAPRLTAPAYASPEQARDERIGPAADLWTLGAILYTMVEGRPPFRDRGRPEATLKGVDRLPLRTPVRAGPLAQAVTGLLRKNSRERPTRPVVRAALARALAEDPGTAVTEVTTGPGVRGGYAAARTAGRDRSRRTVAAGTALAVVTVAVAVLADLAVTDGLPGRGDGAAAGARQRPSASAAPPTGSAPAAASPGSPSSPAGRPSASASPSKPGVPAPAGFRRYDAPEGFSVALPEGWRRLDTASAPGGAYRVVFGASGDPRTLAVTYSRRAGADPVVVWRDDVEPGLARSDGYRRIGEIRSTTYRGRAAADMEWLVRDDGTRLRTFGRGFLLGGGRSFSLRWTTPAGDWDDSANERALAAFLGTFRDGAA
>NC_003888.3|NP_631347.1|8097453_8098413_-|threonine-dehydratase
MIAITEIEAAAERIAGHVVRTPTVPSPGLSALLGVPVTAKLELLQRTGSFKARGATAKLLSLTEAERAAGVVAVSGGNHGIAVAVMAAALDVKATVVMPRTAPARSVEIAEEAGALVRLTDGMDSAFALVTRLREEGLTLVHPFDDPVVVAGQGTVGLEFAEDASDLTDVLVSIGGGGLIAGVAAALRALRPGVRVWGVETEGAEAMSRALAAGGPLTVPLSSVVTTLSAPSVSRLTYDHVAELVTEVLVVPDREAVRGSLALAEHAKVWTEPAAGCLLPAARRVVERVGDGARIGLVVCGGNATVGDMAVWADRFGLR
>NC_003888.3|NP_631348.1|8098438_8099116_-|hypothetical-protein
MKGDLFSSEHMVQPATAPGMTVENSKCIRYAVNGEMLARQGAMIAYRGNLQFERKGQGVGGMLKRAVTGEGLPLMAVRGQGEAWFANEAQNCFVVEVEPGDEFTVNGRNVLCFDASLSYRIATVKGSGIAGGGLFNSVFTGQGRLGLVCEGNPLVIPVSQQYPVHVDTDAVVGWSAGLATSLHRSQSIGSMLRGGSGEAVQLVLQGEGFVVVRPSEATPQKPQQH
>NC_003888.3|NP_631349.1|8099127_8100432_-|hypothetical-protein
MSDLVPGGNVPLPGGPVSVRVPGGFDVSALVTDEGGKVGGDADFVFYNQPEAPGARLRDDTLTVDPARLRRGAARVTVAVGPSDPGTPLGALPSPTVLVTDARGRTVARFTPARPGRETVLLLVEFYRRGEGWKVRALGQGYADGLAGLARDFGVEVTDDAPPEPATAPEPLTPGADSDGFLNLVNSARAAAGSPAVRPDPRLRSAARAHAAAMAAAGTLSIETRDGVSVHQRVVSAGFAYLTVGEHLVSGPRTPAEFVAYCLRAERTRRTLHDTAFTHAGWACVTGGPSGDTYWTALWAVPLTPDGLARTTAEVVGLTNRERAGAGLPALAVDARLTAAAQAHSADMVTRDFYSHTDPDGGKPWDRAAAAGADRRSVGENIACGQRSPAEVVEGWMNSPGHRANILEAGFTHIGVGLAGGGRAGTYWTQLLGG
>NC_003888.3|NP_631350.1|8100523_8103490_-|LuxR-family-transcriptional-regulator
MGGVPQTSLTSPLVGREDELARLTGVLERARAGEARAVLVAGDAGVGKTRTLHEAAGRAAAAGTTVLTGHCVDLGDVGLPYLPFTEILGVLAADERFAAVLAGHPVADRLLGGGPDDGTDAAPSRLRLFEGVAALLTELADVAPLLLVLEDLHWADQSSRDLLRFLLGRGVLQRPAGGAPGHRLALFASYRADDLHRRHPLRPLLAELVRLPGVERLELRPLPDSDVARLVRLLRERRLPDSTVRRIVERAEGNAFYAEELVAATDAPAGGVPSGLADVLLIRFEQLSETAQQVLRTAAVAGRRVGHDLLRDAVGLPEEELESALREAVERQLLVSGDGGAYSFRHALAREAVYADLLPGERARLHGAFARLLAGPDRRSDSAAERAHHYRESHDLPEALAASLEAADHAQRVGAPAEELRHVEAALDLWTAVDAAARPAGPDAVTLTLRASAAAVHAGELHRAVSLTRSALAGLGQDADLELAARVRYTLAGNLLSVDNLESAYAYSSEALGLIPAEPPSSTWVWAAATHVTAARQVGENETALRVARRALRAAEELAVTDARADLLISLTSLEGGNRSTPEGRERLLEARELARRAGNAPVELRALFNLAIGCFESGDLEECLPWASEGLDRARRSGLLSSPYPREMRYLRLLVQYTLGHWDEVLRESAEHAGERSAVDGHALGPGLYVALARGDSGVADRARALLNGPFDWMARMVAGVVLTDAAALRGDAEDAVRWMRSSVETLTEAGTRPTVTLRLATLALSAVADTVTELRRAGDDAGVARWSDTAAELLADARWSAGHGYDDMPQGPEGQAWLARAEAEWSRVAGAAPDPAAWERAVAAFTYGDTYERARCRLRLADALLAADRREEAATEAGGVRREADRLGATVLRERVDDLVRRGRLAGPARAGAGAAVLTAREQDVLRLLALGHSNRRIGEELFISAKTASVHVSNILAKLNAASRTEAVAVAHRQGLVAPEPTSSH
>NC_003888.3|NP_631351.1|8103556_8103910_-|hypothetical-protein
MTSDTGIDPTVPPSGTGCVECDAADGWWFHLRRCASCGHVGCCDSSPGQHATGHYRSTGHPVVQSFEPGEEWYWDYATSEVRESGPELAPPGSHPADQPSPGPAGRVPADWASTLHR
>NC_003888.3|NP_631352.1|8103906_8105400_-|two-component-sensor-histidine-kinase
MSGRPMPCSPEEIGKLFLFEKLTPEQLGRLCAEGRVELFDPGPVYAEGEDATCFYVMLAGTVVLSRRVGADDVETNRTSQPGVYAGAMQAYVGDRVPQVYNNSMRVTEPTRFFVLPADTFAAVMREWFPMAVHLLEGLFFGSKNTQRAIGQRERLLALGSLSAGLTHELNNPAAAAVRATSTLRERVAKMRHKLAVIAEGPFSREALAGLIEIQERTAERVAKAPSLSPLEAADREDDLGDWLEDHGIEHGWQLAPTFVQAGLDTEWLEQVAAAVDEEILPGAVGWLNYTVETELLMNEIADSTARISHLVDAAKQYAQLDRAPYRTVDVHELLDSTLLMLSGKIGPRIEVVKEYERTVPRVPAYPAELNQVWTNLIDNAVAAVNDAGGEGTLTVRTALHHDRLLVEFRDTGTGIDPEIRERIFDPFFTTKPVGEGTGLGLDISWRIVVDKHHGSLQVESVPGDTRFQVLLPLTAAEPDPADPTDPTDPTDPTEEPV
>NC_003888.3|NP_631353.1|8105396_8107073_-|thioredoxin-reductase
MAQADGETRTVIMTVDDDPGVSRAVARDLRRRYGATYRIVRAESGESALDALRELKLRGDLVAVILADYRMPQMNGIEFLEQALDVYPGARRVLLTAYADTNAAIDAINVVDLDHYLLKPWDPPEEKLYPVLDDLLQAWRAGDHRPVPSTKVVGHRWSARSSEVREFLARNQVPYRWYSSDEPEGRRLLSAAGQDGQRLPVVITPDGTPLVEPEAPELAARVGLATTPTSDFYDLVVIGGGPAGLGAAVYGASEGLRTVLVERSATGGQAGQSSRIENYLGFPDGVSGGQLTERARRQAARFGAEILTAREVTGLEANGAARVVRFSDGSAIAAHSVILATGVSYRQLTAPGTEDLAGCGVFYGSALTEAASCQGHDVYIVGGANSAGQAAMYLARGAKSVTLLVRGGSLEASMSYYLIQQIEETPNIRVRCGTLVEGAHGDGHLERLTLRDAASGATELVDAQWLFVFIGAAPLTDWLDGTVLRDERGFILAGPDLTPDGRPPAGWELDRPPYHLETSVPGVFVAGDARAESAKRVASAVGEGAMAVMLVHRYLEQS
>NC_003888.3|NP_631354.1|8107217_8108156_+|stress-inducible-protein
MRTAWGRLGSENDVPATQGGTRMTRPITAGSDGSEESLAALVWAAREAVRRGAPLHVVHAWRFQGQGVAGAVDRETQEGWARDALARAVGTVAERHPGLTVTTDVREGDAVAALLAAAAGAETLVLGSRGHGAVVGFLLGSVGQQVIAEATRPVVLVRAGDEATAEAGGREVVVGQQGEPEDSADVIGFAFEAAAARGATVRAVRAWALPTVFTYSPGSMALADEAGGLEQYERKALGEALAPWRERFPDVPVVEHVEMGSAGQVLLTVSADAQLMVVGRRARRTAVGARIGSVAHGVLHHAECPVAVVPHR
>NC_003888.3|NP_631355.1|8108172_8109405_-|hypothetical-protein
MALQISATNPEHPALLLELPWQLPLEQWPEEYLVPLPRGISRHVVRYARAGDEVIAVKELAERPALREYQLLRDLDRLAIPAVDALAVVTGRLDAAGEALEPVLVTRHLGGSLPYRSMFETTLRPATMHRLMDALAVLLVRLHLAGFAWGDCSLSNTLFRRDAGAYAAYLVDAETGDLHPRLSDGQRDYDLDLARVNISGELLDLEASGALHPSVDPVEFGTEICARYRSLWQELTRTSVYPAGKYHYIERRIRRLNDLGFDVAEMQIEHASNGDTVSFVPKVVDAGHHQRQLLRLTGLDAEENQARRLLNDLESWMATQDDYAPGDPLGARPEVLAHRWVREVFRPTVRAVPVELRGAMDPAEIYHELLEHRWYLSERAQHDIGLDTAVEDYLVNILPRARETLQPTAD

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_003888_6	6.1\|7387712\|33\|NC_003888\|CRISPRCasFinder	7387712-7387744	33	NZ_CP020041	Streptomyces sp. 3211 isolate 3 plasmid p3211-2, complete sequence	158231-158263	5	0.848
NC_003888_6	6.1\|7387712\|33\|NC_003888\|CRISPRCasFinder	7387712-7387744	33	NZ_CP044425	Paracoccus pantotrophus strain DSM 2944 plasmid pPAN2, complete sequence	504612-504644	7	0.788

1. spacer 6.1|7387712|33|NC_003888|CRISPRCasFinder matches to NZ_CP020041 (Streptomyces sp. 3211 isolate 3 plasmid p3211-2, complete sequence) position: , mismatch: 5, identity: 0.848

ggggcaggggcaggggcggttcggc--gccgggcg	CRISPR spacer
ggggcaggggcaggggcagttcggtcagcaggg--	Protospacer
*****************.******.  ** ***

2. spacer 6.1|7387712|33|NC_003888|CRISPRCasFinder matches to NZ_CP044425 (Paracoccus pantotrophus strain DSM 2944 plasmid pPAN2, complete sequence) position: , mismatch: 7, identity: 0.788

ggggcaggggcaggggcggttcggcg---ccgggcg	CRISPR spacer
ggggcaggggcaggggctgctcggcggtttcgc---	Protospacer
***************** *.******   .**

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

69798 : 89465

Serratia_phage(50.0%)

transposase

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
NP_624431.1\|69798_70647_+\|transposase	transposase	NA	NA	NA	NA
NP_624432.1\|70776_71235_+	hypothetical protein	NA	NA	NA	NA
NP_624433.1\|71647_72139_-	hypothetical protein	NA	NA	NA	NA
NP_624434.1\|72158_73097_-	ribosylglycohydrolase	A0A1S6UB21	Serratia_phage	2.7e-21	28.8
NP_624435.1\|73783_74833_-	hypothetical protein	NA	NA	NA	NA
NP_624436.1\|74916_75876_-	beta-lactamase	NA	NA	NA	NA
NP_624437.1\|75855_76893_+	transcriptional regulator	Q6JIH3	Burkholderia_virus	3.5e-06	25.8
NP_624438.1\|76894_77314_-\|transposase	transposase	NA	NA	NA	NA
NP_624439.1\|77314_78271_+\|transposase	IS1652 transposase	NA	NA	NA	NA
NP_624440.1\|78982_79702_-	hypothetical protein	NA	NA	NA	NA
NP_624441.1\|79838_80690_-\|transposase	noncomposite transposon transposase	NA	NA	NA	NA
NP_624442.1\|80844_81165_-	hypothetical protein	NA	NA	NA	NA
NP_624443.1\|81601_82441_-\|transposase	transposase	NA	NA	NA	NA
NP_624444.2\|83515_83992_-	hypothetical protein	NA	NA	NA	NA
NP_624445.1\|84892_85339_+	hypothetical protein	NA	NA	NA	NA
NP_624446.1\|85335_86643_+	flavohemoprotein	NA	NA	NA	NA
NP_624447.1\|86639_87311_+	hydrolase	NA	NA	NA	NA
NP_624448.1\|87906_88632_-	endo-1,4-beta-xylanase	NA	NA	NA	NA
NP_624449.1\|89072_89465_+\|transposase	insertion element transposase	NA	NA	NA	NA

DBSCAN-SWA_2

2823655 : 2869209

Agrobacterium_phage(18.18%)

integrase,tRNA,transposase,protease

attL 2814402:2814420|attR 2856076:2856094

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
2814402:2814420	attL	NA	NA	NA	NA
NP_626840.1\|2823655_2825212_+\|integrase	integrase	A0A1C9LWR0	Streptomyces_phage	7.2e-213	70.5
NP_626841.1\|2825347_2826283_-	hypothetical protein	NA	NA	NA	NA
NP_626842.1\|2826446_2827148_+	hypothetical protein	NA	NA	NA	NA
NP_626843.1\|2827395_2829381_-	hypothetical protein	NA	NA	NA	NA
NP_626844.1\|2829459_2830656_-	Sfr protein	NA	NA	NA	NA
NP_626845.1\|2830652_2832962_-	penicillin binding protein	NA	NA	NA	NA
NP_626846.1\|2833014_2833686_-	rod shape-determining protein	NA	NA	NA	NA
NP_626847.1\|2833699_2834725_-	rod shape-determining protein MreC	NA	NA	NA	NA
NP_626848.1\|2834907_2835939_-	rod shape-determining protein MreB	NA	NA	NA	NA
NP_626849.1\|2836246_2836660_-	nucleoside diphosphate kinase	D2E8E1	Anguillid_herpesvirus	1.9e-27	47.7
NP_626850.1\|2836784_2837141_-	hypothetical protein	NA	NA	NA	NA
NP_626851.1\|2837147_2838482_-	folylpolyglutamate synthase	NA	NA	NA	NA
NP_626852.1\|2838956_2841581_-\|tRNA	valyl-tRNA synthetase	A0A1V0SK04	Klosneuvirus	6.3e-145	40.0
NP_733578.1\|2841718_2842726_+	hypothetical protein	NA	NA	NA	NA
NP_626853.1\|2842797_2844084_-\|protease	ATP-dependent protease ATP-binding subunit ClpX	G3M9Z9	Bacillus_virus	2.9e-143	60.1
NP_626854.1\|2844275_2844986_-\|protease	ATP-dependent Clp protease proteolytic subunit	A0A223W000	Agrobacterium_phage	3.3e-40	47.4
NP_626855.1\|2845036_2845696_-\|protease	ATP-dependent Clp protease proteolytic subunit	A0A223W000	Agrobacterium_phage	5.6e-42	47.2
NP_626856.1\|2845999_2847406_-	trigger factor	NA	NA	NA	NA
NP_626857.1\|2847982_2848177_-	hypothetical protein	NA	NA	NA	NA
NP_626858.1\|2848811_2849981_+	hypothetical protein	NA	NA	NA	NA
NP_626859.1\|2849991_2850486_-	hypothetical protein	A0A0M3LQS1	Mannheimia_phage	2.0e-12	40.8
NP_626860.1\|2850509_2851697_-	hypothetical protein	NA	NA	NA	NA
NP_626861.1\|2851910_2853152_+	hypothetical protein	NA	NA	NA	NA
NP_626862.1\|2853162_2854005_-	DNA repair hydrolase (fragment)	A0A1V0CNR6	Kaumoebavirus	2.0e-07	24.4
NP_626863.1\|2854111_2854591_-	ribose-5-phosphate isomerase B	NA	NA	NA	NA
NP_626864.1\|2854805_2856074_+	amino acid permease	NA	NA	NA	NA
NP_626865.1\|2856103_2856250_+	hypothetical protein	NA	NA	NA	NA
2856076:2856094	attR	NA	NA	NA	NA
NP_626866.1\|2856328_2857072_-	biotin synthase	NA	NA	NA	NA
NP_626867.1\|2857299_2858685_+	amino acid permease	NA	NA	NA	NA
NP_626868.1\|2858917_2859937_+\|transposase	transposase	NA	NA	NA	NA
NP_626869.1\|2860088_2860730_+	superoxide dismutase	Q56AR7	Bacillus_thuringiensis_phage	4.6e-33	40.6
NP_626870.1\|2860845_2861496_-	hypothetical protein	NA	NA	NA	NA
NP_626871.1\|2861701_2864203_+	aminopeptidase	A0A0P0IY26	Acinetobacter_phage	5.6e-50	32.0
NP_626872.1\|2864406_2865597_+	hypothetical protein	NA	NA	NA	NA
NP_626873.1\|2865912_2869209_+\|protease	serine protease	A0A0K2CNJ2	Brevibacillus_phage	1.3e-06	29.9

DBSCAN-SWA_3

3825370 : 3833251

Burkholderia_phage(100.0%)

transposase

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
NP_627669.1\|3825370_3826210_+\|transposase	transposase	NA	NA	NA	NA
NP_627670.1\|3826472_3827312_+\|transposase	transposase	NA	NA	NA	NA
NP_627671.1\|3827456_3828962_+\|transposase	transposase	A9YX10	Burkholderia_phage	1.7e-09	27.1
NP_627672.1\|3829042_3830584_-\|transposase	transposase	A9YX10	Burkholderia_phage	1.3e-12	32.7
NP_627673.1\|3830697_3831525_-\|transposase	transposase	NA	NA	NA	NA
NP_627674.1\|3831704_3832634_-	extracellular agarase	NA	NA	NA	NA
NP_627675.1\|3832987_3833251_-\|transposase	transposase remnant	NA	NA	NA	NA

DBSCAN-SWA_4

6996447 : 7067553

Bacillus_phage(12.5%)

tRNA,integrase,transposase

attL 6998744:6998760|attR 7064893:7064909

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
NP_630429.1\|6996447_6997380_-\|transposase	transposase	A0A1P8CWQ3	Bacillus_phage	7.2e-11	28.8
NP_630430.1\|6997410_6997698_-\|transposase	transposase	NA	NA	NA	NA
NP_630431.1\|6998011_6999361_+	3-oxoadipate enol-lactone hydrolase/4-carboxymuconolactone decarboxylase	A0A1C9LYC8	Mycobacterium_phage	8.3e-08	28.9
6998744:6998760	attL	NA	NA	NA	NA
NP_630432.1\|6999404_7000040_+	hypothetical protein	NA	NA	NA	NA
NP_630433.1\|7000094_7000874_+	exonuclease	NA	NA	NA	NA
NP_630434.1\|7000968_7001376_+	hypothetical protein	NA	NA	NA	NA
NP_630435.1\|7001410_7001539_+	hypothetical protein	NA	NA	NA	NA
NP_630436.1\|7001615_7003223_-	amidase	NA	NA	NA	NA
NP_630437.1\|7003453_7004212_+	chitinase	NA	NA	NA	NA
NP_630438.1\|7004371_7004848_+	hypothetical protein	NA	NA	NA	NA
NP_630439.1\|7004951_7006739_+	beta-galactosidase	NA	NA	NA	NA
NP_630440.1\|7006806_7010892_-	hypothetical protein	NA	NA	NA	NA
NP_630441.1\|7011085_7012171_+	transcriptional regulator	NA	NA	NA	NA
NP_630442.1\|7012203_7012788_-	hypothetical protein	NA	NA	NA	NA
NP_630443.1\|7012867_7013566_+	hypothetical protein	NA	NA	NA	NA
NP_630444.1\|7013617_7014034_-	hypothetical protein	NA	NA	NA	NA
NP_630445.1\|7014906_7016286_-	two-component sensor	NA	NA	NA	NA
NP_630446.1\|7016282_7016897_-	two-component regulator	NA	NA	NA	NA
NP_630447.1\|7016898_7017717_-	hypothetical protein	NA	NA	NA	NA
NP_630448.1\|7017713_7018319_-	hypothetical protein	NA	NA	NA	NA
NP_630449.1\|7018315_7019002_-	hypothetical protein	NA	NA	NA	NA
NP_630450.1\|7019119_7019509_+	hypothetical protein	NA	NA	NA	NA
NP_630451.1\|7019505_7020435_+	hypothetical protein	NA	NA	NA	NA
NP_630452.1\|7020933_7021872_+	ABC transporter ATP-binding protein	A0A2H4PQG7	Staphylococcus_phage	1.8e-33	38.7
NP_630453.1\|7021868_7022708_+	hypothetical protein	NA	NA	NA	NA
NP_630454.1\|7022726_7024016_+	two-component sensor	NA	NA	NA	NA
NP_630455.1\|7024012_7024681_+	two-component regulator	NA	NA	NA	NA
NP_630456.1\|7024744_7025536_-	two-component regulator	NA	NA	NA	NA
NP_733699.1\|7025525_7028168_-	hypothetical protein	NA	NA	NA	NA
NP_630457.1\|7028164_7028854_-	ABC transporter ATP-binding protein	G9BWD6	Planktothrix_phage	2.6e-21	31.4
NP_630458.1\|7028840_7029578_-	ABC transporter ATP-binding protein	W5SAS9	Pithovirus	2.0e-16	35.8
NP_630459.1\|7029574_7030195_-	lipoprotein	NA	NA	NA	NA
NP_630460.1\|7030353_7031664_+	two-component sensor	NA	NA	NA	NA
NP_630461.1\|7031671_7032706_-	hypothetical protein	NA	NA	NA	NA
NP_630462.1\|7032797_7033637_+	hypothetical protein	NA	NA	NA	NA
NP_630463.1\|7033728_7033962_+	hypothetical protein	NA	NA	NA	NA
NP_630464.1\|7034265_7035663_-	hypothetical protein	NA	NA	NA	NA
NP_630465.1\|7035787_7037224_-	sugar transferase	U5P087	Shigella_phage	8.2e-62	41.4
NP_630466.1\|7037736_7038399_-	hypothetical protein	NA	NA	NA	NA
NP_630467.1\|7038756_7039656_+	hypothetical protein	NA	NA	NA	NA
NP_630468.1\|7039698_7041054_-	lipoprotein	NA	NA	NA	NA
NP_630469.1\|7041610_7041910_-	hypothetical protein	NA	NA	NA	NA
NP_630470.1\|7042053_7042737_-	hypothetical protein	NA	NA	NA	NA
NP_630471.1\|7043083_7043440_-	hypothetical protein	NA	NA	NA	NA
NP_630472.1\|7043723_7045067_-	lipoprotein	NA	NA	NA	NA
NP_630473.1\|7046617_7047526_+	hypothetical protein	NA	NA	NA	NA
NP_630474.1\|7048442_7049126_-	hypothetical protein	NA	NA	NA	NA
NP_630475.1\|7049381_7051151_-\|tRNA	integral membrane lysyl-tRNA synthetase	NA	NA	NA	NA
NP_630476.1\|7051525_7053460_-	hypothetical protein	NA	NA	NA	NA
NP_630477.1\|7053631_7054015_+	hypothetical protein	NA	NA	NA	NA
NP_630478.1\|7054117_7054684_+	hypothetical protein	NA	NA	NA	NA
NP_630479.1\|7054964_7055324_-	hypothetical protein	NA	NA	NA	NA
NP_630480.1\|7055320_7055713_-	hypothetical protein	NA	NA	NA	NA
NP_630481.1\|7056188_7057292_+	hypothetical protein	NA	NA	NA	NA
NP_630482.1\|7057808_7059026_+\|integrase,transposase	IS110 transposase/integrase	NA	NA	NA	NA
NP_630483.1\|7059103_7060243_-\|transposase	transposase	NA	NA	NA	NA
NP_630484.1\|7060374_7061838_+\|transposase	transposase	A0A2L1IVA1	Escherichia_phage	3.1e-16	31.6
NP_630485.1\|7061834_7062605_+	IS element ATP binding protein	U5N3V8	Enterobacteria_phage	1.2e-56	45.0
NP_630486.1\|7065213_7065729_-	hypothetical protein	NA	NA	NA	NA
7064893:7064909	attR	NA	NA	NA	NA
NP_630487.1\|7066308_7067553_+\|transposase	IS117 transposase	NA	NA	NA	NA

Anti-CRISPR protein detection

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

Overview of predicted results

Overview of the results

Cas Category Instructions

Results visualization

1. NC_003903

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CRISPR-Cas detection and classification

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Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection

2. NC_003888

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CRISPR-Cas detection and classification

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection