-- dump date   	20140619_042133
-- class       	Genbank::CDS
-- table       	cds_note
-- id	note
YP_001220645.1	hypothetical protein (NP_879740.1| conserved hypothetical protein [Bordetella pertussis Tohama I]; ZP_00300166.1| COG1724: Predicted periplasmic or secreted lipoprotein [Geobacter metallireducens GS-15]).
YP_001220646.1	hypothetical protein (YP_055986.1| hypothetical protein PPA1278 [Propionibacterium acnes KPA171202]; NP_696949.1| hypothetical protein BL1802 [Bifidobacterium longum NCC2705]). weak similarity to: smart00418, HTH_ARSR, helix_turn_helix, Arsenical Resistance Operon Repressor.
YP_001220647.1	putative partitioning protein, ATPase (NP_052567.1| plasmid partition protein homolog ParA [Corynebacterium glutamicum]; ZP_00109013.1| COG1192: ATPases involved in chromosome partitioning [Nostoc punctiforme]). pfam00991, ParA, ParA family ATPase.; Conserved hypothetical protein
YP_001220648.1	hypothetical protein, putative partitioning protein (ZP_00111179.1| hypothetical protein [Nostoc punctiforme]; NP_981997.1| partitioning protein ParB [Erwinia amylovora]).
YP_001220649.1	putative membrane protein, putative coupling protein (NP_816955.1| conserved hypothetical protein [Enterococcus faecalis V583]; NP_114056.1| Mob protein [Streptococcus mutans]; AAL59680.1| conjugative coupling factor [Vibrio cholerae]). maybe involved in either mobilization or conjugation of the plasmid. weak similarity to: COG0433, Predicted ATPase [General function prediction only]
YP_001220652.1	hypothetical protein, putative transcriptional regulator ArsR family (NP_630544.1| putative regulatory protein [Streptomyces coelicolor A3(2)]; ZP_00271874.1| COG0640: Predicted transcriptional regulators [Ralstonia metallidurans CH34]). , smart00418, HTH_ARSR, helix_turn_helix, Arsenical Resistance Operon Repressor
YP_001220653.1	conserved hypothetical protein containing an ATPase domain (NP_301610.1| conserved hypothetical protein [Mycobacterium leprae TN]; ZP_00292164.1| COG0455: ATPases involved in chromosome partitioning [Thermobifida fusca]). , weak similarity to: COG0455, ATPases involved in chromosome partitioning, and COG1192, Soj, ATPases involved in chromosome partitioning.
YP_001220654.1	putative membrane protein (AAS20158.1| hypothetical protein [Arthrobacter aurescens]).
YP_001220655.1	Hypothetical protein
YP_001220656.1	putative membrane protein (NP_628307.1| putative integral membrane protein [Streptomyces coelicolor A3(2)]; NP_627714.1| putative ATP-binding protein [Streptomyces coelicolor A3(2)]; CAD47985.1| putative transfer gene complex protein-like protein [Arthrobacter nicotinovorans]). , maybe involved in conjugation or mobilization.; Hypothetical protein
YP_001220657.1	hypothetical membrane protein (AAS20155.1| membrane protein [Arthrobacter aurescens]; NP_825278.1| putative membrane protein [Streptomyces avermitilis MA-4680]).
YP_001220658.1	putative ATP/GTP-binding protein (AAS20154.1| ATP/GTP-binding protein [Arthrobacter aurescens]; NP_628305.1| putative ATP/GTP-binding protein [Streptomyces coelicolor A3(2)]). may be involved in conjugation or mobilization. weak similarity to VirB4- ATPases (COG3451, VirB4, Type IV secretory pathway, VirB4 components [Intracellular trafficking and secretion]).; Conserved hypothetical protein
YP_001220659.1	putative secreted protein (NP_824302.1| hypothetical protein SAV3126 [Streptomyces avermitilis MA- 4680]; CAD47991.1| hypothetical protein [Arthrobacter nicotinovorans]).
YP_001220660.1	hypothetical protein may be involved in conjugation or mobilization. weak similarity to: pfam05286, FINO, Fertility inhibition protein (FINO). This family consists of several bacterial fertility inhibition (FINO) proteins. The conjugative transfer of F-like plasmids is repressed by FinO, an RNA binding protein.
YP_001220661.1	putative membrane protein may be involved in conjugation or mobilization.; Hypothetical protein
YP_001220662.1	putative secreted protein (NP_939455.1| Conserved hypothetical exported protein [Corynebacterium diphtheriae NCTC 13129]; ZP_00226454.1| hypothetical protein Krad06003337 [Kineococcus radiotolerans SRS30216]). may be involved in conjugation or mobilization.
YP_001220664.1	cellulase, endo-1,4-beta-glucanase (CAA44467.2| Cellulase [Clavibacter michiganensis]; AAK16222.1| cellulase CelA [Clavibacter michiganensis subsp. sepedonicus]; AAL83749.1| endo-beta-1,4-glucanase [Paenibacillus sp. KCTC8848P]). , known virulence factor, required for wilting of tomato. , , three domain structure: pfam00150, Cellulase, Cellulase (glycosyl hydrolase family 5). , smart00637, CBD_II, CBD_II domain., COG4305, Endoglucanase C-terminal domain/subunit and related proteins [Carbohydrate transport and metabolism]; High confidence in function and specificity
YP_001220667.1	putative extracellular serine protease (NP_298723.1| hypothetical protein XF1434 [Xylella fastidiosa 9a5c]; NP_642686.1| conserved hypothetical protein [Xanthomonas axonopodis pv. citri str. 306]; ZP_00293497.1| COG3591: V8-like Glu-specific endopeptidase [Thermobifida fusca]).
YP_001220668.1	hypothetical protein (NP_695884.1| hypothetical protein BL0701 [Bifidobacterium longum NCC2705]).
YP_001220669.1	putative recombinase/invertase (NP_052565.1| DNA recombinase homolog Pin [Corynebacterium glutamicum]; CAD48011.1| putative DNA recombinase [Arthrobacter nicotinovorans]). pfam00239, Resolvase, Resolvase, N terminal domain. The N-terminal domain of the resolvase family (this family) contains the active site and the dimer interface. pfam02796, HTH_7, Helix-turn-helix domain of resolvase.; Hypothetical protein
YP_001220670.1	conserved hypothetical protein (ZP_00287374.1| COG5271: AAA ATPase containing von Willebrand factor type A (vWA)domain [Enterococcus faecium]; ZP_00008330.1| hypothetical protein Rsph024340 [Rhodobacter sphaeroides]).
YP_001220672.1	hypothetical protein, putative replication protein (AAR27480.1| RepA [Leifsonia xyli subsp. cynodontis]; CAB43095.1| putative Rep protein [Mycobacterium fortuitum]).
YP_001220673.1	conserved hypothetical protein (NP_817941.1| gp90 [Mycobacteriophage Corndog]; AAS20140.1| ParB [Arthrobacter aurescens])., , pfam02195, ParBc, ParB-like nuclease domain.
YP_001220675.1	putative antirestriction protein (T43094 hypothetical protein - Lactococcus lactis plasmid pMRC01; YP_068542.1| antirestriction protein [Yersinia pseudotuberculosis IP 32953]).; Conserved hypothetical protein
YP_001220676.1	hypothetical protein (NP_787847.1| hypothetical protein TWT719 [Tropheryma whipplei str. Twist]; YP_061785.1| hypothetical protein Lxx07640 [Leifsonia xyli subsp. xyli str. CTCB07]).
YP_001220677.1	putative single-strand binding protein (NP_052579.1| single-strand binding protein homolog Ssb [Corynebacterium glutamicum]; NP_817551.1| gp102 [Mycobacteriophage CJW1]). pfam00436, SSB, Single-strand binding protein family.; Conserved hypothetical protein
YP_001220679.1	conserved hypothetical protein, putative endonuclease (CAF19968.1| extracellular deoxyribonuclease [Corynebacterium glutamicum ATCC 13032]; NP_695460.1| narrowly conserved hypothetical protein [Bifidobacterium longum NCC2705]).
YP_001220681.1	conserved hypothetical protein, putative bacteriophage protein (YP_025588.1| conserved hypothetical protein [Mycobacterium ulcerans]; NP_954805.1| putative bacteriophage-related protein [Gordonia westfalica]).
YP_001220684.1	hypothetical protein (AAV52093.1| putative TraA conjugation protein [Nocardioides sp. JS614]; AAS20188.1| TraA-like protein [Arthrobacter aurescens]).
YP_001220685.1	putative conjugal transfer protein (relexase/helicase) (AAS20144.1| TraA-like protein [Arthrobacter aurescens]; AAV52093.1| putative TraA conjugation protein [Nocardioides sp. JS614]).; Conserved hypothetical protein
YP_001220686.1	conserved hypothetical protein (AAS20152.1| hypothetical protein [Arthrobacter aurescens]; NP_825682.1| hypothetical protein SAV4505 [Streptomyces avermitilis MA-4680]).
YP_001220687.1	conjugal transfer protein (AAS20153.1| TraG-family protein [Arthrobacter aurescens]; NP_825686.1| putative traG-family protein [Streptomyces avermitilis MA-4680])., pfam02534, TRAG, TraG/TraD family. The TraG/TraD family are bacterial conjugation proteins. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome although the exact mechanism of action is unknown. These proteins contain a P-loop and walker-B site for nucleotide binding.; Conserved hypothetical protein
YP_001220688.1	conserved hypothetical protein, putative peptidoglycan lytic enzyme (NP_630954.1| putative secreted protein [Streptomyces coelicolor A3(2)]; YP_062952.1| peptidoglycan lytic protein P45 [Leifsonia xyli subsp. xyli str. CTCB07]). pfam00877, NLPC_P60, NlpC/P60 family. The function of this domain is unknown. It is found in several lipoproteins.
YP_001220689.1	hypothetical protein (AAS20160.1| hypothetical protein [Arthrobacter aurescens]).
YP_001220690.1	conserved hypothetical protein, putative ATPase (NP_215044.1| hypothetical protein Rv0530 [Mycobacterium tuberculosis H37Rv]; YP_117040.1| hypothetical protein nfa8310 [Nocardia farcinica IFM 10152]).
YP_001220691.1	conserved hypothetical protein, putative ATPase (YP_117040.1| hypothetical protein nfa8310 [Nocardia farcinica IFM 10152]; NP_215044.1| hypothetical protein Rv0530 [Mycobacterium tuberculosis H37Rv]).
YP_001220692.1	conserved hypothetical protein, putative ATP- binding protein (CAD47983.1| putative ATP-binding protein [Arthrobacter nicotinovorans]; ZP_00206739.1| COG0466: ATP-dependent Lon protease, bacterial type [Bifidobacterium longum DJO10A]). weak similarity to COG3451, VirB4, Type IV secretory pathway, VirB4 components [Intracellular trafficking and secretion].
YP_001220693.1	conserved membrane protein (CAD47984.1| putative integral membrane protein [Arthrobacter nicotinovorans]; NP_696643.1| narrowly conserved hypothetical protein [Bifidobacterium longum NCC2705]).
YP_001220694.1	putative conjugal transfer protein (NP_954833.1| hypothetical protein [Gordonia westfalica]; CAD47985.1| putative transfer gene complex protein-like protein [Arthrobacter nicotinovorans]).; Conserved hypothetical protein
YP_001220695.1	putative secreted protein (CAD47986.1| hypothetical protein [Arthrobacter nicotinovorans]; YP_122034.1| hypothetical protein pnf11450 [Nocardia farcinica IFM 10152]).; Conserved hypothetical protein
YP_001220696.1	hypothetical membrane protein (CAD47987.1| hypothetical protein [Arthrobacter nicotinovorans]).
YP_001220698.1	conserved secreted protein, putative hydrolase (AAS20163.1| hypothetical protein [Arthrobacter aurescens]; YP_062243.1| secreted protein [Leifsonia xyli subsp. xyli str. CTCB07]). , , pfam00561, Abhydrolase_1, alpha/beta hydrolase fold. InterPro: Esterase/lipase/thioesterase.; Function unclear
YP_001220699.1	hypothetical membrane protein (CAD47995.1| hypothetical protein [Arthrobacter nicotinovorans]; YP_061884.1| hypothetical protein Lxx08840 [Leifsonia xyli subsp. xyli str. CTCB07]). weak similarity to: COG3641, PfoR, Predicted membrane protein, putative toxin regulator [General function prediction only].
YP_001220700.1	hypothetical protein, putative DNA-binding protein (N-terminal half: NP_384377.1| hypothetical protein SMc00351 [Sinorhizobium meliloti 1021]; NP_521253.1| PUTATIVE TRANSCRIPTION REGULATOR PROTEIN [Ralstonia solanacearum GMI1000] ; C-terminal half: AAS20169.1| hypothetical protein [Arthrobacter aurescens]; CAD60534.1| Cinorf12 protein [Streptomyces cinnamoneus]). smart00530, HTH_XRE, Helix-turn-helix XRE-family like proteins.
YP_001220702.1	hypothetical protein, putative helicase (CAD47997.1| hypothetical protein [Arthrobacter nicotinovorans]; YP_122052.1| hypothetical protein pnf230 [Nocardia farcinica IFM 10152]).
YP_001220703.1	putative ATPase, partitioning protein (AAC45808.1| putative plasmid partitioning protein; ParA [Rhodococcus erythropolis]; NP_841536.1| ParA family ATPase [Nitrosomonas europaea ATCC 19718]). pfam00991, ParA, ParA family ATPase.; Function unclear
YP_001220705.1	conserved hypothetical protein, putative rhs- related protein (NP_733489.1| putative secreted protein [Streptomyces coelicolor A3(2)]; ZP_00300025.1| COG3209: Rhs family protein [Geobacter metallireducens GS-15]). pfam05593, RHS_repeat, RHS Repeat. RHS proteins contain extended repeat regions.
YP_001220706.1	conserved hypothetical protein, ; YP_062335.1| hypothetical protein Lxx14130 [Leifsonia xyli subsp. xyli str. CTCB07]).
YP_001220707.1	conserved hypothetical protein (ZP_00151041.2| COG2135: Uncharacterized conserved protein [Dechloromonas aromatica RCB]; NP_824216.1| hypothetical protein SAV3040 [Streptomyces avermitilis MA-4680]). pfam02586, DUF159, Uncharacterised ACR, COG2135.
YP_001220708.1	hypothetical protein (YP_120156.1| hypothetical protein nfa39440 [Nocardia farcinica IFM 10152]). weak similarities to VirB11 family proteins (ATPases).
YP_001220711.1	Hypothetical protein
YP_001220713.1	hypothetical protein pfam07411, DUF1508, Domain of unknown function (DUF1508).
YP_001220714.1	hypothetical protein weak similarity to esterases
YP_001220722.1	putative extracellular serine protease (AAD09893.2| unknown [Clavibacter michiganensis subsp. michiganensis]; YP_063162.1| pat1 protein [Leifsonia xyli subsp. xyli str. CTCB07]). pfam00089, Trypsin, Trypsin. InterPro: Peptidase trypsin-like serine and cysteine proteases.; Conserved hypothetical protein
YP_001220723.1	putative extracellular serine protease (AAD09893.2| unknown [Clavibacter michiganensis subsp. michiganensis]; YP_063162.1| pat1 protein [Leifsonia xyli subsp. xyli str. CTCB07]). pfam00089, Trypsin, Trypsin.; Hypothetical protein
YP_001220724.1	putative extracellular serine protease (YP_063162.1| pat1 protein [Leifsonia xyli subsp. xyli str. CTCB07])., pfam00089, Trypsin, Trypsin. , , !! virulence factor !!; Conserved hypothetical protein
YP_001220725.1	hypothetical protein (BAD84024.1| hypothetical protein [Corynebacterium glutamicum]; CAE09114.1| hypothetical protein [Gordonia westfalica]; NP_688285.1| abortive infection protein AbiGII [Streptococcus agalactiae 2603V/R]).
YP_001220726.1	putative transcriptional regulator (NP_940396.1| hypothetical protein DIP2072 [Corynebacterium diphtheriae NCTC 13129]; CAE09113.1| hypothetical protein [Gordonia westfalica]).; Conserved hypothetical protein
YP_001220728.1	hypothetical protein (AAN24520.1| hypothetical protein BL0701 [Bifidobacterium longum NCC2705]; BAB97855.1| Hypothetical protein [Corynebacterium glutamicum ATCC 13032]).
YP_001220729.1	conserved hypothetical protein (CAG75796.1| conserved hypothetical protein [Erwinia carotovora subsp. atroseptica SCRI1043]; YP_107569.1| hypothetical protein BPSL0940 [Burkholderia pseudomallei K96243]).
YP_001220730.1	conserved hypothetical protein (NP_687579.1| hypothetical protein SAG0550 [Streptococcus agalactiae 2603V/R]; NP_766711.1| hypothetical protein bsr0071 [Bradyrhizobium japonicum USDA 110]).
YP_001220731.1	hypothetical protein (NP_696949.1| hypothetical protein BL1802 [Bifidobacterium longum NCC2705]).
YP_001220735.1	hypothetical protein (NP_612167.1| YpkF [Corynebacterium jeikeium]).
YP_001220736.1	conserved hypothetical protein (NP_990877.1| unknown [Achromobacter denitrificans]; ZP_00038266.1| COG2184: Protein involved in cell division [Xylella fastidiosa Dixon]). pfam02661, Fic, Fic protein family. This family consists of the Fic (filamentation induced by cAMP) protein and its relatives.; Function unclear
YP_001220740.1	binds to the dnaA-box as an ATP-bound complex at the origin of replication during the initiation of chromosomal replication; can also affect transcription of multiple genes including itself.
YP_001220741.1	binds the polymerase to DNA and acts as a sliding clamp
YP_001220742.1	similar to full-length Gnd, these proteins seems to have a truncated C-terminal 6PGD domainin; in Methylobacillus flagellatus this gene is essential for NAD+-dependent oxidation of 6-phosphogluconate
YP_001220743.1	Required for DNA replication; binds preferentially to single-stranded, linear DNA
YP_001220744.1	conserved hypothetical protein (AAS02321.1| hypothetical protein MAP0004 [Mycobacterium avium subsp. paratuberculosis str. k10]; CAF18570.1| CONSERVED HYPOTHETICAL PROTEIN [Corynebacterium glutamicum ATCC 13032]). pfam05258, DUF721, Protein of unknown function (DUF721). This family contains several actinomycete proteins of unknown function.
YP_001220745.1	negatively supercoils closed circular double-stranded DNA
YP_001220746.1	negatively supercoils closed circular double-stranded DNA
YP_001220747.1	conserved membrane protein (NP_825500.1| putative membrane protein [Streptomyces avermitilis MA-4680]; ZP_00198923.1| COG0477: Permeases of the major facilitator superfamily [Kineococcus radiotolerans SRS30216]).; Conserved hypothetical protein
YP_001220749.1	peptidyl-prolyl cis-trans isomerase B (EC 5.2.1.8) (P77949|PPIB_STRCH Peptidyl-prolyl cis-trans isomerase B (PPIase B) (Rotamase B) (Cyclophilin ScCypB) (S-cyclophilin); ZP_00226474.1| COG0652: Peptidyl-prolyl cis-trans isomerase (rotamase) -cyclophilin family [Kineococcus radiotolerans SRS30216]). PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides. pfam00160, Pro_isomerase, Cyclophilin type peptidyl-prolyl cis-trans isomerase.; High confidence in function and specificity
YP_001220750.1	conserved membrane protein (NP_334528.1| Rhomboid family protein [Mycobacterium tuberculosis CDC1551]; NP_628043.1| putative membrane protein [Streptomyces coelicolor A3(2)]). pfam01694, Rhomboid, Rhomboid family.; Family membership
YP_001220751.1	conserved membrane protein (NP_788965.1| putative membrane protein [Tropheryma whipplei TW08/27]; CAF18608.1| putative membrane protein [Corynebacterium glutamicum ATCC 13032]). pfam06781, UPF0233,Uncharacterised protein family (UPF0233).; Hypothetical protein
YP_001220752.1	putative sortase (ZP_00226470.1| COG3764: Sortase (surface protein transpeptidase) [Kineococcus radiotolerans SRS30216]; NP_789137.1| putative membrane protein [Tropheryma whipplei TW08/27]). pfam04203,Sortase, Sortase family. The founder member of this family is S.aureus sortase, a transpeptidase that attaches surface proteins by the threonine of an LPXTG motif to the cell wall.; Family membership
YP_001220753.1	glutamine amidotransferase class I, putative para-aminobenzoate/ anthranilate synthase glutamine amidotransferase component II [Includes: Para-aminobenzoate synthase glutamine amidotransferase component II  (ADC synthase); Anthranilate synthase component II ] (ZP_00209755.1| COG0512: Anthranilate/para-aminobenzoate synthases component II [Magnetospirillum magnetotacticum]; NP_214527.1| pabA [Mycobacterium tuberculosis H37Rv]). CATALYZES THE BIOSYNTHESIS OF 4-AMINO-4-DEOXYCHORISMATE (ADC) FROM CHORISMATE AND GLUTAMINE AND ALSO INVOLVED IN THE SYNTHESIS OF ANTHRANILATE. pfam00117, GATase,Glutamine amidotransferase class-I. InterPro: Anthranilate synthase component II/delta crystallin; Specificity unclear
YP_001220756.1	putative penicillin-binding protein 2 (PBP-2) (ZP_00227926.1| COG0768: Cell division protein FtsI/penicillin-binding protein 2 [Kineococcus radiotolerans SRS30216]; NP_787904.1| penicillin-binding protein [Tropheryma whipplei str. Twist])., pfam00905,Transpeptidase, Penicillin binding protein transpeptidase domain.; High confidence in function and specificity
YP_001220757.1	putative cell division membrane protein (ZP_00227927.1| COG0772: Bacterial cell division membrane protein [Kineococcus radiotolerans SRS30216]; NP_695774.1| protein involved in cell wall formation and stabilization of the FtsZ ring during cell division [Bifidobacterium longum NCC2705]). This is a septum-peptidoglycan biosynthetic protein involved in cell wall formation. Plays a role in the stabilization of the ftsZ ring during cell division (By similarity). pfam01098,FTSW_RODA_SPOVE, Cell cycle protein. This entry includes the following members; FtsW, RodA, SpoVE; High confidence in function and specificity
YP_001220758.1	putative serine/threonine protein phosphatase (ZP_00227928.1| COG0631: Serine/threonine protein phosphatase [Kineococcus radiotolerans SRS30216]; ZP_00058950.1| COG0631: Serine/threonine protein phosphatase [Thermobifida fusca]). pfam00481, PP2C,Protein phosphatase 2C. Protein phosphatase 2C is a Mn++ or Mg++ dependent protein serine/threonine phosphatase.; Function unclear
YP_001220759.1	conserved hypothetical protein (NP_628032.1| putative secreted protein [Streptomyces coelicolor A3(2)]; CAB02439.1| CONSERVED HYPOTHETICAL PROTEIN [Mycobacterium tuberculosis H37Rv]). pfam00498, FHA, FHA domain. The FHA (Forkhead-associated) domain is a phosphopeptide binding motif.
YP_001220760.1	conserved hypothetical protein containing C-terminal FOG:FHA domain (COG1716) (ZP_00227930.1| COG1716: FOG: FHA domain [Kineococcus radiotolerans SRS30216]; NP_695771.1| hypothetical protein with FHA domain [Bifidobacterium longum NCC2705]). pfam00498, FHA, FHA domain. The FHA (Forkhead-associated) domain is a phosphopeptide binding motif.
YP_001220761.1	putative membrane protein (ZP_00121629.1| COG2898: Uncharacterized conserved protein [Bifidobacterium longum DJO10A]). pfam04329, DUF470, Family of unknown function (DUF470). This sequence is usually found in association with DUF471 and DUF472, and occasionally also with UPF0104 (pfam03706) in integral membrane proteins. pfam04331,DUF472, Family of unknown function (DUF472).; Function unclear
YP_001220762.1	two-component system response regulator(NP_822457.1| putative two-component system response regulator [Streptomyces avermitilis MA-4680]; ZP_00058730.1| COG2197: Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Thermobifida fusca]). pfam00072, Response_reg, Response regulator receiver domain. This domain receives the signal from the sensor partner in bacterial two-component systems. It is usually found N-terminal to a DNA binding effector domain. pfam00196, GerE, Bacterial regulatory proteins, luxR family.; Specificity unclear
YP_001220763.1	putative two-component system sensor kinase (NP_822456.1| putative two-component system sensor kinase [Streptomyces avermitilis MA-4680]; NP_823166.1| putative two-component system sensor kinase [Streptomyces avermitilis MA-4680]). pfam02518, HATPase_c, Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase.; Specificity unclear
YP_001220764.1	rpmJ2; smallest protein in the large subunit; similar to what is found with protein L31 and L33 several bacterial genomes contain paralogs which may be regulated by zinc; the protein from Thermus thermophilus has a zinc-binding motif and contains a bound zinc ion; the proteins in this group do not have the motif
YP_001220765.1	putative GTPase (NP_962706.1| hypothetical protein MAP3772c [Mycobacterium avium subsp. paratuberculosis str. k10]; ZP_00173773.1| COG0523: Putative GTPases (G3E family) [Methylobacillus flagellatus KT]). weak similarity to: pfam02492, cobW, Cobalamin synthesis protein/P47K.; Function unclear
YP_001220766.1	ATP-dependent DNA helicase recQ (EC 3.6.1.-) (ZP_00198343.2| COG0514: Superfamily II DNA helicase [Kineococcus radiotolerans SRS30216]; ZP_00169039.2| COG0514: Superfamily II DNA helicase [Ralstonia eutropha JMP134]). InterPro: ATP-dependent DNA helicase RecQ pfam00270, DEAD, DEAD/DEAH box helicase. Members of this family include the DEAD and DEAH box helicases. pfam00271,Helicase_C, Helicase conserved C-terminal domain.; Specificity unclear
YP_001220768.1	glutaminase (L-glutamine amidohydrolase) (ZP_00162219.2| COG2066: Glutaminase [Anabaena variabilis ATCC 29413]; ZP_00026087.1| COG2066: Glutaminase [Ralstonia metallidurans]). pfam04960, Glutaminase,Glutaminase. This family of enzymes deaminates glutamine to glutamate EC:3.5.1.2.; High confidence in function and specificity
YP_001220769.1	putative hydrolase/acyltransferase (ZP_00187188.2| COG0596: Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [Rubrobacter xylanophilus DSM 9941]; NP_295074.1| hydrolase,alpha/beta hydrolase fold family [Deinococcus radiodurans R1]). pfam00561, Abhydrolase_1, alpha/beta hydrolase fold. This catalytic domain is found in a very wide range of enzymes. InterPro: Alpha/beta hydrolase fold.; Function unclear
YP_001220770.1	putative transcriptional regulator, PadR family (NP_821203.1| putative transcriptional regulator PadR-like family [Streptomyces avermitilis MA-4680]; ZP_00209884.1| COG1695: Predicted transcriptional regulators [Magnetospirillum magnetotacticum]). pfam03551, PadR,Transcriptional regulator PadR-like family.; Specificity unclear
YP_001220771.1	Hypothetical protein
YP_001220772.1	conserved hypothetical protein (NP_627276.1| conserved hypothetical protein [Streptomyces coelicolor A3(2)]; ZP_00198785.1| COG2514: Predicted ring-cleavage extradiol dioxygenase [Kineococcus radiotolerans SRS30216]). pfam00903, Glyoxalase, Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily.
YP_001220773.1	putative sugar phosphate isomerase/epimerase (ZP_00229027.1| COG1082: Sugar phosphate isomerases/epimerases [Kineococcus radiotolerans SRS30216]; NP_623524.1| Sugar phosphate isomerases/epimerases [Thermoanaerobacter tengcongensis]).; Function unclear
YP_001220774.1	putative dehydrogenase/oxidoreductase (ZP_00227973.1| COG0673: Predicted dehydrogenases and related proteins [Kineococcus radiotolerans SRS30216]; NP_241574.1| BH0708~unknown conserved protein [Bacillus halodurans C-125]). InterPro: Oxidoreductase C-terminal pfam01408, GFO_IDH_MocA, Oxidoreductase family, NAD-binding Rossmann fold. This family of enzymes utilise NADP or NAD.; Specificity unclear
YP_001220776.1	hypothetical protein (ZP_00230295.1| conserved hypothetical protein [Listeria monocytogenes str. 4b H7858]).
YP_001220778.1	putative extracellular serine protease, family S1A (AAD09893.2| unknown [Clavibacter michiganensis subsp. michiganensis]; YP_063162.1| pat1 protein [Leifsonia xyli subsp. xyli str. CTCB07]). pfam00089, Trypsin, Trypsin.; Function unclear
YP_001220780.1	putative extracellular serine protease (NP_779169.1| conserved hypothetical protein [Xylella fastidiosa Temecula1]; ZP_00293497.1| COG3591: V8-like Glu-specific endopeptidase [Thermobifida fusca]).; Function unclear
YP_001220781.1	conserved hypothetical protein, putative extracelluar serine protease (NP_642686.1| conserved hypothetical protein [Xanthomonas axonopodis pv. citri str. 306]; ZP_00227464.1| COG3591: V8-like Glu-specific endopeptidase [Kineococcus radiotolerans SRS30216]).; Function unclear
YP_001220782.1	putative pectate lyase (NP_625403.1| putative secreted lyase [Streptomyces coelicolor A3(2)]; CAB40884.1| pectate lyase [Bacillus sp. BP-23]). pfam03211, Pectate_lyase, Pectate lyase.; Function unclear
YP_001220783.1	conserved hypothetical protein, putative extracellular serine protease (NP_779169.1| conserved hypothetical protein [Xylella fastidiosa Temecula1]; ZP_00227464.1| COG3591: V8-like Glu-specific endopeptidase [Kineococcus radiotolerans SRS30216]).; Function unclear
YP_001220785.1	hypothetical protein, putative phage protein (CAD43910.1| hypothetical protein [Lactobacillus casei bacteriophage A2]; ZP_00230220.1| conserved hypothetical protein [Listeria monocytogenes str. 4b H7858])
YP_001220786.1	hypothetical protein (weak similarity to: NP_858518.1| hypothetical protein [Rhodococcus equi]; YP_056012.1| hypothetical protein PPA1305 [Propionibacterium acnes KPA171202]).
YP_001220788.1	putative beta-N-acetylglucosaminidase (ZP_00187564.2| COG1472: Beta-glucosidase-related glycosidases [Rubrobacter xylanophilus DSM 9941]; NP_626989.1| beta-N-acetylglucosaminidase (putative secreted protein)[Streptomyces coelicolor A3(2)]). ,InterPro: Glycoside hydrolase family 3 N terminal ,pfam00933, Glyco_hydro_3, Glycosyl hydrolase family 3 N terminal domain. pfam01915, Glyco_hydro_3_C, Glycosyl hydrolase family 3 C terminal domain.; Specificity unclear
YP_001220789.1	conserved hypothetical protein, putative extracellular protease (NP_642686.1| conserved hypothetical protein [Xanthomonas axonopodis pv. citri str. 306]; NP_693914.1| hypothetical protein OB2992 [Oceanobacillus iheyensis HTE831]).; Function unclear
YP_001220790.1	putative pectate lyase (NP_625403.1| putative secreted lyase [Streptomyces coelicolor A3(2)]; CAB40884.1| pectate lyase [Bacillus sp. BP-23]). pfam03211, Pectate_lyase, Pectate lyase.; Function unclear
YP_001220791.1	putative extracellular serine protease, family S1 (chymotrypsin) (YP_063162.1| pat1 protein [Leifsonia xyli subsp. xyli str. CTCB07]). pfam00089, Trypsin, Trypsin.; Function unclear
YP_001220792.1	putative extracellular serine protease, family S1 (chymotrypsin) (YP_063162.1| pat1 protein [Leifsonia xyli subsp. xyli str. CTCB07]). pfam00089, Trypsin, Trypsin.; Function unclear
YP_001220793.1	hypothetical protein (NP_954793.1| hypothetical protein [Gordonia westfalica]; NP_940397.1| Hypothetical protein DIP2073 [Corynebacterium diphtheriae NCTC 13129]).
YP_001220794.1	conserved hypothetical protein (NP_940396.1| Hypothetical protein DIP2072 [Corynebacterium diphtheriae]; NP_954792.1| hypothetical protein [Gordonia westfalica]).; Function unclear
YP_001220798.1	putative extracellular serine protease (AAD09893.2| unknown [Clavibacter michiganensis subsp. michiganensis]; BAA06163.1| SAM-P20 serine protease precursor [Streptomyces albogriseolus]). pfam00089, Trypsin,Trypsin.; Conserved hypothetical protein
YP_001220800.1	putative cell filamentation protein (ZP_00038266.1| COG2184: Protein involved in cell division [Xylella fastidiosa Dixon]; NP_990877.1| unknown [Achromobacter denitrificans]). pfam02661, Fic, Fic protein family. This family consists of the Fic (filamentation induced by cAMP) protein and its relatives.; Function unclear
YP_001220801.1	hypothetical protein, putative single-strand binding protein (NP_052579.1| single-strand binding protein homolog Ssb [Corynebacterium glutamicum]; NP_817551.1| gp102 [Mycobacteriophage CJW1]; SSB2_STRCO Single-strand binding protein 2 (SSB 2) (Helix-destabilizing protein 2)). pfam00436, SSB, Single-strand binding protein family. This family includes single stranded binding proteins and also the primosomal replication protein N (PriB). PriB forms a complex with PriA, PriC and ssDNA.
YP_001220802.1	conserved hypothetical protein (NP_739263.1| conserved hypothetical protein [Corynebacterium efficiens YS-314]; ZP_00226454.1| hypothetical protein Krad06003337 [Kineococcus radiotolerans SRS30216]).
YP_001220803.1	putative hydrolase (Q8TWR2|Y970_METKA Putative HAD-hydrolase MK0970; ZP_00310287.1| COG1011: Predicted hydrolase (HAD superfamily) [Cytophaga hutchinsonii]). pfam00702, Hydrolase, haloacid dehalogenase-like hydrolase.; Function unclear
YP_001220804.1	conserved hypothetical protein, putative phosphotransferase (NP_977552.1| trifolitoxin immunity domain protein [Bacillus cereus ATCC 10987]; ZP_00200969.1| COG3173: Predicted aminoglycoside phosphotransferase [Exiguobacterium sp. 255-15]).
YP_001220805.1	partitioning protein (ZP_00174639.2| COG1192: ATPases involved in chromosome partitioning [Crocosphaera watsonii WH 8501]; NP_940697.1| stability protein [Pseudomonas syringae pv. syringae]). , pfam00991, ParA,ParA family ATPase.; High confidence in function and specificity
YP_001220806.1	putative ATPase (NP_695848.1| hypothetical protein BL0662 [Bifidobacterium longum NCC2705]; NP_940101.1| Conserved hypothetical protein [Corynebacterium diphtheriae NCTC 13129]). pfam01637, Arch_ATPase, Archaeal ATPase. This family contain a conserved P-loop motif that is involved in binding ATP.; Function unclear
YP_001220808.1	Na(+)/H(+) antiporter, NhaA family (ZP_00228734.1| COG3004: Na+/H+ antiporter [Kineococcus radiotolerans SRS30216]; ZP_00058667.1| COG3004: Na+/H+ antiporter [Thermobifida fusca]). pfam06965, Na_H_antiport_1, Na+/H+ antiporter 1. This family contains a number of bacterial Na+/H+ antiporter 1 proteins. These are integral membrane proteins that catalyse the exchange of H+ for Na+ in a manner that is highly dependent on the pH.; High confidence in function and specificity
YP_001220809.1	subtilisin-like serine protease, peptidase family S8A (CAA07000.1| subtilisin-like protease [Lycopersicon esculentum]; NP_717522.1| serine protease, subtilase family [Shewanella oneidensis MR-1]). , pfam05922,Subtilisin_N, Subtilisin N-terminal Region. This family is found at the N-terminus of a number of subtilisins. It is cleaved prior to activation of the enzyme. , pfam02225,PA, PA domain. The PA (Protease associated) domain is found as an insert domain in diverse proteases.,pfam00082, Peptidase_S8, Subtilase family.; Specificity unclear
YP_001220810.1	putative serine protease (NP_693914.1| hypothetical protein OB2992 [Oceanobacillus iheyensis HTE831]; ZP_00293497.1| COG3591: V8-like Glu-specific endopeptidase [Thermobifida fusca]; NP_297821.1| hypothetical protein XF0531 [Xylella fastidiosa 9a5c]). pfam00089, Trypsin,Trypsin.; Conserved hypothetical protein
YP_001220811.1	conserved hypothetical protein (NP_631356.1| conserved hypothetical protein SC5F8.11c. [Streptomyces coelicolor A3(2)]; AAD31327.1| beta-lactamase-like protein [Mycobacterium smegmatis]). pfam00753,Lactamase_B, Metallo-beta-lactamase superfamily.; Family membership
YP_001220812.1	putative acyl-CoA synthetase (AMP-forming)(ZP_00294061.1| COG0318: Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Thermobifida fusca]; NP_822779.1| putative acyl-CoA synthetase, long-chain fatty acid:CoA ligase [Streptomyces avermitilis MA-4680]). pfam00501, AMP-binding, AMP-binding enzyme.; Function unclear
YP_001220813.1	conserved hypothetical protein (NP_687579.1| conserved hypothetical protein [Streptococcus agalactiae 2603V/R]; ZP_00224261.1| hypothetical protein Bucepa02001221 [Burkholderia cepacia R1808]).
YP_001220814.1	putative extracellular serine protease (NP_779169.1| conserved hypothetical protein [Xylella fastidiosa Temecula1]; YP_061793.1| secreted protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00293497.1| COG3591: V8-like Glu-specific endopeptidase [Thermobifida fusca]).; Function unclear
YP_001220815.1	hypothetical protein (CAD47974.1| hypothetical protein [Arthrobacter nicotinovorans]).
YP_001220816.1	hypothetical protein (NP_600530.1| hypothetical protein NCgl1256 [Corynebacterium glutamicum ATCC 13032]; XP_322451.1| predicted protein [Neurospora crassa])
YP_001220817.1	putative NADH oxidase (NP_736949.1| putative pyridine nucleotide-disulphide oxidoreductase [Corynebacterium efficiens YS-314]; NP_654717.1| pyr_redox, Pyridine nucleotide-disulphide oxidoreductase [Bacillus anthracis A2012]). InterPro: FAD-dependent pyridine nucleotide-disulphide oxidoreductase. pfam00070,Pyr_redox, Pyridine nucleotide-disulphide oxidoreductase. This family includes both class I and class II oxidoreductases and also NADH oxidases and peroxidases. pfam02852, Pyr_redox_dim, Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain. pfam00581, Rhodanese,Rhodanese-like domain.; Specificity unclear
YP_001220818.1	conserved hypothetical protein (NP_601905.1| rhodanese-related sulfurtransferase [Corynebacterium glutamicum ATCC 13032]; ZP_00058946.1| COG0607: Rhodanese-related sulfurtransferase [Thermobifida fusca]). pfam00581, Rhodanese, Rhodanese-like domain.; Function unclear
YP_001220819.1	conserved hypothetical protein (NP_736667.1| conserved hypothetical protein [Corynebacterium efficiens YS-314]; NP_898741.1| conserved hypothetical protein [Rhodococcus erythropolis]). pfam02583, DUF156,Uncharacterised BCR, COG1937.; Function unclear
YP_001220820.1	putative oxidoreductase(ZP_00229014.1| COG1028: Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Kineococcus radiotolerans SRS30216]; YP_004276.1| short chain dehydrogenase [Thermus thermophilus HB27]). InterPro: Short-chain dehydrogenase/reductase (SDR) superfamily pfam00106, adh_short, short chain dehydrogenase. This family contains a wide variety of dehydrogenases.; Specificity unclear
YP_001220821.1	putative beta-glycosidase (ZP_00229019.1| COG1472: Beta-glucosidase-related glycosidases [Kineococcus radiotolerans SRS30216]; AAF43783.1| xylosidase/arabinosidase [Thermoanaerobacter ethanolicus]). pfam00933, Glyco_hydro_3, Glycosyl hydrolase family 3 N terminal domain. pfam01915,Glyco_hydro_3_C, Glycosyl hydrolase family 3 C terminal domain.; Specificity unclear
YP_001220822.1	putative beta-glucosidase/beta-xylosidase (ZP_00214214.1| COG1472: Beta-glucosidase-related glycosidases [Burkholderia cepacia R18194]; S53805 beta-glucosidase/xylosidase - Erwinia chrysanthemi). pfam00933,Glyco_hydro_3, Glycosyl hydrolase family 3 N terminal domain.; Specificity unclear
YP_001220823.1	putative sugar ABC transporter, permease component (ZP_00225485.1| COG0395: ABC-type sugar transport system,permease component [Kineococcus radiotolerans SRS30216]; AAF37729.1| cellobiose transport permease BglB [Thermobifida fusca]). InterPro: Binding-protein-dependent transport systems inner membrane component pfam00528,BPD_transp_1, Binding-protein-dependent transport system inner membrane component.; Specificity unclear
YP_001220824.1	putative sugar ABC transporter, permease component (AAF37728.1| cellobiose transport permease BglA [Thermobifida fusca]; ZP_00226174.1| COG1175: ABC-type sugar transport systems, permease components [Kineococcus radiotolerans SRS30216]; NP_627026.1| putative cellobiose transport permease [Streptomyces coelicolor A3(2)]). pfam00528, BPD_transp_1, Binding-protein-dependent transport system inner membrane component.; Specificity unclear
YP_001220825.1	putative sugar ABC transporter, binding protein (ZP_00058384.1| COG1653: ABC-type sugar transport system,periplasmic component [Thermobifida fusca]; T46602 cellobiose/cellotriose binding protein [imported] -Streptomyces reticuli (fragment)). pfam01547, SBP_bac_1,Bacterial extracellular solute-binding protein.; Specificity unclear
YP_001220826.1	putative transcriptional regulator, TetR family (ZP_00120758.1| COG1309: Transcriptional regulator [Bifidobacterium longum DJO10A]; NP_793102.1| transcriptional regulator, TetR family [Pseudomonas syringae pv. tomato str. DC3000]). pfam00440, TetR_N,Bacterial regulatory proteins, tetR family.; Specificity unclear
YP_001220827.1	putative beta-glucosidase (NP_631601.1| putative beta-glucosidase [Streptomyces coelicolor A3(2)]; NP_826430.1| putative cellobiose hydrolase [Streptomyces avermitilis MA-4680]). InterPro: Glycoside hydrolase family 1; Specificity unclear
YP_001220828.1	putative transcriptional regulator, LacI family (AAP57290.1| CatR [Clavibacter michiganensis subsp. michiganensis]; NP_826160.1| putative LacI-family transcriptional regulator [Streptomyces avermitilis MA-4680]). InterPro: Periplasmic binding proteins and sugar binding domain LacI family pfam00532, Peripla_BP_1,Periplasmic binding proteins and sugar binding domain of the LacI family. This family includes the periplasmic binding proteins, and the LacI family transcriptional regulators. The periplasmic binding proteins are the primary receptors for chemotaxis and transport of many sugar based solutes. The LacI family of proteins consist of transcriptional regulators related to the lac repressor. In this case, generally the sugar binding domain binds a sugar which changes the DNA binding activity of the repressor domain (pfam00356).; Specificity unclear
YP_001220829.1	tomatinase, glycosyl hydrolase, family 10 (ZP_00192175.3| COG3693: Beta-1,4-xylanase [Kineococcus radiotolerans SRS30216]; CAA10112.1| tomatinase [Fusarium oxysporum f. sp. lycopersici]). , pfam00331,Glyco_hydro_10, Glycosyl hydrolase family 10.; High confidence in function and specificity
YP_001220830.1	putative two-component system response regulator (ZP_00199394.2| COG2197: Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Kineococcus radiotolerans SRS30216]; NP_625364.1| putative two component system response regulator [Streptomyces coelicolor A3(2)]). cd00156, REC, Signal receiver domain. pfam00196, GerE, Bacterial regulatory proteins, luxR family.; Specificity unclear
YP_001220831.1	putative two-component system sensor kinase (ZP_00192164.3| COG4585: Signal transduction histidine kinase [Kineococcus radiotolerans SRS30216]; NP_827214.1| putative two-component system sensor kinase [Streptomyces avermitilis MA-4680]).; Specificity unclear
YP_001220832.1	putative exporter of the RND family (ZP_00229024.1| COG2409: Predicted drug exporters of the RND superfamily [Kineococcus radiotolerans SRS30216]; NP_631580.1| putative integral membrane protein. [Streptomyces coelicolor A3(2)]). InterPro: HMGCR/Patched 5TM box; Specificity unclear
YP_001220833.1	cytochrome P450 (ZP_00229013.1| COG2124: Cytochrome P450 [Kineococcus radiotolerans SRS30216]; CAE53708.1| putative cytochrome P450 [Streptomyces peucetius])., ,pfam00067, p450, Cytochrome P450. Cytochrome P450s are involved in the oxidative degradation of various compounds.; Specificity unclear
YP_001220834.1	putative 3Fe-4S ferredoxin (P18325|FER2_STRGO Ferredoxin 2 (Fd-2); P46374|FAS2_RHOFA Ferredoxin fas2).; Function unclear
YP_001220835.1	Ferredoxin Reductase (P450 system) (NP_822785.1| putative ferredoxin reductase [Streptomyces avermitilis MA-4680]; ZP_00229012.1| COG0446: Uncharacterized NAD(FAD)-dependent dehydrogenases [Kineococcus radiotolerans SRS30216]). pfam00070, Pyr_redox, Pyridine nucleotide-disulphide oxidoreductase. This family includes both class I and class II oxidoreductases and also NADH oxidases and peroxidases. This domain is actually a small NADH binding domain within a larger FAD binding domain.; Specificity unclear
YP_001220836.1	putative beta-glucosidase, glycosyl hydrolase family 3 (ZP_00229019.1| COG1472: Beta-glucosidase-related glycosidases [Kineococcus radiotolerans SRS30216]; AAF43783.1| xylosidase/arabinosidase [Thermoanaerobacter ethanolicus]). pfam00933, Glyco_hydro_3, Glycosyl hydrolase family 3 N terminal domain. pfam01915,Glyco_hydro_3_C, Glycosyl hydrolase family 3 C terminal domain.; Specificity unclear
YP_001220837.1	putative transcriptional regulator, LacI-family (emb|CAD47864.1| putative LacI-family transcriptional regulator [Arthrobacter nicotinovorans]; NP_963234.1| hypothetical protein MAP4300 [Mycobacterium avium subsp. paratuberculosis str. k10]). pfam00532, Peripla_BP_1,Periplasmic binding proteins and sugar binding domain of the LacI family. This family includes the periplasmic binding proteins, and the LacI family transcriptional regulators. The periplasmic binding proteins are the primary receptors for chemotaxis and transport of many sugar based solutes. The LacI family of proteins consist of transcriptional regulators related to the lac repressor. In this case, generally the sugar binding domain binds a sugar which changes the DNA binding activity of the repressor domain (pfam00356).; Specificity unclear
YP_001220838.1	putative beta-galactosidase/beta-glucuronidase (ZP_00229015.1| COG3250: Beta-galactosidase/beta-glucuronidase [Kineococcus radiotolerans SRS30216]; ZP_00061173.1| COG3250: Beta-galactosidase/ beta-glucuronidase [Clostridium thermocellum ATCC 27405]). InterPro: Glycoside hydrolase family 2 pfam02837,Glyco_hydro_2_N, Glycosyl hydrolases family 2, sugar binding domain. pfam02836, Glyco_hydro_2_C, Glycosyl hydrolases family 2, TIM barrel domain.; Specificity unclear
YP_001220839.1	putative beta-glucosidase, glycosyl hydrolase family 3 (ZP_00229018.1| COG1472: Beta-glucosidase-related glycosidases [Kineococcus radiotolerans SRS30216]; ZP_00060124.1| COG1472: Beta-glucosidase- related glycosidases [Clostridium thermocellum ATCC 27405]). pfam00933, Glyco_hydro_3, Glycosyl hydrolase family 3 N terminal domain. pfam01915, Glyco_hydro_3_C, Glycosyl hydrolase family 3 C terminal domain.; Specificity unclear
YP_001220840.1	putative beta-glucosidase, glycosyl hydrolase family 1 (ZP_00192144.3| COG2723: Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Kineococcus radiotolerans SRS30216]; CAA52344.1| beta-glucosidase [Streptomyces rochei]). InterPro: Glycoside hydrolase family 1. pfam00232, Glyco_hydro_1, Glycosyl hydrolase family 1.; Specificity unclear
YP_001220841.1	putative beta-galactosidase, glycosyl hydrolase family 35 (ZP_00229011.1| COG1874: Beta-galactosidase [Kineococcus radiotolerans SRS30216]; NP_642855.1| conserved hypothetical protein [Xanthomonas axonopodis pv. citri str. 306]). pfam01301, Glyco_hydro_35, Glycosyl hydrolases family 35.; Specificity unclear
YP_001220842.1	putative beta-xylosidase, glycosyl hydrolase family 43 (14-beta-D-xylan xylohydrolase) (NP_244550.1| xylan beta-1,4-xylosidase [Bacillus halodurans C-125]; ZP_00066469.1| COG3507: Beta-xylosidase [Microbulbifer degradans 2-40]). pfam04616, Glyco_hydro_43, Glycosyl hydrolases family 43. cd00057, FA58C, Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes.; Specificity unclear
YP_001220843.1	putative sugar permease (MFS superfamily) (ZP_00229022.1| COG0477: Permeases of the major facilitator superfamily [Kineococcus radiotolerans SRS30216]; CAD47966.1| hypothetical protein [Arthrobacter nicotinovorans]). pfam00083, Sugar_tr, Sugar (and other) transporter.; Specificity unclear
YP_001220844.1	putative alpha rhamnosidase (ZP_00229021.1| hypothetical protein Krad06000075 [Kineococcus radiotolerans SRS30216]; AAR96046.1| alpha-L-rhamnosidase A [Thermomicrobia bacterium PRI-1686]). , weak similarities to: COG3408, GDB1, Glycogen debranching enzyme; pfam05592, Bac_rhamnosid, Bacterial alpha-L-rhamnosidase. This family consists of bacterial rhamnosidase A and B enzymes. L-Rhamnose is abundant in biomass as a common constituent of glycolipids and glycosides, such as plant pigments, pectic polysaccharides, gums or biosurfactants.; Specificity unclear
YP_001220845.1	catalyzes the transfer of alpha-xylosyl residue from alpha-xyloside to xylose, glucose, mannose, fructose, maltose, isomaltose, nigerose, kojibiose, sucrose, and trehalose; shows higher activity against alpha-xylosyl fluoride, isoprimeverose (6-O-alpha-xylopyranosyl-glucopyranose), and alpha-xyloside in xyloglucan oligosaccharides
YP_001220846.1	putative sugar ABC transporter, permease compound (NP_822503.1| putative binding-protein dependent transport protein [Streptomyces avermitilis MA-4680]; ZP_00121009.2| COG0395: ABC-type sugar transport system,permease component [Bifidobacterium longum DJO10A]).; Specificity unclear
YP_001220847.1	putative sugar ABC transporter, permease component (NP_822502.1| putative binding-protein dependent transport protein [Streptomyces avermitilis MA-4680]; ZP_00227865.1| COG1175: ABC-type sugar transport systems,permease components [Kineococcus radiotolerans SRS30216]).; Specificity unclear
YP_001220848.1	putative sugar ABC transporter, binding protein (NP_822501.1| putative solute-binding lipoprotein [Streptomyces avermitilis MA-4680]; ZP_00227866.1| COG1653: ABC-type sugar transport system, periplasmic component [Kineococcus radiotolerans SRS30216]). pfam01547, SBP_bac_1, Bacterial extracellular solute-binding protein.; Specificity unclear
YP_001220849.1	putative xylosidase (NP_693008.1| xylosidase; arabinofuranosidase [Oceanobacillus iheyensis HTE831]; XYLB_BUTFI Xylosidase/arabinosidase [Includes: Beta-xylosidase (1,4-beta-D-xylan xylohydrolase) (Xylan 1,4-beta-xylosidase); Alpha-N-arabinofuranosidase (Arabinosidase)]). pfam04616, Glyco_hydro_43, Glycosyl hydrolases family 43.; Specificity unclear
YP_001220850.1	putative sugar phosphate isomerase/epimerase (ZP_00229027.1| COG1082: Sugar phosphate isomerases/epimerases [Kineococcus radiotolerans SRS30216]; NP_774276.1| bll7636 [Bradyrhizobium japonicum USDA 110]).; Function unclear
YP_001220851.1	putative dehydrogenase/oxidoreductase (ZP_00227973.1| COG0673: Predicted dehydrogenases and related proteins [Kineococcus radiotolerans SRS30216]; NP_241574.1| BH0708~unknown conserved protein [Bacillus halodurans C-125]). pfam01408, GFO_IDH_MocA,Oxidoreductase family, NAD-binding Rossmann fold. This family of enzymes utilise NADP or NAD.; Function unclear
YP_001220852.1	putative hydrolase (ZP_00194950.1| COG0596: Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [Mesorhizobium sp. BNC1]; ZP_00024553.1| COG0596: Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [Ralstonia metallidurans]).; Function unclear
YP_001220853.1	hypothetical protein (NP_624727.1| hypothetical protein SCF51.05 [Streptomyces coelicolor A3(2)]; NP_601349.1| hypothetical protein NCgl2067 [Corynebacterium glutamicum ATCC 13032]). contains COG1413, FOG: HEAT repeat.
YP_001220854.1	putative transcriptional regulator, MerR family (ZP_00191993.3| COG0789: Predicted transcriptional regulators [Kineococcus radiotolerans SRS30216]; NP_822962.1| putative MerR-family transcriptional regulator [Streptomyces avermitilis MA-4680]). pfam00376,MerR, MerR family regulatory protein.; Specificity unclear
YP_001220855.1	putative dienelactone hydrolase (ZP_00210010.1| COG0412: Dienelactone hydrolase and related enzymes [Magnetospirillum magnetotacticum]; ZP_00228563.1| COG0412: Dienelactone hydrolase and related enzymes [Kineococcus radiotolerans SRS30216]). pfam01738, DLH,Dienelactone hydrolase family.; Specificity unclear
YP_001220856.1	putative drug-resistance MFS transporter (S70171 integral membrane protein - Streptomyces pristinaespiralis; NP_628206.1| putative integral membrane efflux protein [Streptomyces coelicolor A3(2)]). InterPro: General substrate transporters 14 transmembrane helices; Specificity unclear
YP_001220857.1	putative TetR-family transcriptional regulator (NP_631278.1| putative TetR-family transcriptional regulator (NP_631278.1| putative TetR-family transcriptional regulator [Streptomyces coelicolor A3(2)]; NP_792454.1| transcriptional regulator, TetR family [Pseudomonas syringae pv. tomato str. DC3000]). pfam02909, TetR_C, Tetracyclin repressor, C-terminal all-alpha domain.; Specificity unclear
YP_001220858.1	putative transcriptional regulator, TetR family (NP_827877.1| putative TetR-family transcriptional regulator (NP_827877.1| putative TetR-family transcriptional regulator [Streptomyces avermitilis MA-4680]; NP_737549.1| transcription regulator AmtR [Corynebacterium efficiens YS-314]). pfam00440, TetR_N,Bacterial regulatory proteins, tetR family.; Specificity unclear
YP_001220859.1	putative urea amidolyase (NP_923904.1| probable urea amidolyase [Gloeobacter violaceus PCC 7421]; NP_946755.1| putative urea amidolyase [Rhodopseudomonas palustris CGA009]). domain combination of urea hydrolase related proteins: pfam00289, CPSase_L_chain, Carbamoyl-phosphate synthase L chain, N-terminal domain. pfam02786,CPSase_L_D2, Carbamoyl-phosphate synthase L chain, ATP binding domain. pfam02785, Biotin_carb_C, Biotin carboxylase C-terminal domain. pfam02626, AHS2,Allophanate hydrolase subunit 2. pfam02682, AHS1,Allophanate hydrolase subunit 1. pfam00364, Biotin_lipoyl,Biotin-requiring enzyme.; High confidence in function and specificity
YP_001220860.1	conserved hypothetical protein (NP_737324.1| conserved hypothetical protein [Corynebacterium efficiens YS-314]; ZP_00225763.1| COG3665: Uncharacterized conserved protein [Kineococcus radiotolerans SRS30216]).; Function unclear
YP_001220861.1	conserved hypothetical protein (ZP_00225764.1| COG3665: Uncharacterized conserved protein [Kineococcus radiotolerans SRS30216]; NP_737325.1| conserved hypothetical protein [Corynebacterium efficiens YS-314]).; Function unclear
YP_001220862.1	putative amino-acid permease, APC family (ZP_00225765.1| COG0531: Amino acid transporters [Kineococcus radiotolerans SRS30216]; NP_827885.1| putative amino acid/metabolite permease [Streptomyces avermitilis MA-4680])., pfam00324, AA_permease, Amino acid permease.; Specificity unclear
YP_001220863.1	putative acyl-CoA synthetase (AAR91681.1| ATP/NADPH-dependent carboxylic acid reductase [Nocardia sp. NRRL 5646]; NP_959974.1| FadD9 [Mycobacterium avium subsp. paratuberculosis str. k10])., N-terminal domain: COG1022,FAA1, Long-chain acyl-CoA synthetases (AMP-forming),pfam00501, AMP-binding, AMP-binding enzyme. pfam00550, PP-binding, Phosphopantetheine attachment site. A 4'-phosphopantetheine prosthetic group is attached through a serine. , C-terminal domain: COG3320, COG3320, Putative dehydrogenase domain of multifunctional non-ribosomal peptide synthetases and related enzymes acyl_carrier: acyl carrier protein, may be involved in the activation of fatty acids or part of a PKS/NRPS.; Specificity unclear
YP_001220864.1	putative 4-phosphopantetheinyl transferase (Enterobactin synthetase component D) (NP_822924.1| putative phosphopantetheinyl transferase [Streptomyces avermitilis MA-4680]; AAR92400.1| Sfp-type phosphopantetheinyl transferase [Saccharopolyspora erythraea]).; Function unclear
YP_001220865.1	hypothetical protein (EAM74364.1| hypothetical protein KradDRAFT_1431 [Kineococcus radiotolerans SRS30216]; ZP_00413143.1| hypothetical protein ArthDRAFT_2026 [Arthrobacter sp. FB24]).
YP_001220866.1	putative RNA polymerase ECF-subfamily sigma factor (NP_627178.1| putative RNA polymerase sigma factor [Streptomyces coelicolor A3(2)]; YP_121728.1| putative sigma factor [Nocardia farcinica IFM 10152]). pfam04542,Sigma70_r2, Sigma-70 region 2. Region 2 of sigma-70 is the most conserved region of the entire protein. pfam04545,Sigma70_r4, Sigma-70, region 4.; Specificity unclear
YP_001220867.1	conserved hypothetical protein (XP_390017.1| hypothetical protein FG09841.1 [Gibberella zeae PH-1]; NP_923811.1| hypothetical protein gll0865 [Gloeobacter violaceus PCC 7421]).
YP_001220868.1	putative sortase (NP_631498.1| putative secreted protein [Streptomyces coelicolor A3(2)]; NP_693584.1| hypothetical protein OB2663 [Oceanobacillus iheyensis HTE831]). cd00004, Sortase, Sortase domain; transpeptidase of Gram-positive bacteria, cleaves surface proteins at the LPXTG motif between Thr and Gly and catalyzes the formation of an amide bond between the carboxyl group of Thr and the amino group of cell-wall crossbridges. In two different classes of sortases the N-terminus either functions as both a signal peptide for secretion and a stop-transfer signal for membrane anchoring, or it contains a signal peptide only and the C-terminus serves as a membrane anchor. pfam04203, Sortase, Sortase family. The founder member of this family is S.aureus sortase, a transpeptidase that attaches surface proteins by the threonine of an LPXTG motif to the cell wall.; Family membership
YP_001220869.1	hypothetical protein (
YP_001220871.1	hypothetical protein (only weak similarities to RTX toxins (ZP_00116833.1| COG2931: RTX toxins and related Ca2+-binding proteins [Cytophaga hutchinsonii]) and phage capsid proteins (NP_861884.1| Hoc head outer capsid protein [Enterobacteria phage RB69])).
YP_001220872.1	putative cysteine peptidase, family C15 (NP_931479.1| Pyrrolidone- carboxylate peptidase (5-oxoprolyl-peptidase) [Photorhabdus luminescens subsp. laumondii TTO1]; ZP_00024570.1| COG2039: Pyrrolidone-carboxylate peptidase (N-terminal pyroglutamyl peptidase) [Ralstonia metallidurans]). pfam01470, Peptidase_C15,Pyroglutamyl peptidase.; Function unclear
YP_001220873.1	putative FAD-dependent monooxygenase (ZP_00216251.1| COG0654: 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Burkholderia cepacia R18194]; NP_771617.1| blr4977 [Bradyrhizobium japonicum USDA 110]). pfam01360,Monooxygenase, Monooxygenase. This family includes diverse enzymes that utilise FAD.; Specificity unclear
YP_001220874.1	conserved hypothetical protein, weakly ; ZP_00239107.1| GTP pyrophosphokinase [Bacillus cereus G9241])., , pfam04607, RelA_SpoT, Region found in RelA / SpoT proteins.
YP_001220875.1	hypothetical protein (AAN62299.1| hypothetical protein [Pseudomonas aeruginosa]; AAW89695.1| hypothetical protein, putative phage associated protein [Neisseria gonorrhoeae FA 1090]).
YP_001220876.1	putative MFS transporter (CAF21275.1| Permease of the major facilitator superfamily [Corynebacterium glutamicum ATCC 13032]; NP_961251.1| hypothetical protein MAP2317c [Mycobacterium avium subsp. paratuberculosis str. k10]).; Specificity unclear
YP_001220877.1	putative kinase/phosphotransferase (weak similarity to COG3173, Predicted aminoglycoside phosphotransferase [General function prediction only]; ZP_00200969.1| COG3173: Predicted aminoglycoside phosphotransferase [Exiguobacterium sp. 255-15]; NP_655042.1| Choline_kinase, Choline/ethanolamine kinase [Bacillus anthracis A2012]).; Function unclear
YP_001220878.1	conserved hypothetical protein (ZP_00074096.1| COG0494: NTP pyrophosphohydrolases including oxidative damage repair enzymes [Trichodesmium erythraeum IMS101]; NP_765595.1| mutator protein mutT [Staphylococcus epidermidis ATCC 12228]). pfam00293, NUDIX, NUDIX domain.; Family membership
YP_001220879.1	transcriptional regulator, MarR family (NP_977771.1| transcriptional regulator, MarR family [Bacillus cereus ATCC 10987]; ZP_00037950.1| COG1846: Transcriptional regulators [Enterococcus faecium]). pfam01047, MarR, MarR family. The Mar proteins are involved in the multiple antibiotic resistance, a non-specific resistance system.; Specificity unclear
YP_001220881.1	hypothetical protein; putative serine peptidase,family S26 (NP_563211.1| signal peptidase type I [Clostridium perfringens str. 13]), , pfam00461,Peptidase_S26, Signal peptidase I.
YP_001220882.1	hypothetical protein , cd00110, LamG, Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans.
YP_001220883.1	conserved hypothetical protein (NP_929594.1| hypothetical protein [Photorhabdus luminescens subsp. laumondii TTO1]; AAM97361.1| RubK [Streptomyces collinus]).; Function unclear
YP_001220884.1	hypothetical protein (NP_925435.1| unknown protein [Gloeobacter violaceus PCC 7421]).
YP_001220885.1	hypothetical protein weak similarity to: NP_831063.1| Cell envelope-bound metalloprotease (camelysin) [Bacillus cereus ATCC 14579]
YP_001220886.1	putative signal peptidase I (Leader peptidase I) (AAN08877.1| signal peptidase type I [Leishmania major]; AAF02220.1| signal peptidase type I [Bacillus amyloliquefaciens]). pfam00461, Peptidase_S26, Signal peptidase I.
YP_001220888.1	hypothetical protein, weak similarity to: NP_834566.1| Cell envelope-bound metalloprotease (camelysin) [Bacillus cereus ATCC 14579]
YP_001220889.1	hypothetical protein (EAL12040.1| cell wall surface anchor family protein, putative [Bacillus cereus G9241]; ZP_00117602.1| COG2931: RTX toxins and related Ca2+-binding proteins [Cytophaga hutchinsonii]). , weak similarity to cell surface proteins and invasin.; Conserved hypothetical protein
YP_001220890.1	heat shock protein 70; assists in folding of nascent polypeptide chains; refolding of misfolded proteins; utilizes ATPase activity to help fold; co-chaperones are DnaJ and GrpE; multiple copies in some bacteria
YP_001220891.1	heat shock chaperone (HSP-70 cofactor)(NP_695711.1| GrpE protein [Bifidobacterium longum NCC2705]; NP_787877.1| HSP-70 cofactor GrpE [Tropheryma whipplei str. Twist]). Stimulates jointly with dnaJ the ATPAse activity of dnaK. Helps to release ADP from dnaK thus allowing dnaK to recycle more efficiently (By similarity). pfam01025, GrpE, GrpE.; High confidence in function and specificity
YP_001220892.1	chaperone (NP_789681.1| molecular chaperone DnaJ [Tropheryma whipplei TW08/27]; ZP_00225596.1| COG0484: DnaJ-class molecular chaperone with C-terminal Zn finger domain [Kineococcus radiotolerans SRS30216]). pfam00226,DnaJ, DnaJ domain. DnaJ domains (J-domains) are associated with hsp70 heat-shock system and it is thought that this domain mediates the interaction. , pfam01556, DnaJ_C, DnaJ C terminal region.; High confidence in function and specificity
YP_001220893.1	putative transcriptional regulator, MerR family (ZP_00056688.1| COG0789: Predicted transcriptional regulators [Thermobifida fusca]; NP_825664.1| putative HspR protein [Streptomyces avermitilis MA-4680]). PUTATIVE HEAT SHOCK REGULATOR pfam00376, MerR, MerR family regulatory protein.; Specificity unclear
YP_001220894.1	putative methyltransferase (NP_625336.1| conserved hypothetical protein SCG20A.21 [Streptomyces coelicolor A3(2)]; ZP_00138173.1| COG2813: 16S RNA G1207 methylase RsmC [Pseudomonas aeruginosa CBPP-PA14]). , , pfam05175,MTS, Methyltransferase small domain., InterPro: SAM (and some other nucleotide) binding motif.; Function unclear
YP_001220895.1	conserved hypothetical protein (ZP_00067078.1| hypothetical protein [Microbulbifer degradans 2-40]; NP_266258.1| hypothetical protein L103661 [Lactococcus lactis subsp. lactis Il1403]).
YP_001220896.1	putative transcriptional regulator, Cro/CI family (ZP_00225419.1| COG3655: Predicted transcriptional regulator [Kineococcus radiotolerans SRS30216]; NP_656871.1| HTH_XRE, Helix-turn-helix XRE-family like proteins [Bacillus anthracis A2012]). smart00530, HTH_XRE,Helix-turn-helix XRE-family like proteins. pfam01381,HTH_3, Helix-turn-helix. This large family of DNA binding helix-turn helix proteins includes Cro and CI.; Specificity unclear
YP_001220897.1	Hypothetical protein
YP_001220898.1	conserved hypothetical protein, FAD binding protein (AAQ61023.1| conserved hypothetical protein [Chromobacterium violaceum ATCC 12472]; NP_738977.1| hypothetical protein [Corynebacterium efficiens YS-314]). pfam04940, BLUF, Sensors of blue-light using FAD. The BLUF domain has been shown to bind FAD in the AppA protein.
YP_001220900.1	putative LacI-family transcriptional regulator (NP_936186.1| transcriptional regulator [Vibrio vulnificus YJ016]; AAC82367.1| catabolite control protein A [Thermoactinomyces sp. E79]). pfam00356, LacI, Bacterial regulatory proteins, lacI family. pfam00532, Peripla_BP_1,Periplasmic binding proteins and sugar binding domain of the LacI family. The LacI family of proteins consist of transcriptional regulators related to the lac repressor. In this case, generally the sugar binding domain binds a sugar which changes the DNA binding activity of the repressor domain (pfam00356).; Specificity unclear
YP_001220901.1	conserved hypothetical protein, possible flavoprotein oxygenase (ZP_00217975.1| COG1853: Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [Burkholderia cepacia R18194]; NP_244852.1| BH3984~unknown conserved protein [Bacillus halodurans C-125]).
YP_001220903.1	hypothetical protein (only very weak similarities to e. g. ZP_00213268.1| COG2755: Lysophospholipase L1 and related esterases [Burkholderia cepacia R18194]).
YP_001220904.1	putative Fe3+-siderophore ABC transpoter, ATPase component (NP_631450.1| putative ABC-transport protein,ATP-binding component [Streptomyces coelicolor A3(2)]; ZP_00203479.1| COG1120: ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Anabaena variabilis ATCC 29413]). pfam00005, ABC_tran,ABC transporter.; Specificity unclear
YP_001220905.1	putative Fe3+-siderophore ABC transporter, binding protein (NP_631449.1| possible binding-protein-dependent transport lipoprotein [Streptomyces coelicolor A3(2)]; YP_038579.1| iron compound ABC transporter, iron compound-binding protein [Bacillus thuringiensis serovar konkukian str. 97-27]).; Specificity unclear
YP_001220906.1	part of the FhuBCD ATP-dependent iron (III) hydroxamate transporter involved in the high-affinity transport of Fe(3+)-ferrichrome
YP_001220907.1	putative membrane protein (ZP_00299182.1| COG2259: Predicted membrane protein [Geobacter metallireducens GS-15]; ZP_00187970.1| hypothetical protein Rxyl02000785 [Rubrobacter xylanophilus DSM 9941]). weak similarity to: pfam07291, MauE, Methylamine utilisation protein MauE.
YP_001220908.1	putative two-component system sensor kinase (NP_628759.1| putative two-component system sensor kinase [Streptomyces coelicolor A3(2)]; NP_826056.1| putative two-component system sensor kinase [Streptomyces avermitilis MA-4680]). pfam02518, HATPase_c, Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase.; Specificity unclear
YP_001220909.1	putative two-component system response regulator (NP_826055.1| putative two-component system response regulator [Streptomyces avermitilis MA-4680]; ZP_00198576.2| COG2197: Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Kineococcus radiotolerans SRS30216]). pfam00196, GerE,Bacterial regulatory proteins, luxR family. pfam00072,Response_reg, Response regulator receiver domain.; Specificity unclear
YP_001220910.1	putative tautomerase (ZP_00209270.1| COG1942: Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [Magnetospirillum magnetotacticum]; P94502|YRDN_BACSU Probable tautomerase yrdN). pfam01361,Tautomerase, Tautomerase enzyme. This family includes the enzyme 4-oxalocrotonate tautomerase that catalyses the ketonisation of 2-hydroxymuconate to 2-oxo-3-hexenedioate.; Function unclear
YP_001220911.1	putative acetyltransferase, GnaT family (NP_899804.1| probable putative acetyltransferase [Chromobacterium violaceum ATCC 12472]; ZP_00058960.1| COG0454: Histone acetyltransferase HPA2 and related acetyltransferases). pfam00583, Acetyltransf_1,Acetyltransferase (GNAT) family. This family contains proteins with N-acetyltransferase functions.; Function unclear
YP_001220912.1	conserved hypothetical protein (AAD02119.1| unknown [Streptomyces toyocaensis]; ZP_00226047.1| COG0595: Predicted hydrolase of the metallo-beta-lactamase superfamily [Kineococcus radiotolerans SRS30216]). pfam00753, Lactamase_B, Metallo-beta-lactamase superfamily.; Family membership
YP_001220913.1	putative sulfate MFS permease (NP_627488.1| putative integral membrane transporter [Streptomyces coelicolor A3(2)]; NP_862402.1| putative integral membrane transporter [Micrococcus sp. 28]). pfam00916,Sulfate_transp, Sulfate transporter family. TIGRFAM (TIGR00815): sulfate permease sulP. pfam01740, STAS, STAS domain. The STAS (after Sulphate Transporter and AntiSigma factor antagonist) domain is found in the C terminal region of Sulphate transporters and bacterial antisigma factor antagonists. It has been suggested that this domain may have a general NTP binding function.; High confidence in function and specificity
YP_001220914.1	putative Mn2+/Zn2+ ABC-type transporter, ATPase component (NP_624795.1| ABC transport protein, ATP-binding subunit [Streptomyces coelicolor A3(2)]; NP_599281.1| ABC-type transporter, ATPase component [Corynebacterium glutamicum ATCC 13032]). most likely involved in Zn2+ and/or Mn2+ uptake. pfam00005, ABC_tran, ABC transporter.; Specificity unclear
YP_001220915.1	putative Mn2+/Zn2+ ABC-type transporter, permease component (NP_599280.1| ABC-type transporter, permease component [Corynebacterium glutamicum ATCC 13032]; NP_624794.1| ABC transporter protein, integral membrane subunit [Streptomyces coelicolor A3(2)]).; Specificity unclear
YP_001220916.1	conserved hypothetical protein, putatively secreted (NP_599278.1| hypothetical protein NCgl0025 [Corynebacterium glutamicum ATCC 13032]; NP_624793.1| putative lipoprotein [Streptomyces coelicolor A3(2)]).
YP_001220917.1	putative manganese ABC transporter, substrate-binding lipoprotein (NP_599279.1| ABC-type transporter,periplasmic component [Corynebacterium glutamicum ATCC 13032]; NP_624792.1| putative solute-binding lipoprotein [Streptomyces coelicolor A3(2)]). InterPro: Adhesion lipoprotein family pfam01297, SBP_bac_9, Periplasmic solute binding protein family.; Specificity unclear
YP_001220918.1	conserved hypothetical protein (NP_624791.1| putative secreted protein [Streptomyces coelicolor A3(2)]; NP_599278.1| hypothetical protein NCgl0025 [Corynebacterium glutamicum ATCC 13032]).
YP_001220919.1	NAD-dependent aldehyde dehydrogenase (AAN37492.1| 6-oxohexanoate dehydrogenase; ChnE [Rhodococcus sp. Phi2]; O32507|GABD_DEIRA Succinate-semialdehyde dehydrogenase [NADP+] (SSDH)). pfam00171, Aldedh, Aldehyde dehydrogenase family.; Specificity unclear
YP_001220921.1	putative glycosyltransferase (YP_051468.1| putative glycosyltransferase [Erwinia carotovora subsp. atroseptica SCRI1043]; AAN01207.1| putative glycosyltransferase [Lechevalieria aerocolonigenes]). pfam00201, UDPGT, UDP-glucoronosyl and UDP-glucosyl transferase.; Function unclear
YP_001220923.1	putative aminotransferase (Q9CBM9|YM94_MYCLE Putative aminotransferase ML1794; NP_625035.1| putative transferase [Streptomyces coelicolor A3(2)]). pfam00155,Aminotran_1_2, Aminotransferase class I and II.; Function unclear
YP_001220924.1	putative methionine synthase II (ZP_00093248.1| COG0620: Methionine synthase II (cobalamin-independent) [Novosphingobium aromaticivorans]; CAF20466.1|; High confidence in function and specificity
YP_001220925.1	O-acetylhomoserine (Thiol)-lyase (EC 2.4.1.49) (Homocysteine synthase) (ZP_00228435.1| COG2873: O-acetylhomoserine sulfhydrylase [Kineococcus radiotolerans SRS30216]; ZP_00293095.1| COG2873: O-acetylhomoserine sulfhydrylase [Thermobifida fusca]). Transforms O-acetylhomoserine into homocysteine. pfam01053,Cys_Met_Meta_PP, Cys/Met metabolism PLP-dependent enzyme.; High confidence in function and specificity
YP_001220926.1	putative oxidoreductase/monooxygenase (ZP_00228434.1| COG2141: Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Kineococcus radiotolerans SRS30216]; NP_693700.1| thermophilic desulfurizing enzyme [Oceanobacillus iheyensis HTE831]; AAK63173.1| thiophene oxidizing enzyme [Tsukamurella wratislaviensis]).; Specificity unclear
YP_001220927.1	putative tetR-family transcriptional regulator (NP_824466.1| putative TetR-family transcriptional regulator [Streptomyces avermitilis MA-4680]; NP_960670.1| hypothetical protein MAP1736 [Mycobacterium avium subsp. paratuberculosis str. k10]). InterPro: Bacterial regulatory proteins TetR family pfam00440,TetR_N, Bacterial regulatory proteins, tetR family.; Specificity unclear
YP_001220928.1	putative multi-drug efflux MFS permease (ZP_00226170.1| COG0477: Permeases of the major facilitator superfamily [Kineococcus radiotolerans SRS30216]; NP_739141.1| putative lincomycin-resistance protein [Corynebacterium efficiens YS-314]). pfam00083,Sugar_tr, Sugar (and other) transporter. InterPro: General substrate transporters efflux_EmrB: drug resistance transport; Specificity unclear
YP_001220929.1	putative hydrolase (ZP_00191747.2| COG0596: Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [Kineococcus radiotolerans SRS30216]; NP_624748.1| putative hydrolase [Streptomyces coelicolor A3(2)]). pfam00561, Abhydrolase_1, alpha/beta hydrolase fold. This catalytic domain is found in a very wide range of enzymes.; Function unclear
YP_001220930.1	putative transcriptional regulator, TetR family (ZP_00191859.2| COG1309: Transcriptional regulator [Kineococcus radiotolerans SRS30216]; NP_624749.1| putative tetR family transcriptional regulator [Streptomyces coelicolor A3(2)]). pfam00440, TetR_N,Bacterial regulatory proteins, tetR family.; Specificity unclear
YP_001220931.1	Hypothetical protein
YP_001220932.1	putative membrane protein weak similarity to: pfam04235, DUF418, Protein of unknown function (DUF418). Probable integral membrane protein.; Hypothetical protein
YP_001220933.1	putative transcriptional regulator, TetR family (ZP_00126009.1| COG1309: Transcriptional regulator [Pseudomonas syringae pv. syringae B728a]; ZP_00192174.3| COG1309: Transcriptional regulator [Kineococcus radiotolerans SRS30216]). pfam00440, TetR_N, Bacterial regulatory proteins, tetR family.; Specificity unclear
YP_001220934.1	putative oxidoreductase (NP_579646.1| putative dehydrogenase [Pyrococcus furiosus DSM 3638]; NP_103783.1| NADH-dependent dyhydrogenase [Mesorhizobium loti MAFF303099]). pfam01408, GFO_IDH_MocA, Oxidoreductase family, NAD-binding Rossmann fold. This family of enzymes utilise NADP or NAD.; Function unclear
YP_001220936.1	putative sugar ABC transporter, binding protein (P_627687.1| putative secreted sugar-binding protein [Streptomyces coelicolor A3(2)]; YP_014349.1| ABC transporter, substrate-binding protein [Listeria monocytogenes str. 4b F2365]). pfam01547, SBP_bac_1,Bacterial extracellular solute-binding protein. InterPro: Bacterial extracellular solute-binding protein family 1; Specificity unclear
YP_001220937.1	putative sugar ABC transporter, permease component (NP_627686.1| putative integral membrane transport protein [Streptomyces coelicolor A3(2)]; NP_346128.1| ABC transporter, permease protein [Streptococcus pneumoniae TIGR4]). pfam00528, BPD_transp_1, Binding-protein-dependent transport system inner membrane component.; Specificity unclear
YP_001220938.1	putative sugar ABC transporter, permease component (NP_627685.1| putative sugar-permease [Streptomyces coelicolor A3(2)]; ZP_00192766.2| COG0395: ABC-type sugar transport system, permease component [Mesorhizobium sp. BNC1]). pfam00528, BPD_transp_1, Binding-protein-dependent transport system inner membrane component.; Specificity unclear
YP_001220939.1	hypothetical protein (CAF18736.1| hypothetical protein [Corynebacterium glutamicum ATCC 13032]; NP_898810.1| hypothetical protein PBD2.195 [Rhodococcus erythropolis]).
YP_001220940.1	hypothetical protein (CAF18735.1| hypothetical protein [Corynebacterium glutamicum ATCC 13032]; NP_898809.1| hypothetical protein PBD2.194 [Rhodococcus erythropolis]).
YP_001220941.1	putative glycosyl hydrolase, family 2 (NP_631552.1| putative hydrolase [Streptomyces coelicolor A3(2)]; ZP_00226612.1| COG3250: Beta-galactosidase/beta-glucuronidase [Kineococcus radiotolerans SRS30216]). pfam02837, Glyco_hydro_2_N, Glycosyl hydrolases family 2,sugar binding domain. pfam00703, Glyco_hydro_2, Glycosyl hydrolases family 2, immunoglobulin-like beta-sandwich domain. pfam02836, Glyco_hydro_2_C, Glycosyl hydrolases family 2, TIM barrel domain. This family contains beta-galactosidase, beta-mannosidase and beta-glucuronidase activities.; Specificity unclear
YP_001220942.1	putative dehydrogenase/oxidoreductase (ZP_00226130.1| COG0673: Predicted dehydrogenases and related proteins [Kineococcus radiotolerans SRS30216]; NP_534841.1| conserved hypothetical protein [Agrobacterium tumefaciens str. C58]). pfam01408, GFO_IDH_MocA,Oxidoreductase family, NAD-binding Rossmann fold. pfam02894, GFO_IDH_MocA_C, Oxidoreductase family, C-terminal alpha/beta domain.; Specificity unclear
YP_001220943.1	putative multidrug efflux MFS permease (NP_627382.1| putative membrane transport protein [Streptomyces coelicolor A3(2)]; YP_044552.1| putative transport protein [Staphylococcus aureus subsp. aureus MSSA476]). pfam00529, HlyD, HlyD family secretion protein. actII: Transport protein; Function unclear
YP_001220944.1	putative transcriptional regulator,TetR-family (NP_626528.1| putative TetR-family transcriptional regulator. [Streptomyces coelicolor A3(2)]; NP_350067.1| Transcriptional regulator, AcrR family [Clostridium acetobutylicum ATCC 824]). pfam00440, TetR_N, Bacterial regulatory proteins, tetR family. InterPro: Bacterial regulatory proteins TetR family; Specificity unclear
YP_001220945.1	putative membrane protein (CAF20404.1| putative membrane protein [Corynebacterium glutamicum ATCC 13032]). weak (N-terminal similarities) to serine proteases (Subtilisin subfamily).; Function unclear
YP_001220946.1	converts (S)-3-hydroxybutanoyl-CoA to 3-acetoacetyl-CoA
YP_001220947.1	conserved hypothetical protein (NP_624907.1| conserved hypothetical protein [Streptomyces coelicolor A3(2)]; ZP_00296064.1| COG0655: Multimeric flavodoxin WrbA [Methanosarcina barkeri str. fusaro]; NP_882980.1| NADPH-dependent FMN reductase [Bordetella parapertussis 12822]).; Function unclear
YP_001220949.1	Hypothetical protein
YP_001220950.1	putative protein chain release factor B(NP_875617.1| Protein chain release factor B [Prochlorococcus marinus subsp. marinus str. CCMP1375]; ZP_00225589.1| COG1186: Protein chain release factor B [Kineococcus radiotolerans SRS30216]). pfam00472, RF-1,Peptidyl-tRNA hydrolase domain. This domain is found in peptide chain release factors such as RF-1 and RF-2, and a number of smaller proteins of unknown function. This domain contains the peptidyl-tRNA hydrolase activity. InterPro: Class I peptide chain release factor prfB: peptide chain release factor 2; Family membership
YP_001220951.1	putative monooxygenase (ZP_00225458.1| COG2141: Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Kineococcus radiotolerans SRS30216]; NP_534605.1| monooxygenase [Agrobacterium tumefaciens str. C58 (U. Washington)]). pfam00296,Bac_luciferase, Luciferase-like monooxygenase.; Function unclear
YP_001220952.1	conserved hypothetical protein, putative antitoxin (ZP_00204491.1| COG2161: Antitoxin of toxin-antitoxin stability system [Actinobacillus pleuropneumoniae serovar 1 str. 4074]; ZP_00177056.1| COG2161: Antitoxin of toxin-antitoxin stability system [Crocosphaera watsonii WH 8501]). pfam02604, DUF172, Uncharacterized ACR, COG2161.
YP_001220953.1	conserved hypothetical protein (ZP_00018531.1| hypothetical protein [Chloroflexus aurantiacus]; ZP_00227133.1| COG4898: Uncharacterized protein conserved in bacteria [Kineococcus radiotolerans SRS30216]).; Function unclear
YP_001220954.1	conserved hypothetical protein (CAF21348.1| hypothetical protein predicted by Glimmer/Critica [Corynebacterium glutamicum ATCC 13032]; NP_828735.1| hypothetical protein [Streptomyces avermitilis MA-4680]).
YP_001220955.1	putative transcriptional regulator, TetR family (NP_624661.1| putative transcriptional regulator [Streptomyces coelicolor A3(2)]; NP_624835.1| putative TetR family transcriptional regulator [Streptomyces coelicolor A3(2)]). pfam00440, TetR_N, Bacterial regulatory proteins, tetR family. InterPro: Bacterial regulatory proteins TetR family; Specificity unclear
YP_001220956.1	putative Zn-dependant oxidoreductase (XP_387934.1| hypothetical protein FG07758.1 [Gibberella zeae PH-1]; XP_405167.1| hypothetical protein AN1030.2 [Aspergillus nidulans FGSC A4]). pfam00107, ADH_zinc_N, Zinc-binding dehydrogenase. InterPro: Zinc-containing alcohol dehydrogenase superfamily; Function unclear
YP_001220957.1	hypothetical protein (NP_898693.1| hypothetical protein PBD2.078 [Rhodococcus erythropolis]).
YP_001220958.1	hypothetical protein (ZP_00657923.1| hypothetical protein NocaDRAFT_1855 [Nocardioides sp. JS614])
YP_001220959.1	putative sulfurtransferase (NP_266940.1| hypothetical protein L193291 [Lactococcus lactis subsp. lactis Il1403]; NP_601905.1| rhodanese-related sulfurtransferase [Corynebacterium glutamicum ATCC 13032]). pfam00581, Rhodanese, Rhodanese-like domain. InterPro: Rhodanese/cdc25 fold; Function unclear
YP_001220960.1	conserved hypothetical protein (ZP_00228399.1| COG4430: Uncharacterized protein conserved in bacteria [Kineococcus radiotolerans SRS30216]; ZP_00274169.1| COG4430: Uncharacterized protein conserved in bacteria [Ralstonia metallidurans CH34]).
YP_001220961.1	putative multidrug resistance membrane protein (ZP_00293737.1| COG2076: Membrane transporters of cations and cationic drugs [Thermobifida fusca]; AAL07365.1| putative small multidrug resistance protein [Stenotrophomonas maltophilia]). pfam00893,Multi_Drug_Res, Small Multidrug Resistance protein. This family is the Small Multidrug Resistance (SMR) family.; Specificity unclear
YP_001220962.1	putative multidrug resistance membrane protein (ZP_00293737.1| COG2076: Membrane transporters of cations and cationic drugs [Thermobifida fusca]; ZP_00173962.2| COG2076: Membrane transporters of cations and cationic drugs [Methylobacillus flagellatus KT]). pfam00893,Multi_Drug_Res, Small Multidrug Resistance protein. This family is the Small Multidrug Resistance (SMR) family. Several members have been shown to export a range of toxins, including ethidium bromide and quaternary ammonium compounds, through coupling with proton influx. InterPro: Integral membrane protein DUF7; Function unclear
YP_001220963.1	putative phosphatase (NP_533751.1| haloacid dehalogenase-like hydrolase [Agrobacterium tumefaciens str. C58]; ZP_00267448.1| COG0637: Predicted phosphatase/phosphohexomutase [Pseudomonas fluorescens PfO-1]; NP_827006.1| putative hydrolase [Streptomyces avermitilis MA-4680]). pfam00702, Hydrolase, haloacid dehalogenase-like hydrolase. TIGR00099: conserved hypothetical prote; Function unclear
YP_001220964.1	putative glycosyl transferase (AAM70336.1| CalG1 [Micromonospora echinospora]; BAD08357.1| glycosyltransferase [Streptomyces halstedii]). pfam03033,Glyco_transf_28, Glycosyltransferase family 28 N-terminal domain. This N-terminal domain contains the acceptor binding site and likely membrane association site. pfam04101, Glyco_tran_28_C, Glycosyltransferase family 28 C-terminal domain.; Specificity unclear
YP_001220965.1	putative sarcosine oxidase (ZP_00227998.1| COG0665: Glycine/D-amino acid oxidases (deaminating) [Kineococcus radiotolerans SRS30216]; Q827H4|MSOX_STRAW Monomeric sarcosine oxidase (MSOX)). pfam01266, DAO, FAD dependent oxidoreductase.; Specificity unclear
YP_001220967.1	putative acetyl xylan esterase (NP_822477.1| putative cephalosporin C deacetylase [Streptomyces avermitilis MA-4680]; NP_107393.1| acetyl xylan esterase [Mesorhizobium loti MAFF303099]). , pfam05448, AXE1,Acetyl xylan esterase (AXE1).; Specificity unclear
YP_001220968.1	putative transcriptional regulator, TetR family (NP_822813.1| putative TetR-family transcriptional regulator [Streptomyces avermitilis MA-4680]; CAB07159.1| PROBABLE TRANSCRIPTIONAL REGULATORY PROTEIN (PROBABLY TETR-FAMILY)[Mycobacterium tuberculosis H37Rv]). pfam00440,TetR_N, Bacterial regulatory proteins, tetR family. InterPro: Bacterial regulatory proteins TetR family; Specificity unclear
YP_001220969.1	putative acyl esterase (NP_826040.1| hypothetical protein SAV4863 [Streptomyces avermitilis MA-4680]; NP_105843.1|; Function unclear
YP_001220970.1	putative peptide ABC transporter, ATP-binding protein (NP_790103.1| peptide ABC transporter, ATP-binding protein [Pseudomonas syringae pv. tomato str. DC3000]; NP_415350.1| putative ATP-binding component of a transport system; putative oligopeptide transport protein (ABC superfamily, atp_bind) [Escherichia coli K12]). cd00267,ABC_ATPase, ABC (ATP-binding cassette) transporter nucleotide-binding domain (twice).; Specificity unclear
YP_001220971.1	putative peptide ABC transporter, permease component (CAG20639.1| hypothetical ABC transporter permease [Photobacterium profundum]; NP_846941.1| oligopeptide ABC transporter, oligopeptide-binding protein [Bacillus anthracis str. Ames]). pfam00528, BPD_transp_1,Binding-protein-dependent transport system inner membrane component. InterPro: Binding-protein-dependent transport systems inner membrane component; High confidence in function and specificity
YP_001220972.1	putative peptide ABC transporter, permease component (CAG20638.1| hypothetical ABC transporter,permease protein [Photobacterium profundum]; NP_085756.1| dipeptide transport system permease protein [Mesorhizobium loti MAFF303099]). pfam00528, BPD_transp_1, Binding-protein-dependent transport system inner membrane component.; Specificity unclear
YP_001220973.1	putative peptide ABC transporter, substrate-binding protein (CAG20637.1| hypothetical ABC transporter,periplasmic solute-binding protein, family 5 [Photobacterium profundum]; NP_357196.1| AGR_L_2824p [Agrobacterium tumefaciens str. C58]). pfam00496,SBP_bac_5, Bacterial extracellular solute-binding proteins, family 5.; Specificity unclear
YP_001220976.1	conserved membrane protein, putative amino acid permease, APC family (NP_825946.1| putative membrane protein [Streptomyces avermitilis MA-4680]; ZP_00110752.1| COG0531: Amino acid transporters [Nostoc punctiforme]).; Conserved hypothetical protein
YP_001220978.1	putative efflux MFS permease (NP_827094.1| putative bicyclomycin resistance protein [Streptomyces avermitilis MA-4680]; NP_830072.1| Bicyclomycin resistance protein [Bacillus cereus ATCC 14579]). pfam00083, Sugar_tr, Sugar (and other) transporter. TIGRFAM (TIGR00710): drug resistance transporter; Specificity unclear
YP_001220980.1	putative short-chain alcohol dehydrogenase (ZP_00226165.1| COG1028: Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Kineococcus radiotolerans SRS30216]; ZP_00193775.1| COG1028: Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Mesorhizobium sp. BNC1]). pfam00106,adh_short, short chain dehydrogenase. This family contains a wide variety of dehydrogenases.; Function unclear
YP_001220981.1	Hypothetical protein
YP_001220982.1	Putative methylated-DNA-protein-cysteine methyltransferase (O-6-methylguanine-DNA-alkyltransferase) (ZP_00228907.1| COG0350: Methylated DNA-protein cysteine methyltransferase [Kineococcus radiotolerans SRS30216]; NP_602199.1| methylated DNA-protein cysteine methyltransferase [Corynebacterium glutamicum ATCC 13032]). pfam02870, Methyltransf_1N, 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain. pfam01035, Methyltransf_1, 6-O-methylguanine DNA methyltransferase, DNA binding domain.; Family membership
YP_001220983.1	DNA-directed RNA polymerase specialized sigma subunit, ECF family (ZP_00228908.1| COG1595: DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Kineococcus radiotolerans SRS30216]; ZP_00293287.1| COG1595: DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Thermobifida fusca]). pfam04542,Sigma70_r2, Sigma-70 region 2. Region 2 of sigma-70 is the most conserved region of the entire protein. All members of this class of sigma-factor contain region 2. pfam04545,Sigma70_r4, Sigma-70, region 4. Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif.; Specificity unclear
YP_001220984.1	putative two-component system response regulator (NP_825375.1| putative two-component system response regulator [Streptomyces avermitilis MA-4680]; NP_628202.1| putative two component system response regulator [Streptomyces coelicolor A3(2)]). pfam00072,Response_reg, Response regulator receiver domain. This domain receives the signal from the sensor partner in bacterial two-component systems. It is usually found N-terminal to a DNA binding effector domain. InterPro: Response regulator receiver domain; Function unclear
YP_001220985.1	hypothetical protein, , only weak N-terminal similarities to RTX toxins.
YP_001220987.1	putative oxidoreductase/dehydrogenase (NP_823001.1| putative oxidoreductase [Streptomyces avermitilis MA-4680]; ZP_00226131.1| COG0673: Predicted dehydrogenases and related proteins [Kineococcus radiotolerans SRS30216]). pfam01408, GFO_IDH_MocA, Oxidoreductase family, NAD-binding Rossmann fold. pfam02894,GFO_IDH_MocA_C, Oxidoreductase family, C-terminal alpha/beta domain. InterPro: Oxidoreductase C-terminal redox_disulf_1: redox-active disulfide; Function unclear
YP_001220988.1	conserved membrane protein (NP_625282.1| putative integral membrane protein [Streptomyces coelicolor A3(2)]; NP_823511.1| putative membrane protein [Streptomyces avermitilis MA-4680]).; Conserved hypothetical protein
YP_001220989.1	conserved hypothetical protein (NP_823510.1| hypothetical protein SAV2334 [Streptomyces avermitilis MA-4680]; ZP_00171355.2| COG4549: Uncharacterized protein conserved in bacteria [Ralstonia eutropha JMP134]). Mtu_fam_11: Mycobacterium tuberculosis p
YP_001220990.1	conserved membrane protein (ZP_00126878.2| COG3182: Uncharacterized iron-regulated membrane protein [Pseudomonas syringae pv. syringae B728a]; ZP_00293139.1| COG3182: Uncharacterized iron-regulated membrane protein [Thermobifida fusca]; YP_049875.1| putative iron-regulated membrane protein [Erwinia carotovora subsp. atroseptica SCRI1043]). pfam03929, DUF337, Uncharacterized iron-regulated membrane protein (DUF337). bcl-2: Apoptosis regulator; Conserved hypothetical protein
YP_001220991.1	putative LacI-family transcriptional regulator (ZP_00049013.1| COG1609: Transcriptional regulators [Magnetospirillum magnetotacticum]; NP_823745.1| putative LacI-family transcriptional regulator Streptomyces avermitilis MA-4680]). pfam00532, Peripla_BP_1,Periplasmic binding proteins and sugar binding domain of the LacI family. This family includes the periplasmic binding proteins, and the LacI family transcriptional regulators. The LacI family of proteins consist of transcriptional regulators related to the lac repressor.; Specificity unclear
YP_001220992.1	conserved membrane protein (ZP_00239707.1| integral membrane protein [Bacillus cereus G9241]; NP_825757.1| putative membrane protein [Streptomyces avermitilis MA-4680]).; Conserved hypothetical protein
YP_001220993.1	putative glycosyl transferase (ZP_00329344.1| COG0438: Glycosyltransferase [Moorella thermoacetica ATCC 39073]; NP_294949.1| mannosyltransferase, putative [Deinococcus radiodurans R1]). pfam00534, Glycos_transf_1,Glycosyl transferases group 1. Members of this family transfer activated sugars to a variety of substrates,including glycogen, Fructose-6-phosphate and lipopolysaccharides. Members of this family transfer UDP,ADP, GDP or CMP linked sugars.; Function unclear
YP_001220994.1	hypothetical protein (NP_821697.1| hypothetical protein SAV522 [Streptomyces avermitilis MA-4680]; NP_436996.1| HYPOTHETICAL PROTEIN SMb20474 [Sinorhizobium meliloti 1021]).
YP_001220995.1	putative efflux MFS permease (ZP_00190381.2| COG0477: Permeases of the major facilitator superfamily [Kineococcus radiotolerans SRS30216]; NP_628802.1| putative transmembrane efflux protein [Streptomyces coelicolor A3(2)]). pfam00083, Sugar_tr, Sugar (and other) transporter. efflux_EmrB: drug resistance transport; Specificity unclear
YP_001220996.1	conserved hypothetical protein (ZP_00280805.1| COG2907: Predicted NAD/FAD-binding protein [Burkholderia fungorum LB400]; ZP_00150213.1| COG2907: Predicted NAD/FAD-binding protein [Dechloromonas aromatica RCB]).; Function unclear
YP_001220997.1	putative transcriptional regulator, MerR family (NP_629684.1| putative transcriptional regulator [Streptomyces coelicolor A3(2)]; NP_828502.1| putative transcriptional regulator [Streptomyces avermitilis MA-4680]). smart00422, HTH_MERR, helix_turn_helix, mercury resistance.; Specificity unclear
YP_001220998.1	conserved hypothetical protein (NP_901178.1| probable transmembrane protein [Chromobacterium violaceum ATCC 12472]; NP_623732.1| conserved hypothetical protein [Thermoanaerobacter tengcongensis]).
YP_001220999.1	putative membrane protein involved in chromosome condensation (AAK73171.1| putative CrcB-like protein [Brevibacterium sp. HCU]; AAL42476.1| conserved hypothetical protein [Agrobacterium tumefaciens str. C58 (U. Washington)]) pfam02537, CRCB, CrcB-like protein. CRCB is a putative integral membrane protein possibly involved in chromosome condensation. crcB: crcB protein; Function unclear
YP_001221000.1	putative membrane protein involved in chromosome condensation (Q9FC37|CRB2_STRCO Protein crcB homolog 2; ZP_00043418.1| COG0239: Integral membrane protein possibly involved in chromosome condensation [Magnetococcus sp. MC-1]). pfam02537, CRCB, CrcB-like protein. CRCB is a putative integral membrane protein possibly involved in chromosome condensation. crcB: crcB protein; Function unclear
YP_001221001.1	putative acetyltransferase (NP_294404.1| hypothetical protein [Deinococcus radiodurans]; ZP_00186452.1| COG1246: N-acetylglutamate synthase and related acetyltransferases [Rubrobacter xylanophilus DSM 9941]). pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family. This family contains proteins with N-acetyltransferase functions.; Function unclear
YP_001221002.1	putative NTP pyrophosphohydrolases (ZP_00188287.1| COG0494: NTP pyrophosphohydrolases including oxidative damage repair enzymes [Rubrobacter xylanophilus DSM 9941]; ZP_00330170.1| COG0494: NTP pyrophosphohydrolases including oxidative damage repair enzymes [Moorella thermoacetica ATCC 39073]). pfam00293, NUDIX, NUDIX domain.; Function unclear
YP_001221003.1	putative D-alanine-D-alanine ligase (ZP_00137683.2| COG1181: D-alanine-D-alanine ligase and related ATP-grasp enzymes [Pseudomonas aeruginosa UCBPP-PA14]; ZP_00212274.1| COG1181: D-alanine-D-alanine ligase and related ATP-grasp enzymes [Burkholderia cepacia R18194]). Cell wall formation (By similarity). pfam01820,Dala_Dala_ligas, D-ala D-ala ligase. InterPro: D-alanine--D-alanine ligase.; High confidence in function and specificity
YP_001221004.1	conserved hypothetical protein (NP_630443.1| hypothetical protein SC3A7.19 [Streptomyces coelicolor A3(2)]; ZP_00034039.1| COG0596: Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [Burkholderia fungorum]). pfam00561, Abhydrolase_1,alpha/beta hydrolase fold. This catalytic domain is found in a very wide range of enzymes.; Function unclear
YP_001221005.1	conserved hypothetical protein (NP_631701.1| putative secreted protein [Streptomyces coelicolor A3(2)]; ZP_00049640.1| COG0262: Dihydrofolate reductase [Magnetospirillum magnetotacticum]). pfam01872, RibD_C,RibD C-terminal domain. The function of this domain is not known, but it is thought to be involved in riboflavin biosynthesis.; Family membership
YP_001221006.1	conserved membrane protein (NP_791711.1| membrane protein, putative [Pseudomonas syringae pv. tomato str. DC3000]; NP_901555.1| hypothetical protein CV1885 [Chromobacterium violaceum ATCC 12472]).; Conserved hypothetical protein
YP_001221007.1	putative transcriptional regulator, RpiR family (NP_781945.1| transcriptional regulator, rpiR family [Clostridium tetani E88]; NP_519498.1| CONSERVED HYPOTHETICAL PROTEIN [Ralstonia solanacearum]). pfam01418,HTH_6, Helix-turn-helix domain, rpiR family. This domain contains a helix-turn-helix motif. The best characterised member of this family is RpiR, a regulator of the expression of rpiB gene. pfam01380, SIS, SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins.; Specificity unclear
YP_001221008.1	putative hydroxyacid dehydrogenase (ZP_00127342.1| COG2084: 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Pseudomonas syringae pv. syringae B728a]; YP_044837.1| putative 3-hydroxyisobutyrate dehydrogenase [Acinetobacter sp. ADP1]). pfam03446, NAD_binding_2, NAD binding domain of 6-phosphogluconate dehydrogenase.; Specificity unclear
YP_001221009.1	putative aldehyde dehydrogenase (ZP_00166104.1| COG1012: NAD-dependent aldehyde dehydrogenases [Ralstonia eutropha JMP134]; NP_791704.1| aldehyde dehydrogenase family protein [Pseudomonas syringae pv. tomato str. DC3000]). pfam00171, Aldedh, Aldehyde dehydrogenase family. This family of dehydrogenases act on aldehyde substrates. Members use NADP as a cofactor. InterPro: Aldehyde dehydrogenase family.; Specificity unclear
YP_001221010.1	putative sugar ABC transporter, substrate binding protein (ZP_00192200.3| COG1653: ABC-type sugar transport system, periplasmic component [Kineococcus radiotolerans SRS30216]; NP_625350.1| putative sugar transport sugar binding protein [Streptomyces coelicolor A3(2)]). pfam01547, SBP_bac_1, Bacterial extracellular solute-binding protein. InterPro: Bacterial extracellular solute-binding protein family 1; Specificity unclear
YP_001221011.1	putative sugar ABC transporter, permease component (ZP_00226127.1| COG1175: ABC-type sugar transport systems,permease components [Kineococcus radiotolerans SRS30216]; NP_625351.1| putative sugar transport integral membrane protein [Streptomyces coelicolor A3(2)]). InterPro: Binding-protein-dependent transport systems inner membrane component; Specificity unclear
YP_001221012.1	putative sugar ABC transporter, permease component (ZP_00226128.1| COG0395: ABC-type sugar transport system,permease component [Kineococcus radiotolerans SRS30216]; NP_625352.1| putative sugar transport integral membrane protein [Streptomyces coelicolor A3(2)]). pfam00528,BPD_transp_1, Binding-protein-dependent transport system inner membrane component. InterPro: Binding-protein-dependent transport systems inner membrane component; Specificity unclear
YP_001221013.1	conserved hypothetical protein (ZP_00226129.1| COG4813: Trehalose utilization protein [Kineococcus radiotolerans SRS30216]; NP_693487.1| hypothetical protein OB2566 [Oceanobacillus iheyensis HTE831]). pfam06283, DUF1037, Protein of unknown function (DUF1037). This family consists of several bacterial ThuA like proteins. The function of the family is unknown.; Function unclear
YP_001221014.1	putative dehydrogenase (ZP_00226130.1| COG0673: Predicted dehydrogenases and related proteins [Kineococcus radiotolerans SRS30216]; NP_534841.1| conserved hypothetical protein [Agrobacterium tumefaciens str. C58]). pfam01408, GFO_IDH_MocA, Oxidoreductase family, NAD-binding Rossmann fold. This family of enzymes utilise NADP or NAD. pfam02894, GFO_IDH_MocA_C, Oxidoreductase family,C-terminal alpha/beta domain.; Function unclear
YP_001221015.1	transcriptional regulator, ROK family (ZP_00227613.1| COG1940: Transcriptional regulator/sugar kinase [Kineococcus radiotolerans SRS30216]; NP_623501.1| Transcriptional regulator [Thermoanaerobacter tengcongensis]). InterPro: ROK family ROK_glcA_fam: ROK family protein (puta; Specificity unclear
YP_001221016.1	conserved hypothetical protein, putative phosphatase (ZP_00163802.1| hypothetical protein Selo236801 [Synechococcus elongatus PCC 7942]; NP_945802.1| possible hydrolases/phosphatases [Rhodopseudomonas palustris CGA009]). pfam00702,Hydrolase, haloacid dehalogenase-like hydrolase. This family are structurally different from the alpha/ beta hydrolase family (pfam00561). This family includes L-2-haloacid dehalogenase, epoxide hydrolases and phosphatases.; Family membership
YP_001221017.1	Hypothetical protein
YP_001221018.1	putative chorismate mutase (ZP_00041424.1| COG1605: Chorismate mutase [Xylella fastidiosa Ann-1]; ZP_00217335.1| COG1605: Chorismate mutase [Burkholderia cepacia R18194]). pfam01817, Chorismate_mut, Chorismate mutase. InterPro: Chorismate mutase; Family membership
YP_001221019.1	conserved membrane protein (CAB02345.1| PROBABLE CONSERVED INTEGRAL MEMBRANE PROTEIN [Mycobacterium tuberculosis H37Rv]; NP_825933.1| hypothetical protein SAV4756 [Streptomyces avermitilis MA-4680]). pfam02694,UPF0060, Uncharacterized BCR, YnfA/UPF0060 family.; Conserved hypothetical protein
YP_001221020.1	conserved hypothetical protein (NP_828610.1| hypothetical protein SAV7434 [Streptomyces avermitilis MA-4680]; ZP_00225717.1| hypothetical protein Krad06004549 [Kineococcus radiotolerans SRS30216]).
YP_001221021.1	putative acetyltransferase (NP_295640.1| hypothetical protein [Deinococcus radiodurans R1]; NP_822402.1| hypothetical protein SAV1227 [Streptomyces avermitilis MA-4680]; NP_935421.1| acetyltransferase [Vibrio vulnificus YJ016]). weak similarities to: COG3153,COG3153, Predicted acetyltransferase [General function prediction only]; pfam00583, Acetyltransf_1,Acetyltransferase (GNAT) family. This family contains proteins with N-acetyltransferase functions. nadC: nicotinate-nucleotide pyrophosphor
YP_001221022.1	conserved hypothetical protein (ZP_00294435.1| hypothetical protein Tfus02000641 [Thermobifida fusca]; NP_624665.1| putative large secreted protein [Streptomyces coelicolor A3(2)]).
YP_001221023.1	putative adenylate kinase (NP_599567.1| putative adenylate kinase [Corynebacterium glutamicum ATCC 13032]; NP_293926.1| hypothetical protein [Deinococcus radiodurans R1]).; Function unclear
YP_001221025.1	putative permease, DMT family (ZP_00198666.1| COG0697: Permeases of the drug/metabolite transporter (DMT) superfamily [Kineococcus radiotolerans SRS30216]; NP_629665.1| putative integral membrane protein [Streptomyces coelicolor A3(2)]). pfam00892, DUF6,Integral membrane protein DUF6. This family includes many hypothetical membrane proteins of unknown function.; Specificity unclear
YP_001221026.1	putative transcriptional regulator, TetR family (NP_629666.1| putative transcriptional regulator [Streptomyces coelicolor A3(2)]; NP_940577.1| Putative TetR-family transcriptional regulator [Corynebacterium diphtheriae]). InterPro: Bacterial regulatory proteins TetR family; Specificity unclear
YP_001221027.1	putative diadenosine tetraphosphate (Ap4A) hydrolase, Hit family (NP_539734.1| BIS(5'-NUCLEOSYL)-TETRAPHOSPHATASE (ASYMMETRICAL) [Brucella melitensis]; NP_102422.1| probable Hit-like protein involved in cell-cycle regulation [Mesorhizobium loti MAFF303099]). cd01277, HINT_subgroup, HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides.; Specificity unclear
YP_001221028.1	putative oxidoreductase/dehydrogenase (NP_823521.1| putative oxidoreductase [Streptomyces avermitilis MA-4680]; CAC14507.1| putative oxidoreductase [Streptomyces coelicolor A3(2)]). pfam00106, adh_short, short chain dehydrogenase. This family contains a wide variety of dehydrogenases.; Specificity unclear
YP_001221029.1	conserved secreted protein (ZP_00227777.1| COG2353: Uncharacterized conserved protein [Kineococcus radiotolerans SRS30216]; NP_939578.1| Putative secreted protein [Corynebacterium diphtheriae]). pfam04264, YceI,YceI like family. E. coli YceI is a base-induced periplasmic protein. Its function has not yet been characterised.; Conserved hypothetical protein
YP_001221030.1	RNA polymerase sigma factor, ECF-subfamily (NP_215249.1| sigL [Mycobacterium tuberculosis H37Rv]; ZP_00225475.1| COG1595: DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Kineococcus radiotolerans SRS30216]). pfam04542, Sigma70_r2, Sigma-70 region 2. Region 2 of sigma-70 is the most conserved region of the entire protein. All members of this class of sigma-factor contain region 2. The high conservation is due to region 2 containing both the -10 promoter recognition helix and the primary core RNA polymerase binding determinant. pfam04545, Sigma70_r4, Sigma-70,region 4. Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif.; Specificity unclear
YP_001221031.1	conserved membrane protein, putative anti-sigma factor (NP_215250.1| hypothetical protein Rv0736 [Mycobacterium tuberculosis H37Rv]; NP_826301.1| putative membrane protein [Streptomyces avermitilis MA-4680]). similarity to anti-sigma factors (COG5662, Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]); Conserved hypothetical protein
YP_001221032.1	hypothetical protein (ZP_00410568.1| hypothetical protein ArthDRAFT_3888 [Arthrobacter sp. FB24]).
YP_001221033.1	putative MFS permease (ZP_00098466.1| COG0477: Permeases of the major facilitator superfamily [Desulfitobacterium hafniense]; NP_834739.1| Macrolide-efflux protein [Bacillus cereus ATCC 14579]). pfam05977,DUF894, Bacterial protein of unknown function (DUF894). This family consists of several bacterial proteins, many of which are annotated as putative transmembrane transport proteins.; Specificity unclear
YP_001221034.1	conserved hypothetical protein (NP_294991.1| hypothetical protein [Deinococcus radiodurans R1]; NP_827164.1| hypothetical protein SAV5987 [Streptomyces avermitilis MA-4680]). PPR: pentatricopeptide repeat domain; Family membership
YP_001221035.1	HTH-type transcriptional repressor, LacI family (NP_823290.1| putative transcriptional regulator [Streptomyces avermitilis MA-4680]; ZP_00330608.1| COG1609: Transcriptional regulators [Moorella thermoacetica ATCC 39073]). pfam00356, LacI, Bacterial regulatory proteins, lacI family. pfam00532, Peripla_BP_1,Periplasmic binding proteins and sugar binding domain of the LacI family. This family includes the periplasmic binding proteins, and the LacI family transcriptional regulators.; Specificity unclear
YP_001221036.1	putative sugar ABC transporter, substrate-binding protein (ZP_00121433.1| COG1653: ABC-type sugar transport system, periplasmic component [Bifidobacterium longum DJO10A]; NP_826156.1| putative sugar transporter solute-binding protein [Streptomyces avermitilis MA-4680]). pfam01547, SBP_bac_1, Bacterial extracellular solute-binding protein.; Specificity unclear
YP_001221037.1	putative sugar ABC transporter, permease component (NP_826157.1| putative binding protein-dependent transporter [Streptomyces avermitilis MA-4680]; NP_533738.1| ABC transporter, membrane spanning protein [sugar] [Agrobacterium tumefaciens str. C58]). pfam00528,BPD_transp_1, Binding-protein-dependent transport system inner membrane component.; Specificity unclear
YP_001221038.1	putative sugar ABC transporter, permease component (NP_826158.1| putative binding protein-dependent transporter [Streptomyces avermitilis MA-4680]; NP_533737.1| ABC transporter, membrane spanning protein [sugar] [Agrobacterium tumefaciens str. C58]). pfam00528,BPD_transp_1, Binding-protein-dependent transport system inner membrane component.; High confidence in function and specificity
YP_001221039.1	putative beta-glycosidase, putative xylosidase (ZP_00226641.1| COG1472: Beta-glucosidase-related glycosidases [Kineococcus radiotolerans SRS30216]; JC7728 xylan 1,4-beta-xylosidase (EC 3.2.1.37) - Streptomyces thermoviolaceus). pfam00933, Glyco_hydro_3, Glycosyl hydrolase family 3 N terminal domain. pfam01915,Glyco_hydro_3_C, Glycosyl hydrolase family 3 C terminal domain.; Specificity unclear
YP_001221040.1	putative nucleoside-diphosphate-sugar epimerase (ZP_00227284.1| COG0702: Predicted nucleoside-diphosphate-sugar epimerases [Kineococcus radiotolerans SRS30216]; NP_822058.1| hypothetical protein [Streptomyces avermitilis MA-4680]).; Function unclear
YP_001221041.1	putative transcriptional regulator, TetR family (NP_822057.1| putative TetR-family transcriptional regulator [Streptomyces avermitilis MA-4680]; CAE53340.1| putative TetR-family transcitpional regulator [Actinoplanes teichomyceticus]). pfam00440, TetR_N,Bacterial regulatory proteins, tetR family.; Specificity unclear
YP_001221042.1	putative transcriptional regulator, Cro/CI family (NP_625190.1| putative DNA-binding protein [Streptomyces coelicolor A3(2)]; NP_821830.1| putative DNA-binding protein [Streptomyces avermitilis MA-4680]). pfam01381,HTH_3, Helix-turn-helix. This large family of DNA binding helix-turn helix proteins includes Cro and CI.; Function unclear
YP_001221043.1	putative short chain dehydrogenase/oxidoreductase (ZP_00227716.1| COG1028: Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Kineococcus radiotolerans SRS30216]; NP_625189.1| putative short chain oxidoreductase. [Streptomyces coelicolor A3(2)]). pfam00106, adh_short,short chain dehydrogenase. This family contains a wide variety of dehydrogenases.; Function unclear
YP_001221044.1	conserved hypothetical protein (NP_386041.1| CONSERVED HYPOTHETICAL PROTEIN [Sinorhizobium meliloti 1021]; NP_739257.1| conserved hypothetical protein [Corynebacterium efficiens YS-314]). pfam05146, DUF704,Aha1 domain. The function of this presumed domain is unknown.
YP_001221045.1	putative acetyltransferase (ZP_00227803.1| COG1670: Acetyltransferases, including N-acetylases of ribosomal proteins [Kineococcus radiotolerans SRS30216]; NP_600641.1| acetyltransferase [Corynebacterium glutamicum ATCC 13032]).; Function unclear
YP_001221046.1	Region start changed from 366300 to 366519 (-219 bases)
YP_001221047.1	putative thiosulfate sulfurtransferase (ZP_00227801.1| COG0607: Rhodanese-related sulfurtransferase [Kineococcus radiotolerans SRS30216]; NP_625584.1| conserved hypothetical protein [Streptomyces coelicolor A3(2)]). Catalyzes although with low efficiency the sulfur transfer reaction from thiosulfate to cyanide (By similarity). pfam00581,Rhodanese, Rhodanese-like domain. InterPro: Rhodanese/cdc25 fold; Function unclear
YP_001221048.1	conserved hypothetical protein (BAB98631.1| Hypothetical protein [Corynebacterium glutamicum ATCC 13032]; NP_695848.1| hypothetical protein BL0662 [Bifidobacterium longum NCC2705]).
YP_001221049.1	conserved hypothetical protein (NP_627216.1| hypothetical protein SCE50.21 [Streptomyces coelicolor A3(2)]; ZP_00191774.2| COG0529: Adenylylsulfate kinase and related kinases [Kineococcus radiotolerans SRS30216]). weak similarity to: smart00382, AAA, ATPases associated with a variety of cellular activities
YP_001221050.1	alpha-L-arabinofuranosidase (Arabinosidase) (ZP_00121523.2| COG3534: Alpha-L-arabinofuranosidase [Bifidobacterium longum DJO10A]; NP_626674.1| alpha-L-arabinofuranosidase [Streptomyces coelicolor A3(2)]). ,pfam03662, Glyco_hydro_79n, Glycosyl hydrolase family 79,N-terminal domain. , pfam06964, Alpha-L-AF_C, Alpha-L-arabinofuranosidase C-terminus.This catalyses the hydrolysis of nonreducing terminal alpha-L-arabinofuranosidic linkages in L-arabinose-containing polysaccharides.; High confidence in function and specificity
YP_001221051.1	hypothetical protein (NP_626168.1| hypothetical hydrophilic protein [Streptomyces coelicolor A3(2)]; NP_845828.1| conserved hypothetical protein [Bacillus anthracis str. Ames]).
YP_001221052.1	putative acetyltransferase (ZP_00184424.1| COG1670: Acetyltransferases, including N-acetylases of ribosomal proteins [Exiguobacterium sp. 255-15]; NP_626962.1| putative acetyltransferase [Streptomyces coelicolor A3(2)]). pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family. This family contains proteins with N-acetyltransferase functions.; Function unclear
YP_001221053.1	hypothetical protein (NP_825872.1| putative Lsr2-like protein [Streptomyces avermitilis MA-4680]; ZP_00293146.1| hypothetical protein Tfus02001333 [Thermobifida fusca]).
YP_001221054.1	conserved hypothetical protein, putative GTPase (NP_962706.1| hypothetical protein MAP3772c [Mycobacterium avium subsp. paratuberculosis str. k10]; ZP_00173773.1| COG0523: Putative GTPases (G3E family) [Methylobacillus flagellatus KT]). pfam02492, cobW, Cobalamin synthesis protein/P47K.
YP_001221055.1	putative thioredoxin reductase (ZP_00217649.1| COG0492: Thioredoxin reductase [Burkholderia cepacia R18194]; NP_639620.1| putative oxidoreductase [Streptomyces coelicolor A3(2)]). pfam00070, Pyr_redox,Pyridine nucleotide-disulphide oxidoreductase. This family includes both class I and class II oxidoreductases and also NADH oxidases and peroxidases. InterPro: FAD-dependent pyridine nucleotide-disulphide oxidoreductase; Function unclear
YP_001221056.1	putative ATP-dependant protease, ATPase subunit (ZP_00225929.1| COG0542: ATPases with chaperone activity,ATP-binding subunit [Kineococcus radiotolerans SRS30216]; YP_056693.1| ATP-dependent protease (Clp chaperone) [Propionibacterium acnes KPA171202]). pfam00004, AAA,ATPase family associated with various cellular activities (AAA) (twice). clpX: ATP-dependent Clp protease ATP; Function unclear
YP_001221057.1	alpha-galactosidase (Melibiase)(ZP_00226650.1| COG3345: Alpha-galactosidase [Kineococcus radiotolerans SRS30216]; AAD30994.2| alpha-galactosidase [Bifidobacterium adolescentis]). pfam02065, Melibiase,Melibiase.; High confidence in function and specificity
YP_001221058.1	putative transcriptional regulator (only weak similarity, ZP_00199538.1| COG1309: Transcriptional regulator [Kineococcus radiotolerans SRS30216]; NP_624573.1| putative transcriptional regulator [Streptomyces coelicolor A3(2)]).; Family membership
YP_001221059.1	conserved hypothetical protein (ZP_00199464.2| hypothetical protein Krad06000208 [Kineococcus radiotolerans SRS30216]; NP_216552.1| hypothetical protein Rv2036 [Mycobacterium tuberculosis H37Rv]; NP_630338.1| conserved hypothetical protein SCAH10.03 [Streptomyces coelicolor A3(2)]).
YP_001221061.1	putative oxidoreductase (ZP_00225711.1| COG0667: Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Kineococcus radiotolerans SRS30216]; ZP_00292358.1| COG0667: Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Thermobifida fusca]). pfam00248, Aldo_ket_red, Aldo/keto reductase family. This family includes a number of K+ ion channel beta chain regulatory domains - these are reported to have oxidoreductase activity.; Function unclear
YP_001221062.1	putative dipeptidase (NP_826200.1| putative dipeptidase [Streptomyces avermitilis MA-4680]; ZP_00191103.2| COG2355: Zn-dependent dipeptidase,microsomal dipeptidase homolog [Kineococcus radiotolerans SRS30216]). pfam01244, Renal_dipeptase, Renal dipeptidase.; High confidence in function and specificity
YP_001221063.1	putative acetyltransferase, GnaT family (NP_629283.1| hypothetical protein [Streptomyces coelicolor A3(2)]; AAB84468.1| putative acetyl transferase [Bacillus subtilis]). pfam00583,Acetyltransf_1, Acetyltransferase (GNAT) family. This family contains proteins with N-acetyltransferase functions. InterPro: GCN5-related N-acetyltransferase pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family. This family contains proteins with N-acetyltransferase functions.; Family membership
YP_001221064.1	putative ABC transporter (fused permease/ATPase) (NP_631729.1| putative ABC transporter ATP-binding protein [Streptomyces coelicolor A3(2)]; AAN77618.1| putative ABC transporter [Mycobacterium avium subsp. paratuberculosis]). putative exporter of siderophore/antibiotic.; High confidence in function and specificity
YP_001221065.1	putative ABC transporter (fused permease/ATPase) (NP_631728.1| putative ABC transporter ATP-binding protein [Streptomyces coelicolor A3(2)]; ZP_00267801.1| COG1132: ABC-type multidrug transport system, ATPase and permease components [Rhodospirillum rubrum]). putative exporter of siderophore/antibiotic.; High confidence in function and specificity
YP_001221066.1	putative methyltransferase (NP_631727.1| conserved hypothetical protein [Streptomyces coelicolor A3(2)]; NP_962672.1| hypothetical protein MAP3738c [Mycobacterium avium subsp. paratuberculosis str. k10]). PUTATIVELY INVOLVED IN METHYLATION OF SIDEROPHORE/ANTIBIOTIC.; Specificity unclear
YP_001221067.1	putative thioesterase (NP_821582.1| putative thioesterase [Streptomyces avermitilis MA-4680]; S49055 thioesterase - Streptomyces fradiae (strain T59235)). pfam00975, Thioesterase, Thioesterase domain. Peptide synthetases are involved in the non-ribosomal synthesis of peptide antibiotics. Next to the operons encoding these enzymes, in almost all cases, are genes that encode proteins that have similarity to the type II fatty acid thioesterases of vertebrates.; High confidence in function and specificity
YP_001221068.1	putative oxidoreductase/methylase (NP_631724.1| conserved hypothetical protein [Streptomyces coelicolor A3(2)]; NP_404400.1| conserved hypothetical protein [Yersinia pestis]; NP_631727.1| conserved hypothetical protein [Streptomyces coelicolor A3(2)]). two domains: N-terminal (COG4693, PchG, Oxidoreductase (NAD-binding),involved in siderophore biosynthesis; pfam07414, YbtU,Yersiniabactin synthetase thiazolinyl reductase component YbtU. This family represents the thiazolinyl reductase component YbtU (approximately 350 residues long) of the bacterial four-protein yersiniabactin synthetase complex.). C-terminal putative methylase(COG2242, CobL,Precorrin-6B methylase 2,COG2226, UbiE, Methylase involved in ubiquinone/menaquinone biosynthesis; pfam00891,Methyltransf_2, O-methyltransferase. This family includes a range of O-methyltransferases. These enzymes utilise S-adenosyl methionine.). putatively involved in the modification of a siderophore/antibiotic.; Specificity unclear
YP_001221069.1	putative dehydrogenase, iron-regulated protein (NP_631723.1| conserved hypothetical protein [Streptomyces coelicolor A3(2)]; NP_962677.1| hypothetical protein MAP3743 [Mycobacterium avium subsp. paratuberculosis str. k10]). putatively involved in the modification of a siderophore/antibiotic. weak similarity to: COG1748, LYS9,Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; pfam03435, Saccharop_dh,Saccharopine dehydrogenase.; Function unclear
YP_001221070.1	non-ribosomal peptide syntethase (NP_631722.1| putative non-ribosomal peptide synthase [Streptomyces coelicolor A3(2)]; NP_252915.1| pyochelin synthetase [Pseudomonas aeruginosa PA01]). putatively involved in the biosynthesis of a catecholate siderophore/antibiotic. pfam00668, Condensation, Condensation domain. pfam00501,AMP-binding, AMP-binding enzyme. pfam01209,Ubie_methyltran, ubiE/COQ5 methyltransferase family. pfam00550, PP-binding, Phosphopantetheine attachment site. pfam00975, Thioesterase, Thioesterase domain.; Specificity unclear
YP_001221071.1	non ribosomal peptide synthethase (NP_631721.1| putative non-ribosomal peptide synthase [Streptomyces coelicolor A3(2)]; NP_534178.1| non-ribosomal peptide synthetase [Agrobacterium tumefaciens str. C58]). putatively involved in the biosynthesis of a catecholate siderophore/antibiotic. two activation/conjugation domains. pfam00501, AMP-binding, AMP-binding enzyme (twice: Aa 609-1014, 1682-2079). pfam00668, Condensation,Condensation domain (twice: Aa 112-409, 1185-1475). pfam00550, PP-binding, Phosphopantetheine attachment site (thrice: Aa 13-76, 1099-1162, 2188-2246).; Specificity unclear
YP_001221072.1	putative organic acid CoA ligase (NP_631720.1| putative AMP-binding ligase [Streptomyces coelicolor A3(2)]; ZP_00059514.1| COG1021: Peptide arylation enzymes [Thermobifida fusca]). putatively involved in the biosynthesis of a catecholate siderophore/antibiotic. pfam00501, AMP-binding, AMP-binding enzyme.; Specificity unclear
YP_001221073.1	putative 4-phosphopantetheinyl transferase (NP_337369.1| EntD-related protein [Mycobacterium tuberculosis CDC1551]; AAR92400.1| Sfp-type phosphopantetheinyl transferase [Saccharopolyspora erythraea]). pfam01648, ACPS, 4'-phosphopantetheinyl transferase superfamily.; Specificity unclear
YP_001221074.1	putative anthranilate synthase (CAG20074.1| hypotetical anthranilate synthase [Photobacterium profundum]; NP_405477.1| putative salicylate synthetase [Yersinia pestis]). putatively involved in the synthesis of an aromatic acid (salicylate, isochorismate) for a catecholate siderophore/antibiotic. pfam00425,Chorismate_bind, chorismate binding enzyme. This family includes the catalytic regions of the chorismate binding enzymes anthranilate synthase, isochorismate synthase,aminodeoxychorismate synthase and para-aminobenzoate synthase.; Specificity unclear
YP_001221075.1	conserved membrane protein (NP_531343.1| conserved hypothetical protein [Agrobacterium tumefaciens str. C58]; NP_384960.1| HYPOTHETICAL TRANSMEMBRANE SIGNAL PEPTIDE PROTEIN [Sinorhizobium meliloti 1021]).
YP_001221077.1	conserved hypothetical protein, putative peptidase (AAP13501.1| Orf12 [Streptomyces clavuligerus]; NP_959400.1| LpqF [Mycobacterium avium subsp. paratuberculosis str. k10]). , weak similarities to: pfam00768, Peptidase_S11, D-alanyl-D-alanine carboxypeptidase.; Function unclear
YP_001221078.1	conserved hypothetical protein (maybe involved in cell wall metabolism; putative N-acetylmuramoyl-l-alanine amidase) (ZP_00235910.1| putative peptidoglycan binding domain protein [Bacillus cereus G9241]; NP_733648.1| hypothetical protein [Streptomyces coelicolor A3(2)]). pfam01471, PG_binding_1, Putative peptidoglycan binding domain.; Function unclear
YP_001221079.1	conserved membrane protein (NP_827521.1| putative integral membrane protein [Streptomyces avermitilis MA-4680]; NP_938697.1| Putative membrane protein [Corynebacterium diphtheriae NCTC 13129]). pfam07332,DUF1469, Protein of unknown function (DUF1469). This family consists of several hypothetical bacterial proteins of around 140 residues in length. Members of the family seem to be found exclusively in Actinomycetes. The function of this family is unknown.; Conserved hypothetical protein
YP_001221080.1	Hypothetical protein
YP_001221081.1	Hypothetical protein
YP_001221083.1	conserved hypothetical protein, putative alkaline shock protein (ZP_00189314.2| COG1302: Uncharacterized protein conserved in bacteria [Kineococcus radiotolerans SRS30216]; NP_827606.1| hypothetical protein SAV6430 [Streptomyces avermitilis MA-4680]). pfam03780, DUF322,Protein of unknown function (DUF322). This is a family of small proteins. It includes a protein identified as an alkaline shock protein, so may be involved in stress response. flhB_rel: FlhB domain protein
YP_001221084.1	putative transcriptional regulator, AraC family (ZP_00024251.1| COG2207: AraC-type DNA-binding domain-containing proteins [Ralstonia metallidurans]; NP_962164.1| hypothetical protein MAP3230c [Mycobacterium avium subsp. paratuberculosis str. k10]). pfam00165,HTH_AraC, Bacterial regulatory helix-turn-helix proteins,araC family. Members of this family contain two structural repeats of this domain.; High confidence in function and specificity
YP_001221085.1	conserved exported protein, putative dessication-related protein (ZP_00227307.1| hypothetical protein Krad06001366 [Kineococcus radiotolerans SRS30216]; ZP_00280800.1| hypothetical protein Bcep02004480 [Burkholderia fungorum LB400]).; Conserved hypothetical protein
YP_001221086.1	conserved membrane protein (ZP_00227499.1| COG1121: ABC-type Mn/Zn transport systems, ATPase component [Kineococcus radiotolerans SRS30216]; NP_821494.1| hypothetical protein SAV320 [Streptomyces avermitilis MA-4680]).; Conserved hypothetical protein
YP_001221087.1	putative alpha-mannosidase (NP_822929.1| putative alpha-mannosidase [Streptomyces avermitilis MA-4680]; YP_054780.1| glycosyl hydrolase [Propionibacterium acnes KPA171202]). pfam01074, Glyco_hydro_38, Glycosyl hydrolases family 38.; High confidence in function and specificity
YP_001221088.1	putative 6-phospho-beta-glucosidase (NP_822930.1| putative 6-phospho-beta-glucosidase [Streptomyces avermitilis MA-4680]; YP_054779.1| putative glucosidase [Propionibacterium acnes KPA171202]). pfam02056,Glyco_hydro_4, Family 4 glycosyl hydrolase.; High confidence in function and specificity
YP_001221089.1	putative transcriptional regulator, DeoR family (NP_822931.1| putative DeoR-family transcriptional regulator [Streptomyces avermitilis MA-4680]; NP_624108.1| Transcriptional regulator of sugar metabolism [Thermoanaerobacter tengcongensis]). pfam00455, DeoR,Bacterial regulatory proteins, deoR family. InterPro: Bacterial regulatory protein DeoR family; Specificity unclear
YP_001221090.1	putative carbohydrate kinase (NP_822932.1| putative carbohydrate kinase [Streptomyces avermitilis MA-4680]; ZP_00226288.1| COG0524: Sugar kinases, ribokinase family [Kineococcus radiotolerans SRS30216]). pfam00294, PfkB,pfkB family carbohydrate kinase. This family includes a variety of carbohydrate and pyrimidine kinases.; Specificity unclear
YP_001221091.1	putative sugar ABC transporter, substrate binding protein (NP_822933.1| putative sugar binding secreted protein [Streptomyces avermitilis MA-4680]; YP_054776.1| sugar-binding protein [Propionibacterium acnes KPA171202]). pfam01547, SBP_bac_1, Bacterial extracellular solute-binding protein.; Specificity unclear
YP_001221092.1	putative sugar ABC transporter, permease component (NP_822934.1| putative sugar transport system permease [Streptomyces avermitilis MA-4680]; YP_054775.1| transport permease [Propionibacterium acnes KPA171202]). pfam00528, BPD_transp_1, Binding-protein-dependent transport system inner membrane component. InterPro: Binding-protein-dependent transport systems inner membrane component; Specificity unclear
YP_001221093.1	putative sugar ABC transporter, permease component (NP_822935.1| putative ABC-type transport system permease protein [Streptomyces avermitilis MA-4680]; YP_054774.1| sugar transport permease BglB [Propionibacterium acnes KPA171202]). pfam00528, BPD_transp_1, Binding-protein-dependent transport system inner membrane component. InterPro: Binding-protein-dependent transport systems inner membrane component; Specificity unclear
YP_001221094.1	putative glucosamine-6-phosphate deaminase (Glucosamine-6- phosphate isomerase) (Q9K487|NAGB_STRCO Glucosamine-6-phosphate deaminase (Glucosamine-6-phosphate isomerase) (GNPDA) (GlcN6P deaminase); ZP_00120662.1| COG0363: 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Bifidobacterium longum DJO10A]). Catalyzes the reversible isomerization-deamination of glucosamine 6-phosphate (GlcN6P) to form fructose 6-phosphate (Fru6P) and ammonium ion (By similarity). pfam01182, Glucosamine_iso, Glucosamine-6-phosphate isomerases/6-phosphogluconolactonase. nagB: glucosamine-6-phosphate isomerase; High confidence in function and specificity
YP_001221095.1	beta-galactosidase (Lactase) (AAQ19029.1| beta-galactosidase [Arthrobacter sp. SB]; ZP_00226654.1| COG3250: Beta-galactosidase/ beta-glucuronidase [Kineococcus radiotolerans SRS30216]). pfam02837,Glyco_hydro_2_N, Glycosyl hydrolases family 2, sugar binding domain. pfam02836, Glyco_hydro_2_C, Glycosyl hydrolases family 2, TIM barrel domain. pfam02929,Bgal_small_N, Beta galactosidase small chain, N terminal domain. sipfam02930, Bgal_small_C, Beta galactosidase small chain, C terminal domain. This domain is found in the carboxy-terminal portion of the small chain of dimeric beta-galactosidases EC:3.2.1.23. This domain is also found in single chain beta-galactosidase.; High confidence in function and specificity
YP_001221096.1	putative acyl-CoA thioesterase (NP_967633.1| conserved hypothetical protein [Bdellovibrio bacteriovorus HD100]; ZP_00269440.1| hypothetical protein Rrub02001636 [Rhodospirillum rubrum]). pfam03061, 4HBT, Thioesterase superfamily. This family contains a wide variety of enzymes, principally thioesterases. InterPro: 4-hydroxybenzoyl-CoA thioesterase family active site; Specificity unclear
YP_001221097.1	putative NADPH-dependent FMN reductase (NP_102215.1| hypothetical protein mlr0414 [Mesorhizobium loti MAFF303099]; CAD47912.1| putative NADPH:quinone oxidoreductase [Arthrobacter nicotinovorans]). pfam03358,FMN_red, NADPH-dependent FMN reductase.; Function unclear
YP_001221098.1	putative transcriptional regulator, LacI family (NP_629820.1| putative transcriptional regulator [Streptomyces coelicolor A3(2)]; ZP_00227762.1| COG1609: Transcriptional regulators [Kineococcus radiotolerans SRS30216]). pfam00356, LacI, Bacterial regulatory proteins, lacI family. pfam00532, Peripla_BP_1,Periplasmic binding proteins and sugar binding domain of the LacI family. This family includes the periplasmic binding proteins, and the LacI family transcriptional regulators.; Specificity unclear
YP_001221099.1	putative sugar ABC transporter, substrate-binding protein (ZP_00192200.3| COG1653: ABC-type sugar transport system, periplasmic component [Kineococcus radiotolerans SRS30216]; NP_625350.1| putative sugar transport sugar binding protein [Streptomyces coelicolor A3(2)]). pfam01547, SBP_bac_1, Bacterial extracellular solute-binding protein. InterPro: Bacterial extracellular solute-binding protein family 1; Specificity unclear
YP_001221100.1	putative sugar ABC trasnporter, permease component (NP_625351.1| putative sugar transport integral membrane protein [Streptomyces coelicolor A3(2)]; ZP_00226127.1| COG1175: ABC-type sugar transport systems, permease components [Kineococcus radiotolerans SRS30216]). pfam00528, BPD_transp_1, Binding-protein-dependent transport system inner membrane component.; Specificity unclear
YP_001221101.1	putative sugar ABC transporter, permease component (NP_625352.1| putative sugar transport integral membrane protein [Streptomyces coelicolor A3(2)]; ZP_00226128.1| COG0395: ABC-type sugar transport system, permease component [Kineococcus radiotolerans SRS30216]). pfam00528, BPD_transp_1, Binding-protein-dependent transport system inner membrane component.; Specificity unclear
YP_001221102.1	putative alpha glucosidase (NP_459046.1| putative glycosyl hydrolase [Salmonella typhimurium LT2]; XP_388973.1| hypothetical protein FG08797.1 [Gibberella zeae PH-1])., pfam01055, Glyco_hydro_31, Glycosyl hydrolases family 31., InterPro: Glycoside hydrolase family 31; Specificity unclear
YP_001221103.1	putative Fe3+-hydroxamate ABC transporter,substrate binding protein (ZP_00226720.1| COG0614: ABC-type Fe3+-hydroxamate transport system, periplasmic component [Kineococcus radiotolerans SRS30216]; NP_699933.1| iron compound ABC transporter, periplasmic iron compound-binding protein [Brucella suis 1330]). pfam01497, Peripla_BP_2, Periplasmic binding protein. This family includes bacterial periplasmic binding proteins. Several of which are involved in iron transport.; Specificity unclear
YP_001221104.1	putative Fe3+-siderophore ABC transporter, permease component (ZP_00226721.1| COG0609: ABC-type Fe3+-siderophore transport system, permease component [Kineococcus radiotolerans SRS30216]; NP_793040.1| iron ABC transporter, permease protein, putative [Pseudomonas syringae pv. tomato str. DC3000]). pfam01032, FecCD, FecCD transport family. This is a sub-family of bacterial binding protein-dependent transport systems family.; Specificity unclear
YP_001221105.1	putative Fe3+-siderophore ABC transporter, ATPase component (ZP_00226722.1| COG1120: ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Kineococcus radiotolerans SRS30216]; CAB92552.1| FecE protein [Serratia sp. ATCC 39006]). pfam00005, ABC_tran,ABC transporter.; Specificity unclear
YP_001221106.1	putative nucleoside-diphosphate-sugar epimerase (ZP_00291479.1| COG0451: Nucleoside-diphosphate-sugar epimerases [Thermobifida fusca]; AAL17942.1| putative UDP glucose epimerase [Mycobacterium smegmatis]). pfam01370,Epimerase, NAD dependent epimerase/dehydratase family. This family of proteins utilise NAD as a cofactor.; High confidence in function and specificity
YP_001221107.1	putative phosphonate ABC transporter, substrate-binding protein (ZP_00110175.1| COG3221: ABC-type phosphate/phosphonate transport system, periplasmic component [Nostoc punctiforme]; NP_946052.1| putative PhnD protein, phosphonate ABC transporter, periplasmic binding protein precursor [Rhodopseudomonas palustris CGA009]). PART OF THE BINDING-PROTEIN-DEPENDENT TRANSPORT SYSTEM FOR ALKYLPHOSPHONATES. InterPro: Bacterial extracellular solute-binding proteins family 3; Specificity unclear
YP_001221108.1	putative phosphate/phosphonate ABC transporter,ATPase component (NP_243840.1| alkylphosphonate ABC tranporter (ATP-binding protein) [Bacillus halodurans]; NP_486270.1| ABC tranporter, ATP-binding component [Nostoc sp. PCC 7120]). pfam00005, ABC_tran, ABC transporter.; Specificity unclear
YP_001221109.1	putative phosphate/phosphonate ABC transporter,permease component (ZP_00203666.1| COG3639: ABC-type phosphate/phosphonate transport system, permease component [Dechloromonas aromatica RCB]; AAP27494.1| phosphonate ABC transporter, permease protein [Bacillus anthracis str. Ames]). pfam00528, BPD_transp_1, Binding-protein-dependent transport system inner membrane component (twice). InterPro: Binding-protein-dependent transport systems inner membrane component; Specificity unclear
YP_001221110.1	putative 2-dehydropantoate 2-reductase (NP_337148.1| oxidoreductase, ketopantoate reductase family [Mycobacterium tuberculosis CDC1551]; Q9ABG6|PANE_CAUCR Putative 2-dehydropantoate 2-reductase (Ketopantoate reductase)). Catalyzes the NADPH-dependent reduction of ketopantoate into pantoic acid. InterPro: Ketopantoate reductase ApbA/PanE. pfam02558, ApbA,Ketopantoate reductase PanE/ApbA. apbA_panE: 2-dehydropantoate 2-reductas; High confidence in function and specificity
YP_001221111.1	putative acetyltransferase (NP_530883.1| acetyltransferase [Agrobacterium tumefaciens str. C58]; NP_437997.1| putative acetyltransferase protein [Sinorhizobium meliloti 1021]).; Function unclear
YP_001221112.1	conserved hypothetical protein involved in phosphonate metabolism (NP_085695.1| ATP-binding component of phosphonate transport [Mesorhizobium loti MAFF303099]; AAL52063.1| PHOSPHONATES TRANSPORT ATP-BINDING PROTEIN PHNN [Brucella melitensis 16M]).; Function unclear
YP_001221113.1	putative metal-dependent hydrolase involved in phosphonate metabolism (ZP_00195547.1| COG3454: Metal-dependent hydrolase involved in phosphonate metabolism [Mesorhizobium sp. BNC1]; ZP_00124006.1| COG3454: Metal-dependent hydrolase involved in phosphonate metabolism [Pseudomonas syringae pv. syringae B728a]). BELONGS TO AN OPERON INVOLVED IN ALKYLPHOSPHONATE UPTAKE AND C-P LYASE. EXACT FUNCTION NOT KNOWN.; Function unclear
YP_001221114.1	Conserved hypothetical protein possibly involved in phosphonate metabolism (ZP_00195546.1| hypothetical protein MBNC02000901 [Mesorhizobium sp. BNC1]; NP_697873.1| conserved hypothetical protein [Brucella suis 1330]). pfam06299, DUF1045, Protein of unknown function (DUF1045). This family consists of several hypothetical proteins from Agrobacterium, Rhizobium and Brucella species. The function of this family is unknown.; Function unclear
YP_001221115.1	putative phosphonate ABC transporter, ATPase (NP_104472.1| ATP-binding component of phosphonate transport, HisP-like nucleotide binding protein [Mesorhizobium loti MAFF303099]; NP_767866.1| phosphonate uptake transporter ATP-binding protein [Bradyrhizobium japonicum USDA 110]). PART OF THE BINDING-PROTEIN-DEPENDENT TRANSPORT SYSTEM FOR ALKYLPHOSPHONATES. PROBABLY RESPONSIBLE FOR ENERGY COUPLING TO THE TRANSPORT SYSTEM. pfam00005, ABC_tran, ABC transporter.; Specificity unclear
YP_001221116.1	putative phosphonate ABC transporter, ATPase (NP_530885.1| ABC transporter, nucleotide binding/ATPase protein [phosphonate] [Agrobacterium tumefaciens str. C58]; NP_437995.1| putative phosphonate uptake ABC transporter ATP-binding protein [Sinorhizobium meliloti 1021]). pfam00005, ABC_tran, ABC transporter. InterPro: AAA ATPase superfamily.; Specificity unclear
YP_001221117.1	putative C-P (carbon-phosphorus) lyase (NP_418522.1| phosphonate metabolism; conserved protein in phn operon [Escherichia coli K12]; NP_437994.1| putative C-P (carbon-phosphorus) lyase component protein [Sinorhizobium meliloti 1021]). pfam06007, PhnJ,Phosphonate metabolism protein PhnJ.; Specificity unclear
YP_001221118.1	conserved hypothetical protein involved in phosphonate metabolism (NP_104468.1| hypothetical protein,; ZP_00205860.1| COG3626: Uncharacterized enzyme of phosphonate metabolism [Pseudomonas syringae pv. syringae B728a]). pfam05861, PhnI, Bacterial phosphonate metabolism protein . Bacteria that use phosphonates as a phosphorus source must be able to break the stable carbon-phosphorus bond. In Escherichia coli phosphonates are broken down by a C-P lyase that has a broad substrate specificity. The genes for phosphonate uptake and degradation in E. coli are organised in an operon of 14 genes, named phnC to phnP. Three gene products (PhnC, PhnD and PhnE) comprise a binding protein-dependent phosphonate transporter, which also transports phosphate, phosphite, and certain phosphate esters such as phosphoserine; two gene products (PhnF and PhnO) may have a role in gene regulation; and nine gene products (PhnG, PhnH, PhnI, PhnJ, PhnK, PhnL,PhnM, PhnN, and PhnP) probably comprise a membrane-associated C-P lyase enzyme complex.; Function unclear
YP_001221119.1	putative C-P (carbon-phosphorus) lyase component (NP_104467.1| hypothetical protein, ; NP_946047.1| putative PhnH protein, phosphonate metabolism, function unknown [Rhodopseudomonas palustris CGA009]). pfam05845,PhnH, Bacterial phosphonate metabolism protein .; Function unclear
YP_001221120.1	putative C-P (carbon-phosphorus lyase component (NP_530889.1| conserved hypothetical protein [Agrobacterium tumefaciens str. C58]; NP_437991.1| putative C-P (carbon-phosphorus lyase component protein [Sinorhizobium meliloti 1021]). pfam06754, PhnG,Phosphonate metabolism protein PhnG. The exact function of PhnG is unknown, however it is thought likely that along with six other proteins PhnG makes up the the C-P (carbon-phosphorus) lyase.; Function unclear
YP_001221121.1	putative transcriptional regulator, GntR family (NP_530890.1| transcriptional regulator, GntR family [Agrobacterium tumefaciens str. C58 (U. Washington)]; NP_698105.1| transcriptional regulator, GntR family [Brucella suis 1330]). putative regulator of the phn operon. pfam00392, GntR, Bacterial regulatory proteins,gntR family. This domain comprises the N-terminal HTH-containing region of GntR-like bacterial transcription factors. At the C terminus there is usually an effector-binding/oligomerisation domain. InterPro: Bacterial regulatory proteins GntR family.; Specificity unclear
YP_001221122.1	putative multidrug efflux MFS permease (NP_737817.1| putative multidrug resistance protein [Corynebacterium efficiens YS-314]; NP_962079.1| hypothetical protein MAP3145c [Mycobacterium avium subsp. paratuberculosis str. k10]). pfam00083, Sugar_tr, Sugar (and other) transporter.; Specificity unclear
YP_001221123.1	phosphoenolpyruvate carboxylase (ZP_00293827.1| COG2352: Phosphoenolpyruvate carboxylase [Thermobifida fusca]; NP_695792.1| phosphoenolpyruvate carboxylase [Bifidobacterium longum NCC2705]). pfam00311, PEPcase,Phosphoenolpyruvate carboxylase.; High confidence in function and specificity
YP_001221124.1	putative transcriptional regulator, Cro/CI family (NP_863201.1| hypothetical protein [Staphylococcus epidermidis ATCC 12228]; NP_900580.1| hypothetical protein CV0910 [Chromobacterium violaceum ATCC 12472]). pfam01381, HTH_3, Helix-turn-helix. This large family of DNA binding helix-turn helix proteins includes Cro and CI.; Specificity unclear
YP_001221125.1	putative L-threonine aldolase (NP_822663.1| putative L-threonine aldolase [Streptomyces avermitilis MA-4680]; YP_011095.1| threonine aldolase, low-specificity [Desulfovibrio vulgaris subsp. vulgaris str. Hildenborough]). Catalyzes the cleavage of L-allo-threonine and L- threonine to glycine and acetaldehyde. Can also act on L-erythro- phenylserine L-threo-phenylserine L-beta-34- methylenedioxyphenylserine and L-beta-34-dihydroxyphenylserine.; High confidence in function and specificity
YP_001221126.1	putative NTP pyrophosphohydrolase (NP_624609.1| conserved hypothetical protein SCF85.08c [Streptomyces coelicolor A3(2)]; ZP_00229098.1| COG0494: NTP pyrophosphohydrolases including oxidative damage repair enzymes [Kineococcus radiotolerans SRS30216]). pfam00293,NUDIX, NUDIX domain.; Function unclear
YP_001221127.1	putative sulfide:quinone oxidoreductase (NP_440916.1| hypothetical protein [Synechocystis sp. PCC 6803]; ZP_00084090.1| COG0446: Uncharacterized NAD(FAD)-dependent dehydrogenases [Pseudomonas fluorescens PfO-1]). , pfam00070, Pyr_redox, Pyridine nucleotide-disulphide oxidoreductase. This family includes both class I and class II oxidoreductases and also NADH oxidases and peroxidases.; Function unclear
YP_001221128.1	putative stress-like protein (; NP_626104.1| putative stress-like protein [Streptomyces coelicolor A3(2)]). pfam03780, DUF322, Protein of unknown function (DUF322). This is a family of small proteins. It includes a protein identified as an alkaline shock protein, so may be involved in stress response.; Function unclear
YP_001221129.1	putative Aquaporin (ZP_00032143.1| COG0580: Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Burkholderia fungorum]; NP_884218.1| aquaporin Z [Bordetella parapertussis 12822]). Transport of water across the membrane. Possibly involved in the adaptation to variation in intravacuolar pH or osmolarity. MIP: MIP family channel proteins pfam00230, MIP, Major intrinsic protein. MIP (Major Intrinsic Protein) family proteins exhibit essentially two distinct types of channel properties: (1) specific water transport by the aquaporins, and (2) small neutral solutes transport, such as glycerol by the glycerol facilitators.; High confidence in function and specificity
YP_001221130.1	hypothetical protein (similarities of the N-terminal part to: ZP_00189314.2| COG1302: Uncharacterized protein conserved in bacteria [Kineococcus radiotolerans SRS30216]; NP_626104.1| putative stress-like protein [Streptomyces coelicolor A3(2)]).
YP_001221131.1	hypothetical protein (ZP_00057389.1| hypothetical protein [Thermobifida fusca]; CAF19543.1| secreted protein [Corynebacterium glutamicum ATCC 13032]).
YP_001221132.1	conserved hypothetical protein (ZP_00223109.1| COG3152: Predicted membrane protein [Burkholderia cepacia R1808]; NP_708910.1| putative cytochrome [Shigella flexneri 2a str. 301]). pfam05656, DUF805, Protein of unknown function (DUF805).; Function unclear
YP_001221133.1	conserved hypothetical protein (NP_854517.1| HYPOTHETICAL PROTEIN [Mycobacterium bovis subsp. bovis AF2122/97]; BAC00185.1| Hypothetical protein [Corynebacterium glutamicum ATCC 13032]).; Function unclear
YP_001221134.1	conserved hypothetical protein (NP_215352.1| hypothetical protein Rv0837c [Mycobacterium tuberculosis H37Rv]; NP_601982.1| hypothetical protein NCgl2692 [Corynebacterium glutamicum ATCC 13032])).; Function unclear
YP_001221135.1	putative membrane protein (H83813 hypothetical protein BH1312 [imported] - Bacillus halodurans (strain C-125)).; Function unclear
YP_001221136.1	putative Na+ efflux ABC transporter, permease component (ZP_00227879.1| COG1668: ABC-type Na+ efflux pump, permease component [Kineococcus radiotolerans SRS30216]; AAF04136.1| hypothetical ABC transporter [Mycobacterium smegmatis]).; Function unclear
YP_001221137.1	putative ABC-Transporter, ATP binding protein (ZP_00227878.1| COG4152: ABC-type uncharacterized transport system, ATPase component [Kineococcus radiotolerans SRS30216]; AAF04137.1| hypothetical ABC transporter [Mycobacterium smegmatis]). InterPro: AAA ATPase superfamily pfam00005, ABC_tran, ABC transporter.; Function unclear
YP_001221138.1	Hypothetical protein
YP_001221139.1	conserved hypothetical protein, eventually Ca2+-binding (NP_978918.1| regucalcin family protein [Bacillus cereus ATCC 10987]; NP_626682.1| putative calcium-binding protein [Streptomyces coelicolor A3(2)]).; Family membership
YP_001221140.1	putative short chain dehydrogenase (ZP_00226079.1| COG1028: Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Kineococcus radiotolerans SRS30216]; CAF21988.1| Subunit of 2-[hydroxy(phenyl)methyl]-succinyl-CoA DH; bbsD [Azoarcus sp. EbN1]). pfam00106, adh_short, short chain dehydrogenase. This family contains a wide variety of dehydrogenases.; Specificity unclear
YP_001221141.1	putative short-chain alcohol dehydrogenase (ZP_00226078.1| COG1028: dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Kineococcus radiotolerans SRS30216]; NP_767148.1| hypothetical oxidoreductase [Bradyrhizobium japonicum]). pfam00106, adh_short, short chain dehydrogenase. This family contains a wide variety of dehydrogenases.; Function unclear
YP_001221143.1	putative glycerol-3-phosphate MFS permease (NP_938673.1| Putative glycerol-3-phosphate transporter [Corynebacterium diphtheriae]; AAL21184.1| MFS family, sn-glycerol-3-phosphate transport protein [Salmonella typhimurium LT2]). Responsible for glycerol-3-phosphate uptake. pfam00083, Sugar_tr, Sugar (and other) transporter. 2A0104: phosphoglycerate transporter pr; High confidence in function and specificity
YP_001221144.1	putative two-component system response regulator (NP_625929.1| putative two-component response regulator [Streptomyces coelicolor A3(2)]; ZP_00227053.1| COG2197: Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Kineococcus radiotolerans SRS30216]). InterPro: Response regulator receiver domain pfam00072, Response_reg, Response regulator receiver domain. pfam00196, GerE, Bacterial regulatory proteins,luxR family.; Specificity unclear
YP_001221145.1	putative two-component system, sensor kinase (NP_825857.1| putative two-component system sensor kinase [Streptomyces avermitilis MA-4680]; NP_627597.1| putative two component sensor kinase [Streptomyces coelicolor A3(2)]). pfam02518, HATPase_c, Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase. This family represents the structurally related ATPase domains of histidine kinase, DNA gyrase B and HSP90.; Specificity unclear
YP_001221146.1	putative drug efflux MFS permease (NP_472303.1| ; NP_627413.1| putative transmembrane efflux protein [Streptomyces coelicolor A3(2)]). pfam00083, Sugar_tr,Sugar (and other) transporter. InterPro: General substrate transporters 2_A_01_02: Multidrug resistance protein; Specificity unclear
YP_001221147.1	putative hydrolase (ZP_00226479.1| COG0596: Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [Kineococcus radiotolerans SRS30216]; NP_826888.1| putative alpha/beta hydrolase fold family protein [Streptomyces avermitilis MA-4680]). pfam00561, Abhydrolase_1, alpha/beta hydrolase fold. This catalytic domain is found in a very wide range of enzymes.; Function unclear
YP_001221149.1	oxidoreductase (ZP_00227286.1| COG1028: Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Kineococcus radiotolerans SRS30216]; AAD46515.1| oxidoreductase homolog [Streptomyces albus]). InterPro: Short-chain dehydrogenase/reductase (SDR) superfamily pfam00106,adh_short, short chain dehydrogenase. This family contains a wide variety of dehydrogenases.; Function unclear
YP_001221150.1	putative transcriptional regulator, MerR-family (ZP_00191407.2| COG0789: Predicted transcriptional regulators [Kineococcus radiotolerans SRS30216]; CAE53385.1| putative transcriptional regulator, MerR family [Actinoplanes teichomyceticus]). pfam00376, MerR,MerR family regulatory protein.; Specificity unclear
YP_001221154.1	putative transcriptional regulator, MarR family (NP_899880.1| probable transcriptional regulator, MarR family [Chromobacterium violaceum ATCC 12472]; NP_348196.1| Transcriptional regulators, MarR/EmrR family [Clostridium acetobutylicum]). InterPro: Bacterial regulatory protein MarR family. pfam01047, MarR, MarR family. The Mar proteins are involved in the multiple antibiotic resistance, a non-specific resistance system.; Specificity unclear
YP_001221155.1	putative organic hydroperoxide resistance protein (NP_599276.2| stress-induced protein [Corynebacterium glutamicum ATCC 13032]; NP_834187.1| Osmotically inducible protein C [Bacillus cereus ATCC 14579]). pfam02566, OsmC, OsmC-like protein. Osmotically inducible protein C is a stress -induced protein found in E. Coli. This family also contains a organic hydroperoxide detoxification protein that has a novel pattern of oxidative stress regulation.; High confidence in function and specificity
YP_001221156.1	putative membrane protein (NP_295648.1| hypothetical protein [Deinococcus radiodurans R1]; ZP_00209412.1| hypothetical protein Magn023696 [Magnetospirillum magnetotacticum]).; Function unclear
YP_001221157.1	conserved hypothetical protein (NP_883401.1| conserved hypothetical protein [Bordetella parapertussis 12822]; ZP_00032237.1| COG3607: Predicted lactoylglutathione lyase [Burkholderia fungorum]). InterPro: Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily
YP_001221158.1	putative epoxide hydrolase (ZP_00229095.1| COG0596: Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [Kineococcus radiotolerans SRS30216]; NP_347356.1| Epoxide hydrolase,; Function unclear
YP_001221159.1	conserved hypothetical protein, putative HTH-type transcriptional regulator (NP_737943.1| hypothetical protein [Corynebacterium efficiens YS-314]; NP_695848.1| hypothetical protein BL0662 [Bifidobacterium longum NCC2705]).; Function unclear
YP_001221160.1	putative sugar ABC transporter, permease component (NP_695267.1| probable ABC transporter permease protein for sugars [Bifidobacterium longum NCC2705]; ZP_00182437.2| COG1172:ribose/xylose/arabinose/ galactoside ABC-type transport systems, permease components Exiguobacterium sp. 255-15]). pfam02653,BPD_transp_2, Branched-chain amino acid transport system / permease component.Also found with in this family are proteins from the galactose transport system permease, and a ribose transport system.; Specificity unclear
YP_001221161.1	putative sugar ABC transporter, permease component (NP_695266.1| probable ABC transport system permease protein for sugars [Bifidobacterium longum NCC2705]; ZP_00066972.1| COG1172: Ribose/xylose/arabinose/galactoside ABC-type transport systems, permease components [Microbulbifer degradans 2-40]). InterPro: Binding-system dependent bacterial transporters (araH livH/limM families) pfam02653,BPD_transp_2, Branched-chain amino acid transport system / permease component.; Specificity unclear
YP_001221162.1	putative sugar ABC transporter, ATPase component (NP_695265.1| ATP binding protein of ABC transporter [Bifidobacterium longum NCC2705]; NP_437568.1| putative sugar uptake ABC transporter ATP-binding protein [Sinorhizobium meliloti 1021]). pfam00005, ABC_tran, ABC transporter (2 times).; Specificity unclear
YP_001221163.1	putative sugar ABC transporter, binding protein (ZP_00121662.1| COG1879: ABC-type sugar transport system,periplasmic component [Bifidobacterium longum DJO10A]; ZP_00223066.1| COG1879: ABC-type sugar transport system,periplasmic component [Burkholderia cepacia R1808]).; Specificity unclear
YP_001221164.1	putative sugar uptake ABC transporter, ATPase component (NP_695265.1| ATP binding protein of ABC transporter [Bifidobacterium longum NCC2705]; ZP_00223067.1| COG1129: ABC-type sugar transport system,ATPase component [Burkholderia cepacia R1808]). pfam00005,ABC_tran, ABC transporter (duplicated domain).; Specificity unclear
YP_001221165.1	putative transcriptional regulator, LacI family (NP_630441.1| putative transcriptional regulator [Streptomyces coelicolor A3(2)]; NP_822206.1| putative LacI-family transcriptional regulator [Streptomyces avermitilis MA-4680]). pfam00356, LacI, Bacterial regulatory proteins, lacI family. pfam00532, Peripla_BP_1,Periplasmic binding proteins and sugar binding domain of the LacI family. This family includes the periplasmic binding proteins, and the LacI family transcriptional regulators. The LacI family of proteins consist of transcriptional regulators related to the lac repressor. In this case, generally the sugar binding domain binds a sugar which changes the DNA binding activity of the repressor domain (pfam00356).; Specificity unclear
YP_001221166.1	putative manganese-containing catalase (ZP_00235296.1| manganese catalase [Bacillus cereus G9241]; CAE09059.1| mn catalase [Thermus thermophilus]). pfam05067, Mn_catalase, Manganese containing catalase. Catalases are important antioxidant metalloenzymes that catalyse disproportionation of hydrogen peroxide, forming dioxygen and water. Two families of catalases are known,one having a heme cofactor, and this family that is a structurally distinct family containing non-heme manganese.; High confidence in function and specificity
YP_001221167.1	hypothetical protein , weak similarity to: pfam01476, LysM, LysM domain. The LysM (lysin motif) domain is about 40 residues long. It is found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function.
YP_001221168.1	putative phosphoketolase (Q8YTZ6|PHK2_ANASP Probable phosphoketolase 2; NP_960507.1| hypothetical protein MAP1573c [Mycobacterium avium subsp. paratuberculosis str. k10]). pfam03894, XFP, D-xylulose 5-phosphate/D-fructose 6-phosphate phosphoketolase. Bacterial enzyme splits fructose-6-P and/or xylulose-5-P with the aid of inorganic phosphate into either acetyl-P and erythrose-4-P and/or acetyl-P and glyeraldehyde-3-P EC:4.1.2.9, EC:4.1.2.22.; Specificity unclear
YP_001221169.1	putative secreted protein (ZP_00413710.1| S-layer homology region [Arthrobacter sp. FB24]).; Hypothetical protein
YP_001221170.1	hypothetical secreted protein, putative cell-surface protein (only weak similarities, putative N-terminal RTX toxin and C-terminal fibrinogen-binding domain; ZP_00413710.1| S-layer homology region [Arthrobacter sp. FB24]).; Hypothetical protein
YP_001221171.1	putative secreted hemagglutinin/hemolysin-related protein (NP_868824.1| probable fibrinogen-binding protein homolog-putative involved in cell-cell interaction [Pirellula sp. 1]; also similarities to membrane proteins of unknown function: NP_628213.1| putative integral membrane transport protein [Streptomyces coelicolor A3(2)]).; Function unclear
YP_001221172.1	conserved hypothetical protein (NP_600647.1| uncharacterized low-complexity protein [Corynebacterium glutamicum ATCC 13032]; NP_628440.1| hypothetical protein [Streptomyces coelicolor A3(2)])., , pfam00805,Pentapeptide, Pentapeptide repeats (8 copies).
YP_001221173.1	putative iron-siderophore ABC transporter, permease component (BAB97894.1| ABC-type transporter, permease components [Corynebacterium glutamicum ATCC 13032]; AAD29086.1| FepG [Yersinia enterocolitica]; NP_626057.1| putative iron-siderophore uptake system transmembrane component [Streptomyces coelicolor A3(2)]). pfam01032,FecCD, FecCD transport family. This is a sub-family of bacterial binding protein-dependent transport systems family. This Pfam entry contains the inner components of this multicomponent transport system.; Specificity unclear
YP_001221174.1	putative iron-siderophore ABC transporter, permease component (BAB97895.1| ABC-type transporter, permease components [Corynebacterium glutamicum ATCC 13032]; NP_626058.1| putative iron-siderophore uptake system transmembrane component [Streptomyces coelicolor A3(2)]; AAD29085.1| FepD [Yersinia enterocolitica]). InterPro: FecCD transport family pfam01032, FecCD, FecCD transport family. This is a sub-family of bacterial binding protein-dependent transport systems family. This Pfam entry contains the inner components of this multicomponent transport system.; Specificity unclear
YP_001221175.1	putative iron-siderophore ABC transporter, binding protein (BAC00469.1| ABC-type Fe3+-siderophores transport systems, periplasmic components [Corynebacterium glutamicum ATCC 13032]; pfam01497, Peripla_BP_2,Periplasmic binding protein. This family includes bacterial periplasmic binding proteins. Several of which are involved in iron transport.; Specificity unclear
YP_001221176.1	putative acetyltransferase (NP_103315.1| probable transcriptional regulator [Mesorhizobium loti MAFF303099]; BAA06228.1| regulatory protein for C-P lyase [Streptomyces griseus]). pfam00583, Acetyltransf_1,Acetyltransferase (GNAT) family. This family contains proteins with N-acetyltransferase functions.; Function unclear
YP_001221177.1	putative SAM-dependant methyltransferase (NP_631493.1| hypothetical protein SC5C11.02. [Streptomyces coelicolor A3(2)]; NP_418726.1| putative methyltransferase [Escherichia coli K12]). pfam02390,Methyltransf_4, Putative methyltransferase.; Conserved hypothetical protein
YP_001221178.1	putative hydrolase (NP_350247.1| Alpha/beta superfamily hydrolase [Clostridium acetobutylicum]; NP_623397.1| Hydrolases of the alpha/beta superfamily [Thermoanaerobacter tengcongensis]). pfam00561,Abhydrolase_1, alpha/beta hydrolase fold. This catalytic domain is found in a very wide range of enzymes.; Function unclear
YP_001221179.1	putative phenolic acid decarboxylase (NP_959619.1| hypothetical protein MAP0685 [Mycobacterium avium subsp. paratuberculosis str. k10]; NP_391320.1| ferulate decarboxylase [Bacillus subtilis]). pfam05870,PA_decarbox, Phenolic acid decarboxylase (PAD). This family consists of several bacterial phenolic acid decarboxylase proteins. Phenolic acids, also called substituted cinnamic acids, are important lignin-related aromatic acids and natural constituents of plant cell walls. These acids (particularly ferulic, p-coumaric, and caffeic acids) bind the complex lignin polymer to the hemicellulose and cellulose in plants. The Phenolic acid decarboxylase (PAD) gene (pad) is transcriptionally regulated by p-coumaric, ferulic, or caffeic acid; these three acids are the three substrates of PAD.; Specificity unclear
YP_001221180.1	putative transcriptional regulator, MarR family (NP_824165.1| putative MarR-family transcriptional regulator [Streptomyces avermitilis MA-4680]; ZP_00081183.1| COG1846: Transcriptional regulators [Geobacter metallireducens]). pfam01047, MarR, MarR family. The Mar proteins are involved in the multiple antibiotic resistance, a non-specific resistance system.; Specificity unclear
YP_001221183.1	putative MarR-family transcriptional regulator (NP_824140.1| putative MarR-family transcriptional regulator [Streptomyces avermitilis MA-4680]; NP_629432.1| putative MarR-family transcriptional regulator [Streptomyces coelicolor A3(2)]). pfam01047,MarR, MarR family. The Mar proteins are involved in the multiple antibiotic resistance, a non-specific resistance system. The expression of the mar operon is controlled by a repressor, MarR.; Specificity unclear
YP_001221184.1	putative MFS permease (NP_628213.1| putative integral membrane transport protein [Streptomyces coelicolor A3(2)]; ZP_00226711.1| COG0477: Permeases of the major facilitator superfamily [Kineococcus radiotolerans SRS30216]). TIGRFAM (TIGR00711): drug resistance transporter, EmrB/QacA subfamily.; Specificity unclear
YP_001221185.1	conserved hypothetical protein (ZP_00071215.1| hypothetical protein [Trichodesmium erythraeum IMS101]; NP_968301.1| putative glyoxalase [Bdellovibrio bacteriovorus HD100]). InterPro: Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily pfam00903,Glyoxalase, Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily.; Function unclear
YP_001221186.1	putative Xaa-Pro dipeptidase (NP_343867.1| Prolidase (Xaa-Pro dipeptidase) (pepQ-like3) [Sulfolobus solfataricus P2]; NP_635937.1| Xaa-Pro dipeptidase [Xanthomonas campestris pv. campestris str. ATCC 33913]).; Function unclear
YP_001221187.1	conserved hypothetical protein (NP_821812.1| hypothetical protein SAV637 [Streptomyces avermitilis MA-4680]; NP_714492.1| conserved hypothetical protein [Leptospira interrogans serovar lai str. 56601]).
YP_001221190.1	putative oxidoreductase (NP_822664.1| putative oxidoreductase [Streptomyces avermitilis MA-4680]; NP_902034.1| acetoacetyl-CoA reductase [Chromobacterium violaceum ATCC 12472]). pfam00106, adh_short, short chain dehydrogenase. This family contains a wide variety of dehydrogenases.; Hypothetical protein
YP_001221191.1	hypothetical protein (NP_625383.1| hypothetical protein 2SCG4.05c [Streptomyces coelicolor A3(2)]; NP_625383.1| hypothetical protein 2SCG4.05c [Streptomyces coelicolor A3(2)]).
YP_001221192.1	putative acetyltransferase (NP_253367.1| peptide n-acetyltransferase RimI [Pseudomonas aeruginosa PA01]; ZP_00088630.1| COG0456: Acetyltransferases [Azotobacter vinelandii]). , pfam00583, Acetyltransf_1,Acetyltransferase (GNAT) family. This family contains proteins with N-acetyltransferase functions.; Function unclear
YP_001221193.1	puative low-affinity inorganic phosphate permease (ZP_00227554.1| COG0306: Phosphate/sulphate permeases [Kineococcus radiotolerans SRS30216]; NP_737084.1| putative phosphate transport protein PitA [Corynebacterium efficiens YS-314]). pfam01384, PHO4, Phosphate transporter family.; High confidence in function and specificity
YP_001221194.1	putative membrane protein (NP_737083.1| hypothetical protein [Corynebacterium efficiens YS-314]; ZP_00227553.1| hypothetical protein Krad06004394 [Kineococcus radiotolerans SRS30216]).; Conserved hypothetical protein
YP_001221195.1	conserved hypothetical protein, putative fusion protein containing duplicated domain (NP_962973.1| hypothetical protein MAP4039c [Mycobacterium avium subsp. paratuberculosis str. k10]; ZP_00198152.1| hypothetical protein Krad06004393 [Kineococcus radiotolerans SRS30216]).
YP_001221197.1	putative transcriptional regulator, TetR family (NP_599627.1| transcriptional regulator [Corynebacterium glutamicum ATCC 13032]; AAM94766.1| CalR1 [Micromonospora echinospora]). pfam00440, TetR_N, Bacterial regulatory proteins, tetR family.; Specificity unclear
YP_001221198.1	putative MFS permease (ZP_00229023.1| COG0477: Permeases of the major facilitator superfamily [Kineococcus radiotolerans SRS30216]; NP_599629.1| permease of the major facilitator superfamily [Corynebacterium glutamicum ATCC 13032]). InterPro: Drug resistance transporter EmrB/QacA subfamily pfam00083,Sugar_tr, Sugar (and other) transporter. TIGRFAM (TIGR00711): drug resistance transport protein; Function unclear
YP_001221199.1	conserved hypothetical protein (NP_627085.1| hypothetical protein SCE20.30. [Streptomyces coelicolor A3(2)]; NP_438059.1| CONSERVED HYPOTHETICAL PROTEIN [Sinorhizobium meliloti 1021]). pfam05146, DUF704, Aha1 domain. The function of this presumed domain is unknown.; Function unclear
YP_001221200.1	conserved hypothetical protein (ZP_00120870.2| hypothetical protein Blon020749 [Bifidobacterium longum DJO10A]; ZP_00218065.1| hypothetical protein Bcepa02000673 [Burkholderia cepacia R18194]).
YP_001221201.1	putative permease, AEC family (NP_696444.1| hypothetical protein with unknown or transport function [Bifidobacterium longum NCC2705]; ZP_00189944.2| COG0679: Predicted permeases [Kineococcus radiotolerans SRS30216] 2a69: Auxin Efflux Carrier pfam03547, Auxin_eff, Auxin Efflux Carrier. This family of transporters are found in all domains of life.; Specificity unclear
YP_001221203.1	putative acetyltransferase (ZP_00184384.1| hypothetical protein Exigu007901 [Exiguobacterium sp. 255-15]; ZP_00062966.1| COG0454: Histone acetyltransferase HPA2 and related acetyltransferases [Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293] pfam00583,Acetyltransf_1, Acetyltransferase (GNAT) family. This family contains proteins with N-acetyltransferase functions.; Family membership
YP_001221204.1	putative sugar reductase (NP_625517.1| putative reductase [Streptomyces coelicolor A3(2)]; CAF21980.1| Sugar dehydratase [Azoarcus sp. EbN1]).; Family membership
YP_001221206.1	conserved hypothetical protein (NP_828650.1| hypothetical protein SAV7474 [Streptomyces avermitilis MA-4680]; NP_293888.1| endo alpha-1,4 polygalactosaminidase,putative [Deinococcus radiodurans R1]).; Function unclear
YP_001221207.1	conserved hypothetical protein (NP_695944.1| narrowly conserved hypothetical protein [Bifidobacterium longum NCC2705]; NP_358299.1| Conserved hypothetical protein [Streptococcus pneumoniae R6]). pfam06171, DUF984,Protein of unknown function (DUF984).; Function unclear
YP_001221208.1	Hypothetical protein
YP_001221209.1	putative oxidoreductase (NP_636454.1| oxidoreductase [Xanthomonas campestris pv. campestris str. ATCC 33913]; NP_535107.1| oxidoreductase [Agrobacterium tumefaciens str. C58]). pfam00106, adh_short, short chain dehydrogenase; Function unclear
YP_001221210.1	conserved hypothetical protein (NP_862390.1| MC12 [Micrococcus sp. 28]; ZP_00225867.1| hypothetical protein Krad06004329 [Kineococcus radiotolerans SRS30216]). pfam03473, MOSC, MOSC domain. The MOSC (MOCO sulfurase C-terminal) domain is a superfamily of beta-strand-rich domains identified in the molybdenum cofactor sulfurase and several other proteins from both prokaryotes and eukaryotes.; Function unclear
YP_001221211.1	putative two-component sensor histidine kinase (NP_834294.1| Phosphate regulon sensor protein phoR [Bacillus cereus ATCC 14579]; ZP_00061962.1| COG5002: Signal transduction histidine kinase [Clostridium thermocellum ATCC 27405]). pfam00512, HisKA, His Kinase A (phosphoacceptor) domain. Dimerisation and phosphoacceptor domain of histidine kinases. pfam02518, HATPase_c,Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase.; Specificity unclear
YP_001221213.1	putative two-component system response regulator (ZP_00019357.1| hypothetical protein [Chloroflexus aurantiacus]; NP_602156.1| two-component system, response regulator [Corynebacterium glutamicum ATCC 13032]). InterPro: Response regulator receiver domain pfam00072,Response_reg, Response regulator receiver domain. This domain receives the signal from the sensor partner in bacterial two-component systems. It is usually found N-terminal to a DNA binding effector domain. pfam00486,Trans_reg_C, Transcriptional regulatory protein, C terminal.; Specificity unclear
YP_001221214.1	putative membrane protein (only very weak similarities to histidine kinases, two-component regulators); Hypothetical protein
YP_001221215.1	Exodeoxyribonuclease III (ZP_00227856.1| COG0708: Exonuclease III [Kineococcus radiotolerans SRS30216]; CAB06567.1| PROBABLE EXODEOXYRIBONUCLEASE III PROTEIN XTHA (EXONUCLEASE III) (EXO III) (AP ENDONUCLEASE VI) [Mycobacterium tuberculosis H37Rv]). , pfam03372,Exo_endo_phos, Endonuclease/Exonuclease/phosphatase family.; High confidence in function and specificity
YP_001221217.1	hypothetical protein , , pfam03780, DUF322, Protein of unknown function (DUF322). This is a family of small proteins. It includes a protein identified as an alkaline shock protein, so may be involved in stress response.
YP_001221218.1	ECF sigma factor (ZP_00198063.1| COG1595: DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Kineococcus radiotolerans SRS30216]; ZP_00179997.2| COG1595: DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Moorella thermoacetica ATCC 39073]). pfam04542, Sigma70_r2, Sigma-70 region 2. Region 2 of sigma-70 is the most conserved region of the entire protein. All members of this class of sigma-factor contain region 2. The high conservation is due to region 2 containing both the -10 promoter recognition helix and the primary core RNA polymerase binding determinant. pfam04545, Sigma70_r4, Sigma-70,region 4. Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif.; Specificity unclear
YP_001221219.1	conserved hypothetical protein (ZP_00189314.2| COG1302: Uncharacterized protein conserved in bacteria [Kineococcus radiotolerans SRS30216]; NP_626104.1| putative stress-like protein [Streptomyces coelicolor A3(2)]). pfam03780, DUF322, Protein of unknown function (DUF322). This is a family of small proteins. It includes a protein identified as an alkaline shock protein, so may be involved in stress response.
YP_001221220.1	putative beta-hydroxyacid dehydrogenase (NP_822718.1| putative dehydrogenase [Streptomyces avermitilis MA-4680]; ZP_00187394.1| COG2084: 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Rubrobacter xylanophilus DSM 9941]).; Specificity unclear
YP_001221221.1	involved in fifth step of pyrimidine biosynthesis; converts orotidine 5'-phosphate and diphosphate to orotate and 5-phospho-alpha-D-ribose 1-diphosphate
YP_001221222.1	hypothetical protein (weak similarity to: Q06852|SLP1_CLOTM CELL SURFACE GLYCOPROTEIN 1 PRECURSOR (OUTER LAYER PROTEIN B)(S-LAYER PROTEIN 1)).
YP_001221223.1	putative efflux MFS permease (ZP_00098466.1| COG0477: Permeases of the major facilitator superfamily [Desulfitobacterium hafniense]; NP_486255.1|; Specificity unclear
YP_001221224.1	putative N-acetylglucosamine-6-phosphate deacetylase (ZP_00228023.1| COG0647: Predicted sugar phosphatases of the HAD superfamily [Kineococcus radiotolerans SRS30216]; NP_627072.1| putative N-acetylglucosamine-6-phosphate deacetylase [Streptomyces coelicolor A3(2)]). pfam00702, Hydrolase, haloacid dehalogenase-like hydrolase. This family includes L-2-haloacid dehalogenase, epoxide hydrolases and phosphatases.; Specificity unclear
YP_001221225.1	putative 3',5'-cyclic-nucleotide phosphodiesterase (ZP_00227924.1| COG1409: Predicted phosphohydrolases [Kineococcus radiotolerans SRS30216]; F70536 3',5'-cyclic-nucleotide phosphodiesterase (EC 3.1.4.17) cpdA homolog -Mycobacterium tuberculosis (strain H37RV)). pfam00149,Metallophos, Calcineurin-like phosphoesterase. This family includes a diverse range of phosphoesterases.; Specificity unclear
YP_001221226.1	hypothetical protein (ZP_00197844.1| hypothetical protein Krad06004950 [Kineococcus radiotolerans SRS30216]; ZP_00052607.1| COG3237: Uncharacterized protein conserved in bacteria [Magnetospirillum magnetotacticum]).
YP_001221227.1	putative membrane protein (NP_954813.1| putative membrane protein [Gordonia westfalica]; NP_628654.1| putative membrane protein [Streptomyces coelicolor A3(2)]).; Hypothetical protein
YP_001221228.1	putative ATP-dependent DNA helicase (NP_823626.1| putative ATP-dependent DNA helicase [Streptomyces avermitilis MA-4680]; ZP_00226231.1| COG0514: Superfamily II DNA helicase [Kineococcus radiotolerans SRS30216]). pfam00270, DEAD, DEAD/DEAH box helicase. pfam00271,Helicase_C, Helicase conserved C-terminal domain.; High confidence in function and specificity
YP_001221229.1	putative adenine-specific DNA-modification methylase (NP_787899.1| DNA modification methyltransferase [Tropheryma whipplei str. Twist]; NP_085633.1| DNA methyltransferase [Mesorhizobium loti MAFF303099]). pfam01555, N6_N4_Mtase, DNA methylase. Members of this family are DNA methylases. The family contains both N-4 cytosine-specific DNA methylases and N-6 Adenine-specific DNA methylases.; Specificity unclear
YP_001221230.1	putative membrane protein,; Hypothetical protein
YP_001221231.1	putative membrane protein (ZP_00060954.1| hypothetical protein [Clostridium thermocellum ATCC 27405]; NP_821188.1| putative membrane protein [Streptomyces avermitilis MA-4680]).
YP_001221232.1	conserved hypothetical protein (ZP_00227183.1| COG3844: Kynureninase [Kineococcus radiotolerans SRS30216]; ZP_00049417.2| COG3844: Kynureninase [Magnetospirillum magnetotacticum]). pfam00266,Aminotran_5, Aminotransferase class-V.; Family membership
YP_001221233.1	putative NAD(P)H-dependant dehydrogenase (ZP_00226640.1| COG0673: Predicted dehydrogenases and related proteins [Kineococcus radiotolerans SRS30216]; NP_384229.1| PUTATIVE OXIDOREDUCTASE PROTEIN [Sinorhizobium meliloti 1021]). pfam01408, GFO_IDH_MocA,Oxidoreductase family, NAD-binding Rossmann fold. This family of enzymes utilise NADP or NAD.; Function unclear
YP_001221234.1	putative sucrose synthase (Sucrose-UDP glucosyltransferase)(NP_681372.1| sucrose phosphate synthase [Thermosynechococcus elongatus BP-1]; NP_926553.1| sucrose phosphate synthase [Gloeobacter violaceus PCC 7421]; P31922|SUS1_HORVU Sucrose synthase 1 (Sucrose-UDP glucosyltransferase 1)). SUCROSE-CLEAVING ENZYME THAT PROVIDES UDP-GLUCOSE AND FRUCTOSE FOR VARIOUS METABOLIC PATHWAYS. pfam00534, Glycos_transf_1, Glycosyl transferases group 1. Members of this family transfer activated sugars to a variety of substrates, including glycogen, Fructose-6-phosphate and lipopolysaccharides. Members of this family transfer UDP, ADP, GDP or CMP linked sugars.; Family membership
YP_001221235.1	putative glucoronosyltransferase (ZP_00240271.1| macrolide glycosyltransferase [Bacillus cereus G9241]; AAM70336.1| CalG1 [Micromonospora echinospora]). InterPro: UDP-glucoronosyl and UDP-glucosyl transferase. pfam00201,UDPGT, UDP-glucoronosyl and UDP-glucosyl transferase.; Function unclear
YP_001221236.1	conserved hypothetical protein (CAB03747.1| CONSERVED HYPOTHETICAL PROTEIN [Mycobacterium tuberculosis H37Rv]; NP_925015.1| hypothetical protein gll2069 [Gloeobacter violaceus PCC 7421]). pfam04169, DUF404,Domain of unknown function (DUF404). pfam04174, DUF407,Domain of unknown function (DUF407).
YP_001221237.1	conserved hypothetical protein (NP_961156.1| hypothetical protein MAP2222c [Mycobacterium avium subsp. paratuberculosis str. k10]; ZP_00164167.1| COG2307: Uncharacterized protein conserved in bacteria [Synechococcus elongatus PCC 7942]). pfam04168, DUF403,Bacterial domain of unknown function (DUF403).
YP_001221238.1	conserved hypothetical protein (NP_961155.1| hypothetical protein MAP2221c [Mycobacterium avium subsp. paratuberculosis str. k10]; ZP_00213669.1| COG1305: Transglutaminase-like enzymes, putative cysteine proteases [Burkholderia cepacia R18194]). , pfam01841,Transglut_core, Transglutaminase-like superfamily. This family includes animal transglutaminases and other bacterial proteins of unknown function.; Function unclear
YP_001221239.1	putative lysophospholipase (NP_622099.1| Lysophospholipase [Thermoanaerobacter tengcongensis]; NP_972747.1| hydrolase, alpha/beta fold family [Treponema denticola ATCC 35405]). InterPro: Esterase/lipase/thioesterase family active site pfam00561,Abhydrolase_1, alpha/beta hydrolase fold. This catalytic domain is found in a very wide range of enzymes.; Function unclear
YP_001221240.1	putative acetyltransferase (ZP_00109910.1| COG0454: Histone acetyltransferase HPA2 and related acetyltransferases [Nostoc punctiforme]; NP_939442.1| Putative acetyltransferase [Corynebacterium diphtheriae]).; Function unclear
YP_001221241.1	conserved hypothetical protein, putative cell wall/surface protein
YP_001221242.1	putative serine protease, family S53 (NP_827126.1| hypothetical protein [Streptomyces avermitilis MA-4680]). pfam00082, Peptidase_S8, Subtilase family. Subtilases are a family of serine proteases. They appear to have independently and convergently evolved an Asp/Ser/His catalytic triad, like that found in the trypsin serine proteases (see pfam00089).; Function unclear
YP_001221243.1	putative transcriptional regulator, TetR family (NP_630409.1| transcriptional regulator [Streptomyces coelicolor A3(2)]; NP_639852.1| putative lactone-dependent transcriptional regulator (TetR-family), MmfR [Streptomyces coelicolor A3(2)]). InterPro: Bacterial regulatory proteins TetR family pfam00440, TetR_N,Bacterial regulatory proteins, tetR family.; Specificity unclear
YP_001221244.1	putative non-hemolytic phospholipase C (NP_900579.1| non-hemolytic phospholipase C precursor [Chromobacterium violaceum ATCC 12472]; A36143 phospholipase C (EC 3.1.4.3), nonhemolytic - Pseudomonas aeruginosa). pfam04185, Phosphoesterase, Phosphoesterase family. This family includes both bacterial phospholipase C enzymes EC:3.1.4.3, but also eukaryotic acid phosphatases EC:3.1.3.2. pfam05506, DUF756, Domain of unknown function (DUF756). This domain is found, normally as a tandem repeat, at the C-terminus of bacterial phospholipase C proteins.; Function unclear
YP_001221245.1	putative alkylated DNA repair protein (NP_822306.1| putative alkylated DNA repair protein [Streptomyces avermitilis MA-4680]; NP_215515.1| Alkylated DNA repair protein [Mycobacterium tuberculosis H37Rv]). alkb: alkylated DNA repair protein AlkB; Function unclear
YP_001221246.1	conserved membrane protein (NP_832507.1| Integral membrane protein [Bacillus cereus ATCC 14579]; ZP_00212776.1| hypothetical protein Bcepa02005818 [Burkholderia cepacia R18194]).; Conserved hypothetical protein
YP_001221247.1	putative lipoate-protein ligase A (ZP_00227712.1| COG0095: Lipoate-protein ligase A [Kineococcus radiotolerans SRS30216]; T46683 probable lipoate protein ligase snoP [imported] - Streptomyces nogalater). CREATES AN AMIDE LINKAGE THAT JOINS THE FREE CARBOXYL GROUP OF LIPOIC ACID TO THE EPSILON-AMINO GROUP OF A SPECIFIC LYSINE RESIDUE IN LIPOATE-DEPENDENT ENZYMES. THE ENZYME CATALYZES BOTH THE ATP-DEPENDENT ACTIVATION OF LIPOATE TO LIPOYL-AMP AND THE TRANSFER OF THE ACTIVATED LIPOYL ON THE APOPROTEINS (BY SIMILARITY). InterPro: Biotin/lipoate A/B protein ligase family lipoyltrans: lipoyltransferase and lipoate protein ligase pfam03099, BPL_LipA_LipB,Biotin/lipoate A/B protein ligase family. This family includes biotin protein ligase, lipoate-protein ligase A and B. Biotin is covalently attached at the active site of certain enzymes that transfer carbon dioxide from bicarbonate to organic acids to form cellular metabolites.; Specificity unclear
YP_001221248.1	putative acetyltransferase (NP_631766.1| conserved hypothetical protein [Streptomyces coelicolor A3(2)]; ZP_00225610.1| COG2388: Predicted acetyltransferase [Kineococcus radiotolerans SRS30216]).; Function unclear
YP_001221251.1	conserved hypothetical protein (N-terminal: AAD27613.1| 57 kilodalton cell surface protein precursor Msa2 [Renibacterium salmoninarum]; NP_821231.1| hypothetical protein SAV57 [Streptomyces avermitilis MA-4680]). C-terminal half: NP_241888.1| BH1022~unknown conserved protein in bacilli [Bacillus halodurans C-125]; NP_828397.1| hypothetical protein SAV7221 [Streptomyces avermitilis MA-4680])., pfam01833, TIG, IPT/TIG domain.
YP_001221252.1	putative membrane protein (weak similarities to: NP_656679.1| hypothetical protein predicted by GeneMark [Bacillus anthracis A2012]).
YP_001221253.1	catalyzes the interconversion of alpha-D-glucose 1-phosphate to alpha-D-glucose 6-phosphate
YP_001221254.1	Prephenate dehydratase (|NP_628146.1| prephenate dehydratase [Streptomyces coelicolor A3(2)]; ZP_00058942.1| COG0077: Prephenate dehydratase [Thermobifida fusca]). pfam00800, PDT, Prephenate dehydratase. This protein is involved in Phenylalanine biosynthesis. This protein catalyses the decarboxylation of prephenate to phenylpyruvate. pfam01842, ACT, ACT domain. This family of domains generally have a regulatory role. ACT domains are linked to a wide range of metabolic enzymes that are regulated by amino acid concentration. Pairs of ACT domains bind specifically to a particular amino acid leading to regulation of the linked enzyme.; High confidence in function and specificity
YP_001221255.1	catalyzes a two-step reaction, first charging a serine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA
YP_001221256.1	putative hydrolase (ZP_00226154.1| COG0561: Predicted hydrolases of the HAD superfamily [Kineococcus radiotolerans SRS30216]; NP_789662.1| conserved hypothetical protein [Tropheryma whipplei TW08/27]).; Function unclear
YP_001221257.1	putative transcriptional regulator/attenuator, LytR family(NP_787856.1| transcriptional regulator [Tropheryma whipplei str. Twist]; NP_627264.1| putative transcriptional regulator [Streptomyces coelicolor A3(2)]). , pfam03816, LytR_cpsA_psr, Cell envelope-related transcriptional attenuator domain.; Function unclear
YP_001221259.1	putative transcriptional regulator, LacI family (BAD02385.1| LacI/GalR family transcriptional repressor [Streptomyces thermoviolaceus]; NP_628912.1| putative transcriptional regulator [Streptomyces coelicolor A3(2)]). pfam00532, Peripla_BP_1, Periplasmic binding proteins and sugar binding domain of the LacI family.; Specificity unclear
YP_001221260.1	conserved hypothetical protein (ZP_00226605.1| COG3828: Uncharacterized protein conserved in bacteria [Kineococcus radiotolerans SRS30216]; NP_624682.1| conserved hypothetical protein [Streptomyces coelicolor A3(2)]).; Function unclear
YP_001221261.1	putative oxidoreductase/dehydrogenase (ZP_00226604.1| COG0673: Predicted dehydrogenases and related proteins [Kineococcus radiotolerans SRS30216]; NP_770032.1| dehydrogenase [Bradyrhizobium japonicum USDA 110]). pfam01408, GFO_IDH_MocA, Oxidoreductase family, NAD-binding Rossmann fold. This family of enzymes utilise NADP or NAD. InterPro: Oxidoreductase C-terminal.; Function unclear
YP_001221263.1	glycosyl hydrolase, family 13 (NP_960521.1| hypothetical protein MAP1587c [Mycobacterium avium subsp. paratuberculosis str. k10]; NP_737573.1| putative amylase [Corynebacterium efficiens YS-314]). InterPro: Glycoside hydrolase family 13 pfam00128, Alpha-amylase, Alpha amylase, catalytic domain.; High confidence in function and specificity
YP_001221265.1	putative transcriptional regulator, PadR family (NP_687299.1| conserved hypothetical protein [Streptococcus agalactiae 2603V/R]; NP_422202.1| conserved hypothetical protein [Caulobacter crescentus CB15]). pfam03551, PadR, Transcriptional regulator PadR-like family. Members of this family are transcriptional regulators that appear to be related to the pfam01047 family. This family includes PadR, a protein that is involved in negative regulation of phenolic acid metabolism.; Specificity unclear
YP_001221267.1	putative membrane protein, possible preprotein translocase (NP_627080.1| putative membrane protein. [Streptomyces coelicolor A3(2)]; ZP_00057695.1| COG0706: Preprotein translocase subunit YidC [Thermobifida fusca]). pfam02096, 60KD_IMP, 60Kd inner membrane protein.; Conserved hypothetical protein
YP_001221268.1	putative metal-dependent hydrolase (NP_796992.1| hypothetical protein VP0613 [Vibrio parahaemolyticus RIMD 2210633]; CAG19181.1| hypothetical metal-dependent hydrolase [Photobacterium profundum]).; Function unclear
YP_001221270.1	putative oxidoreductase (ZP_00228825.1| COG0667: Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Kineococcus radiotolerans SRS30216]; NP_629103.1| putative aldoketoreductase [Streptomyces coelicolor A3(2)]). pfam00248, Aldo_ket_red, Aldo/keto reductase family.; Function unclear
YP_001221271.1	putative 1-acylglycerol-3-phosphate O-acyltransferase (NP_822660.1| putative 1-acylglycerol-3-phosphate O-acyltransferase [Streptomyces avermitilis MA-4680]; NP_602082.1| 1-acyl-sn-glycerol-3-phosphate acyltransferase [Corynebacterium glutamicum ATCC 13032]). , pfam01553, Acyltransferase, Acyltransferase.; Specificity unclear
YP_001221272.1	Converts L-aspartate to beta-alanine and provides the major route of beta-alanine production in bacteria. Beta-alanine is essential for the biosynthesis of pantothenate (vitamin B5)
YP_001221273.1	putative tRNA processing ribonuclease BN (RNase BN)(NP_822167.1| putative membrane protein [Streptomyces avermitilis MA-4680]; BAB98344.1| tRNA-processing ribonuclease BN [Corynebacterium glutamicum ATCC 13032]). rbn: ribonuclease BN putative pfam03631, Ribonuclease_BN,Ribonuclease BN-like family. This family contains integral membrane proteins with 5 to 6 predicted transmembrane spans. The family include ribonuclease BN that is involved in tRNA maturation.; Function unclear
YP_001221274.1	putative deoxyribodipyrimidine photolyase (NP_108272.1| blue light photoreceptor cryptochrome [Mesorhizobium loti MAFF303099]; NP_531913.1| DNA photolyase [Agrobacterium tumefaciens str. C58]). pfam00875, DNA_photolyase, DNA photolyase. This domain binds a light harvesting cofactor. pfam03441,FAD_binding_7, FAD binding domain of DNA photolyase.; High confidence in function and specificity
YP_001221275.1	putative glycosyl transferase (weak similarities to: NP_787164.1| glycosyltransferase [Tropheryma whipplei str. Twist]; NP_808963.1| putative glycosyltransferase [Bacteroides thetaiotaomicron VPI-5482]) pfam00535,Glycos_transf_2, Glycosyl transferase. Diverse family,transferring sugar from UDP-glucose, UDP-N-acetyl-galactosamine, GDP-mannose or CDP-abequose, to a range of substrates including cellulose, dolichol phosphate and teichoic acids.; Hypothetical protein
YP_001221276.1	transcriptional regulator, MarR family (NP_103003.1| probable transcriptional regulator [Mesorhizobium loti MAFF303099]; NP_631765.1| putative marR-family regulatory protein [Streptomyces coelicolor A3(2)]). pfam01047, MarR, MarR family. The Mar proteins are involved in the multiple antibiotic resistance, a non-specific resistance system.; Specificity unclear
YP_001221277.1	putative transcriptional regulator (NP_213217.1| transcriptional regulator (PhoB-like) [Aquifex aeolicus]; NP_831082.1| Two-component response regulator [Bacillus cereus ATCC 14579]; NP_627031.1| putative two component system response regulator [Streptomyces coelicolor A3(2)]). pfam00486, Trans_reg_C, Transcriptional regulatory protein, C terminal.; Specificity unclear
YP_001221278.1	uppA; Catalyzes the formation of uracil and 5-phospho-alpha-D-ribosy 1-diphosphate from UMP and diphosphate
YP_001221279.1	putative cytosine/adenosine deaminase (ZP_00225554.1| COG0590: Cytosine/adenosine deaminases [Kineococcus radiotolerans SRS30216]; NP_825357.1| putative deaminase [Streptomyces avermitilis MA-4680]). pfam00383, dCMP_cyt_deam, Cytidine and deoxycytidylate deaminase zinc-binding region.; High confidence in function and specificity
YP_001221280.1	conserved hypothetical prtotein (NP_624782.1| conserved hypothetical protein SCF76.03 [Streptomyces coelicolor A3(2)]; NP_830758.1| hypothetical protein [Bacillus cereus ATCC 14579]). pfam07336, DUF1470, Protein of unknown function (DUF1470). COG5516, Conserved protein containing a Zn-ribbon-like motif, possibly RNA-binding [General function prediction only]
YP_001221281.1	Region created by contig update
YP_001221282.1	putative phosphotriesterase-family protein (NP_625331.1| putative phosphotriesterase-family protein [Streptomyces coelicolor A3(2)]; NP_465494.1|; Function unclear
YP_001221283.1	putative metal efflux transport protein, CDF family (NP_826229.1| putative transport protein [Streptomyces avermitilis MA-4680]; ZP_00109098.1| COG0053: Predicted Co/Zn/Cd cation transporters [Nostoc punctiforme]). pfam01545, Cation_efflux, Cation efflux family. Members of this family are integral membrane proteins, that are found to increase tolerance to divalent metal ions such as cadmium, zinc, and cobalt. These proteins are thought to be efflux pumps that remove these ions from cells.; Specificity unclear
YP_001221284.1	pyrroline-5-carboxylate reductase (ZP_00057049.1| COG0345: Pyrroline-5-carboxylate reductase [Thermobifida fusca]; NP_737040.1| pyrroline-5-carboxylate reductase [Corynebacterium efficiens YS-314]). proC: pyrroline-5-carboxylate reductase pfam01089, P5CR, Delta 1-pyrroline-5-carboxylate reductase.; High confidence in function and specificity
YP_001221285.1	putative K+ transporter, Trk family, NAD-binding component (ZP_00058665.1| COG0569: K+ transport systems,NAD-binding component [Thermobifida fusca]; ZP_00096571.1| COG0569: K+ transport systems, NAD-binding component [Novosphingobium aromaticivorans]). , pfam02254,TrkA_N, TrkA-N domain. This domain is found in a wide variety of proteins., pfam02080, TrkA_C, TrkA-C domain.; High confidence in function and specificity
YP_001221286.1	putative K+-transporter, membrane component; Trk family (ZP_00226587.1| COG0168: Trk-type K+ transport systems, membrane components [Kineococcus radiotolerans SRS30216]; ZP_00058666.1| COG0168: Trk-type K+ transport systems, membrane components [Thermobifida fusca]). InterPro: Cation transport protein pfam02386, TrkH, Cation transport protein. TIGRFAM (TIGR00933): K+ Transporter (Trk) Family pro; High confidence in function and specificity
YP_001221287.1	transcriptional regulator, ArsR family (NP_898749.1| putative ArsR-family regulator [Rhodococcus erythropolis]; NP_630901.1| putative ArsR-family transcriptional regulator [Streptomyces coelicolor A3(2)]). pfam01022, HTH_5, Bacterial regulatory protein,arsR family. Members of this family contains a DNA binding 'helix-turn-helix' motif.; Specificity unclear
YP_001221288.1	putative DNA-binding protein, putative excisionase (NP_825908.1| hypothetical protein SAV4731 [Streptomyces avermitilis MA-4680]; NP_334930.1| excisionase, putative [Mycobacterium tuberculosis CDC1551]). InterPro: Bacterial regulatory protein LacI family , weak similarity to: COG3311, AlpA, Predicted transcriptional regulator [Transcription].; Function unclear
YP_001221289.1	putative phosphoserine phosphatase (CAB55344.1| phosphoserine phosphatase [Streptomyces coelicolor A3(2)]; ZP_00227480.1| COG0560: Phosphoserine phosphatase [Kineococcus radiotolerans SRS30216]). InterPro: Haloacid dehalogenase/epoxide hydrolase family serB: phosphoserine phosphatase SerB. pfam00702, Hydrolase, haloacid dehalogenase-like hydrolase. This family includes L-2-haloacid dehalogenase, epoxide hydrolases and phosphatases.; High confidence in function and specificity
YP_001221290.1	putative thioredoxin (ZP_00227479.1| COG0526: Thiol-disulfide isomerase and thioredoxins [Kineococcus radiotolerans SRS30216]; CAB00934.1| CONSERVED HYPOTHETICAL PROTEIN [Mycobacterium tuberculosis H37Rv]). redox_disulf_1: redox-active disulfide; Function unclear
YP_001221291.1	Region created by contig update
YP_001221292.1	putative transcriptional regulator, LacI family (CAC49322.1| putative transcriptional regulator, LacI family protein [Sinorhizobium meliloti]; B65179 ribose operon repressor - Escherichia coli (strain K-12)). InterPro: Periplasmic binding proteins and sugar binding domain LacI family pfam00532, Peripla_BP_1, Periplasmic binding proteins and sugar binding domain of the LacI family.; Specificity unclear
YP_001221293.1	putative sugar MFS permease (CAD47863.1| putative inositol transport protein [Arthrobacter nicotinovorans]; NP_786681.1| sugar transport protein [Lactobacillus plantarum WCFS1]). pfam00083, Sugar_tr, Sugar (and other) transporter.; Specificity unclear
YP_001221294.1	putative hydrolase (NP_350247.1| Alpha/beta superfamily hydrolase [Clostridium acetobutylicum ATCC 824]; NP_623397.1| Hydrolases of the alpha/beta superfamily [Thermoanaerobacter tengcongensis]). InterPro: Esterase/lipase/thioesterase family active site pfam00561,Abhydrolase_1, alpha/beta hydrolase fold. This catalytic domain is found in a very wide range of enzymes.; Function unclear
YP_001221295.1	conserved hypothetical protein (NP_624916.1| conserved hypothetical protein SCF55.28c [Streptomyces coelicolor A3(2)]; NP_601589.2| hypothetical protein NCgl2305 [Corynebacterium glutamicum ATCC13032]).; Function unclear
YP_001221296.1	putative membrane protein (NP_978925.1| membrane protein, putative [Bacillus cereus ATCC 10987]; ZP_00228655.1| hypothetical protein Krad06001037 [Kineococcus radiotolerans SRS30216]).
YP_001221300.1	putative transcriptional regulator (NP_787856.1| transcriptional regulator [Tropheryma whipplei str. Twist]; ZP_00058848.1| COG1316: Transcriptional regulator [Thermobifida fusca]). lytR_cpsA_psr: cell envelope-related fu pfam03816, LytR_cpsA_psr, Cell envelope-related transcriptional attenuator domain.; Specificity unclear
YP_001221301.1	Aspartyl-tRNA synthetase (Aspartate-tRNA ligase) (NP_789687.1| aspartyl-tRNA synthetase [Tropheryma whipplei TW08/27]; NP_831934.1| Aspartyl-tRNA synthetase [Bacillus cereus ATCC 14579]). pfam01336, tRNA_anti, OB-fold nucleic acid binding domain. This family contains OB-fold domains that bind to nucleic acids. The family includes the anti-codon binding domain of lysyl, aspartyl,and asparaginyl-tRNA synthetases (See pfam00152). pfam00152, tRNA-synt_2, tRNA synthetases class II (D, K and N).; High confidence in function and specificity
YP_001221302.1	conserved hypothetical protein (ZP_00059424.1| COG1540: Uncharacterized proteins, homologs of lactam utilization protein B [Thermobifida fusca]; Q7MZI3|Y7A4_PHOLL Hypothetical UPF0271 protein plu4304). pfam03746, LamB_YcsF, LamB/YcsF family. The exact molecular function of the proteins in this family is unknown.; Function unclear
YP_001221303.1	putative allophanate hydrolase subunit (NP_534404.1| conserved hypothetical protein [Agrobacterium tumefaciens str. C58]; ZP_00125164.1| COG1984: Allophanate hydrolase subunit 2 [Pseudomonas syringae pv. syringae B728a]). pfam02682, AHS1,Allophanate hydrolase subunit 1.; Function unclear
YP_001221304.1	putative allophanate hydrolase subunit 2 (ZP_00059426.1| COG1984: Allophanate hydrolase subunit 2 [Thermobifida fusca]; ZP_00168285.1| COG1984: Allophanate hydrolase subunit 2 [Ralstonia eutropha JMP134]). pfam02626, AHS2, Allophanate hydrolase subunit 2. This domain forms the second subunit of allophanate hydrolase.; Specificity unclear
YP_001221305.1	putative membrane protein (NP_822890.1| hypothetical protein SAV1714 [Streptomyces avermitilis MA-4680]; ZP_00228318.1| COG1714: Predicted membrane protein/domain [Kineococcus radiotolerans SRS30216]).
YP_001221306.1	putative excinuclease ABC subunit, UvrA paralog (NP_625216.1| putative excinuclease ABC subunit A [Streptomyces coelicolor A3(2)]; ZP_00226049.1| COG0178: Excinuclease ATPase subunit [Kineococcus radiotolerans SRS30216]). The UvrABC repair system catalyzes the recognition and processing of DNA lesions. UvrA is an ATPase and a DNA-binding protein. A damage recognition complex composed of 2 uvrA and 2 uvrB subunits scans DNA for abnormalities. When the presence of a lesion has been verified by uvrB the uvrA molecules dissociate (By similarity).; Function unclear
YP_001221307.1	putative RNA polymerase sigma 70 factor (subfamily principal sigma factors) , InterPro: Sigma-70 factor family., pfam00140, Sigma70_r1_2, Sigma-70 factor, region 1.2., pfam04542, Sigma70_r2, Sigma-70 region 2. Region 2 of sigma-70 is the most conserved region of the entire protein. , pfam04539, Sigma70_r3, Sigma-70 region 3. ,pfam04545, Sigma70_r4, Sigma-70, region 4.; Specificity unclear
YP_001221308.1	putative phosphoglycerate mutase (NP_787883.1| phosphoglycerate mutase [Tropheryma whipplei str. Twist]; NP_628636.1| putative phosphoglycerate mutase [Streptomyces coelicolor A3(2)]). pfam00300, PGAM,Phosphoglycerate mutase family.; Specificity unclear
YP_001221309.1	putative thioredoxin, maybe involved in cytochrome C biogenesis (AAS20117.1| hypothetical protein [Arthrobacter aurescens]; ZP_00227205.1| COG0526: Thiol-disulfide isomerase and thioredoxins [Kineococcus radiotolerans SRS30216])., , InterPro: Thioredoxin, dsbE: periplasmic protein thiol:disulfide; Specificity unclear
YP_001221310.1	Cytochrome c-type biogenesis protein, membrane component (AAS20063.1| cytochrome biogenesis related protein [Arthrobacter aurescens]; NP_825976.1| putative cytochrome C biogenesis membrane protein [Streptomyces avermitilis MA-4680]). , , pfam02683, DsbD, Cytochrome C biogenesis protein transmembrane region. This family consists of the transmembrane (i.e. non-catalytic) region of Cytochrome C biogenesis proteins also known as disulphide interchange proteins.; High confidence in function and specificity
YP_001221311.1	putative cytochrome C biogenesis membrane protein (AAS20089.1| putative cytochrome c biogenesis membrane protein [Arthrobacter aurescens]; ZP_00227402.1| COG1333: ResB protein required for cytochrome c biosynthesis [Kineococcus radiotolerans SRS30216]). , , pfam05140,ResB, ResB-like family. This family includes both ResB and cytochrome c biogenesis proteins.; High confidence in function and specificity
YP_001221312.1	putative cytochrome c biogenesis protein, ABC transporter ATPase component(NP_789692.1| putative cytochrome biogenesis protein [Tropheryma whipplei TW08/27]; AAS20090.1| cytochrome biogenesis protein [Arthrobacter aurescens]). , , pfam01578, Cytochrom_C_asm,Cytochrome C assembly protein.; High confidence in function and specificity
YP_001221313.1	catalyzes the dehydration of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylic acid to form O-succinylbenzoate
YP_001221314.1	putative cytosine-specific DNA methylase (NP_927946.1| hypothetical protein [Photorhabdus luminescens subsp. laumondii TTO1]; NP_422420.1| DNA-cytosine methyltransferase [Caulobacter crescentus CB15]). , , pfam00145, DNA_methylase, C-5 cytosine-specific DNA methylase.; Specificity unclear
YP_001221315.1	hypothetical protein, , weak similarity to: pfam01541, GIY-YIG, GIY-YIG catalytic domain. This domain called GIY-YIG is found in the amino terminal region of excinuclease abc subunit c (uvrC), bacteriophage T4 endonucleases segA, segB, segC, segD and segE; it is also found in putative endonucleases encoded by group I introns of fungi and phage.
YP_001221316.1	catalyzes the formation of 1,4-dihydroxy-2-naphthoate from O-succinylbenzoyl-CoA
YP_001221317.1	O-succinylbenzoate-CoA ligase (NP_789066.1| O-succinylbenzoic acid--CoA ligase [Tropheryma whipplei TW08/27]; NP_599697.1| o-succinylbenzoate-CoA ligase [Corynebacterium glutamicum ATCC 13032]). Involved in menaquinone biosynthesis. pfam00501, AMP-binding, AMP-binding enzyme.; High confidence in function and specificity
YP_001221318.1	putative quinone oxidoreductase (NADPH:quinone reductase) (ZP_00137648.1| hypothetical protein Paer021788 [Pseudomonas aeruginosa UCBPP-PA14]; NP_721489.1| putative oxidoreductase [Streptococcus mutans UA159]). pfam00107, ADH_zinc_N, Zinc-binding dehydrogenase.; Specificity unclear
YP_001221319.1	putative transcriptional regulator, MarR family (NP_627620.1| putative transcriptional regulator [Streptomyces coelicolor A3(2)]; NP_800796.1| putative transcriptional regulator [Vibrio parahaemolyticus RIMD 2210633]). pfam01047, MarR, MarR family.; Specificity unclear
YP_001221320.1	putative ester cyclase (XP_386716.1| hypothetical protein FG06540.1 [Gibberella zeae PH-1]; NP_825174.1| hypothetical protein SAV3997 [Streptomyces avermitilis MA-4680]; ZP_00227684.1| COG5485: Predicted ester cyclase [Kineococcus radiotolerans SRS30216]).
YP_001221321.1	hypothetical protein (ZP_00161537.1| COG3237: Uncharacterized protein conserved in bacteria [Anabaena variabilis ATCC 29413])
YP_001221322.1	putative membrane protein (NP_600566.1| hypothetical membrane protein [Corynebacterium glutamicum ATCC 13032]).; Hypothetical protein
YP_001221323.1	putative NTP pyrophosphohydrolase (ZP_00292530.1| COG0494: NTP pyrophosphohydrolases including oxidative damage repair enzymes [Thermobifida fusca]; CAG22608.1| hypothetical protein [Photobacterium profundum]). pfam00293, NUDIX, NUDIX domain.; Function unclear
YP_001221324.1	putative acetyltransferase (NP_821878.1| putative acetyltransferase [Streptomyces avermitilis MA-4680]; NP_535242.1| acetyltransferase [Agrobacterium tumefaciens str. C58]). pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family. This family contains proteins with N-acetyltransferase functions.; Function unclear
YP_001221325.1	putative acetyltransferase (NP_821878.1| putative acetyltransferase [Streptomyces avermitilis MA-4680]; NP_535242.1| acetyltransferase [Agrobacterium tumefaciens str. C58]). pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family. This family contains proteins with N-acetyltransferase functions.; Function unclear
YP_001221326.1	catalyzes the formation of glutamate-1-semialdehyde from glutamyl-tRNA(Glu) and NADPH; the second step of the pathway is catalyzed by glutamate-1-semialdehyde aminomutase which results in the formation of 5-aminolevulinic acid; functions in porphyrin (tetrapyrroles) biosynthesis; the crystal structure showed a C-terminal dimerization domain that appears to be absent in Chlamydial proteins
YP_001221327.1	catalyzes the formation of coproporphyrinogen from uroporphyrinogen III
YP_001221328.1	protoporphyrinogen oxidase (YP_055020.1| putative protoporphyrinogen oxidase, HemY [Propionibacterium acnes KPA171202]; ZP_00294157.1| COG1232: Protoporphyrinogen oxidase [Thermobifida fusca]). InterPro: Protoporphyrinogen oxidase proto_IX_ox: protoporphyrinogen oxidase domain; High confidence in function and specificity
YP_001221329.1	conserved hypothetical protein (ZP_00226603.1| hypothetical protein Krad06003057 [Kineococcus radiotolerans SRS30216]; ZP_00293622.1| COG1179: Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Thermobifida fusca]).; Function unclear
YP_001221330.1	conserved membrane protein (ZP_00226140.1| hypothetical protein Krad06003872 [Kineococcus radiotolerans SRS30216]; NP_827521.1| putative integral membrane protein [Streptomyces avermitilis MA-4680]). pfam07332, DUF1469, Protein of unknown function (DUF1469). This family consists of several hypothetical bacterial proteins of around 140 residues in length. Members of the family seem to be found exclusively in Actinomycetes. The function of this family is unknown.; Conserved hypothetical protein
YP_001221332.1	conserved membrane protein (NP_960846.1| hypothetical protein MAP1912 [Mycobacterium avium subsp. paratuberculosis str. k10]; NP_822488.1| hypothetical protein SAV1313 [Streptomyces avermitilis MA-4680]).; Conserved hypothetical protein
YP_001221333.1	conserved hypothetical protein (NP_823314.1| hypothetical protein SAV2138 [Streptomyces avermitilis MA-4680]; CAB03711.1| CONSERVED HYPOTHETICAL PROTEIN [Mycobacterium tuberculosis H37Rv]). menD: 2-succinyl-6-hydroxy-24-cyclohexad
YP_001221334.1	conserved hypothetical protein (NP_630152.1| conserved hypothetical protein SC1B5.02 [Streptomyces coelicolor A3(2)]; ZP_00294158.1| COG3253: Uncharacterized conserved protein [Thermobifida fusca]). pfam06778, Chlor_dismutase, Chlorite dismutase. This family contains chlorite dismutase enzymes of bacterial and archaeal origin. This enzyme catalyses the disproportionation of chlorite into chloride and oxygen. Note that many family members are hypothetical proteins.
YP_001221335.1	protoheme ferro-lyase; catalyzes the insertion of a ferrous ion into protoporphyrin IX to form protoheme; involved in protoheme biosynthesis; in some organisms this protein is membrane-associated while in others it is cytosolic
YP_001221336.1	transformation of porphobilinogen to hydroxymethylbilane in porphyrin biosynthesis
YP_001221337.1	uroporphyrinogen-III synthase (NP_787859.1| uroporphyrinogen-III synthase-like protein [Tropheryma whipplei str. Twist]; CAD48147.1| uroporphyrinogen III synthase [Bacillus megaterium]). pfam02602, HEM4,Uroporphyrinogen-III synthase HemD. InterPro: Uroporphyrinogen III synthase HEM4; High confidence in function and specificity
YP_001221338.1	catalyzes the formation of porphobilinogen from 5-aminolevulinate
YP_001221339.1	Converts (S)-4-amino-5-oxopentanoate to 5-aminolevulinate during the porphyrin biosynthesis pathway
YP_001221340.1	putative DNA/RNA endonuclease (ZP_00227350.1| COG1864: DNA/RNA endonuclease G, NUC1 [Kineococcus radiotolerans SRS30216]; NP_792286.1| DNA/RNA non-specific endonuclease [Pseudomonas syringae pv. tomato str. DC3000]). pfam01223, Endonuclease_NS, DNA/RNA non-specific endonuclease.; Function unclear
YP_001221341.1	putative heme oxygenase (decyclizing) (ZP_00292306.1| COG5398: Heme oxygenase [Thermobifida fusca]; NP_827107.1| putative heme oxygenase [Streptomyces avermitilis MA-4680]). cd00232, HemeO, Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron,and carbon monoxide. InterPro: Heme oxygenase.; High confidence in function and specificity
YP_001221342.1	conserved membrane protein (ZP_00226497.1| COG3759: Predicted membrane protein [Kineococcus radiotolerans SRS30216]; NP_602268.1| hypothetical membrane protein [Corynebacterium glutamicum ATCC 13032]). pfam06993,DUF1304, Protein of unknown function (DUF1304). This family consists of several hypothetical bacterial proteins of around 120 residues in length. The function of this family is unknown.; Function unclear
YP_001221343.1	putative Zinc-dependant oxidoreductase/dehydrogenase (NP_601737.1| putative Zn-NADPH:quinone dehydrogenase [Corynebacterium glutamicum ATCC 13032]; ZP_00272074.1| COG0604: NADPH:quinone reductase and related Zn-dependent oxidoreductases [Ralstonia metallidurans CH34]). pfam00107, ADH_zinc_N,Zinc-binding dehydrogenase. InterPro: Zinc-containing alcohol dehydrogenase superfamily; Function unclear
YP_001221344.1	6-phosphofructokinase (fructose 6-phosphate 1-phosphotransferase) (ZP_00293787.1| COG0205: 6-phosphofructokinase [Thermobifida fusca]; PFP_AMYME Pyrophosphate--fructose 6-phosphate 1-phosphotransferase (6-phosphofructokinase, pyrophosphate dependent)(Pyrophosphate-dependent 6-phosphofructose-1-kinase)(PPi-dependent phosphofructokinase)). cd00763,Bacterial_PFK, Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate.; Specificity unclear
YP_001221345.1	kinase of unknown specificity (NP_733512.1| conserved hypothetical protein [Streptomyces coelicolor A3(2)]; ZP_00226595.1| COG1072: Panthothenate kinase [Kineococcus radiotolerans SRS30216]). may be Uridine kinase (EC 2.7.1.48) (Uridine monophosphokinase) (Cytidine monophosphokinase) COG0572, Udk, Uridine kinase [Nucleotide transport and metabolism], or Pantothenate kinase (EC 2.7.1.33). pfam00485, PRK, Phosphoribulokinase / Uridine kinase family. InterPro: ATP/GTP-binding site motif A (P-loop); Specificity unclear
YP_001221346.1	putative general stress protein (NP_637057.1| general stress protein [Xanthomonas campestris pv. campestris str. ATCC 33913]; NP_294870.1| general stress protein 26, putative [Deinococcus radiodurans R1]). pfam01243, Pyridox_oxidase, Pyridoxamine 5'-phosphate oxidase.; Function unclear
YP_001221347.1	putative DNA repair protein, putative DNA glycosylase (CAB07048.1| CONSERVED HYPOTHETICAL PROTEIN [Mycobacterium tuberculosis H37Rv]; NP_627260.1| conserved hypothetical protein SCE34.20 [Streptomyces coelicolor A3(2)]). pfam00730, HhH-GPD, HhH-GPD superfamily base excision DNA repair protein. This family contains a diverse range of structurally related DNA repair proteins.; Function unclear
YP_001221348.1	Region start changed from 686564 to 686546 (-18 bases)
YP_001221349.1	putative aldose-1-epimerase (NP_696523.1| hypothetical protein with possible aldose-1-epimerase domain [Bifidobacterium longum NCC2705]; YP_055725.1| putative aldose-1-epimerase [Propionibacterium acnes KPA171202]). pfam01263, Aldose_epim, Aldose 1-epimerase.; Specificity unclear
YP_001221350.1	conserved hypothetical protein (ZP_00198752.1| COG0346: Lactoylglutathione lyase and related lyases [Kineococcus radiotolerans SRS30216]; ZP_00293658.1| COG0346: Lactoylglutathione lyase and related lyases [Thermobifida fusca]). pfam00903, Glyoxalase,Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily.; Family membership
YP_001221351.1	putative transcriptional regulator, MarR family (NP_801192.1| transcriptional regulator, MarR family [Vibrio parahaemolyticus RIMD 2210633]; ZP_00058332.1| COG1846: Transcriptional regulators [Thermobifida fusca]). pfam01047, MarR, MarR family. The Mar proteins are involved in the multiple antibiotic resistance, a non-specific resistance system.; Specificity unclear
YP_001221353.1	putative levanase (26-beta-D-fructan fructanohydrolase) (XP_386627.1| hypothetical protein FG06451.1 [Gibberella zeae PH-1]; NP_348398.1| Levanase [Clostridium acetobutylicum ATCC 824]; BAC54106.1| 2,6-beta-D-fructan-6-levanbiohydrolase [Streptomyces exfoliatus]). pfam00251, Glyco_hydro_32, Glycosyl hydrolases family 32. InterPro: Glycoside hydrolase family 32 pfam00251, Glyco_hydro_32, Glycosyl hydrolases family 32.; Specificity unclear
YP_001221354.1	putative levansucrase (Beta-D-fructofuranosyl transferase) (BAB72022.1| beta-fructofuranosidase [Arthrobacter sp. K-1]; AAB36606.1| levansucrase precursor [Gluconacetobacter diazotrophicus]). RELEASES FRUCTOOLIGOSACCHARIDES AND LEVAN A HIGH- MOLECULAR-MASS FRUCTOSYL POLYMER FROM SUCROSE. IT ACTS MORE AS A SUCROSE HYDROLASE THAN AS A FRUCTAN POLYMERASE. pfam02435,Glyco_hydro_68, Levansucrase/Invertase. This Pfam family consists of the glycosyl hydrolase 68 family, including several bacterial levansucrase enzymes, and invertase from zymomonas.; High confidence in function and specificity
YP_001221355.1	hypothetical membrane protein (NP_625282.1| putative integral membrane protein [Streptomyces coelicolor A3(2)], ZP_00057087.1| hypothetical protein [Thermobifida fusca]).
YP_001221356.1	conserved hypothetical protein (NP_823510.1| hypothetical protein SAV2334 [Streptomyces avermitilis MA-4680]; ZP_00227010.1| hypothetical protein Krad06002197 [Kineococcus radiotolerans SRS30216]).; Function unclear
YP_001221357.1	conserved hypothetical protein, putative copper resistance protein (NP_789674.1| putative membrane protein [Tropheryma whipplei TW08/27]; ZP_00059215.1| COG2372: Uncharacterized protein, homolog of Cu resistance protein CopC [Thermobifida fusca]). pfam04234, CopC, Copper resistance protein CopC. CopC is a bacterial blue copper protein that binds 1 atom of copper per protein molecule. Along with CopA, CopC mediates copper resistance by sequestration of copper in the periplasm.; Function unclear
YP_001221358.1	putative transcriptional regulator, LysR-family (NP_599842.1| transcriptional regulator [Corynebacterium glutamicum ATCC 13032]; AAO65784.1| hypothetical DNA binding protein; SCN_3 [Streptomyces cinnamonensis]). pfam03466, LysR_substrate, LysR substrate binding domain. The structure of this domain is known and is; Specificity unclear
YP_001221359.1	bifunctional protein [Includes: Proline dehydrogenase (EC 1.5.99.8) (Proline oxidase); Delta-1-pyrroline-5-carboxylate dehydrogenase (EC 1.5.1.12) (P5C dehydrogenase)] (YP_055334.1| NAD-dependent aldehyde dehydrogenases [Propionibacterium acnes KPA171202]; CAF18667.1| PROLINE DEHYDROGENASE/DELTA-1-PYRROLINE-5-CARBOXYLATE DEHYDROGENASE [Corynebacterium glutamicum ATCC 13032]). , pfam01619, Pro_dh, Proline dehydrogenase. ,pfam00171, Aldedh, Aldehyde dehydrogenase family. This family of dehydrogenases act on aldehyde substrates. Members use NADP as a cofactor.; High confidence in function and specificity
YP_001221362.1	putative 4'-phosphopantetheinyl transferase (NP_832074.1| 4'-phosphopantetheinyl transferase [Bacillus cereus ATCC 14579]; NP_824369.1| putative phosphopantetheinyl transferase [Streptomyces avermitilis MA-4680]).; Specificity unclear
YP_001221363.1	putative metalloendopeptidase, family M1 (NP_827808.1| putative metallopeptidase [Streptomyces avermitilis MA-4680]; NP_938746.1| Putative metallopeptidase [Corynebacterium diphtheriae NCTC 13129]). pfam01433, Peptidase_M1, Peptidase family M1. Members of this family are aminopeptidases.; Function unclear
YP_001221364.1	non-ribosomal peptide synthase (CAF20734.1| NON-RIBOSOMAL PEPTIDE SYNTHETASE [Corynebacterium glutamicum ATCC 13032]; NP_827809.1| putative non-ribosomal peptide synthetase [Streptomyces avermitilis MA-4680]). domains: pfam00501, AMP-binding, AMP-binding enzyme; pfam00550, PP-binding, Phosphopantetheine attachment site. 2x COG0663,PaaY, Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily.; Specificity unclear
YP_001221365.1	putative transcriptional regulator, GntR family (NP_626001.1| putative gntR-family transcriptional regulator [Streptomyces coelicolor A3(2)]; ZP_00057983.1| COG1725: Predicted transcriptional regulators [Thermobifida fusca]). pfam00392, GntR, Bacterial regulatory proteins, gntR family. This domain comprises the N-terminal HTH-containing region of GntR-like bacterial transcription factors. At the C terminus there is usually an effector-binding/oligomerisation domain.; Specificity unclear
YP_001221366.1	Hypothetical protein
YP_001221367.1	putative cell-wall associated protein (ZP_00230281.1| wall-associated protein, putative [Listeria monocytogenes str. 4b H7858]; NP_977523.1| wall associated protein, putative [Bacillus cereus ATCC 10987]). C-terminal rhs-domain (Aa 1450-2070) ((AAC32486.1| RhsA [Streptomyces clavuligerus]; ZP_00251926.1| COG3209: Rhs family protein [Bacillus anthracis str. A1055]).; Function unclear
YP_001221368.1	putative transcriptional regulator, AsnC family (CAB02066.1| PROBABLE TRANSCRIPTIONAL REGULATORY PROTEIN (PROBABLY ASNC-FAMILY) [Mycobacterium tuberculosis H37Rv]; NP_625510.1| putative AsnC-family regulatory protein [Streptomyces coelicolor A3(2)]). related to leucine-responsive regulatory protein: MEDIATES A GLOBAL RESPONSE TO LEUCINE. EXOGENOUS LEUCINE AFFECTS THE EXPRESSION OF A NUMBER OF DIFFERENT OPERONS; LRP MEDIATES THIS EFFECT FOR AT LEAST SOME OF THESE OPERONS. FOR EXAMPLE IT IS REGULATOR OF THE BRANCHED-CHAIN AMINO ACID TRANSPORT GENES. pfam01037, AsnC_trans_reg, AsnC family. The AsnC family is a family of similar bacterial transcription regulatory proteins.; Specificity unclear
YP_001221370.1	putative ornithine aminotransferase ( NP_824597.1| putative ornithine aminotransferase [Streptomyces avermitilis MA-4680]; ZP_00058716.1| COG4992: Ornithine/acetylornithine aminotransferase [Thermobifida fusca]). pfam00202, Aminotran_3, Aminotransferase class-III.; High confidence in function and specificity
YP_001221373.1	putative permease, DMT family (YP_062089.1| integral membrane protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_938965.1| Putative membrane protein [Corynebacterium diphtheriae NCTC 13129]). pfam00892,DUF6, Integral membrane protein DUF6. This family includes many hypothetical membrane proteins of unknown function. InterPro: Integral membrane protein DUF6 2A78: Carboxylate/Amino Acid/Amine Tra; Specificity unclear
YP_001221375.1	putative NDP-sugar epimerase (ZP_00185910.1| hypothetical protein Rxyl332801 [Rubrobacter xylanophilus DSM 9941]; NP_103218.1| UDP-galactose 4-epimerase [Mesorhizobium loti MAFF303099]). pfam01370, Epimerase,NAD dependent epimerase/dehydratase family. This family of proteins utilise NAD as a cofactor. The proteins in this family use nucleotide-sugar substrates for a variety of chemical reactions.; Function unclear
YP_001221377.1	putative benzoate transporter, BenE family (NP_386459.1| PUTATIVE MEMBRANE TRANSPORT PROTEIN [Sinorhizobium meliloti 1021]; ZP_00225740.1| COG3135: Uncharacterized protein involved in benzoate metabolism [Kineococcus radiotolerans SRS30216]). pfam03594, BenE,Benzoate membrane transport protein. InterPro: Benzoate membrane transport protein benE: benzoate membrane transport prot MFS transporter, subfamily 14; Specificity unclear
YP_001221378.1	putative membrane metalloendopeptidase, subfamily M23B (YP_062953.1| cell wall binding protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00098490.1| COG0739: Membrane proteins related to metalloendopeptidases [Desulfitobacterium hafniense]; NP_693412.1| hypothetical protein OB2491 [Oceanobacillus iheyensis HTE831]). pfam01551, Peptidase_M37, Peptidase family M23/M37. Members of this family are zinc metallopeptidases with a range of specificities. The peptidase family M37 is included in this family, these are Gly-Gly endopeptidases. Peptidase family M23 are also endopeptidases. This family also includes some bacterial lipoproteins for which no proteolytic activity has been demonstrated.; Function unclear
YP_001221379.1	conserved hypothetical protein (ZP_00137144.2| COG2755: Lysophospholipase L1 and related esterases [Pseudomonas aeruginosa UCBPP-PA14]; ZP_00220463.1| COG2755: Lysophospholipase L1 and related esterases [Burkholderia cepacia R1808]).; Family membership
YP_001221380.1	conserved hypothetical prtoein (ZP_00192028.2| COG5637: Predicted integral membrane protein [Kineococcus radiotolerans SRS30216]; NP_821603.1| hypothetical protein SAV428 [Streptomyces avermitilis MA-4680]). surE: stationary-phase survival protein S
YP_001221382.1	putative membrane protein (NP_824620.1| hypothetical protein SAV3443 [Streptomyces avermitilis MA-4680]; ZP_00228318.1| COG1714: Predicted membrane protein/domain [Kineococcus radiotolerans SRS30216]). pfam06271, RDD, RDD family. This family of proteins contain three highly conserved amino acids: one arginine and two aspartates, hence the name of RDD family. This region contains two predicted transmembrane regions. The arginine occurs at the N terminus of the first helix and the first aspartate occurs in the middle of this helix. The molecular function of this region is unknown. However this region may be involved in transport of an as yet unknown set of ligands (Bateman A pers. obs.).
YP_001221383.1	putative NAD(P)H-dependent oxidoreductase (ZP_00227298.1| COG1902: NADH:flavin oxidoreductases, Old Yellow Enzyme family [Kineococcus radiotolerans SRS30216]; NP_737709.1| putative NAD(P)H-dependent 2-cyclohexen-1-one reductase [Corynebacterium efficiens YS-314]). pfam00724, Oxidored_FMN, NADH:flavin oxidoreductase / NADH oxidase family.; Function unclear
YP_001221384.1	putative two-component system, response regulator (ZP_00058730.1| COG2197: Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Thermobifida fusca]; NP_630354.1| putative two-component system response regulator [Streptomyces coelicolor A3(2)]). pfam00072, Response_reg, Response regulator receiver domain. pfam00196, GerE, Bacterial regulatory proteins, luxR family.; Specificity unclear
YP_001221385.1	putative two-component system sensor kinase (ZP_00226573.1| COG4585: Signal transduction histidine kinase [Kineococcus radiotolerans SRS30216]; NP_827214.1| putative two-component system sensor kinase [Streptomyces avermitilis MA-4680]; ZP_00058731.1| COG4585: Signal transduction histidine kinase [Thermobifida fusca]). pfam02518, HATPase_c, Histidine kinase-, DNA gyrase B-,and HSP90-like ATPase.; Specificity unclear
YP_001221386.1	putative membrane protein (NP_939424.1| Putative integral membrane protein [Corynebacterium diphtheriae]; NP_827987.1| putative membrane protein [Streptomyces avermitilis MA-4680]).; Hypothetical protein
YP_001221387.1	putative transcriptional regulator, TetR family (NP_959008.1| hypothetical protein MAP0074 [Mycobacterium avium subsp. paratuberculosis str. k10]; NP_629094.1| putative regulatory protein [Streptomyces coelicolor A3(2)]). pfam00440, TetR_N, Bacterial regulatory proteins,tetR family.; Specificity unclear
YP_001221388.1	putative efflux MFS permease (NP_825134.1| putative transport integral membrane protein [Streptomyces avermitilis MA-4680]; ZP_00189667.3| COG0477: Permeases of the major facilitator superfamily [Kineococcus radiotolerans SRS30216]).; Specificity unclear
YP_001221389.1	Hypothetical protein
YP_001221390.1	putative monooxygenase (NP_822331.1| putative monooxygenase [Streptomyces avermitilis MA-4680]; ZP_00227515.1| COG2141: Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Kineococcus radiotolerans SRS30216]). pfam00296, Bac_luciferase,Luciferase-like monooxygenase.; Function unclear
YP_001221391.1	putative monooxygenase (NP_822331.1| putative monooxygenase [Streptomyces avermitilis MA-4680]; ZP_00227515.1| COG2141: Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Kineococcus radiotolerans SRS30216]). pfam00296, Bac_luciferase,Luciferase-like monooxygenase. InterPro: Bacterial luciferase; Function unclear
YP_001221392.1	putative Zn-dependant quinone oxidoreductase (ZP_00227353.1| COG0604: NADPH:quinone reductase and related Zn-dependent oxidoreductases [Kineococcus radiotolerans SRS30216]; NP_215970.1| qor [Mycobacterium tuberculosis H37Rv]). pfam00107, ADH_zinc_N, Zinc-binding dehydrogenase.; Specificity unclear
YP_001221393.1	Cysteine synthase chloroplast precursor (O-acetylserine sulfhydrylase) (O-acetylserine (Thiol)-lyase) (NP_739056.1| putative cysteine synthase [Corynebacterium efficiens YS-314]; NP_903231.1| cysteine synthase [Chromobacterium violaceum ATCC 12472]). pfam00291, PALP,Pyridoxal-phosphate dependent enzyme. InterPro: Pyridoxal-5-phosphate-dependent enzymes beta family; High confidence in function and specificity
YP_001221394.1	putative serine O-acetyltransferase (YP_061730.1| serine O-acetyltransferase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_940228.1| serine acetyltransferase [Corynebacterium diphtheriae NCTC 13129]).; High confidence in function and specificity
YP_001221395.1	putative RNA methyltransferase (RNA methylase) (YP_063092.1| tRNA/rRNA methyltransferase [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00293932.1| COG0566: rRNA methylases [Thermobifida fusca]). pfam00588,SpoU_methylase, SpoU rRNA Methylase family. This family of proteins probably use S-AdoMet. rRNA_methyl_2: RNA methyltransferase T.; Specificity unclear
YP_001221396.1	conserved hypothetical protein (NP_631271.1| conserved hypothetical protein [Streptomyces coelicolor A3(2)]; ZP_00229139.1| COG2320: Uncharacterized conserved protein [Kineococcus radiotolerans SRS30216]). pfam04229,UPF0157, Uncharacterised protein family (UPF0157). Also known as GrpB.; Function unclear
YP_001221397.1	hypothetical protein (NP_626702.1| hypothetical protein SCC24.30c [Streptomyces coelicolor A3(2)]).
YP_001221398.1	putative endoribonuclease (NP_733554.1| conserved hypothetical protein [Streptomyces coelicolor A3(2)]; NP_771770.1| bll5130 [Bradyrhizobium japonicum USDA 110]). pfam01042, Ribonuc_L-PSP, Endoribonuclease L-PSP. Endoribonuclease active on single-stranded mRNA. Inhibits protein synthesis by cleavage of mRNA. Previously thought to inhibit protein synthesis initiation. This protein may also be involved in the regulation of purine biosynthesis.; Function unclear
YP_001221399.1	putative adenosine deaminase (Adenosine aminohydrolase 3) (NP_826754.1| putative adenosine deaminase [Streptomyces avermitilis MA-4680]; YP_062278.1| adenosine deaminase protein [Leifsonia xyli subsp. xyli str. CTCB07]). pfam00962, A_deaminase,Adenosine/AMP deaminase. InterPro: Adenosine and AMP deaminase; High confidence in function and specificity
YP_001221401.1	conserved hypothetical protein (NP_627580.1| putative large ATP-binding protein [Streptomyces coelicolor A3(2)]; ZP_00162995.2| COG1413: FOG: HEAT repeat [Anabaena variabilis ATCC 29413]). COG5635,Predicted NTPase (NACHT family) [Signal transduction mechanisms]. pfam05729, NACHT, NACHT domain. This NTPase domain is found in apoptosis proteins as well as those involved in MHC transcription activation. This family is closely related to pfam00931.; Function unclear
YP_001221402.1	NADP-dependent alcohol dehydrogenase (ZP_00226305.1| COG1064: Zn-dependent alcohol dehydrogenases [Kineococcus radiotolerans SRS30216]; CAC35017.1| alcohol dehydrogenase, class C [Mycobacterium smegmatis]). pfam00107, ADH_zinc_N, Zinc-binding dehydrogenase. InterPro: Zinc-containing alcohol dehydrogenase superfamily pfam00107, ADH_zinc_N, Zinc-binding dehydrogenase.; Specificity unclear
YP_001221403.1	putative carboxylesterase, type B (P37967|PNBA_BACSU Para-nitrobenzyl esterase (PNB carboxy-esterase) (PNBCE); NP_628470.1| putative carboxylesterase [Streptomyces coelicolor A3(2)]). pfam00135, COesterase,Carboxylesterase.; Specificity unclear
YP_001221404.1	putative transcriptional regulator, MerR family (BAD30046.1| hypothetical protein [Rhodococcus opacus]; ZP_00084416.1| COG0789: Predicted transcriptional regulators [Pseudomonas fluorescens PfO-1]; NP_890689.1| putative MerR-family transcriptional regulator [Bordetella bronchiseptica RB50]). pfam00376, MerR, MerR family regulatory protein., binding; Specificity unclear
YP_001221405.1	ferredoxin (YP_062518.1| ferredoxin [Leifsonia xyli subsp. xyli str. CTCB07]; NP_787703.1| ferredoxin [Tropheryma whipplei str. Twist]; NP_629284.1| ferredoxin [Streptomyces coelicolor A3(2)]). pfam00037, Fer4, 4Fe-4S binding domain. Superfamily includes proteins containing domains which bind to iron-sulfur clusters. Members include bacterial ferredoxins, various dehydrogenases, and various reductases.; High confidence in function and specificity
YP_001221406.1	putative flavin-dependant reductase (NP_822657.1| putative flavin-dependent reductase [Streptomyces avermitilis MA-4680]; AAC38226.1| NADH-dependent FMN oxydoreductase [Rhodococcus erythropolis]). pfam01613,Flavin_Reduct, Flavin reductase like domain. This is a flavin reductase family consisting of enzymes known to be flavin reductases as well as various oxidoreductase and monooxygenase components.; Specificity unclear
YP_001221407.1	putative secreted phosphoesterase (NP_631671.1| putative secreted protein [Streptomyces coelicolor A3(2)]; ZP_00199472.2| COG1409: Predicted phosphohydrolases [Kineococcus radiotolerans SRS30216]; AAO54034.1| Ser/Thr protein phosphatase family protein [Pseudomonas syringae pv. tomato str. DC3000]). pfam00149,Metallophos, Calcineurin-like phosphoesterase. This family includes a diverse range of phosphoesterases.; Function unclear
YP_001221408.1	conserved hypothetical protein, putative phosphohydrolase (AAN85489.1| putative cyanamide hydratase [Streptomyces atroolivaceus]; ZP_00170298.2| COG1418: Predicted HD superfamily hydrolase [Ralstonia eutropha JMP134]). pfam01966, HD, HD domain. HD domains are metal dependent phosphohydrolases.; Function unclear
YP_001221411.1	conserved membrane protein (YP_063090.1| membrane protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_827281.1| putative membrane protein [Streptomyces avermitilis MA-4680]; NP_939709.1| Putative membrane protein [Corynebacterium diphtheriae NCTC 13129]). weak similarities to: pfam01061, ABC2_membrane, ABC-2 type transporter; and pfam00015, MCPsignal, Methyl-accepting chemotaxis protein (MCP) signaling domain. This domain is thought to transduce the signal to CheA since it is highly conserved in very diverse MCPs.; Function unclear
YP_001221412.1	hypothetical protein with ATPase domain (CAF21648.1| conserved hypothetical protein [Corynebacterium glutamicum ATCC 13032]; ZP_00225487.1| COG1131: ABC-type multidrug transport system, ATPase component [Kineococcus radiotolerans SRS30216]).; Function unclear
YP_001221413.1	putative transcriptional regulator, TetR-family (YP_063089.1| transcriptional regulator, TetR family [Leifsonia xyli subsp. xyli str. CTCB07]; NP_823990.1| hypothetical protein SAV2814 [Streptomyces avermitilis MA-4680]; NP_768856.1| transcriptional regulatory protein [Bradyrhizobium japonicum]). pfam00440, TetR_N, Bacterial regulatory proteins, tetR family.; Specificity unclear
YP_001221414.1	putative transcriptional regulator, AraC family (NP_519953.1| PROBABLE TRANSCRIPTION REGULATOR PROTEIN [Ralstonia solanacearum GMI1000]; NP_962164.1| hypothetical protein MAP3230c [Mycobacterium avium subsp. paratuberculosis str. k10]). smart00342, HTH_ARAC,helix_turn_helix, arabinose operon control protein. COG4977, Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Specificity unclear
YP_001221415.1	Hypothetical protein
YP_001221416.1	putative dsDNA exonuclease subunit (NP_828232.1| putative exonuclease [Streptomyces avermitilis MA-4680]; AE1643 ATP-dependent dsDNA exonuclease SbcC homolog sbcC [imported] -Listeria innocua (strain Clip11262)). SbcCD cleaves DNA hairpin structures. These structures can inhibit DNA replication and are intermediates in certain DNA recombination reactions. The complex acts as a 3->5 double strand exonuclease that can open hairpins. It also has a 5 single-strand endonuclease activity (By similarity).; High confidence in function and specificity
YP_001221417.1	putative dsDNA exonuclease subunit (NP_625587.1| putative exonuclease [Streptomyces coelicolor A3(2)]; NP_800533.1| putative exonuclease SbcD [Vibrio parahaemolyticus RIMD 2210633]). SbcCD cleaves DNA hairpin structures. These structures can inhibit DNA replication and are intermediates in certain DNA recombination reactions. The complex acts as a 3->5 double strand exonuclease that can open hairpins. It also has a 5 single-strand endonuclease activity. InterPro: DNA repair exonuclease sbcd: exonuclease SbcD; High confidence in function and specificity
YP_001221418.1	putative serine/threonine-protein kinase (NP_630756.1| putative serine/threonine protein kinase [Streptomyces coelicolor A3(2)]; NP_345802.1| conserved hypothetical protein [Streptococcus pneumoniae TIGR4]). pfam00069, Pkinase, Protein kinase domain. smart00220,S_TKc, Serine/Threonine protein kinases, catalytic domain; Phosphotransferases. Serine or threonine-specific kinase subfamily.; Function unclear
YP_001221419.1	putative acetyltransferase (NP_979782.1| acetyltransferase, GNAT family [Bacillus cereus ATCC 10987]; ZP_00200227.1| COG1670: Acetyltransferases,including N-acetylases of ribosomal proteins [Rubrobacter xylanophilus DSM 9941]).; Function unclear
YP_001221420.1	putative acyl-CoA ligase/aldehyde dehydrogenase contains two domains: N-terminal: CoA ligase (COG0318,CaiC, Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II ; pfam00501, AMP-binding, AMP-binding enzyme; ZP_00170177.2| COG0318: Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Ralstonia eutropha JMP134]; ZP_00029907.1| COG0318: Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Burkholderia fungorum]). C-terminal: Dehydrogenase (COG1012, PutA, NAD-dependent aldehyde dehydrogenases; CAC38029.1| aldehyde dehydrogenase [Alcanivorax borkumensis]; ZP_00080991.1| COG1012: NAD-dependent aldehyde dehydrogenases [Geobacter metallireducens]).; Specificity unclear
YP_001221421.1	3-oxoacyl-[acyl-carrier-protein] synthase (Beta-ketoacyl-ACP synthase) (ZP_00331147.1| COG0304: 3-oxoacyl-(acyl-carrier-protein) synthase [Moorella thermoacetica ATCC 39073]; ZP_00289321.1| COG0304: 3-oxoacyl-(acyl-carrier-protein) synthase [Magnetococcus sp. MC-1])., ,CATALYZES THE CONDENSATION REACTION OF FATTY ACID SYNTHESIS BY THE ADDITION TO AN ACYL ACCEPTOR OF TWO CARBONS FROM MALONYL-ACP. HAS A PREFERENCE FOR SHORT CHAIN ACID SUBSTRATES., , pfam00109, ketoacyl-synt, Beta-ketoacyl synthase, N-terminal domain. pfam02801, Ketoacyl-synt_C, Beta-ketoacyl synthase, C-terminal domain. fabH: 3-oxoacyl-(acyl-carrier-protein); High confidence in function and specificity
YP_001221422.1	putative acetolactate synthase large subunit (Acetohydroxy-acid synthase large subunit) (YP_052316.1| acetolactate synthase isozyme II large subunit [Erwinia carotovora subsp. atroseptica SCRI1043]; NP_931847.1| acetolactate synthase isozyme II large subunit (AHAS-II) (acetohydroxy-acid synthase II large subunit) (ALS-II)[Photorhabdus luminescens subsp. laumondii TTO1]. pfam02776, TPP_enzyme_N, Thiamine pyrophosphate enzyme, N-terminal TPP binding domain. pfam00205, TPP_enzyme_M,Thiamine pyrophosphate enzyme, central domain. pfam02775,TPP_enzyme_C, Thiamine pyrophosphate enzyme, C-terminal TPP binding domain.; High confidence in function and specificity
YP_001221423.1	putative pantothenate metabolism flavoprotein (|AAD21550.1| pantothenate metabolism flavoprotein [Zymomonas mobilis]; ZP_00318608.1| COG0452: Phosphopantothenoylcysteine synthetase/decarboxylase [Oenococcus oeni PSU-1]). pfam02441, Flavoprotein,Flavoprotein. This family contains diverse flavoprotein enzymes.; Function unclear
YP_001221424.1	putative antimicrobial peptide ABC transporter, ATP-binding protein (NP_815381.1| ABC transporter, ATP-binding protein [Enterococcus faecalis V583]; ZP_00283781.1| COG1136: ABC-type antimicrobial peptide transport system,ATPase component [Burkholderia fungorum LB400]). pfam00005, ABC_tran, ABC transporter. InterPro: AAA ATPase superfamily.; Specificity unclear
YP_001221425.1	putative antimicrobial peptide ABC transporter,permease component (NP_815380.1| permease protein,putative [Enterococcus faecalis V583]; ZP_00227187.1| COG0577: ABC-type antimicrobial peptide transport system,permease component [Kineococcus radiotolerans SRS30216]).; Specificity unclear
YP_001221426.1	hypothetical membrane protein (NP_960625.1| hypothetical protein MAP1691c [Mycobacterium avium subsp. paratuberculosis str. k10]; CAF19632.1| putative membrane protein [Corynebacterium glutamicum ATCC 13032]). only very weak similarity to: pfam02683, DsbD, Cytochrome C biogenesis protein transmembrane region.
YP_001221427.1	putative short-chain alcohol oxidoreductase (NP_103147.1| oxidoreductase of short-chain [Mesorhizobium loti MAFF303099]; ZP_00227341.1| COG1028: Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Kineococcus radiotolerans SRS30216]). pfam00106, adh_short, short chain dehydrogenase. This family contains a wide variety of dehydrogenases.; Function unclear
YP_001221428.1	conserved hypothetical protein (NP_825702.1| hypothetical protein SAV4525 [Streptomyces avermitilis MA-4680]; NP_962798.1| hypothetical protein MAP3864 [Mycobacterium avium subsp. paratuberculosis str. k10]).
YP_001221429.1	catalyzes the formation of N6-(1,2,-dicarboxyethyl)-AMP from L-aspartate, inosine monophosphate and GTP in AMP biosynthesis
YP_001221431.1	putative transcriptional regulator, MarR family (NP_631735.1| putative marR-family transcriptional regulator [Streptomyces coelicolor A3(2)]; CAA98363.1| PROBABLE TRANSCRIPTIONAL REGULATORY PROTEIN [Mycobacterium tuberculosis H37Rv]). pfam01047, MarR, MarR family. The Mar proteins are involved in the multiple antibiotic resistance, a non-specific resistance system.; Specificity unclear
YP_001221432.1	conserved hypothetical protein (NP_631734.1| hypothetical protein [Streptomyces coelicolor A3(2)]; NP_532221.1| glyoxalase/bleomycin resistance protein/dioxygenase superfamily protein [Agrobacterium tumefaciens str. C58]). pfam00903, Glyoxalase,Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily. InterPro: Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily.; Function unclear
YP_001221434.1	putative ATP/GTP binding protein (NP_625858.1| ATP/GTP binding protein [Streptomyces coelicolor A3(2)]; NP_814788.1| tunicamycin resistance protein, putative [Enterococcus faecalis V583]).; Conserved hypothetical protein
YP_001221435.1	conserved hypothetical protein (NP_738977.1| hypothetical protein [Corynebacterium efficiens YS-314]; NP_903029.1| conserved hypothetical protein [Chromobacterium violaceum ATCC 12472]). pfam04940, BLUF,Sensors of blue-light using FAD. The BLUF domain has been shown to bind FAD in the AppA protein.
YP_001221436.1	putative hydrolase (NP_824275.1| putative hydrolase [Streptomyces avermitilis MA-4680]; ZP_00057512.1| COG0596: Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [Thermobifida fusca]). pfam00561, Abhydrolase_1, alpha/beta hydrolase fold. This catalytic domain is found in a very wide range of enzymes.; Function unclear
YP_001221437.1	putative transcriptional regulator, Cro/CI family (NP_656871.1| HTH_XRE, Helix-turn-helix XRE-family like proteins [Bacillus anthracis A2012]; ZP_00035555.2| hypothetical protein Efae020552 [Enterococcus faecium]). pfam01381, HTH_3, Helix-turn-helix. This large family of DNA binding helix-turn helix proteins includes Cro and CI. InterPro: Helix-turn-helix motif; Specificity unclear
YP_001221439.1	two component system, sensor kinase (NP_960156.1| hypothetical protein MAP1222 [Mycobacterium avium subsp. paratuberculosis str. k10]; NP_951511.1| sensor histidine kinase [Geobacter sulfurreducens PCA]; NP_739103.1| putative sensor kinase [Corynebacterium efficiens YS-314]). pfam00672, HAMP, HAMP domain. pfam02518, HATPase_c,Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase.; Function unclear
YP_001221440.1	putative two-component system response regulator (NP_960155.1| hypothetical protein MAP1221 [Mycobacterium avium subsp. paratuberculosis str. k10]; ZP_00225501.1| COG0745: Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Kineococcus radiotolerans SRS30216]). pfam00072,Response_reg, Response regulator receiver domain. This domain receives the signal from the sensor partner in bacterial two-component systems. pfam00486, Trans_reg_C,Transcriptional regulatory protein, C terminal. InterPro: Response regulator receiver domain.; Function unclear
YP_001221442.1	putative acetyltransferase (AAC03422.1| unknown [Myxococcus xanthus]; NP_711398.1| probable Acetyltransferase, GNAT family protein [Leptospira interrogans serovar lai str. 56601]). pfam00583,Acetyltransf_1, Acetyltransferase (GNAT) family. This family contains proteins with N-acetyltransferase functions.; Function unclear
YP_001221445.1	conserved hypothetical protein (NP_243026.1| BH2160~unknown conserved protein [Bacillus halodurans]; NP_691431.1| hypothetical protein OB0510 [Oceanobacillus iheyensis HTE831]). pfam00903, Glyoxalase,Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily.; Function unclear
YP_001221446.1	putative beta lactamase/penicillin-binding protein (NP_832928.1| Penicillin-binding protein [Bacillus cereus ATCC 14579]; NP_335363.1| penicillin-binding protein 4 [Mycobacterium tuberculosis CDC1551]). pfam00144, Beta-lactamase, Beta-lactamase. This family appears to be distantly related to pfam00905 and pfam00768 D-alanyl-D-alanine carboxypeptidase.; Function unclear
YP_001221447.1	putative two-component system, sensor kinase (NP_627597.1| putative two component sensor kinase [Streptomyces coelicolor A3(2)]; ZP_00294209.1| COG4585: Signal transduction histidine kinase [Thermobifida fusca]). pfam02518, HATPase_c, Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase. InterPro: Histidine kinase- DNA gyrase B- phytochrome-like ATPase.; Specificity unclear
YP_001221448.1	putative two-component system response regulator (ZP_00227053.1| COG2197: Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Kineococcus radiotolerans SRS30216]; NP_625364.1| putative two component system response regulator [Streptomyces coelicolor A3(2)]). pfam00072, Response_reg,Response regulator receiver domain. This domain receives the signal from the sensor partner in bacterial two-component systems. It is usually found N-terminal to a DNA binding effector domain. pfam00196, GerE, Bacterial regulatory proteins, luxR family.; Specificity unclear
YP_001221449.1	stress-induced protein, putative organic hydroperoxide resistance protein (CNP_599276.2| stress-induced protein [Corynebacterium glutamicum ATCC 13032]; YP_055293.1| stress-induced protein [Propionibacterium acnes KPA171202]). pfam02566, OsmC, OsmC-like protein. Osmotically inducible protein C (OsmC) is a stress -induced protein found in E. Coli. This family also contains a organic hydroperoxide detoxification protein that has a novel pattern of oxidative stress regulation.; Function unclear
YP_001221450.1	putative chorismate mutase (YP_063084.1| chorismate mutase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_626280.1| putative chorismate mutase [Streptomyces coelicolor A3(2)]). pfam01817, Chorismate_mut, Chorismate mutase. InterPro: Chorismate mutase; High confidence in function and specificity
YP_001221451.1	conserved hypothetical protein (ZP_00189995.2| COG0189: Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Kineococcus radiotolerans SRS30216]; NP_860745.1| conserved hypothetical protein [Helicobacter hepaticus ATCC 51449]). rimK_fam: S6 modification enzyme RimK fa
YP_001221452.1	conserved hypothetical protein (NP_822654.1| hypothetical protein [Streptomyces avermitilis MA-4680]; NP_691380.1| hypothetical protein OB0459 [Oceanobacillus iheyensis HTE831]). pfam03372, Exo_endo_phos,Endonuclease/Exonuclease/phosphatase family. This large family of proteins includes magnesium dependent endonucleases and a large number of phosphatases involved in intracellular signalling.; Family membership
YP_001221453.1	conserved hypothetical protein (CAF18943.1| putative secreted protein [Corynebacterium glutamicum ATCC 13032]; NP_662037.1| conserved hypothetical protein [Chlorobium tepidum TLS]).; Function unclear
YP_001221454.1	hypothetical protein (ZP_00120551.1| hypothetical protein [Bifidobacterium longum DJO10A]; ZP_00199275.1| hypothetical protein Krad06001109 [Kineococcus radiotolerans SRS30216]).
YP_001221455.1	conserved membrane protein, putative polysaccharide polymerase (only weak similarities: AAC45844.1| putative O-antigen polymerase [Escherichia coli]) may be involved in EPS biosynthesis; Hypothetical protein
YP_001221456.1	putative pyruvyl-transferase (NP_830681.1| putative pyruvyl- transferase [Bacillus cereus ATCC 14579]; CAB92958.1| putative pyruvyl-transferase [Thermoanaerobacter thermohydrosulfuricus]). pfam04230,PS_pyruv_trans, Polysaccharide pyruvyl transferase. Pyruvyl-transferases involved in peptidoglycan-associated polymer biosynthesis. weak similarity to: COG2327, WcaK,Uncharacterized conserved protein [Function unknown].; Conserved hypothetical protein
YP_001221457.1	putative membrane protein may be involved in the biosynthesis of EPS. weak similarity to: COG2244, RfbX,Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only], and pfam01943, Polysacc_synt, Polysaccharide biosynthesis protein. Members of this family are integral membrane proteins. Many members of the family are implicated in production of polysaccharide.; Hypothetical protein
YP_001221458.1	putative mannosyltransferase (ZP_00033687.1| COG0438: Glycosyltransferase [Burkholderia fungorum]; AAF04384.1| WbdB; mannosyl transferase B [Klebsiella pneumoniae]). pfam00534, Glycos_transf_1, Glycosyl transferases group 1. Members of this family transfer activated sugars to a variety of substrates, including glycogen, Fructose-6-phosphate and lipopolysaccharides. Members of this family transfer UDP, ADP, GDP or CMP linked sugars; Specificity unclear
YP_001221459.1	putative glycosyltransferase (ZP_00226742.1| COG0438: Glycosyltransferase [Kineococcus radiotolerans SRS30216]; NP_924472.1| probable glycosyltransferase [Gloeobacter violaceus]; BAA94399.1| mannosyl transferase [Actinobacillus actinomycetemcomitans]). pfam00534,Glycos_transf_1, Glycosyl transferases group 1. Members of this family transfer activated sugars to a variety of substrates, including glycogen, Fructose-6-phosphate and lipopolysaccharides. Members of this family transfer UDP,ADP, GDP or CMP linked sugars.; Specificity unclear
YP_001221460.1	putative undecaprenyl-phosphate galactosephosphotransferase (ZP_00228118.1| COG2148: Sugar transferases involved in lipopolysaccharide synthesis [Kineococcus radiotolerans SRS30216]; NP_624703.1| putative glycosyl transferase [Streptomyces coelicolor A3(2)]; NP_695455.1| undecaprenyl-phosphate sugar phosphotransferase [Bifidobacterium longum NCC2705]). pfam02397, Bac_transf, Bacterial sugar transferase. InterPro: Bacterial sugar transferase.; High confidence in function and specificity
YP_001221461.1	putative protein-tyrosine-phosphatase (NP_599596.1| protein-tyrosine-phosphatase [Corynebacterium glutamicum ATCC 13032]; NP_695454.1| hypothetical protein with possible low molecular weight protein-tyrosine-phosphatase domain [Bifidobacterium longum NCC2705]). pfam01451,LMWPc, Low molecular weight phosphotyrosine protein phosphatase.; Specificity unclear
YP_001221462.1	putative capsular polysaccharide biosynthesis protein, putative protein tyrosine kinase (CAF19058.1| cell surface polysaccharide biosynthesis / Chain length determinant protein [Corynebacterium glutamicum ATCC 13032]; NP_696399.1| possible Etk-like tyrosine kinase involved in Eps biosynthesis [Bifidobacterium longum NCC2705]). two domains. N-terminal: COG3944, Capsular polysaccharide biosynthesis protein; pfam02706, Wzz, Chain length determinant protein. This family includes proteins involved in lipopolysaccharide (lps) biosynthesis. This family comprises the whole length of chain length determinant protein (or wzz protein) that confers a modal distribution of chain length on the O-antigen component of lps. This region is also found as part of bacterial tyrosine kinases. C-terminal: COG0489, Mrp, ATPases involved in chromosome partitioning; Function unclear
YP_001221463.1	putative acyltransferase (ZP_00057849.1| COG1835: Predicted acyltransferases [Thermobifida fusca]; CAF19073.1| PROBABLE LIPOPOLYSACCHARIDE MODIFICATION ACYLTRANS [Corynebacterium glutamicum ATCC 13032]). potentially involved in the biosynthesis of (Exo)polysaccharides. pfam01757, Acyl_transf_3,Acyltransferase family. This family includes a range of acyltransferase enzymes.; Family membership
YP_001221464.1	putative acyltransferase (NP_626735.1| putative membrane protein [Streptomyces coelicolor A3(2)]; NP_102483.1| probable lipopolysaccharide modification acyltransferase [Mesorhizobium loti MAFF303099]). pfam01757, Acyl_transf_3, Acyltransferase family. This family includes a range of acyltransferase enzymes.; Specificity unclear
YP_001221465.1	putative esterase (only weak similarities,ZP_00071593.1| COG2755: Lysophospholipase L1 and related esterases [Trichodesmium erythraeum IMS101]; NP_809482.1| conserved hypothetical protein [Bacteroides thetaiotaomicron VPI-5482]). pfam00657, Lipase_GDSL, GDSL-like Lipase/Acylhydrolase.; Family membership
YP_001221466.1	conserved hypothetical protein (NP_822654.1| hypothetical protein [Streptomyces avermitilis MA-4680]; NP_737707.1| conserved hypothetical protein [Corynebacterium efficiens YS-314]). pfam03372,Exo_endo_phos, Endonuclease/Exonuclease/phosphatase family. This large family of proteins includes magnesium dependent endonucleases and a large number of phosphatases involved in intracellular signalling.; Function unclear
YP_001221467.1	putative dienelactone hydrolase (NP_967924.1| dienelactone hydrolase family protein [Bdellovibrio bacteriovorus HD100]; NP_866914.1| probable dienelactone hydrolase [Pirellula sp. 1]). pfam01738, DLH, Dienelactone hydrolase family. InterPro: Dienelactone hydrolase.; Family membership
YP_001221468.1	catalyzes the formation of 2-(formamido)-N1-(5-phospho-D-ribosyl)acetamidine from N2-formyl-N1-(5-phospho-D-ribosyl)glycinamide and L-glutamine in purine biosynthesis
YP_001221469.1	catalyzes the formation of 2-(formamido)-N1-(5-phospho-D-ribosyl)acetamidine from N2-formyl-N1-(5-phospho-D-ribosyl)glycinamide and L-glutamine in purine biosynthesis
YP_001221470.1	putative phosphoribosylformylglycinamidine (FGAM) synthase component (ZP_00197960.1| COG1828: Phosphoribosylformylglycinamidine (FGAM) synthase, PurS component [Kineococcus radiotolerans SRS30216]; ZP_00292269.1| COG1828: Phosphoribosylformylglycinamidine (FGAM) synthase, PurS component [Thermobifida fusca]). pfam02700, PurC, Phosphoribosylformylglycinamidine (FGAM) synthase. This family forms a component of the de novo purine biosynthesis pathway.; High confidence in function and specificity
YP_001221471.1	conserved hypothetical protein, putative isomerase (ZP_00227845.1| COG0179: 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Kineococcus radiotolerans SRS30216]; AAP42849.1| NanT2 [Streptomyces nanchangensis]; NP_889535.1| hypothetical protein BB2999 [Bordetella bronchiseptica RB50]).; Function unclear
YP_001221472.1	putative MFS permease (ZP_00227844.1| COG0477: Permeases of the major facilitator superfamily [Kineococcus radiotolerans SRS30216]; AAP42848.1| NanT1 [Streptomyces nanchangensis]). pfam00083, Sugar_tr, Sugar (and other) transporter. TIGRFAM (TIGR00883): metabolite:proton symporter family protein; Specificity unclear
YP_001221473.1	putative transcriptional regulator, GntR-family (ZP_00227843.1| COG1802: Transcriptional regulators [Kineococcus radiotolerans SRS30216]; NP_627999.1| putative gntR-family transcriptional regulator [Streptomyces coelicolor A3(2)]). pfam00392, GntR,Bacterial regulatory proteins, gntR family.; Specificity unclear
YP_001221474.1	putative amidohydrolase (NP_302587.1| putative hydrolase [Mycobacterium leprae]; ZP_00227842.1| COG0388: Predicted amidohydrolase [Kineococcus radiotolerans SRS30216]). pfam00795, CN_hydrolase, Carbon-nitrogen hydrolase. This family contains hydrolases that break carbon-nitrogen bonds.; Function unclear
YP_001221475.1	putative oxidoreductase (NP_960686.1| hypothetical protein MAP1752c [Mycobacterium avium subsp. paratuberculosis str. k10]; ZP_00107451.1| COG0667: Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Nostoc punctiforme]). pfam00248,Aldo_ket_red, Aldo/keto reductase family.; Function unclear
YP_001221476.1	transcriptional regulator, Fur family (Ferric uptake regulator) (O07724|FUR_MYCTU Ferric uptake regulation protein (Ferric uptake regulator); YP_061416.1| ferric uptake regulator, Fur family [Leifsonia xyli subsp. xyli str. CTCB07]) . may act as a global negative controlling element employing Fe(2+) as a cofactor to bind the operator of the repressed genes (By similarity). pfam01475, FUR, Ferric uptake regulator family. This family includes metal ion uptake regulator proteins, that bind to the operator DNA and controls transcription of metal ion-responsive genes. This family is also known as the FUR family.; Specificity unclear
YP_001221477.1	catalase (YP_061415.1| catalase [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00294401.1| COG0753: Catalase [Thermobifida fusca]). pfam00199, Catalase,Catalase., , InterPro: Catalase; High confidence in function and specificity
YP_001221478.1	hypothetical protein (NP_736862.1| hypothetical protein [Corynebacterium efficiens YS-314]; NP_233017.1| SecA-related protein [Vibrio cholerae O1 biovar eltor str. N16961])
YP_001221479.1	putative acetyltransferase (ZP_00199016.1| hypothetical protein Krad022685 [Kineococcus radiotolerans SRS30216]; NP_825281.1| putative acetyltransferase [Streptomyces avermitilis MA-4680]). InterPro: GCN5-related N-acetyltransferase pfam00583, Acetyltransf_1,Acetyltransferase (GNAT) family. This family contains proteins with N-acetyltransferase functions.; Family membership
YP_001221480.1	putative acyltransferase (CAE30321.1| acyltransferase [Mesorhizobium septentrionale]; CAC82838.1| NodA protein [Sinorhizobium sp. ORS1044]).; Hypothetical protein
YP_001221481.1	conserved membrane protein (CAA17327.1| PROBABLE CONSERVED TRANSMEMBRANE PROTEIN [Mycobacterium tuberculosis H37Rv]; NP_940438.1| Putative integral membrane protein [Corynebacterium diphtheriae]). ,InterPro: Domain of unknown function DUF20 , pfam01594,UPF0118, Domain of unknown function DUF20. This transmembrane region is found in putative permeases and predicted transmembrane proteins it has no known function. It is not clear what source suggested that these proteins may be permeases and this information should be treated with caution.; Function unclear
YP_001221482.1	putative membrane protein (NP_738715.1| conserved hypothetical protein [Corynebacterium efficiens YS-314]; ZP_00051056.1| hypothetical protein Magn025090 [Magnetospirillum magnetotacticum]). pfam06724, DUF1206,Domain of Unknown Function (DUF1206). This region consists of two a pair of transmembrane helices and occurs three times in each of the family member proteins.
YP_001221483.1	conserved hypothetical protein, putative epimerase (CAB09457.1| CONSERVED HYPOTHETICAL PROTEIN [Mycobacterium tuberculosis H37Rv]; NP_827106.1| hypothetical protein SAV5929 [Streptomyces avermitilis MA-4680]). InterPro: Phenazine biosynthesis PhzC/PhzF protein pfam02567, PhzC-PhzF, Phenazine biosynthesis-like protein. PhzF_family: phenazine biosynthesis pro; Function unclear
YP_001221484.1	conserved membrane protein (NP_736814.1| putative transport protein [Corynebacterium efficiens YS-314]; ZP_00121591.2| COG1253: Hemolysins and related proteins containing CBS domains [Bifidobacterium longum DJO10A]). ,pfam01595, DUF21, Domain of unknown function DUF21. This transmembrane region has no known function. , pfam00571,CBS, CBS domain. CBS domains are small intracellular modules of unknown function. They are mostly found in 2 or four copies within a protein. (twice). pfam03471,CorC_HlyC, Transporter associated domain. This small domain is found in a family of proteins with the pfam01595 domain and two CBS domains with this domain found at the C-terminus of the proteins, the domain is also found at the C terminus of some Na+/H+ antiporters. This domain is also found in CorC that is involved in Magnesium and cobalt efflux. The function of this domain is uncertain but might be involved in modulating transport of ion substrates.; Family membership
YP_001221485.1	Hypothetical protein
YP_001221486.1	putative phosphoribulokinase (Phosphopentokinase) (P37101|KPPR_SYNY3 Phosphoribulokinase (Phosphopentokinase) (PRK); ZP_00109191.1| COG0572: Uridine kinase [Nostoc punctiforme]). pfam00485, PRK,Phosphoribulokinase / Uridine kinase family.; Specificity unclear
YP_001221487.1	putative dioxygenase (ZP_00226029.1| COG3485: Protocatechuate 3,4-dioxygenase beta subunit [Kineococcus radiotolerans SRS30216]; CAF18808.1| 3,4-dioxygenase beta subunit [Corynebacterium glutamicum ATCC 13032]).,pfam00775, Dioxygenase_C, Dioxygenase.; Specificity unclear
YP_001221488.1	putative monooxygenase (NP_641998.1| oxidoreductase [Xanthomonas axonopodis pv. citri str. 306]; NP_624584.1| putative oxidoreductase [Streptomyces coelicolor A3(2)]).,pfam01360, Monooxygenase, Monooxygenase. This family includes diverse enzymes that utilise FAD., InterPro: Aromatic-ring hydroxylase (flavoprotein monooxygenase).; Specificity unclear
YP_001221489.1	putative transcriptional regulator, MarR family (NP_625140.1| putative marR-family transcriptional regulator [Streptomyces coelicolor A3(2)]; CAF19334.1| transcriptional regulator, MarR family [Corynebacterium glutamicum ATCC 13032]). pfam01047, MarR, MarR family. The Mar proteins are involved in the multiple antibiotic resistance, a non-specific resistance system.; Specificity unclear
YP_001221490.1	putative glycosyl transferase (NP_792926.1| glycosyl transferase, group 2 family protein [Pseudomonas syringae pv. tomato str. DC3000]; NP_745399.1| glycosyl transferase, group 2 family protein [Pseudomonas putida KT2440]). pfam00535, Glycos_transf_2, Glycosyl transferase. Diverse family, transferring sugar from UDP-glucose, UDP-N-acetyl- galactosamine, GDP-mannose or CDP-abequose, to a range of substrates including cellulose,dolichol phosphate and teichoic acids.; Function unclear
YP_001221491.1	conserved hypothetical protein, acyl-CoA dehydrogenase/methyltransferase multidomain protein: N-terminal (AA 150-350) putative acyl-CoA dehydrogenase (COG1960, CaiA, Acyl-CoA dehydrogenases) (NP_962172.1| hypothetical protein MAP3238 [Mycobacterium avium subsp. paratuberculosis str. k10]; NP_745402.1| acyl-CoA dehydrogenase-related protein [Pseudomonas putida KT2440]); AA 475-700 COG2120, COG2120, Uncharacterized proteins, LmbE homologs (NP_962173.1| hypothetical protein MAP3239 [Mycobacterium avium subsp. paratuberculosis str. k10]; ZP_00265336.1| COG2120: Uncharacterized proteins,LmbE homologs [Pseudomonas fluorescens PfO-1]); C-terminal (AA 720-850) putative methyltransferase (pfam05401, NodS,Nodulation protein S (NodS)(ZP_00284505.1| COG0500: SAM-dependent methyltransferases [Burkholderia fungorum LB400]; NP_745400.1| methyltransferase, putative [Pseudomonas putida KT2440]).; Function unclear
YP_001221492.1	putative hypothetical protein
YP_001221493.1	catalyzes the formation of (S)-2-(5-amino-1-(5-phospho-D-ribosyl)imidazole-4- carboxamido)succinate from 5-amino-1-(5-phospho-D-ribosyl)imidazole-4-carboxylate and L-aspartate in purine biosynthesis; SAICAR synthase
YP_001221494.1	catalyzes the formation of N(1)-(5-phospho-D-ribosyl)glycinamide from 5-phospho-D-ribosylamine and glycine in purine biosynthesis
YP_001221495.1	conserved hypothetical protein (AAT89946.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00225567.1| hypothetical protein Krad06004784 [Kineococcus radiotolerans SRS30216]).
YP_001221496.1	putative membrane protein (YP_063050.1| hypothetical protein Lxx22770 [Leifsonia xyli subsp. xyli str. CTCB07]).
YP_001221497.1	Catalyzes first step of the de novo purine nucleotide biosynthetic pathway
YP_001221498.1	catalyzes the formation of 1-(5-phosphoribosyl)-5-aminoimidazole from 2-(formamido)-N1-(5-phosphoribosyl)acetamidine and ATP in purine biosynthesis
YP_001221499.1	conserved hypothetical protein (AAT89942.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_302445.1| conserved hypothetical protein [Mycobacterium leprae]).
YP_001221500.1	putative FAD-dependant monooxygenase/oxidoreductase (YP_063046.1| flavine-dependent monooxygenase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_625435.1| putative oxidoreductase [Streptomyces coelicolor A3(2)]). pfam00070, Pyr_redox, Pyridine nucleotide-disulphide oxidoreductase. This family includes both class I and class II oxidoreductases and also NADH oxidases and peroxidases. This domain is actually a small NADH binding domain within a larger FAD binding domain. InterPro: NAD binding site; Function unclear
YP_001221501.1	putative amino acid permease, APC family (AAR90221.1| putative membrane protein [Rhodococcus sp. DK17]; NP_825951.1| putative membrane protein [Streptomyces avermitilis MA-4680]). pfam00324,AA_permease, Amino acid permease. InterPro: Permease for amino acids and related compounds family I.; Specificity unclear
YP_001221502.1	conserved membrane protein (NP_625700.1| putative integral membrane protein [Streptomyces coelicolor A3(2)]; ZP_00057925.1| COG2364: Predicted membrane protein [Thermobifida fusca]). pfam02588, DUF161,Uncharacterized BCR, YitT family COG1284. This is probably a bacterial ABC transporter permease (personal obs:Yeats C). (twice).; Function unclear
YP_001221503.1	putative transcriptional regulator containing a DNA-binding HTH domain and an aminotransferase domain (ZP_00228006.1| COG1167: Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Kineococcus radiotolerans SRS30216]; NP_828105.1| putative GntR-family transcriptional regulator [Streptomyces avermitilis MA-4680]). pfam00392,GntR, Bacterial regulatory proteins, gntR family. pfam00155, Aminotran_1_2, Aminotransferase class I and II.; Function unclear
YP_001221504.1	putative extracellular serine protease, glutamyl endopeptidase (ZP_00227464.1| COG3591: V8-like Glu-specific endopeptidase [Kineococcus radiotolerans SRS30216]; NP_297821.1| hypothetical protein [Xylella fastidiosa 9a5c]).; Function unclear
YP_001221505.1	putative glycogen debranching enzyme (ZP_00228190.1| COG1523: Type II secretory pathway,pullulanase PulA and related glycosidases [Kineococcus radiotolerans SRS30216]; YP_061380.1| glycogen debranching enzyme [Leifsonia xyli subsp. xyli str. CTCB07]). pfam00128, Alpha-amylase, Alpha amylase,catalytic domain. Alpha amylase is classified as family 13 of the glycosyl hydrolases.; Specificity unclear
YP_001221506.1	conserved membrane protein (NP_295927.1| conserved hypothetical protein [Deinococcus radiodurans R1]; NP_281741.1| putative integral membrane protein [Campylobacter jejuni subsp.jejuni NCTC 11168]).; Function unclear
YP_001221507.1	hypothetical protein (YP_062777.1| hypothetical protein Lxx19520 [Leifsonia xyli subsp. xyli str. CTCB07]).
YP_001221508.1	hypothetical protein (ZP_00228438.1| COG4338: Uncharacterized protein conserved in bacteria [Kineococcus radiotolerans SRS30216]; ZP_00267705.1| COG0117: Pyrimidine deaminase [Rhodospirillum rubrum]; ZP_00328354.1| COG4338: Uncharacterized protein conserved in bacteria [Trichodesmium erythraeum IMS101]). weak similarity to: COG4338, Uncharacterized protein conserved in bacteria [Function unknown].
YP_001221509.1	putative integral membrane efflux protein, RND family (NP_827216.1| putative integral membrane efflux protein [Streptomyces avermitilis MA-4680]; ZP_00330620.1| COG0841: Cation/multidrug efflux pump [Moorella thermoacetica ATCC 39073]). pfam00873, ACR_tran,AcrB/AcrD/AcrF family. Members of this family are integral membrane proteins. Some are involved in drug resistance. AcrB cooperates with a membrane fusion protein, AcrA, and an outer membrane channel TolC. The structure shows the AcrB forms a homotrimer.; Specificity unclear
YP_001221510.1	putative RNA helicase (YP_062998.1| ATP-dependent RNA helicase [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00227011.1| COG0513: Superfamily II DNA and RNA helicases [Kineococcus radiotolerans SRS30216]). 25466,pfam00270, DEAD, DEAD/DEAH box helicase. Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression. pfam00271, Helicase_C, Helicase conserved C-terminal domain.; Function unclear
YP_001221511.1	putative acetyltransferase (ZP_00227685.1| COG1670: Acetyltransferases, including N-acetylases of ribosomal proteins [Kineococcus radiotolerans SRS30216]; ZP_00086502.1| COG1670: Acetyltransferases, including N-acetylases of ribosomal proteins [Pseudomonas fluorescens PfO-1]). pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family. This family contains proteins with N-acetyltransferase functions.; Function unclear
YP_001221512.1	putative acetyltransferase (ZP_00226643.1| COG0454: Histone acetyltransferase HPA2 and related acetyltransferases [Kineococcus radiotolerans SRS30216]; NP_828437.1| putative acetyltransferase [Streptomyces avermitilis MA-4680]). pfam00583, Acetyltransf_1,Acetyltransferase (GNAT) family. This family contains proteins with N-acetyltransferase functions.; Function unclear
YP_001221513.1	Hypothetical protein
YP_001221514.1	putative sugar kinase (BAB97551.1| Sugar kinases,ribokinase family [Corynebacterium glutamicum ATCC 13032]; ZP_00226213.1| COG0524: Sugar kinases, ribokinase family [Kineococcus radiotolerans SRS30216]). pfam00294,PfkB, pfkB family carbohydrate kinase. This family includes a variety of carbohydrate and pyrimidine kinases.; Specificity unclear
YP_001221515.1	conserved hypothetical protein, putative aldolase (CAF18726.1| conserved hypothetical protein [Corynebacterium glutamicum ATCC 13032]; ZP_00226214.1| hypothetical protein Krad06003760 [Kineococcus radiotolerans SRS30216]).; Function unclear
YP_001221516.1	putative NAD-dependent aldehyde dehydrogenase (NP_599412.1| NAD-dependent aldehyde dehydrogenase [Corynebacterium glutamicum ATCC 13032]; ZP_00226521.1| COG1012: NAD-dependent aldehyde dehydrogenases [Kineococcus radiotolerans SRS30216]). pfam00171, Aldedh,Aldehyde dehydrogenase family. InterPro: Aldehyde dehydrogenase family; Specificity unclear
YP_001221517.1	conserved hypothetical protein involved in inositol metabolism (CAF18728.1| enzyme involved in inositol metabolism [Corynebacterium glutamicum ATCC 13032]; NP_631041.1| conserved hypothetical protein [Streptomyces coelicolor A3(2)]). pfam06845, IolB, Myo-inositol catabolism protein IolB. This family consists of several bacterial Myo-inositol catabolism (IolB) proteins.The exact function of IolB is unknown.; High confidence in function and specificity
YP_001221518.1	putative acetolactate synthase (CAF18729.1| PUTATIVE ACETOLACTATE SYNTHASE PROTEIN [Corynebacterium glutamicum ATCC 13032]; ZP_00226216.1| COG3962: Acetolactate synthase [Kineococcus radiotolerans SRS30216]). pfam02776, TPP_enzyme_N, Thiamine pyrophosphate enzyme, N-terminal TPP binding domain. pfam00205, TPP_enzyme_M, Thiamine pyrophosphate enzyme,central domain. pfam02775, TPP_enzyme_C, Thiamine pyrophosphate enzyme, C-terminal TPP binding domain. acolac_lg: acetolactate synthase larg; Specificity unclear
YP_001221520.1	putative sugar phosphate isomerase/epimerase (NP_438000.1| HYPOTHETICAL PROTEIN SMb20768 [Sinorhizobium meliloti 1021]; ZP_00228598.1| COG3623: Putative L-xylulose-5-phosphate 3-epimerase [Kineococcus radiotolerans SRS30216]). COG1082, IolE, Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]. hxl6Piso_put: hexulose-6-phosphate is; Specificity unclear
YP_001221521.1	putative 3-hydroxyacyl-CoA dehydrogenase (ZP_00228602.1| COG1250: 3-hydroxyacyl-CoA dehydrogenase [Kineococcus radiotolerans SRS30216]; ZP_00298783.1| COG1250: 3-hydroxyacyl-CoA dehydrogenase [Geobacter metallireducens GS-15]). pfam02737, 3HCDH_N, 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain. pfam00725, 3HCDH, 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain.; Specificity unclear
YP_001221522.1	putative oxidoreductase (NP_793827.1| oxidoreductase, short-chain dehydrogenase/reductase family [Pseudomonas syringae pv. tomato str. DC3000]; NP_631846.1| putative oxidoreductase. [Streptomyces coelicolor A3(2)]). pfam00106, adh_short, short chain dehydrogenase. This family contains a wide variety of dehydrogenases. TIGR00301: NADP oxidoreductase coenzym; Function unclear
YP_001221523.1	putative transcriptional regulator, Cro/CI family (ZP_00226903.1| COG1396: Predicted transcriptional regulators [Kineococcus radiotolerans SRS30216]; NP_631845.1| putative DNA-binding protein [Streptomyces coelicolor A3(2)]). pfam01381, HTH_3, Helix-turn-helix. This large family of DNA binding helix-turn helix proteins includes Cro and CI.; Specificity unclear
YP_001221524.1	Hypothetical protein
YP_001221525.1	putative transcriptional regulator, GntR family (ZP_00196672.1| hypothetical protein MBNC415202 [Mesorhizobium sp. BNC1]; NP_435388.1| putative GntR-family regulator [Sinorhizobium meliloti 1021]). pfam00392, GntR, Bacterial regulatory proteins, gntR family. This domain comprises the N-terminal HTH-containing region of GntR-like bacterial transcription factors. At the C terminus there is usually an effector-binding/oligomerisation domain.; Specificity unclear
YP_001221526.1	putative triosephosphate isomerase (NP_624890.1| putative triosephosphate isomerase [Streptomyces coelicolor A3(2)]; YP_048976.1| putative triosephosphate isomerase [Erwinia carotovora subsp. atroseptica SCRI1043]). , pfam00121, TIM, Triosephosphate isomerase.; High confidence in function and specificity
YP_001221527.1	putative ribose 5-phosphate isomerase (NP_624891.1| putative ribose 5-phosphate isomerase [Streptomyces coelicolor A3(2)]; XP_456866.1| unnamed protein product [Debaryomyces hansenii]). , pfam02502, LacAB_rpiB,Ribose/Galactose Isomerase. InterPro: Ribose/Galactose Isomerase.; High confidence in function and specificity
YP_001221528.1	in some organisms the DhaK and DhaL subunits are encoded by separate genes; in others they are fused; functions along with DhaM to phosphorylate dihydroxyacetone
YP_001221529.1	putative transcriptional regulator, GntR family (CAF18724.1| Bacterial regulatory proteins, gntR family [Corynebacterium glutamicum ATCC 13032]; NP_823160.1| putative GntR-family transcriptional regulator [Streptomyces avermitilis MA-4680]). pfam00392, GntR,Bacterial regulatory proteins, gntR family. This domain comprises the N-terminal HTH-containing region of GntR-like bacterial transcription factors. At the C terminus there is usually an effector-binding/oligomerisation domain. InterPro: Bacterial regulatory proteins GntR family.; Specificity unclear
YP_001221530.1	putative sugar ABC transporter ATP-binding protein (NP_630359.1| probable ABC sugar transport ATP binding protein [Streptomyces coelicolor A3(2)]; ZP_00226220.1| COG1129: ABC-type sugar transport system, ATPase component [Kineococcus radiotolerans SRS30216]). pfam00005,ABC_tran, ABC transporter.; Specificity unclear
YP_001221531.1	putative sugar ABC transporter, permease component (NP_631045.1| probable ABC transport protein, membrane component. [Streptomyces coelicolor A3(2)]; ZP_00226219.1| COG1172: Ribose/xylose/arabinose/ galactoside ABC-type transport systems, permease components [Kineococcus radiotolerans SRS30216]). pfam02653, BPD_transp_2, Branched-chain amino acid transport system / permease component. InterPro: Binding-system dependent bacterial transporters (araH livH/limM families); Specificity unclear
YP_001221532.1	putative sugar ABC transporter, solute-binding protein (NP_631044.1| probable solute-binding lipoprotein. [Streptomyces coelicolor A3(2)]; ZP_00226218.1| COG1879: ABC-type sugar transport system, periplasmic component [Kineococcus radiotolerans SRS30216]).; Specificity unclear
YP_001221533.1	putative myo-inositol dehydrogenase (ZP_00199086.2| COG0673: Predicted dehydrogenases and related proteins [Kineococcus radiotolerans SRS30216]; NP_602254.1| myo-inositol dehydrogenase [Corynebacterium glutamicum ATCC 13032]). pfam01408, GFO_IDH_MocA, Oxidoreductase family,NAD-binding Rossmann fold. This family of enzymes utilise NADP or NAD. pfam02894, GFO_IDH_MocA_C, Oxidoreductase family, C-terminal alpha/beta domain.; Specificity unclear
YP_001221534.1	putative sugar epimerase (ZP_00200300.1| COG1082: Sugar phosphate isomerases/epimerases [Rubrobacter xylanophilus DSM 9941]; ZP_00092855.1| COG1082: Sugar phosphate isomerases/epimerases [Azotobacter vinelandii]; NP_519368.1| PUTATIVE MYO-INOSITOL CATABOLISM PROTEIN [Ralstonia solanacearum]).; Function unclear
YP_001221535.1	putative extracellular nuclease/phosphatase (NP_601790.1| predicted extracellular nuclease [Corynebacterium glutamicum ATCC 13032]; NP_927023.1| hypothetical protein gll4077 [Gloeobacter violaceus]). pfam03372, Exo_endo_phos,Endonuclease/Exonuclease/phosphatase family. This large family of proteins includes magnesium dependent endonucleases and a large number of phosphatases involved in intracellular signalling.; Function unclear
YP_001221536.1	putative thioredoxin (ZP_00292263.1| COG0526: Thiol-disulfide isomerase and thioredoxins [Thermobifida fusca]; NP_739422.1| putative thioredoxin [Corynebacterium efficiens YS-314]). Component of the thioredoxin-thioredoxin reductase system. Participates in various redox reactions through the reversible oxidation of its active center dithiol to a disulfide and catalyzes dithiol-disulfide exchange reactions. pfam00085,Thioredoxin, Thioredoxin. Thioredoxins are small enzymes that participate in redox reactions, via the reversible oxidation of an active centre disulfide bond. InterPro: Thioredoxin.; High confidence in function and specificity
YP_001221537.1	putative ATP-dependent DNA helicase (YP_062975.1| ATP-dependent DNA helicase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_628739.1| putative helicase [Streptomyces coelicolor A3(2)]). pfam00270, DEAD,DEAD/DEAH box helicase. Members of this family include the DEAD and DEAH box helicases. pfam00271, Helicase_C,Helicase conserved C-terminal domain. pfam00570, HRDC,HRDC domain. The HRDC (Helicase and RNase D C-terminal) domain has a putative role in nucleic acid binding.; Specificity unclear
YP_001221538.1	conserved hypothetical protein (ZP_00228010.1| COG3533: Uncharacterized protein conserved in bacteria [Kineococcus radiotolerans SRS30216]; NP_228092.1| hypothetical protein [Thermotoga maritima]).; Function unclear
YP_001221539.1	putative oligopeptide ABC transporter, substrate-binding lipoprotein (NP_629263.1| BldKB, putative ABC transport system lipoprotein [Streptomyces coelicolor A3(2)]; ZP_00294235.1| COG0747: ABC-type dipeptide transport system, periplasmic component [Thermobifida fusca]). This protein is a component of the oligopeptide permease, a binding protein-dependent transport system It binds peptides up small peptides with high affinity. Also required for sporulation and competence. pfam00496,SBP_bac_5, Bacterial extracellular solute-binding proteins, family 5.; Specificity unclear
YP_001221540.1	putative oligopeptide ABC transporter, permease component (ZP_00059564.1| COG1173: ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Thermobifida fusca]; NP_629262.1| BldKA,putative ABC transport system integral membrane protein [Streptomyces coelicolor A3(2)]). Part of the binding-protein-dependent transport system for peptides; probably responsible for the translocation of the substrate across the membrane. pfam00528, BPD_transp_1, Binding-protein-dependent transport system inner membrane component.; Specificity unclear
YP_001221541.1	putative peptide ABC transporter, permease component (ZP_00059566.1| COG0601: ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Thermobifida fusca]; NP_629264.1| BldKC,putative ABC transport system integral membrane protein [Streptomyces coelicolor A3(2)]). InterPro: Binding-protein-dependent transport systems inner membrane component. pfam00528, BPD_transp_1, Binding-protein-dependent transport system inner membrane component.; Specificity unclear
YP_001221542.1	putative peptide ABC transporter, ATP-binding protein (NP_824329.1| putative ABC transporter intracellular ATPase BldKD [Streptomyces avermitilis MA-4680]; NP_059748.1| moaD [Agrobacterium tumefaciens]). ,, Part of the binding-protein-dependent transport system for peptides. Probably responsible for energy coupling to the transport system., , InterPro: AAA ATPase superfamily pfam00005, ABC_tran, ABC transporter.; Specificity unclear
YP_001221543.1	putative peptide ABC transporter, ATP-binding protein (NP_824330.1| putative ABC transporter ATP-binding protein BldKE [Streptomyces avermitilis MA-4680]; NP_244512.1| oligopeptide ABC transporter (ATP-binding protein) [Bacillus halodurans]). pfam00005, ABC_tran, ABC transporter.; Specificity unclear
YP_001221544.1	putative proline iminopeptidase (Prolyl aminopeptidase)(JC4623 prolyl aminopeptidase (EC 3.4.11.5) - Hafnia alvei; NP_696104.1| proline iminopeptidase [Bifidobacterium longum NCC2705]). InterPro: Esterase/lipase/thioesterase family active site pfam00561,Abhydrolase_1, alpha/beta hydrolase fold. This catalytic domain is found in a very wide range of enzymes.; Specificity unclear
YP_001221545.1	putative Xaa-Pro aminopeptidase (Aminoacylproline aminopeptidase) (NP_696514.1| Xaa-Pro aminopeptidase I [Bifidobacterium longum NCC2705]; NP_625637.1| Xaa-Pro aminopeptidase II (EC 3.4.11.9) [Streptomyces coelicolor A3(2)]). , pfam05195, AMP_N, Aminopeptidase P, N-terminal domain. , pfam00557, Peptidase_M24, metallopeptidase family M24.; High confidence in function and specificity
YP_001221546.1	putative transcriptional regulator, GntR-family (NP_822905.1| putative GntR-family transcriptional regulator [Streptomyces avermitilis MA-4680]; NP_879291.1| putative GntR-family transcriptional regulator [Bordetella pertussis Tohama I]). pfam00392,GntR, Bacterial regulatory proteins, gntR family. This domain comprises the N-terminal HTH-containing region of GntR-like bacterial transcription factors. At the C terminus there is usually an effector-binding/oligomerisation domain.; Specificity unclear
YP_001221547.1	putative secreted D-amino acid oxidase (NP_630387.1| putative secreted oxidoreductase [Streptomyces coelicolor A3(2)]; NP_832586.1| Sarcosine oxidase beta subunit [Bacillus cereus ATCC 14579]). pfam01266, DAO, FAD dependent oxidoreductase. This family includes various FAD dependent oxidoreductases.; Specificity unclear
YP_001221548.1	conserved hypothetical protein, putative D-amino acid oxidase subunit (NP_822909.1| hypothetical protein SAV1733 [Streptomyces avermitilis MA-4680]; NP_832589.1| Sarcosine oxidase alpha subunit [Bacillus cereus ATCC 14579]). weak similarity to COG3383, Uncharacterized anaerobic dehydrogenase
YP_001221549.1	putative amino acid oxidase (NP_630389.1| putative secreted oxidase [Streptomyces coelicolor A3(2)]; AAQ87569.1| Opine oxidase subunit A [Rhizobium sp. NGR234]; AAC38595.1| hydrogen cyanide synthase HcnB [Pseudomonas fluorescens]) pfam00070, Pyr_redox, Pyridine nucleotide-disulphide oxidoreductase. This family includes both class I and class II oxidoreductases and also NADH oxidases and peroxidases. This domain is actually a small NADH binding domain within a larger FAD binding domain. pfam04324, Fer2_BFD, BFD-like [2Fe-2S] binding domain. The two Fe ions are each coordinated by two conserved cysteine residues.; Function unclear
YP_001221550.1	putative dihydrodipicolinate synthase (NP_822907.1| putative dihydrodipicolinate synthase [Streptomyces avermitilis MA-4680]; NP_797714.1| probable dihydrodipicolinate synthetase [Vibrio parahaemolyticus RIMD 2210633]). pfam00701, DHDPS, Dihydrodipicolinate synthetase family. This family has a TIM barrel structure.; High confidence in function and specificity
YP_001221551.1	putative proline racemase (NP_822906.1| putative proline racemase [Streptomyces avermitilis MA-4680]; NP_845180.1| proline racemase, putative [Bacillus anthracis str. Ames]). pfam05544, Pro_racemase, Proline racemase. This family consists of proline racemase (EC 5.1.1.4) proteins which catalyse the interconversion of L-and D-proline in bacteria.; High confidence in function and specificity
YP_001221552.1	putative aldehyde dehydrogenase (AAR90163.1| putative aldehyde dehydrogenase [Rhodococcus sp. DK17]; NP_827565.1| putative aldehyde dehydrogenase [Streptomyces avermitilis MA-4680]). InterPro: Aldehyde dehydrogenase family pfam00171, Aldedh, Aldehyde dehydrogenase family. This family of dehydrogenases act on aldehyde substrates. Members use NADP as a cofactor.; Specificity unclear
YP_001221553.1	putative acyl-CoA oxidase (YP_062974.1| acyl-CoA oxidase [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00058724.1| COG1960: Acyl-CoA dehydrogenases [Thermobifida fusca]). pfam02770, Acyl-CoA_dh_M, Acyl-CoA dehydrogenase, middle domain. pfam00441, Acyl-CoA_dh, Acyl-CoA dehydrogenase, C-terminal domain. pfam01756, ACOX,Acyl-CoA oxidase. This is a family of Acyl-CoA oxidases EC:1.3.3.6. Acyl-coA oxidase converts acyl-CoA into trans-2- enoyl-CoA.; Specificity unclear
YP_001221554.1	putative growth inhibitor (NP_713024.1| chpK [Leptospira interrogans serovar lai str. 56601]; CAA98393.1| CONSERVED HYPOTHETICAL PROTEIN [Mycobacterium tuberculosis H37Rv]). pfam02452, PemK, PemK-like protein. PemK is a growth inhibitor in E. Coli known to bind to the promoter region of the Pem operon, auto-regulating synthesis.; Function unclear
YP_001221555.1	putative transcriptional regulator, CopG family(NP_336510.1| DNA-binding protein, CopG family [Mycobacterium tuberculosis CDC1551]; NP_713025.1| ChpI protein [Leptospira interrogans serovar lai str. 56601]). pfam01402, HTH_4, Ribbon-helix-helix protein, copG family. The structure of this protein repressor, which is the shortest reported to date and the first isolated from a plasmid, has a homodimeric ribbon-helix-helix arrangement. The helix-turn-helix-like structure is involved in dimerisation and not DNA binding as might have been expected.; Conserved hypothetical protein
YP_001221556.1	putative esterase, lysophospholipase (ZP_00213268.1| COG2755: Lysophospholipase L1 and related esterases [Burkholderia cepacia R18194]; ZP_00137144.2| COG2755: Lysophospholipase L1 and related esterases [Pseudomonas aeruginosa UCBPP-PA14]; NP_215591.1| hypothetical protein Rv1075c [Mycobacterium tuberculosis H37Rv]).; Family membership
YP_001221557.1	Proline iminopeptidase (Prolyl aminopeptidase) (YP_062972.1| prolyl aminopeptidase [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00058619.1| COG0596: Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [Thermobifida fusca]). SPECIFICALLY CATALYZES THE REMOVAL OF N-TERMINAL PROLINE RESIDUES FROM PEPTIDES. pfam00561, Abhydrolase_1, alpha/beta hydrolase fold. This catalytic domain is found in a very wide range of enzymes.; High confidence in function and specificity
YP_001221558.1	putative glycerol-3-phosphate cytidylyltransferase (ZP_00227149.1| COG0615: Cytidylyltransferase [Kineococcus radiotolerans SRS30216]; NP_213944.1| glycerol-3-phosphate cytidyltransferase [Aquifex aeolicus]). pfam01467, CTP_transf_2, Cytidylyltransferase. This family includes: Cholinephosphate cytidylyltransferase, Glycerol-3-phosphate cytidylyltransferase. InterPro: Cytidylyltransferase.; Function unclear
YP_001221559.1	putative cell surface protein, potentially involved in polysaccharide synthesis (only weak similarities to sugar transferases, endoglucanases and RTX toxins; NP_631284.1| putative polysaccharide lyase [Streptomyces coelicolor A3(2)).; Function unclear
YP_001221560.1	hypothetical protein potentially involved in polysaccharide metabolism (only weak similarities to glucanases, RTX toxins; NP_680916.1| ORF_ID:tlr0125 unknown protein [Thermosynechococcus elongatus BP-1]; NP_631284.1| putative polysaccharide lyase [Streptomyces coelicolor A3(2)]). InterPro: Proline-rich region; Function unclear
YP_001221561.1	putative undecaprenyl-phosphate sugar phosphotransferase (NP_959898.1| hypothetical protein MAP0964c [Mycobacterium avium subsp. paratuberculosis str. k10]; AAM94041.1| putative undecaprenyl-phosphate glycosyl-1-phosphate transferase; glucose-1-phosphate transferase [Streptomyces sp. 139]). Contains two domains,N-terminal: COG1086, COG1086, Predicted nucleoside-diphosphate sugar epimerases; pfam02719, Polysacc_synt_2,Polysaccharide biosynthesis protein. C-terminal: COG2148,WcaJ, Sugar transferases involved in lipopolysaccharide synthesis; pfam02397, Bac_transf, Bacterial sugar transferase. This Pfam family represents a conserved region from a number of different bacterial sugar transferases, involved in diverse biosynthesis pathways.; Specificity unclear
YP_001221562.1	putative glycosyltransferase (ZP_00081740.1| COG0438: Glycosyltransferase [Geobacter metallireducens]; CAC18356.1| putative rhamnosyltransferase [Streptococcus salivarius]). pfam00534, Glycos_transf_1, Glycosyl transferases group 1. Members of this family transfer activated sugars to a variety of substrates, including glycogen, Fructose-6-phosphate and lipopolysaccharides.; Specificity unclear
YP_001221563.1	putative phosphatidylglycerophosphate synthase (ZP_00227148.1| COG2870: ADP-heptose synthase,bifunctional sugar kinase/ adenylyltransferase [Kineococcus radiotolerans SRS30216]; NP_823318.1| hypothetical protein [Streptomyces avermitilis MA-4680]; ZP_00057237.1| COG0558: Phosphatidylglycerophosphate synthase [Thermobifida fusca]). pfam01066, CDP-OH_P_transf, CDP-alcohol phosphatidyltransferase.; Specificity unclear
YP_001221564.1	putative glycosyl transferase (NP_103517.1| unknown protein [Mesorhizobium loti MAFF303099]; AAN64562.1| glycosyltransferase [Streptococcus gordonii]). pfam00534,Glycos_transf_1, Glycosyl transferases group 1. Members of this family transfer activated sugars to a variety of substrates, including glycogen, Fructose-6-phosphate and lipopolysaccharides.; Function unclear
YP_001221565.1	hypothetical protein (only weak similarities to collagenases, glucanases and RTX toxins; ZP_00227150.1| hypothetical protein Krad06001747 [Kineococcus radiotolerans SRS30216]; ZP_00116912.1| COG3468: Type V secretory pathway, adhesin AidA [Cytophaga hutchinsonii]; NP_518236.1| PUTATIVE HEMAGGLUTININ-RELATED PROTEIN [Ralstonia solanacearum]). pfam00801, PKD, PKD domain.; Function unclear
YP_001221566.1	Hypothetical protein
YP_001221567.1	putative capsular polysaccharide synthesis enzyme (CAF19058.1| cell surface polysaccharide biosynthesis / Chain length determinant protein [Corynebacterium glutamicum ATCC 13032]; NP_696399.1| possible Etk- like tyrosine kinase involved in Eps biosynthesis [Bifidobacterium longum NCC2705]). , Contains two domains. N-terminal: COG3944, Capsular polysaccharide biosynthesis protein; pfam02706, Wzz, Chain length determinant protein. This family includes proteins involved in lipopolysaccharide (lps) biosynthesis. , C-terminal: COG0489, Mrp, ATPases involved in chromosome partitioning; Specificity unclear
YP_001221568.1	hypothetical protein (CAI37418.1| putative DNA restriction-modification system, hypothetical protein [Corynebacterium jeikeium K411]; NP_862180.1| hypothetical protein [Streptomyces violaceoruber]).
YP_001221569.1	hypothetical protein, putative membrane protein
YP_001221570.1	Region start changed from 949550 to 949463 (-87 bases)
YP_001221571.1	putative glycosyl transferase (NP_637800.1| GumI protein [Xanthomonas campestris pv. campestris str. ATCC 33913] ; ZP_00228119.1| COG0438: Glycosyltransferase [Kineococcus radiotolerans SRS30216]). pfam00534,Glycos_transf_1, Glycosyl transferases group 1. Members of this family transfer activated sugars to a variety of substrates, including glycogen, Fructose-6-phosphate and lipopolysaccharides. Members of this family transfer UDP,ADP, GDP or CMP linked sugars.; Specificity unclear
YP_001221572.1	putative membrane protein involved in the export of polysaccharides, MOP family (NP_637799.1| GumJ protein [Xanthomonas campestris pv. campestris str. ATCC 33913]; ZP_00039159.1| COG2244: Membrane protein involved in the export of O-antigen and teichoic acid [Xylella fastidiosa Dixon]; CAF19065.1| putative translocase involved in export of a cell surface polysaccaride [Corynebacterium glutamicum ATCC 13032]). , , pfam01943, Polysacc_synt,Polysaccharide biosynthesis protein. Members of this family are integral membrane proteins. Many members of the family are implicated in production of polysaccharide. InterPro: Polysaccharide biosynthesis protein.; Specificity unclear
YP_001221573.1	putative nucleotide sugar epimerase (ZP_00226592.1| COG0451: Nucleoside-diphosphate-sugar epimerases [Kineococcus radiotolerans SRS30216]; ZP_00064898.1| COG0451: Nucleoside-diphosphate-sugar epimerases [Microbulbifer degradans 2-40]). pfam01370, Epimerase, NAD dependent epimerase/dehydratase family. This family of proteins utilise NAD as a cofactor. The proteins in this family use nucleotide-sugar substrates for a variety of chemical reactions.; Function unclear
YP_001221574.1	conserved membrane protein (ZP_00227474.1| hypothetical protein Krad06004208 [Kineococcus radiotolerans SRS30216]; NP_736959.1| hypothetical protein [Corynebacterium efficiens YS-314]).; Function unclear
YP_001221575.1	putative transcriptional regulator, MarR family (NP_782612.1| transcriptional regulator, marR family [Clostridium tetani E88]; ZP_00058332.1| COG1846: Transcriptional regulators [Thermobifida fusca]). smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein; Specificity unclear
YP_001221576.1	conserved hypothetical protein (ZP_00198897.1| COG3361: Uncharacterized conserved protein [Kineococcus radiotolerans SRS30216]; NP_625469.1| conserved hypothetical protein SCG11A.10c [Streptomyces coelicolor A3(2)]).; Function unclear
YP_001221577.1	putative glycosyl hydrolase, family 15 (NP_636453.1| conserved hypothetical protein [Xanthomonas campestris pv. campestris str. ATCC 33913]; NP_733605.1| conserved hypothetical protein [Streptomyces coelicolor A3(2)]). pfam00723, Glyco_hydro_15, Glycosyl hydrolases family 15.; Specificity unclear
YP_001221578.1	conserved hypothetical protein (NP_630535.1| conserved hypothetical protein SC9B5.17 [Streptomyces coelicolor A3(2)]; Q9EYI6|Y189_STRNO Hypothetical 19.0 kDa protein in sno 5'region (ORF7); NP_663093.1| histone macro-H2A1-related protein [Chlorobium tepidum TLS]).; Function unclear
YP_001221579.1	putative membrane bound metalloprotease (YP_062953.1| cell wall binding protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00109858.1| COG0739: Membrane proteins related to metalloendopeptidases, family M23 [Nostoc punctiforme]). pfam01551, Peptidase_M37,Peptidase family M23/M37. Members of this family are zinc metallopeptidases with a range of specificities.; Function unclear
YP_001221580.1	putative membrane associated protein (NP_787277.1| NPL/P60 family secreted protein [Tropheryma whipplei str. Twist]; NP_471978.1| peptidoglycan lytic protein P45 [Listeria innocua]). pfam00877, NLPC_P60, NlpC/P60 family. The function of this domain is unknown. It is found in several lipoproteins. InterPro: NLP/P60.; Function unclear
YP_001221581.1	putative inorganic pyrophosphatase (YP_062951.1| inorganic pyrophosphatase [Leifsonia xyli subsp. xyli str. CTCB07]; O06379|IPYR_MYCTU Inorganic pyrophosphatase (Pyrophosphate phospho-hydrolase) (PPase)). pfam00719,Pyrophosphatase, Inorganic pyrophosphatase.; High confidence in function and specificity
YP_001221582.1	putative ATPase of the PP-loop superfamily implicated in cell cycle control (YP_062950.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00058801.1| COG0037: Predicted ATPase of the PP-loop superfamily implicated in cell cycle control [Thermobifida fusca]). pfam01171, ATP_bind_3, PP-loop family. This family of proteins belongs to the PP-loop superfamily.; Specificity unclear
YP_001221583.1	Hypoxanthine-guanine phosphoribosyltransferase (YP_062949.1| hypoxanthine phosphoribosyltransferase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_825842.1| putative hypoxanthine phosphoribosyltransferase [Streptomyces avermitilis MA-4680]). pfam00156,Pribosyltran, Phosphoribosyl transferase domain. InterPro: Phosphoribosyl transferase; High confidence in function and specificity
YP_001221584.1	cell division protein, membrane-bound ATP-dependent protease (YP_062948.1| cell division protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00226547.1| COG0465: ATP-dependent Zn proteases [Kineococcus radiotolerans SRS30216]. pfam06480, FtsH_ext, FtsH Extracellular. This domain is found in the FtsH family of proteins. FtsH is the only membrane-bound ATP-dependent protease universally conserved in prokaryotes. pfam00004, AAA, ATPase family associated with various cellular activities (AAA). pfam01434, Peptidase_M41, Peptidase family M41.; High confidence in function and specificity
YP_001221585.1	GTP cyclohydrolase I (YP_062947.1| GTP cyclohydrolase I [Leifsonia xyli subsp. xyli str. CTCB07]; NP_870186.1| GTP cyclohydrolase I [Pirellula sp. 1]). catalytic activity: gtp + 2 h(2)o = formate + 2-amino-4-hydroxy-6- (erythro-1,2,3-trihydroxypropyl)dihydropteridine triphosphate. pathway: tetrahydrofolate biosynthesis; first step. pfam01227,GTP_cyclohydroI, GTP cyclohydrolase I. folE: GTP cyclohydrolase I; High confidence in function and specificity
YP_001221586.1	dihydropteroate synthase (Dihydropteroate pyrophosphorylase)(YP_062946.1| dihydropteroate synthase [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00293163.1| COG0294: Dihydropteroate synthase and related enzymes [Thermobifida fusca]). pfam00809, Pterin_bind, Pterin binding enzyme.; High confidence in function and specificity
YP_001221587.1	Hypothetical protein
YP_001221588.1	bifunctional folate synthesis protein [Includes: Dihydroneopterin aldolase (EC 4.1.2.25) (DHNA) and 2-amino-4-hydroxy-6- hydroxymethyldihydropteridine pyrophosphokinase (EC 2.7.6.3) (78- dihydro-6-hydroxymethylpterin pyrophosphokinase)] (NP_696836.1| probable bifunctional folate synthesis protein [includes: dihydroneopterin aldolase (DhnA); 2-amino-4-hydroxy-6-hydroxy- methyldihydropteridine pyrophosphokinase [Bifidobacterium longum NCC2705]; NP_561938.1| bifunctional folate synthesis protein [Clostridium perfringens str. 13]). COG1539, FolB, Dihydroneopterin aldolase [Coenzyme metabolism]; pfam02152, FolB,Dihydroneopterin aldolase. This enzyme EC:4.1.2.25 catalyses the conversion of 7,8-dihydroneopterin to 6-hydroxymethyl-7,8-dihydropterin in the biosynthetic pathway of tetrahydrofolate. pfam01288, HPPK, 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK).; High confidence in function and specificity
YP_001221589.1	conserved membrane protein (CAB08939.1| PROBABLE CONSERVED SECRETED PROTEIN [Mycobacterium tuberculosis H37Rv]; NP_940327.1| Putative membrane protein [Corynebacterium diphtheriae]).; Conserved hypothetical protein
YP_001221590.1	conserved membrane protein (YP_062943.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00226554.1| COG3402: Uncharacterized conserved protein [Kineococcus radiotolerans SRS30216]; NP_825854.1| putative integral membrane protein [Streptomyces avermitilis MA-4680]). pfam03703, DUF304,Bacterial membrane flanked domain. Domain found in uncharacterised family of membrane proteins. 1-3 copies found in each protein, with each copy flanked by transmembrane helices.
YP_001221591.1	conserved membrane protein (NP_737260.1| hypothetical protein [Corynebacterium efficiens YS-314]; ZP_00226555.1| COG3428: Predicted membrane protein [Kineococcus radiotolerans SRS30216]). three times pfam03703, DUF304, Bacterial membrane flanked domain. Domain found in uncharacterised family of membrane proteins. 1-3 copies found in each protein, with each copy flanked by transmembrane helices.; Function unclear
YP_001221592.1	conserved hypothetical protein (COG5495, COG5495,Uncharacterized conserved protein; ZP_00058789.1| hypothetical protein [Thermobifida fusca]; NP_825863.1| hypothetical protein SAV4686 [Streptomyces avermitilis MA-4680]).
YP_001221593.1	catalyzes the formation of (R)-pantothenate from pantoate and beta-alanine
YP_001221594.1	class II; LysRS2; catalyzes a two-step reaction, first charging a lysine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; in Methanosarcina barkeri, LysRS2 charges both tRNA molecules for lysine that exist in this organism and in addition can charge the tRNAPyl with lysine in the presence of LysRS1
YP_001221596.1	hypothetical protein (YP_062937.1| hypothetical protein Lxx21380 [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00227406.1| hypothetical protein Krad06000875 [Kineococcus radiotolerans SRS30216]).
YP_001221597.1	ATP-dependent protease, ATPase subunit (NP_627581.1| putative Clp-family ATP-binding protease [Streptomyces coelicolor A3(2)]; NP_959395.1| ClpC [Mycobacterium avium subsp. paratuberculosis str. k10]). pfam02861, Clp_N, Clp amino terminal domain (twice). pfam00004, AAA, ATPase family associated with various cellular activities (AAA) (twice). clpX: ATP-dependent Clp protease ATP; High confidence in function and specificity
YP_001221598.1	putative UDP-glucose 4-epimerase (ZP_00225979.1| COG0451: Nucleoside-diphosphate-sugar epimerases [Kineococcus radiotolerans SRS30216]; NP_103218.1| UDP-galactose 4-epimerase [Mesorhizobium loti MAFF303099]). pfam01370, Epimerase, NAD dependent epimerase/dehydratase family. This family of proteins utilise NAD as a cofactor. The proteins in this family use nucleotide-sugar substrates for a variety of chemical reactions.; Specificity unclear
YP_001221599.1	putative oxidoreductase, aldo/keto reductase family (ZP_00279967.1| COG0667: Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Burkholderia fungorum LB400]; NP_822773.1| putative aldo/keto reductase [Streptomyces avermitilis MA-4680]). pfam00248,Aldo_ket_red, Aldo/keto reductase family. This family includes a number of K+ ion channel beta chain regulatory domains - these are reported to have oxidoreductase activity.; Function unclear
YP_001221600.1	binds the two ribosomal protein L7/L12 dimers and anchors them to the large ribosomal subunit
YP_001221601.1	present in two forms; L12 is normal, while L7 is aminoacylated at the N-terminal serine; the only multicopy ribosomal protein; 4:1 ratio of L7/L12 per ribosome; two L12 dimers bind L10; critically important for translation efficiency and fidelity; stimulates GTPase activity of translation factors
YP_001221602.1	putative transcriptional regulator, C-terminal response regulator domain (ZP_00140987.1| COG2202: FOG: PAS/PAC domain [Pseudomonas aeruginosa UCBPP-PA14]). pfam00196, GerE, Bacterial regulatory proteins, luxR family. InterPro: Bacterial regulatory protein LuxR family.; Function unclear
YP_001221603.1	putative transcriptional regulator, MarR family (CAB02063.1| CONSERVED HYPOTHETICAL PROTEIN [Mycobacterium tuberculosis H37Rv]; NP_628214.1| putative marR regulatory protein [Streptomyces coelicolor A3(2)]). pfam01047, MarR, MarR family. The Mar proteins are involved in the multiple antibiotic resistance, a non-specific resistance system.; Specificity unclear
YP_001221604.1	putative multidrug efflux MFS permease (O06473|YFMO_BACSU Multidrug efflux protein yfmO; ZP_00226584.1| COG0477: Permeases of the major facilitator superfamily [Kineococcus radiotolerans SRS30216]).; Specificity unclear
YP_001221605.1	transcriptional regulator, LacI family (ZP_00048869.2| COG1609: Transcriptional regulators [Magnetospirillum magnetotacticum]; NP_695717.1| probable LacI-type transcriptional regulator [Bifidobacterium longum NCC2705]). pfam00532, Peripla_BP_1, Periplasmic binding proteins and sugar binding domain of the LacI family. This family includes the periplasmic binding proteins, and the LacI family transcriptional regulators. The periplasmic binding proteins are the primary receptors for chemotaxis and transport of many sugar based solutes.; Specificity unclear
YP_001221606.1	putative alpha-glucoside ABC transporter, substrate-binding protein (ZP_00292314.1| COG1653: ABC-type sugar transport system, periplasmic component [Thermobifida fusca]; ZP_00201205.1| COG1653: ABC-type sugar transport system, periplasmic component [Crocosphaera watsonii WH 8501]). pfam01547, SBP_bac_1, Bacterial extracellular solute-binding protein.; Specificity unclear
YP_001221607.1	putative alpha-glucoside ABC transporter, permease component (ZP_00292313.1| COG1175: ABC-type sugar transport systems, permease components [Thermobifida fusca]; ZP_00201204.1| COG1175: ABC-type sugar transport systems, permease components [Crocosphaera watsonii WH 8501]).; Specificity unclear
YP_001221608.1	putative alpha-glucoside ABC transport system,permease component (ZP_00058629.1| COG0395: ABC-type sugar transport system, permease component [Thermobifida fusca]; NP_442748.1| membrane bound sugar transport protein [Synechocystis sp. PCC 6803]). pfam00528,BPD_transp_1, Binding-protein-dependent transport system inner membrane component.; Specificity unclear
YP_001221609.1	ABC transporter consisting of fused permease and ATPase domains (AAF67494.1| NovA [Streptomyces caeruleus]; ZP_00226145.1| COG1132: ABC-type multidrug transport system, ATPase and permease components [Kineococcus radiotolerans SRS30216]). pfam00664,ABC_membrane, ABC transporter transmembrane region. pfam00005, ABC_tran, ABC transporter.; Specificity unclear
YP_001221610.1	conserved hypothetical protein (AAS20097.1| hypothetical protein [Arthrobacter aurescens]; NP_827127.1| putative secreted protein [Streptomyces avermitilis MA-4680]). pfam03713, DUF305, Domain of unknown function (DUF305). Domain found in small family of bacterial secreted proteins with no known function (twice). TIGR00729: ribonuclease HII
YP_001221611.1	conserved hypothetical protein (AAS20096.1| hypothetical protein [Arthrobacter aurescens]; ZP_00293399.1| hypothetical protein Tfus02000754 [Thermobifida fusca]).
YP_001221612.1	putative cystathionine beta-synthase (Serine sulfhydrase) (BAB96806.1| probable cystathionine beta-synthase [Rhodococcus erythropolis]; ZP_00227382.1| COG0031: Cysteine synthase [Kineococcus radiotolerans SRS30216]). pfam00291, PALP, Pyridoxal-phosphate dependent enzyme. COG0517, FOG: CBS domain [General function prediction only], pfam00571, CBS, CBS domain. CBS domains are small intracellular modules of unknown function.; High confidence in function and specificity
YP_001221613.1	catalyzes the formation of cystathionine from L-cysteine and O-succinyl-L-homoserine
YP_001221614.1	putative Ribonuclease H (YP_062422.1| ribonuclease H [Leifsonia xyli subsp. xyli str. CTCB07]; YP_056416.1| ribonuclease H [Propionibacterium acnes KPA171202]). pfam00075, RnaseH, RNase H. RNase H digests the RNA strand of an RNA/DNA hybrid. pfam01402, HTH_4, Ribbon-helix-helix protein, copG family. The structure of this protein repressor, which is the shortest reported to date and the first isolated from a plasmid, has a homodimeric ribbon-helix-helix arrangement. The helix-turn-helix-like structure is involved in dimerisation and not DNA binding as might have been expected.; High confidence in function and specificity
YP_001221615.1	putative transcriptional regulator, LacI-family (NP_630441.1| putative transcriptional regulator [Streptomyces coelicolor A3(2)]; ZP_00198171.1| hypothetical protein Krad024574 [Kineococcus radiotolerans SRS30216]). pfam00356, LacI, Bacterial regulatory proteins, lacI family. pfam00532, Peripla_BP_1,Periplasmic binding proteins and sugar binding domain of the LacI family.; Specificity unclear
YP_001221616.1	catalyzes the phosphorylation of ribulose to ribulose 5-phosphate
YP_001221617.1	catalyzes the formation of D-xylulose 5-phosphate from L-ribulose 5-phosphate
YP_001221618.1	catalyzes the formation of L-ribulose from L-arabinose in L-arabinose catabolism
YP_001221619.1	putative sugar ABC transporter, substrate-binding protein (ZP_00198172.2| COG4213: ABC-type xylose transport system, periplasmic component [Kineococcus radiotolerans SRS30216]; NP_769848.1| ABC transporter sugar-binding protein [Bradyrhizobium japonicum USDA 110]). pfam00532,Peripla_BP_1, Periplasmic binding proteins and sugar binding domain of the LacI family. This family includes the periplasmic binding proteins, and the LacI family transcriptional regulators.; Specificity unclear
YP_001221620.1	putative sugar ABC transporter, ATPase component (ZP_00225839.1| COG1129: ABC-type sugar transport system,ATPase component [Kineococcus radiotolerans SRS30216]; NP_826945.1| putative sugar ABC transporter ATP-binding protein [Streptomyces avermitilis MA-4680]). pfam00005,ABC_tran, ABC transporter (twice, two fused ATPases).; Specificity unclear
YP_001221621.1	putative sugar ABC transporter, permease component (AAD45714.1| L-arabinose membrane permease [Geobacillus stearothermophilus]; NP_626652.1| putative sugar transport permease [Streptomyces coelicolor A3(2)]). pfam02653, BPD_transp_2, Branched-chain amino acid transport system / permease component (twice, two fused permeases).; Specificity unclear
YP_001221622.1	catalyzes the interconversion of D-xylose to D-xylulose
YP_001221623.1	putative beta-glucosidase (ZP_00188825.3| COG2723: Beta-glucosidase/ 6-phospho-beta-glucosidase/beta-galactosidase [Kineococcus radiotolerans SRS30216]; S45675 beta-glucosidase (EC 3.2.1.21) - Streptomyces sp. (strain QM-B814)). pfam00232, Glyco_hydro_1, Glycosyl hydrolase family 1.; Specificity unclear
YP_001221624.1	putative acetyltransferase (ZP_00227685.1| COG1670: Acetyltransferases, including N-acetylases of ribosomal proteins [Kineococcus radiotolerans SRS30216]; NP_389071.1|; Function unclear
YP_001221625.1	putative transcriptional regulator, MarR family (ZP_00227991.1| COG1846: Transcriptional regulators [Kineococcus radiotolerans SRS30216]; NP_790665.1| transcriptional regulator, MarR family [Pseudomonas syringae pv. tomato str. DC3000]). pfam01047, MarR, MarR family. The Mar proteins are involved in the multiple antibiotic resistance, a non-specific resistance system.; Specificity unclear
YP_001221627.1	putative transcriptional regulator, LysR family (NP_628924.1| putative transcriptional regulator [Streptomyces coelicolor A3(2)]; ZP_00292125.1| COG0583: Transcriptional regulator [Thermobifida fusca]). pfam00126, HTH_1, Bacterial regulatory helix-turn-helix protein, lysR family. pfam03466, LysR_substrate, LysR substrate binding domain.; Specificity unclear
YP_001221628.1	putative selenocysteine lyase (ZP_00057151.1| COG0520: Selenocysteine lyase [Thermobifida fusca]; NP_626135.1| conserved hypothetical protein [Streptomyces coelicolor A3(2)]). pfam00266, Aminotran_5,Aminotransferase class-V.; Family membership
YP_001221629.1	putative MFS-type efflux transporter (ZP_00198278.1| COG0477: Permeases of the major facilitator superfamily [Kineococcus radiotolerans SRS30216]; NP_827094.1| putative bicyclomycin resistance protein [Streptomyces avermitilis MA-4680]). pfam00083,Sugar_tr, Sugar (and other) transporter.; Specificity unclear
YP_001221630.1	putative membrane protein (NP_822458.1| putative membrane protein [Streptomyces avermitilis MA-4680]; ZP_00056876.1| hypothetical protein [Thermobifida fusca]).; Function unclear
YP_001221631.1	putative streptomycin-kinase(AAN18030.1| putative streptomycin-3-kinase [Pseudomonas aurantiaca]; NP_250549.1| streptomycin 3''-phosphotransferase [Pseudomonas aeruginosa PA01]). pfam04655, APH_6_hur,Aminoglycoside/hydroxyurea antibiotic resistance kinase. The aminoglycoside phosphotransferases achieve inactivation of their antibiotic substrates by phosphorylation utilising ATP. Likewise hydroxyurea is inactivated by phosphorylation of the hydroxy group in the hydroxylamine moiety.; Specificity unclear
YP_001221633.1	putative transcriptional regulator, LuxR family (ZP_00228816.1| COG2771: DNA-binding HTH domain-containing proteins [Kineococcus radiotolerans SRS30216]; NP_733725.1| putative transcriptional regulator [Streptomyces coelicolor A3(2)]; NP_335345.1| transcriptional regulator, LuxR family [Mycobacterium tuberculosis CDC1551]). pfam00196, GerE, Bacterial regulatory proteins, luxR family.; Specificity unclear
YP_001221634.1	putative nucleoside-diphosphate-sugar epimerase (ZP_00058107.1| COG0702: Predicted nucleoside-diphosphate-sugar epimerases [Thermobifida fusca]; NP_826075.1| hypothetical protein SAV4898 [Streptomyces avermitilis MA-4680]).; Function unclear
YP_001221635.1	catalyzes the synthesis of acetylphosphate or propionylphosphate from acetyl-CoA or propionyl-CoA and inorganic phosphate; when using propionyl-CoA the enzyme is functioning in the anaerobic pathway catabolizing threonine to propionate
YP_001221636.1	AckA utilizes acetate and can acetylate CheY which increases signal strength during flagellar rotation; utilizes magnesium and ATP; also involved in conversion of acetate to aceyl-CoA
YP_001221637.1	putative cell surface protein (putative adhesin,putative hemagglutinin/hemolysin-related protein) (NP_879893.1| putative outer membrane ligand binding protein [Bordetella pertussis Tohama I]).; Conserved hypothetical protein
YP_001221639.1	conserved membrane protein (NP_825339.1| hypothetical protein SAV4162 [Streptomyces avermitilis MA-4680]; NP_864673.1| conserved hypothetical protein [Pirellula sp. 1]).
YP_001221640.1	catalyzes the DNA-template-directed extension of the 3'-end of a DNA strand; the tau chain serves as a scaffold to help in the dimerizaton of the alpha,epsilon and theta core complex; the gamma chain seems to interact with the delta and delta' subunits to transfer the beta subunit on the DNA
YP_001221641.1	involved in a recombinational process of DNA repair, independent of the recBC complex
YP_001221642.1	catalyzes the formation of 4-phospho-L-aspartate from L-aspartate and ATP, in Bacillus, lysine sensitive; regulated by response to starvation.
YP_001221643.1	catalyzes the formation of 4-aspartyl phosphate from aspartate 4-semialdehyde
YP_001221644.1	malate dehydrogenase; catalyzes the oxidation of malate to oxaloacetate
YP_001221645.1	conserved hypothetical protein (YP_061469.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; CAB01265.1| CONSERVED HYPOTHETICAL PROTEIN [Mycobacterium tuberculosis H37Rv]; NP_630564.1| conserved hypothetical protein [Streptomyces coelicolor A3(2)]). pfam04055, Radical_SAM, Radical SAM superfamily.; High confidence in function and specificity
YP_001221646.1	putative two-component system, response regulator (NP_737890.1| putative transcription regulator [Corynebacterium efficiens YS-314]; ZP_00033625.1| COG2197: Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Burkholderia fungorum]). pfam00196, GerE, Bacterial regulatory proteins, luxR family.; Specificity unclear
YP_001221647.1	catalyzes the formation of thymidine 5'-phosphate from thymidine
YP_001221648.1	putative tyrosine-protein kinase (NP_599595.1| putative ATPase involved in chromosome partitioning [Corynebacterium glutamicum ATCC 13032]; ZP_00190418.2| COG0489: ATPases involved in chromosome partitioning [Kineococcus radiotolerans SRS30216]). , N-terminal: COG3944, Capsular polysaccharide biosynthesis protein,pfam02706, Wzz, Chain length determinant protein. This family includes proteins involved in lipopolysaccharide (lps) biosynthesis. This region is also found as part of bacterial tyrosine kinases. , C-terminal: COG0489, Mrp,ATPases involved in chromosome partitioning; Function unclear
YP_001221649.1	hypothetical protein (BAB97739.1| Hypothetical protein [Corynebacterium glutamicum ATCC 13032]).; Function unclear
YP_001221650.1	hypothetical protein (ZP_00120927.1| COG1463: ABC-type transport system involved in resistance to organic solvents, periplasmic component [Bifidobacterium longum DJO10A]; ZP_00120551.1| COG0840: Methyl-accepting chemotaxis protein [Bifidobacterium longum DJO10A]; ZP_00199275.1| hypothetical protein Krad06001109 [Kineococcus radiotolerans SRS30216]).; Function unclear
YP_001221653.1	conserved membrane protein, putative resistance protein (NP_347289.1| Uncharacterized conserved membrane protein, ; NP_832420.1| Teicoplanin resistance protein vanZ [Bacillus cereus ATCC 14579]). pfam04892, VanZ, VanZ like family.; Function unclear
YP_001221654.1	putative flavin-dependent oxidoreductase/monooxygenase (NP_826413.1| putative LuxAB-like protein (oxygenase) [Streptomyces avermitilis MA-4680]; CAF25096.1| putative alkanalmonooxygenase [Yersinia enterocolitica]) pfam00296, Bac_luciferase,Luciferase-like monooxygenase. InterPro: Bacterial luciferase.; Function unclear
YP_001221655.1	putative penicillin-binding protein (YP_061622.1| penicillin-binding protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_789643.1| putative penicillin-binding protein/transpeptidase [Tropheryma whipplei TW08/27]; ZP_00120566.1| hypothetical protein Blon020421 [Bifidobacterium longum DJO10A]). Cell wall formation. Synthesis of cross-linked peptidoglycan from the lipid intermediates. pfam00912, Transgly, Transglycosylase. The penicillin-binding proteins are bifunctional proteins consisting of transglycosylase and transpeptidase in the N- and C-terminus respectively. The transglycosylase domain catalyses the polymerisation of murein glycan chains. pfam00905, Transpeptidase, Penicillin binding protein transpeptidase domain. The active site serine is conserved in all members of this family.; Specificity unclear
YP_001221656.1	putative acyltransferase (ZP_00226320.1| COG1835: Predicted acyltransferases [Kineococcus radiotolerans SRS30216]; NP_298068.1| O-antigen acetylase [Xylella fastidiosa 9a5c]; ZP_00058493.1| COG1835: Predicted acyltransferases [Thermobifida fusca]). pfam01757,Acyl_transf_3, Acyltransferase family. This family includes a range of acyltransferase enzymes.; Specificity unclear
YP_001221657.1	hypothetical membrane protein; Hypothetical protein
YP_001221658.1	putative phosphohydrolase (YP_061478.1| phosphohydrolase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_789644.1| putative secreted protein [Tropheryma whipplei TW08/27]). InterPro: Serine/threonine specific protein phosphatase. pfam00149, Metallophos,Calcineurin-like phosphoesterase. This family includes a diverse range of phosphoesterases, including protein phosphoserine phosphatases, nucleotidases, sphingomyelin phosphodiesterases and 2'-3' cAMP phosphodiesterases as well as nucleases such as bacterial SbcD or yeast MRE11.; Function unclear
YP_001221659.1	putative membrane carboxypeptidase (penicillin-binding protein) (YP_061622.1| penicillin-binding protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_789643.1| putative penicillin-binding protein/transpeptidase [Tropheryma whipplei TW08/27]). InterPro: Penicillin binding protein transpeptidase domain. pfam00912,Transgly, Transglycosylase. The penicillin-binding proteins are bifunctional proteins consisting of transglycosylase and transpeptidase in the N- and C-terminus respectively. The transglycosylase domain catalyses the polymerisation of murein glycan chains. pfam00905, Transpeptidase, Penicillin binding protein transpeptidase domain. The active site serine is conserved in all members of this family. pfam03793, PASTA, PASTA domain. This domain is found at the C termini of several Penicillin-binding proteins and bacterial serine/threonine kinases. It binds the beta-lactam stem, which implicates it in sensing D-alanyl-D-alanine - the PBP transpeptidase substrate.; Specificity unclear
YP_001221660.1	conserved hypothetical protein (NP_787831.1| unknown [Tropheryma whipplei str. Twist]; NP_938688.1| Conserved hypothetical protein [Corynebacterium diphtheriae]).
YP_001221661.1	putative endoribonuclease, putative translation initiation inhibitor (NP_627772.1| conserved hypothetical protein [Streptomyces coelicolor A3(2)]; NP_959330.1| hypothetical protein MAP0396 [Mycobacterium avium subsp. paratuberculosis str. k10]). pfam01042, Ribonuc_L-PSP,Endoribonuclease L-PSP. Endoribonuclease active on single-stranded mRNA. Inhibits protein synthesis by cleavage of mRNA. Previously thought to inhibit protein synthesis initiation. This protein may also be involved in the regulation of purine biosynthesis. TIGR00004: endoribonuclease L-PSP puta; Function unclear
YP_001221662.1	putative acetyl-coenzyme A synthetase (Acetate-CoA ligase) (ZP_00227761.1| COG0365: Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Kineococcus radiotolerans SRS30216]; ZP_00058154.1| COG0365: Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Thermobifida fusca]). pfam00501, AMP-binding, AMP-binding enzyme.; Specificity unclear
YP_001221663.1	putative ATPase (NP_787829.1| putative type II/type IV pathway secretion protein [Tropheryma whipplei str. Twist]; NP_599554.2| predicted ATPase involved in pili and flagella biosynthesis [Corynebacterium glutamicum ATCC 13032]). pfam00437, GSPII_E, Type II/IV secretion system protein. This family contains both type II and type IV pathway secretion proteins from bacteria. also VirB11 (COG0630)- similarity; Family membership
YP_001221664.1	conserved membrane protein (NP_789640.1| putative integral membrane protein [Tropheryma whipplei TW08/27]; NP_798789.1| putative tight adherence TadC-related transmembrane protein [Vibrio parahaemolyticus RIMD 2210633]). weak similarity to: pfam00482, GSPII_F,Bacterial type II secretion system protein F domain.; Family membership
YP_001221665.1	hypothetical protein (AAN24334.1| hypothetical protein BL0505 [Bifidobacterium longum NCC2705]).
YP_001221666.1	hypothetical protein (AAT88406.1| hypothetical protein Lxx04030 [Leifsonia xyli subsp. xyli str. CTCB07]; NP_789638.1| hypothetical protein TW717 [Tropheryma whipplei TW08/27])
YP_001221667.1	hypothetical protein (AAO44794.1| unknown [Tropheryma whipplei str. Twist]).
YP_001221668.1	DNA topoisomerase I (ZP_00227140.1| COG0550: Topoisomerase IA [Kineococcus radiotolerans SRS30216]; NP_959359.1| TopA [Mycobacterium avium subsp. paratuberculosis str. k10]). pfam01751, Toprim, Toprim domain. This is a conserved region from DNA primase. pfam01131, Topoisom_bac, DNA topoisomerase.; High confidence in function and specificity
YP_001221669.1	Thymidylate kinase (dTMP kinase) (Q8G6Z6|KTHY_BIFLO Thymidylate kinase (dTMP kinase); Q9RY40|KTHY_DEIRA Thymidylate kinase (dTMP kinase)). pfam02223,Thymidylate_kin, Thymidylate kinase. DTMP_kinase: thymidylate kinase; High confidence in function and specificity
YP_001221670.1	catalyzes the DNA-template-directed extension of the 3'-end of a DNA strand; the delta' subunit seems to interact with the gamma subunit to transfer the beta subunit on the DNA
YP_001221671.1	putative proteinase (ZP_00227136.1| COG0596: Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [Kineococcus radiotolerans SRS30216]; NP_825801.1| putative proteinase [Streptomyces avermitilis MA-4680]). pfam00561, Abhydrolase_1,alpha/beta hydrolase fold (only weak similarity).; Conserved hypothetical protein
YP_001221672.1	D-alanyl-D-alanine carboxypeptidase, penicillin-binding protein 4 precursor (NP_601895.1| D-alanyl-D-alanine carboxypeptidase [Corynebacterium glutamicum ATCC 13032]; NP_218144.1| hypothetical protein Rv3627c [Mycobacterium tuberculosis H37Rv]). Not involved in transpeptidation but exclusively catalyzes a DD-carboxypeptidase and DD-endopeptidase reaction. PBP4: D-alanyl-D-alanine carboxypeptid pfam02113, Peptidase_S13, D-Ala-D-Ala carboxypeptidase 3 (S13) family.; Function unclear
YP_001221673.1	putative pyrazinamidase/nicotinamidase (CAA17257.1| PYRAZINAMIDASE/NICOTINAMIDAS PNCA (PZase) [Mycobacterium tuberculosis H37Rv]; NP_787820.1| pyrazinamidase; nicotinamidase [Tropheryma whipplei str. Twist])., ,pfam00857, Isochorismatase, Isochorismatase family. This family are hydrolase enzymes.; Specificity unclear
YP_001221674.1	putative succinate-semialdehyde dehydrogenase [NADP+] (ZP_00293214.1| COG1012: NAD-dependent aldehyde dehydrogenases [Thermobifida fusca]; YP_054797.1| aldehyde dehydrogenase [Propionibacterium acnes KPA171202]). pfam00171, Aldedh, Aldehyde dehydrogenase family. This family of dehydrogenases act on aldehyde substrates. Members use NADP as a cofactor.; High confidence in function and specificity
YP_001221675.1	putative tRNA/rRNA methyltransferase (YP_062139.1| rRNA methyltransferase [Leifsonia xyli subsp. xyli str. CTCB07]; YP_056231.1| rRNA methylase family protein [Propionibacterium acnes KPA171202]). pfam00588,SpoU_methylase, SpoU rRNA Methylase family. This family of proteins probably use S-AdoMet. InterPro: tRNA/rRNA methyltransferase (SpoU).; Function unclear
YP_001221676.1	hypothetical protein (NP_895470.1| conserved hypothetical protein [Prochlorococcus marinus str. MIT 9313]; NP_898274.1| conserved hypothetical [Synechococcus sp. WH 8102]).
YP_001221677.1	hypothetical protein (NP_895470.1| conserved hypothetical protein [Prochlorococcus marinus str. MIT 9313]; NP_898274.1| conserved hypothetical [Synechococcus sp. WH 8102]).
YP_001221678.1	putative multidrug export ABC transporter, fused permease and ATP-binding protein (YP_061527.1| ABC transporter, NBP/MSD fusion protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_627447.1| putative ABC transporter [Streptomyces coelicolor A3(2)]). pfam00664, ABC_membrane,ABC transporter transmembrane region. pfam00005, ABC_tran,ABC transporter.; Function unclear
YP_001221679.1	putative multidrug export ABC transporter, ATP-binding protein (ZP_00199970.1| COG1131: ABC-type multidrug transport system, ATPase component [Rubrobacter xylanophilus DSM 9941]; CAH04372.1| NodI membrane transport protein [Sinorhizobium sp. BR816]). pfam00005,ABC_tran, ABC transporter.; Specificity unclear
YP_001221680.1	putative multidrug export ABC transporter, permease component (NP_435717.1| NodJ membrane transport protein [Sinorhizobium meliloti 1021]; ZP_00271835.1| COG0842: ABC-type multidrug transport system, permease component [Ralstonia metallidurans CH34]). pfam01061, ABC2_membrane,ABC-2 type transporter.; Function unclear
YP_001221681.1	putative multidrug export ABC transporter, permease component (ZP_00329441.1| COG0842: ABC-type multidrug transport system, permease component [Moorella thermoacetica ATCC 39073]; ZP_00291807.1| COG0842: ABC-type multidrug transport system, permease component [Thermobifida fusca]). pfam01061, ABC2_membrane, ABC-2 type transporter.; Specificity unclear
YP_001221682.1	putative MFS permease (NP_530800.1| MFS permease [Agrobacterium tumefaciens str. C58]; ZP_00195331.1| COG0477: Permeases of the major facilitator superfamily [Mesorhizobium sp. BNC1]). pfam05977, DUF894, Bacterial protein of unknown function (DUF894). This family consists of several bacterial proteins, many of which are annotated as putative transmembrane transport proteins.; Specificity unclear
YP_001221683.1	putative ribokinase (ZP_00019960.1| hypothetical protein [Chloroflexus aurantiacus]; NP_781564.1| ribokinase [Clostridium tetani E88]). pfam00294, PfkB,pfkB family carbohydrate kinase. This family includes a variety of carbohydrate and pyrimidine kinases.; Specificity unclear
YP_001221685.1	putative sugar ABC transporter, substrate-binding protein (NP_637562.1| ABC transporter sugar binding protein [Xanthomonas campestris pv. campestris str. ATCC 33913]; ZP_00233263.1| ABC transporter, substrate-binding protein [Listeria monocytogenes str. 1/2a F6854]). pfam01547, SBP_bac_1, Bacterial extracellular solute-binding protein.; Specificity unclear
YP_001221686.1	putative sugar ABC transporter, permease component (NP_779660.1| ABC transporter sugar permease [Xylella fastidiosa Temecula1]; AAM24057.1| ABC-type sugar transport systems, permease components [Thermoanaerobacter tengcongensis MB4]). pfam00528, BPD_transp_1, Binding-protein-dependent transport system inner membrane component. InterPro: Binding-protein-dependent transport systems inner membrane component.; Specificity unclear
YP_001221687.1	putative sugar ABC transporter, permease component (NP_471178.1| ; NP_694344.1| sugar binding-protein dependent transporter system permease [Oceanobacillus iheyensis HTE831]). pfam00528, BPD_transp_1, Binding-protein-dependent transport system inner membrane component.; Specificity unclear
YP_001221688.1	putative beta-glycosidase (EAA49874.1| hypothetical protein MG10038.4 [Magnaporthe grisea 70-15]; CAD47965.1| putative beta-glucosidase [Arthrobacter nicotinovorans]; ZP_00214214.1| COG1472: Beta-glucosidase-related glycosidases [Burkholderia cepacia R18194]). pfam00933,Glyco_hydro_3, Glycosyl hydrolase family 3 N terminal domain. pfam01915, Glyco_hydro_3_C, Glycosyl hydrolase family 3 C terminal domain.sim; Specificity unclear
YP_001221689.1	puative transcriptional regulator, LacI family (Q45831|REGA_CLOSA HTH-type transcriptional regulator regA; ZP_00186316.1| COG1609: Transcriptional regulators [Rubrobacter xylanophilus DSM 9941]). pfam00356, LacI,Bacterial regulatory proteins, lacI family. pfam00532,Peripla_BP_1, Periplasmic binding proteins and sugar binding domain of the LacI family. InterPro: Periplasmic binding proteins and sugar binding domain LacI family.; Specificity unclear
YP_001221690.1	Hypothetical protein
YP_001221691.1	conserved hypothetical protein (ZP_00141347.1| COG2258: Uncharacterized protein conserved in bacteria [Pseudomonas aeruginosa UCBPP-PA14]; ZP_00189460.2| COG2258: Uncharacterized protein conserved in bacteria [Kineococcus radiotolerans SRS30216]). pfam03473, MOSC,MOSC domain. The MOSC (MOCO sulfurase C-terminal) domain is a superfamily of beta-strand-rich domains identified in the molybdenum cofactor sulfurase and several other proteins from both prokaryotes and eukaryotes.; Function unclear
YP_001221692.1	Hypothetical protein
YP_001221693.1	putative MFS permease (NP_629604.1| transmembrane transport protein [Streptomyces coelicolor A3(2)]; NP_386279.1| PUTATIVE TRANSPORT TRANSMEMBRANE PROTEIN [Sinorhizobium meliloti]). pfam00083, Sugar_tr, Sugar (and other) transporter. InterPro: General substrate transporters.; Specificity unclear
YP_001221694.1	putative MFS permease (NP_629604.1| transmembrane transport protein [Streptomyces coelicolor A3(2)]; NP_695723.1| transmembrane transport protein possibly for shikimate [Bifidobacterium longum NCC2705]). pfam00083,Sugar_tr, Sugar (and other) transporter. 2A0106: citrate-proton symport; Specificity unclear
YP_001221696.1	putative peptide ABC transporter, permease compound (NP_630721.1| putative transport system permease protein [Streptomyces coelicolor A3(2)]; YP_049650.1| putative transport system membrane protein [Erwinia carotovora subsp. atroseptica SCRI1043]). two fused permease domains (COG0601, DppB, ABC-type dipeptide/oligopeptide/nickel transport systems, permease components and COG1173, DppC,ABC-type dipeptide/oligopeptide/nickel transport systems,permease components).; Specificity unclear
YP_001221697.1	putative peptide ABC transporter, binding protein (YP_049651.1| putative ABC transporter substrate-binding protein [Erwinia carotovora subsp. atroseptica SCRI1043]; NP_630720.1| putative solute-binding lipoprotein [Streptomyces coelicolor A3(2)]). pfam00496, SBP_bac_5,Bacterial extracellular solute-binding proteins, family 5.; Specificity unclear
YP_001221698.1	putative MFS permease (YP_049652.1| putative transport system membrane protein [Erwinia carotovora subsp. atroseptica SCRI1043]; ZP_00226985.1| COG0477: Permeases of the major facilitator superfamily [Kineococcus radiotolerans SRS30216]). pfam00083,Sugar_tr, Sugar (and other) transporter. InterPro: General substrate transporters 2A0115: benzoate transport; Specificity unclear
YP_001221699.1	putative peptide ABC transporter, ATP-binding protein (NP_943428.1| ABC transporter, ATP-binding protin [Klebsiella pneumoniae]; AAP21664.1| Shy17 [Streptomyces hygroscopicus subsp. yingchengensis]). pfam00005,ABC_tran, ABC transporter.; Specificity unclear
YP_001221700.1	putative peptide ABC transporter, ATP-binding protein (NP_244513.1| oligopeptide ABC transporter (ATP-binding protein) [Bacillus halodurans]; NP_693374.1| oligopeptide ABC transporter ATP-binding protein [Oceanobacillus iheyensis HTE831]). pfam00005, ABC_tran,ABC transporter. InterPro: AAA ATPase superfamily.; Specificity unclear
YP_001221701.1	RibE; 6,7-diimethyl-8-ribityllumazine synthase; DMRL synthase; lumazine synthase; beta subunit of riboflavin synthase; condenses 5-amino-6-(1'-D)-ribityl-amino-2,4(1H,3H)-pyrimidinedione with L-3,4-dihydrohy-2-butanone-4-phosphate to generate 6,6-dimethyl-8-lumazine (DMRL); riboflavin synthase then uses 2 molecules of DMRL to produce riboflavin (vitamin B12); involved in the last steps of riboflavin biosynthesis; forms a 60mer (icosahedral shell) in both Bacillus subtilis and Escherichia coli; in Bacillus subtilis this 60mer is associated with the riboflavin synthase subunit (alpha) while in Escherichia coli it is not
YP_001221702.1	Riboflavin biosynthesis protein ribA [Includes: GTP cyclohydrolase II (EC 3.5.4.25) and 3,4-dihydroxy-2-butanone 4-phosphate synthase (DHBP synthase)] (YP_061534.1| GTP cyclohydrolase II; 3,4-dihydroxy- 2-butanone-4-phosphate synthase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_293879.1| GTP cyclohydrolase II/3,4-dihydroxy- 2-butanone-4-phosphate synthase [Deinococcus radiodurans R1]). contains two domains: N-terminal,pfam00926, DHBP_synthase, 3,4-dihydroxy-2-butanone 4-phosphate synthase. C-terminal, COG0807, RibA, GTP cyclohydrolase II [Coenzyme metabolism], pfam00925,GTP_cyclohydro2, GTP cyclohydrolase II.; High confidence in function and specificity
YP_001221703.1	catalyzes the formation of riboflavin from 6,7-dimethyl-8-(1-D-ribityl)lumazine
YP_001221704.1	Riboflavin biosynthesis protein ribD [Includes: Diaminohydroxyphosphoribosylaminopyrimidine deaminase (EC 3.5.4.26) (Riboflavin-specific deaminase) and 5-amino-6-(5-phosphoribosylamino) uracil reductase (EC 1.1.1.193) (HTP reductase)] (YP_061536.1| riboflavin-specific deaminase; riboflavin-specific reductase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_855096.1| PROBABLE BIFUNCTIONAL riboflavin biosynthesis protein RIBG : Diaminohydroxyphosphoribosylaminopyrimidine deaminase (Riboflavin- specific deaminase) + 5-amino-6-(5-phosphoribosylamino) uracil reductase (HTP reductase) [Mycobacterium bovis AF2122/97]). contains two domains: N-terminally, COG0117, RibD, Pyrimidine deaminase [Coenzyme metabolism]; pfam00383, dCMP_cyt_deam, Cytidine and deoxycytidylate deaminase zinc-binding region. C-terminally, COG1985, RibD, Pyrimidine reductase,riboflavin biosynthesis [Coenzyme metabolism]; pfam01872,RibD_C, RibD C-terminal domain. The function of this domain is not known, but it is thought to be involved in riboflavin biosynthesis.; High confidence in function and specificity
YP_001221705.1	putative hydrolase (NP_629683.1| putative hydrolase [Streptomyces coelicolor A3(2)]; ZP_00191679.2| COG1011: Predicted hydrolase (HAD superfamily) [Kineococcus radiotolerans SRS30216]). pfam00702, Hydrolase, haloacid dehalogenase-like hydrolase. This family are structurally different from the alpha/ beta hydrolase family (pfam00561). This family includes L-2-haloacid dehalogenase, epoxide hydrolases and phosphatases.; Function unclear
YP_001221706.1	catalyzes a two-step reaction, first charging a tryptophan molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA
YP_001221707.1	putative exonuclease III (NP_787813.1| putative exodeoxyribonuclease [Tropheryma whipplei str. Twist]; ZP_00198614.2| COG0708: Exonuclease III [Kineococcus radiotolerans SRS30216]). pfam03372, Exo_endo_phos,Endonuclease/Exonuclease/phosphatase family. This large family of proteins includes magnesium dependent endonucleases and a large number of phosphatases involved in intracellular signalling.; High confidence in function and specificity
YP_001221708.1	conserved membrane protein, putative ribonuclease (ZP_00121873.1| COG1295: Predicted membrane protein [Bifidobacterium longum DJO10A]; NP_599910.1| multiple transmembrane domain containing protein [Corynebacterium glutamicum ATCC 13032]). pfam03631, Ribonuclease_BN,Ribonuclease BN-like family. This family contains integral membrane proteins with 5 to 6 predicted transmembrane spans. The family include ribonuclease BN that is involved in tRNA maturation.; Function unclear
YP_001221709.1	Phosphoenolpyruvate-protein phosphotransferase (Phosphotransferase system, EI component) (NP_828150.1| putative phosphoenolpyruvate- protein phosphotransferase [Streptomyces avermitilis MA-4680]; ZP_00293042.1| COG1080: Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Thermobifida fusca]). pfam05524,PEP-utilisers_N, PEP-utilising enzyme, N-terminal. pfam00391, PEP-utilizers, PEP-utilising enzyme, mobile domain. pfam02896, PEP-utilizers_C, PEP-utilising enzyme,TIM barrel domain. InterPro: PEP-utilizing enzyme.; Specificity unclear
YP_001221710.1	part of four member succinate dehydrogenase enzyme complex that forms a trimeric complex (trimer of tetramers); SdhA/B are the catalytic subcomplex and can exhibit succinate dehydrogenase activity in the absence of SdhC/D which are the membrane components and form cytochrome b556; SdhC binds ubiquinone; oxidizes succinate to fumarate while reducing ubiquinone to ubiquinol; the catalytic subunits are similar to fumarate reductase
YP_001221711.1	part of four member succinate dehydrogenase enzyme complex that forms a trimeric complex (trimer of tetramers); SdhA/B are the catalytic subcomplex and can exhibit succinate dehydrogenase activity in the absence of SdhC/D which are the membrane components and form cytochrome b556; SdhC binds ubiquinone; oxidizes succinate to fumarate while reducing ubiquinone to ubiquinol
YP_001221712.1	succinate dehydrogenase, hydrophobic membrane subunit (YP_061549.1| succinate dehydrogenase, membrane subunit [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00225992.1| COG2142: Succinate dehydrogenase,hydrophobic anchor subunit [Kineococcus radiotolerans SRS30216]). pfam01127, Sdh_cyt, Succinate dehydrogenase cytochrome b subunit.; High confidence in function and specificity
YP_001221713.1	succinate dehydrogenase, cytochrome b subunit (NP_629013.1| putative succinate dehydrogenase membrane subunit [Streptomyces coelicolor A3(2)]; ZP_00225993.1| COG2009: Succinate dehydrogenase/fumarate reductase,cytochrome b subunit [Kineococcus radiotolerans SRS30216]). MONO-HEME CYTOCHROME OF THE SUCCINATE DEHYDROGENASE COMPLEX. pfam01127, Sdh_cyt, Succinate dehydrogenase cytochrome b subunit.; High confidence in function and specificity
YP_001221714.1	putative mannosyl transferase (CAB08968.1| MANNOSYLTRANSFERASE PIMB [Mycobacterium tuberculosis H37Rv]; NP_737090.1| conserved hypothetical protein [Corynebacterium efficiens YS-314]). InterPro: Glycosyl transferases group 1. pfam00534, Glycos_transf_1, Glycosyl transferases group 1. Members of this family transfer activated sugars to a variety of substrates, including glycogen, Fructose-6-phosphate and lipopolysaccharides. Members of this family transfer UDP, ADP, GDP or CMP linked sugars.; Specificity unclear
YP_001221715.1	Mannose-1-phosphate guanylyltransferase (NP_787484.1| Mannose-1-phosphate guanylyltransferase [Tropheryma whipplei str. Twist]; ZP_00225994.1| COG0836: Mannose-1-phosphate guanylyltransferase [Kineococcus radiotolerans SRS30216]). INVOLVED IN GDP-MANNOSE BIOSYNTHESIS WHICH SERVES AS THE ACTIVATED SUGAR NUCLEOTIDE PRECURSOR FOR MANNOSE RESIDUES IN CELL SURFACE POLYSACCHARIDES. InterPro: ADP-glucose pyrophosphorylase. pfam00483, NTP_transferase, Nucleotidyl transferase. This family includes a wide range of enzymes which transfer nucleotides onto phosphosugars.; High confidence in function and specificity
YP_001221716.1	putative ABC transporter, substrate-binding protein (ZP_00225996.1| COG1744: Uncharacterized ABC-type transport system, periplasmic component/ surface lipoprotein [Kineococcus radiotolerans SRS30216]; NP_622136.1| Surface lipoprotein [Thermoanaerobacter tengcongensis]). pfam02608, Bmp, Basic membrane protein. This is a family of basic membrane lipoproteins form Borrelia and various putative lipoproteins form other bacteria.; Function unclear
YP_001221717.1	putative ABC transporter, substrate-binding protein (ZP_00225996.1| COG1744: Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [Kineococcus radiotolerans SRS30216]; NP_622136.1| Surface lipoprotein [Thermoanaerobacter tengcongensis]). pfam02608, Bmp, Basic membrane protein. This is a family of basic membrane lipoproteins form Borrelia and various putative lipoproteins form other bacteria. InterPro: Basic membrane lipoprotein.; Function unclear
YP_001221718.1	putative sugar ABC transporter, ATPase component (ZP_00225997.1| COG3845: ABC-type uncharacterized transport systems, ATPase components [Kineococcus radiotolerans SRS30216]; NP_622137.1| ABC-type sugar (aldose) transport system, ATPase component [Thermoanaerobacter tengcongensis]). pfam00005, ABC_tran,ABC transporter (duplicated).; Specificity unclear
YP_001221719.1	putative sugar ABC transporter, permease component (ZP_00198294.1| COG4603: ABC-type uncharacterized transport system, permease component [Kineococcus radiotolerans SRS30216]; ZP_00330811.1| COG4603: ABC-type uncharacterized transport system, permease component [Moorella thermoacetica ATCC 39073]). pfam02653,BPD_transp_2, Branched-chain amino acid transport system / permease component. This is a large family mainly comprising high-affinity branched-chain amino acid transporter proteins such as E. coli LivH and LivM, both of which are form the LIV-I transport system. Also found with in this family are proteins from the galactose transport system permease, and a ribose transport system. InterPro: Binding-system dependent bacterial transporters (araH livH/limM families).; Specificity unclear
YP_001221720.1	putative sugar ABC transporter, permease component (ZP_00226022.1| COG1079: Uncharacterized ABC-type transport system, permease component [Kineococcus radiotolerans SRS30216]; ZP_00108155.1| COG1079: Uncharacterized ABC-type transport system, permease component [Nostoc punctiforme]). pfam02653, BPD_transp_2,Branched-chain amino acid transport system / permease component. This is a large family mainly comprising high-affinity branched-chain amino acid transporter proteins such as E. coli LivH and LivM, both of which are form the LIV-I transport system. Also found with in this family are proteins from the galactose transport system permease, and a ribose transport system.; Specificity unclear
YP_001221721.1	Reclaims exogenous and endogenous cytidine and 2'-deoxycytidine molecules for UMP synthesis
YP_001221722.1	Catalyzes the reversible phosphorolysis of thymidine, deoxyuridine and their analogues to their respective bases and 2-deoxyribose 1-phosphate
YP_001221723.1	Inosine-uridine nucleoside N-ribohydrolase (Purine nucleosidase) (NP_738092.1| putative nucleoside hydrolase [Corynebacterium efficiens YS-314]; NP_246706.1| IunH [Pasteurella multocida Pm70]). CATALYZES THE HYDROLYSIS OF ALL OF THE COMMONLY OCCURRING PURINE AND PYRIMIDINE NUCLEOSIDES INTO RIBOSE AND THE ASSOCIATED BASE BUT HAS A PREFERENCE FOR INOSINE AND URIDINE AS SUBSTRATES. pfam01156, IU_nuc_hydro, Inosine-uridine preferring nucleoside hydrolase.; High confidence in function and specificity
YP_001221724.1	catalyzes the formation of inosine from adenosine
YP_001221725.1	putative phosphotransferase system mannitol/fructose-specific IIA domain (Ntr-type) (NP_694338.1| hypothetical protein OB3416 [Oceanobacillus iheyensis HTE831]; NP_463246.1| putative PTS enzyme II [Salmonella typhimurium LT2]). pfam00359, PTS_EIIA_2,Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2.; Specificity unclear
YP_001221726.1	putative phosphotransferase system, IIB component (ZP_00234701.1| PTS system, lactose/cellobiose specific IIB subunit [Listeria monocytogenes str. 1/2a F6854]; NP_979285.1| PTS system, lactose/cellobiose specific IIB subunit [Bacillus cereus ATCC 10987]). , pfam02302,PTS_IIB, PTS system, Lactose/Cellobiose specific IIB subunit.; Specificity unclear
YP_001221727.1	putative membrane protein (ZP_00226020.1| hypothetical protein Krad06004090 [Kineococcus radiotolerans SRS30216]).
YP_001221728.1	transcriptional regulator, MerR family (ZP_00227809.1| COG0789: Predicted transcriptional regulators [Kineococcus radiotolerans SRS30216]; ZP_00057612.1| COG0789: Predicted transcriptional regulators [Thermobifida fusca]). smart00422, HTH_MERR,helix_turn_helix, mercury resistance; Specificity unclear
YP_001221729.1	putative phosphomannomutase (NP_873912.1| probable phosphomannomutase [Haemophilus ducreyi 35000HP]; NP_246011.1| YhxB [Pasteurella multocida]). pfam02878,PGM_PMM_I, Phosphoglucomutase/phosphomannomutase,alpha/beta/alpha domain I. pfam02879, PGM_PMM_II,Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain II. pfam00408, PGM_PMM_IV,Phosphoglucomutase/phosphomannomutase, C-terminal domain.; High confidence in function and specificity
YP_001221730.1	catalyzes the formation of a purine and ribose phosphate from a purine nucleoside; in E. coli this enzyme functions in xanthosine degradation
YP_001221731.1	catalyzes the reduction of nonspecific electron acceptors such as 2,6-dimethyl-1,4-benzoquinone and 5-hydroxy-1,4-naphthaquinone; does not have lipoamide dehydrogenase activity
YP_001221732.1	Acetyl-/propionyl-coenzyme A carboxylase alpha chain [Includes: Biotin carboxylase (EC 6.3.4.14); Biotin carboxyl carrier protein (BCCP)] (ZP_00293824.1| COG4770: Acetyl/propionyl-CoA carboxylase, alpha subunit [Thermobifida fusca]; NP_629074.1| putative acyl-CoA carboxylase complex A subunit [Streptomyces coelicolor A3(2)]). THIS PROTEIN CARRIES TWO FUNCTIONS: BIOTIN CARBOXYL CARRIER PROTEIN AND BIOTIN CARBOXYLTRANSFERASE. accC: acetyl-CoA carboxylase biotin c pfam00289,CPSase_L_chain, Carbamoyl-phosphate synthase L chain, N-terminal domain. pfam02786, CPSase_L_D2, Carbamoyl-phosphate synthase L chain, ATP binding domain. pfam02785,Biotin_carb_C, Biotin carboxylase C-terminal domain. pfam00364, Biotin_lipoyl, Biotin-requiring enzyme.; High confidence in function and specificity
YP_001221734.1	putative inhibitor of septum formation (ZP_00049215.1| COG0424: Nucleotide-binding protein implicated in inhibition of septum formation [Magnetospirillum magnetotacticum]; ZP_00226343.1| COG0424: Nucleotide-binding protein implicated in inhibition of septum formation [Kineococcus radiotolerans SRS30216]). pfam02545, Maf, Maf-like protein. Maf is a putative inhibitor of septum formation in eukaryotes,bacteria, and archaea.; High confidence in function and specificity
YP_001221735.1	putative RNA methyltransferase (ZP_00294131.1| COG2265: SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Thermobifida fusca]; ZP_00226682.1| COG2265: SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Kineococcus radiotolerans SRS30216]). pfam01938, TRAM, TRAM domain. This small domain has no known function. However it may perform a nucleic acid binding role. pfam05958, tRNA_U5-meth_tr, tRNA (Uracil-5-)-methyltransferase.; Specificity unclear
YP_001221736.1	putative two component system, response regulator (NP_737890.1| putative transcription regulator [Corynebacterium efficiens YS-314]; AAP42850.1| NanT3 [Streptomyces nanchangensis]). InterPro: Response regulator receiver domain pfam00072, Response_reg,Response regulator receiver domain. pfam00196, GerE,Bacterial regulatory proteins, luxR family.; Specificity unclear
YP_001221737.1	putative two-component system, sensor kinase (ZP_00121793.2| COG4585: Signal transduction histidine kinase [Bifidobacterium longum DJO10A]; AAP42852.1| NanT5 [Streptomyces nanchangensis]). pfam02518, HATPase_c,Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase.; Specificity unclear
YP_001221738.1	Hypothetical protein
YP_001221739.1	hypothetical protein (YP_056397.1| hypothetical protein PPA1708 [Propionibacterium acnes KPA171202]; NP_962334.1| hypothetical protein MAP3400 [Mycobacterium avium subsp. paratuberculosis str. k10]).
YP_001221740.1	putative acetyl-/propionyl-CoA carboxylase beta chain (NP_629079.1| propionyl-CoA carboxylase complex B subunit [Streptomyces coelicolor A3(2)]; ZP_00293826.1| COG4799: Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Thermobifida fusca]). pfam01039, Carboxyl_trans, Carboxyl transferase domain. All of the members in this family are biotin dependent carboxylases.; Specificity unclear
YP_001221741.1	putative lipoate protein ligase (NP_788981.1| putative protein ligase [Tropheryma whipplei TW08/27]; NP_599941.1| biotin-(acetyl-CoA carboxylase) ligase [Corynebacterium glutamicum ATCC 13032]). pfam03099,BPL_LipA_LipB, Biotin/lipoate A/B protein ligase family. pfam02237, BPL_C, Biotin protein ligase C terminal domain. birA_ligase: biotin--acetyl-CoA-carboxyla; Specificity unclear
YP_001221742.1	hypothetical membrane protein pfam03703, DUF304,Bacterial membrane flanked domain.; Hypothetical protein
YP_001221743.1	putative membrane protein (NP_301574.1| putative membrane protein [Mycobacterium leprae TN]; ZP_00293833.1| COG2246: Predicted membrane protein [Thermobifida fusca]). pfam04138, GtrA, GtrA-like protein. Members of this family are predicted to be integral membrane proteins with three or four transmembrane spans. They are involved in the synthesis of cell surface polysaccharides.; Function unclear
YP_001221744.1	With PurE catalyzes the conversion of aminoimidazole ribonucleotide to carboxyaminoimidazole ribonucleotide in the de novo purine nucleotide biosynthetic pathway
YP_001221745.1	Phosphoribosylaminoimidazole carboxylase catalytic subunit (O67239|PUR6_AQUAE Phosphoribosylaminoimidazole carboxylase catalytic subunit (AIR carboxylase) (AIRC); ZP_00226348.1| COG0041: Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Kineococcus radiotolerans SRS30216]; pfam00731, AIRC,AIR carboxylase. Members of this family catalyse the decarboxylation of 1-(5-phosphoribosyl)-5-amino-4-imidazole-carboxylate (AIR). This family catalyse the sixth step of de novo purine biosynthesis. InterPro: 1-(5-Phosphoribosyl)-5-amino-4-imidazole-carboxylate (AIR) carboxylase; High confidence in function and specificity
YP_001221746.1	putative transcriptional regulator (ZP_00292832.1| COG1316: Transcriptional regulator [Thermobifida fusca]). pfam03816, LytR_cpsA_psr, Cell envelope-related transcriptional attenuator domain. InterPro: Cell envelope-related transcriptional attenuator domain.; Function unclear
YP_001221747.1	putative glycosyltransferase, mannosyltransferase (YP_061577.1| mannosyltransferase [Leifsonia xyli subsp. xyli str. CTCB07]; AAS55730.1| putative glycosyl transferase [Aneurinibacillus thermoaerophilus]; I76776 O9 mannan biosynthesis mannosyltransferase (EC 2.4.1.-) B - Escherichia coli). pfam00534, Glycos_transf_1, Glycosyl transferases group 1. Members of this family transfer activated sugars to a variety of substrates, including glycogen, Fructose-6-phosphate and lipopolysaccharides. Members of this family transfer UDP, ADP, GDP or CMP linked sugars.; Specificity unclear
YP_001221748.1	putative polysaccharide ABC transporter, ATP-binding protein (ZP_00226434.1| COG1134: ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Kineococcus radiotolerans SRS30216]; NP_787162.1| ABC transporter ATP-binding protein [Tropheryma whipplei str. Twist]). pfam00005, ABC_tran,ABC transporter.; Specificity unclear
YP_001221749.1	putative polysaccharide ABC-transporter, permease component (ZP_00226433.1| COG1682: ABC-type polysaccharide/polyol phosphate export systems, permease component [Kineococcus radiotolerans SRS30216]; NP_788992.1| putative ABC transport integral membrane subunit [Tropheryma whipplei TW08/27]). pfam01061,ABC2_membrane, ABC-2 type transporter.; Specificity unclear
YP_001221750.1	putative dTDP-4-dehydrorhamnose reductase (dTDP-L-rhamnose synthetase) (YP_061578.1| dTDP-4-dehydrorhamnose reductase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_787157.1| dTDP-4-dehydrorhamnose reductase [Tropheryma whipplei str. Twist]; AAG29801.1| dTDP-4-keto-6-deoxyhexose reductase [Streptomyces rishiriensis]). pfam04321, RmlD_sub_bind, RmlD substrate binding domain. L-rhanmose is a saccharide required for the virulence of some bacteria. Its precursor, dTDP-L-rhanmose, is synthesised by four different enzymes the final one of which is RmlD. The RmlD substrate binding domain is responsible for binding a sugar nucleotide.; High confidence in function and specificity
YP_001221751.1	putative dTDP-glucose 4,6-dehydratase (YP_061579.1| thymidine diphosphoglucose 4,6-dehydratase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_787158.1| dTDP-glucose 4,6-dehydratase [Tropheryma whipplei str. Twist]; AAK83290.1| DTDP-glucose 4,6-dehydratase [Saccharopolyspora spinosa]). InterPro: NAD dependent epimerase/dehydratase family. pfam01370, Epimerase, NAD dependent epimerase/dehydratase family. This family of proteins utilise NAD as a cofactor. The proteins in this family use nucleotide-sugar substrates for a variety of chemical reactions.; High confidence in function and specificity
YP_001221752.1	conserved hypothetical protein, putative sugar translocase (NP_949391.1| hypothetical protein RPA4055 [Rhodopseudomonas palustris CGA009]; NP_790903.1| membrane protein, putative [Pseudomonas syringae pv. tomato str. DC3000]; NP_636006.1| sugar translocase [Xanthomonas campestris pv. campestris str. ATCC 33913]; ZP_00231618.1| cell wall teichoic acid glycosylation protein GtcA [Listeria monocytogenes str. 4b H7858]). pfam04138, GtrA, GtrA-like protein. Members of this family are predicted to be integral membrane proteins with three or four transmembrane spans. They are involved in the synthesis of cell surface polysaccharides.
YP_001221753.1	putative dTDP-4-dehydrorhamnose 3,5-epimerase (dTDP-L-rhamnose synthetase) (YP_061580.1| dTDP-4-dehydrorhamnose 3,5-epimerase [Leifsonia xyli subsp. xyli str. CTCB07]; dTDP-L-rhamnose synthetase) (NP_963158.1| RmlC [Mycobacterium avium subsp. paratuberculosis str. k10]). pfam00908, dTDP_sugar_isom, dTDP-4-dehydrorhamnose 3,5-epimerase. This family catalyse the isomerisation of dTDP-4-dehydro-6-deoxy -D-glucose with dTDP-4-dehydro-6-deoxy-L-mannose.; High confidence in function and specificity
YP_001221754.1	putative glucose-1-phosphate thymidylyltransferase (dTDP-glucose synthase) (AAN65244.1| dTDP-glucose synthase [Streptomyces roseochromogenes subsp. oscitans]; AAF67515.1| NovV [Streptomyces caeruleus]). pfam00483,NTP_transferase, Nucleotidyl transferase. This family includes a wide range of enzymes which transfer nucleotides onto phosphosugars.; High confidence in function and specificity
YP_001221755.1	putative NDP-sugar-epimerase (AAP69596.1| putative NDP-sugar dehydratase/epimerase [Streptomyces griseoflavus]; YP_061584.1| UDP-glucose 4-epimerase [Leifsonia xyli subsp. xyli str. CTCB07]). pfam01370,Epimerase, NAD dependent epimerase/dehydratase family. This family of proteins utilise NAD as a cofactor. The proteins in this family use nucleotide-sugar substrates for a variety of chemical reactions.; Specificity unclear
YP_001221756.1	putative glycosyl transferase (NP_108629.1| ; NP_630465.1| putative sugar transferase [Streptomyces coelicolor A3(2)]). pfam00535, Glycos_transf_2, Glycosyl transferase. Diverse family, transferring sugar from UDP-glucose, UDP-N-acetyl- galactosamine, GDP-mannose or CDP-abequose, to a range of substrates including cellulose,dolichol phosphate and teichoic acids.; Specificity unclear
YP_001221757.1	putative glycosyl transferase (NP_661812.1| glycosyl transferase [Chlorobium tepidum TLS]; AAN04247.1| putative glycosyl transferase [Streptomyces sp. 139]). pfam00535, Glycos_transf_2, Glycosyl transferase. Diverse family, transferring sugar from UDP-glucose, UDP-N-acetyl- galactosamine, GDP-mannose or CDP-abequose, to a range of substrates including cellulose,dolichol phosphate and teichoic acids.; Specificity unclear
YP_001221758.1	hypothetical membrane protein (weak similarities,ZP_00047020.1| COG4485: Predicted membrane protein [Lactobacillus gasseri]; NP_689157.1| ABC transporter,permease protein, putative [Streptococcus agalactiae 2603V/R]). weak similarity to: COG1807, ArnT, 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Hypothetical protein
YP_001221759.1	putative glycosyl (rhamnosyl) transferase (ZP_00226429.1| COG0463: Glycosyltransferases involved in cell wall biogenesis [Kineococcus radiotolerans SRS30216]; YP_004503.1| dTDP-rhamnosyl transferase rfbF [Thermus thermophilus HB27]; NP_964886.1| hypothetical protein LJ1030 [Lactobacillus johnsonii NCC 533]). pfam00535, Glycos_transf_2, Glycosyl transferase. Diverse family, transferring sugar from UDP-glucose, UDP-N-acetyl-galactosamine, GDP-mannose or CDP-abequose, to a range of substrates including cellulose, dolichol phosphate and teichoic acids.; Specificity unclear
YP_001221760.1	putative glycosyl transferase (NP_810558.1| putative glycosyltransferase [Bacteroides thetaiotaomicron VPI-5482]; BAA19631.1| unnamed protein product [Actinobacillus actinomycetemcomitans]). pfam00535,Glycos_transf_2, Glycosyl transferase. Diverse family,transferring sugar from UDP-glucose, UDP-N-acetyl-galactosamine, GDP-mannose or CDP-abequose, to a range of substrates including cellulose, dolichol phosphate and teichoic acids.; Specificity unclear
YP_001221761.1	putative UDP-galactopyranose mutase (ZP_00226431.1| COG0562: UDP-galactopyranose mutase [Kineococcus radiotolerans SS30216]; NP_739329.1| putative UDP-galactopyranose mutase [Corynebacterium efficiens YS-314]). pfam03275, GLF, UDP-galactopyranose mutase. UDP-GALP_mutase: UDP-galactopyranose; High confidence in function and specificity
YP_001221762.1	putative glycosyltransferase (ZP_00226432.1| COG1216: Predicted glycosyltransferases [Kineococcus radiotolerans SRS30216]; NP_218325.1| hypothetical protein Rv3808c [Mycobacterium tuberculosis H37Rv]). pfam00535, Glycos_transf_2, Glycosyl transferase. Diverse family, transferring sugar from UDP-glucose, UDP-N-acetyl-galactosamine, GDP-mannose or CDP-abequose, to a range of substrates including cellulose, dolichol phosphate and teichoic acids. InterPro: Glycosyl transferase family 2.; Specificity unclear
YP_001221763.1	putative peptidoglycan-binding protein (YP_061590.1| hemagglutinin-related protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_696468.1| hypothetical protein BL1304 [Bifidobacterium longum NCC2705]).; Function unclear
YP_001221764.1	conserved membrane protein (NP_949391.1| hypothetical protein RPA4055 [Rhodopseudomonas palustris CGA009]; NP_816266.1| teichoic acid glycosylation protein, putative [Enterococcus faecalis V583]). pfam04138, GtrA, GtrA-like protein. Members of this family are predicted to be integral membrane proteins with three or four transmembrane spans. They are involved in the synthesis of cell surface polysaccharides.; Conserved hypothetical protein
YP_001221765.1	conserved membrane protein (YP_061600.1| exopolysaccharide production protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00110594.1| COG3307: Lipid A core - O-antigen ligase and related enzymes [Nostoc punctiforme]; ZP_00085768.1| COG3307: Lipid A core - O-antigen ligase and related enzymes [Pseudomonas fluorescens PfO-1]). potentially involved in export of polysaccharides (EPS/teichoic acids).; Function unclear
YP_001221766.1	conserved membrane protein, putative polysaccharide polymerase (YP_061601.1| exopolysaccharide production protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_419318.1| conserved hypothetical protein [Caulobacter crescentus CB15]; ZP_00085768.1| COG3307: Lipid A core -O-antigen ligase and related enzymes [Pseudomonas fluorescens PfO-1]). pfam04932, Wzy_C, O-Antigen Polymerase. This group of bacterial proteins is involved in the synthesis of O-antigen, a lipopolysaccharide found in the outer membrane in gram-negative bacteria.
YP_001221767.1	putative glutaryl-CoA dehydrogenase (NP_821894.1| putative glutaryl-CoA dehydrogenase [Streptomyces avermitilis MA-4680]; NP_294274.1| glutaryl-CoA dehydrogenase, putative [Deinococcus radiodurans]). pfam02771, Acyl-CoA_dh_N, Acyl-CoA dehydrogenase, N-terminal domain. The N-terminal domain of Acyl-CoA dehydrogenase is an all-alpha domain. pfam02770, Acyl-CoA_dh_M, Acyl-CoA dehydrogenase, middle domain. Central domain of Acyl-CoA dehydrogenase has a beta-barrel fold. pfam00441, Acyl-CoA_dh, Acyl-CoA dehydrogenase, C-terminal domain. C-terminal domain of Acyl-CoA dehydrogenase is an all-alpha, four helical up-and-down bundle.; Specificity unclear
YP_001221768.1	putative mannose-6-phosphate isomerase (YP_061602.1| mannose-6-phosphate isomerase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_301594.1| putative mannose-6-phosphate isomerase [Mycobacterium leprae]). pfam01238, PMI_typeI, Phosphomannose isomerase type I. manA: mannose-6-phosphate isomerase cl; High confidence in function and specificity
YP_001221769.1	UDP-glucose 4-epimerase (UDP-galactose 4-epimerase) (YP_061604.1| UDP-glucose 4-epimerase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_627211.1| UDP-glucose 4-epimerase [Streptomyces coelicolor A3(2)]). InterPro: NAD dependent epimerase/dehydratase family pfam01370,Epimerase, NAD dependent epimerase/dehydratase family. This family of proteins utilise NAD as a cofactor. The proteins in this family use nucleotide-sugar substrates for a variety of chemical reactions.; High confidence in function and specificity
YP_001221770.1	transcriptional regulator, whiB homolog (YP_061605.1| regulatory protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_789077.1| WhiB-like regulatory protein [Tropheryma whipplei TW08/27]; S20912 regulatory protein whiB - Streptomyces coelicolor). pfam02467, Whib,Transcription factor WhiB. WhiB is a putative transcription factor in Actinobacteria, required for differentiation and sporulation.; Hypothetical protein
YP_001221771.1	putative glycosyl transferase (NP_789078.1| putative integral membrane protein [Tropheryma whipplei TW08/27]; ZP_00058546.1| COG1216: Predicted glycosyltransferases [Thermobifida fusca]). InterPro: Glycosyl transferase family 2 pfam00535, Glycos_transf_2,Glycosyl transferase. Diverse family, transferring sugar from UDP-glucose, UDP-N-acetyl- galactosamine, GDP-mannose or CDP-abequose, to a range of substrates including cellulose, dolichol phosphate and teichoic acids.; Function unclear
YP_001221772.1	putative secreted protein (NP_789079.1| putative secreted protein [Tropheryma whipplei TW08/27]; NP_826221.1| hypothetical protein [Streptomyces avermitilis MA-4680]).; Function unclear
YP_001221773.1	conserved hypothetical protein (YP_061607.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_696177.1| hypothetical protein BL1005 [Bifidobacterium longum NCC2705]).
YP_001221774.1	conserved hypothetical protein (YP_061608.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00049347.1| hypothetical protein Magn022769 [Magnetospirillum magnetotacticum]; ZP_00058543.1| hypothetical protein [Thermobifida fusca]).
YP_001221775.1	converts mannose-6-phosphate to mannose-1-phosphate; the resulting product is then converted to GDP-mannose by ManC which is then used in the synthesis of mannose-containing glycoconjugates that are important for mediating entry into host cells
YP_001221776.1	conserved hypothetical protein (ZP_00227420.1| COG1937: Uncharacterized protein conserved in bacteria [Kineococcus radiotolerans SRS30216]; CAB09730.1| CONSERVED HYPOTHETICAL PROTEIN [Mycobacterium tuberculosis H37Rv]). pfam02583, DUF156, Uncharacterised BCR, COG1937.; Function unclear
YP_001221777.1	putative copper binding protein (ZP_00227421.1| COG2608: Copper chaperone [Kineococcus radiotolerans SRS30216]; ZP_00293701.1| COG2608: Copper chaperone [Thermobifida fusca]). cd00371, HMA, Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain contains two cysteine residues that are important in binding and transfer of metal ions, such as copper, cadmium, cobalt and zinc. InterPro: Heavy-metal-associated domain TIGRFAM (TIGR00003): copper-ion-binding protein; Function unclear
YP_001221778.1	putative metal-transporting ATPase (AAS20130.1| metal transporter ATPase [Arthrobacter aurescens]; ZP_00227422.1| COG2217: Cation transport ATPase [Kineococcus radiotolerans SRS30216]). , cd00371, HMA,Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain contains two cysteine residues that are important in binding and transfer of metal ions, such as copper, cadmium, cobalt and zinc. , pfam00122, E1-E2_ATPase, E1-E2 ATPase. pfam00702, Hydrolase, haloacid dehalogenase-like hydrolase.; Specificity unclear
YP_001221779.1	catalyzes the formation of L-homocysteine from S-adenosyl-L-homocysteine
YP_001221780.1	conserved membrane protein (ZP_00228191.1| COG1714: Predicted membrane protein/domain [Kineococcus radiotolerans SRS30216]; ZP_00058535.1| COG1714: Predicted membrane protein/domain [Thermobifida fusca]). pfam06271, RDD, RDD family. This family of proteins contain three highly conserved amino acids: one arginine and two aspartates, hence the name of RDD family. This region contains two predicted transmembrane regions. The arginine occurs at the N terminus of the first helix and the first aspartate occurs in the middle of this helix. The molecular function of this region is unknown.; Hypothetical protein
YP_001221781.1	conserved membrane protein (ZP_00228195.1| COG1300: Uncharacterized membrane protein [Kineococcus radiotolerans SRS30216]; ZP_00058534.1| COG1300: Uncharacterized membrane protein [Thermobifida fusca]). pfam01944, DUF95, Integral membrane protein DUF95. Members of this family have several predicted transmembrane regions. The function of this family is unknown.; Function unclear
YP_001221782.1	putative beta-glucosidase (glycosyl hydrolase,family3) (Beta-D- glucoside glucohydrolase) (NP_630676.1| putative beta-glucosidase [Streptomyces coelicolor A3(2)]; ZP_00019622.1| hypothetical protein [Chloroflexus aurantiacus]). pfam00933, Glyco_hydro_3, Glycosyl hydrolase family 3 N terminal domain. pfam01915,Glyco_hydro_3_C, Glycosyl hydrolase family 3 C terminal domain. InterPro: Glycoside hydrolase family 3 C terminal; Specificity unclear
YP_001221783.1	putative MFS permease (CAD47966.1| hypothetical protein [Arthrobacter nicotinovorans]; AAL78050.1| ORFB [Saccharopolyspora erythraea]). pfam00083, Sugar_tr, Sugar (and other) transporter. InterPro: General substrate transporters.; Specificity unclear
YP_001221784.1	putative transcriptional regulator, TetR family (ZP_00192310.3| COG1309: Transcriptional regulator [Kineococcus radiotolerans SRS30216]; ZP_00126888.1| COG1309: Transcriptional regulator [Pseudomonas syringae pv. syringae B728a]). pfam00440, TetR_N, Bacterial regulatory proteins, tetR family.; Specificity unclear
YP_001221785.1	conserved hypothetical protein (CAA18015.1| POSSIBLE CONSERVED MEMBRANE PROTEIN [Mycobacterium tuberculosis H37Rv]; NP_627241.1| putative lipoprotein [Streptomyces coelicolor A3(2)]). pfam01882, DUF58,Protein of unknown function DUF58. This family of prokaryotic proteins have no known function.; Function unclear
YP_001221786.1	putative regulatory protein (NP_826235.1| putative regulatory protein [Streptomyces avermitilis MA-4680]; ZP_00058532.1| COG0714: MoxR-like ATPases [Thermobifida fusca]).; Specificity unclear
YP_001221787.1	conserved hypothetical protein (NP_338346.1| hypothetical protein [Mycobacterium tuberculosis CDC1551]; NP_627239.1| putative secreted protein [Streptomyces coelicolor A3(2)]).; Function unclear
YP_001221788.1	conserved hypothetical protein (YP_061611.1| integral membrane protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_826237.1| putative integral membrane protein [Streptomyces avermitilis MA-4680]). kdpC: potassium-transporting ATPase C
YP_001221789.1	conserved membrane protein (YP_061612.1| integral membrane protein [Leifsonia xyli subsp. xyli str. CTCB07] ; ZP_00225539.1| hypothetical protein Krad06004829 [Kineococcus radiotolerans SRS30216]).; Conserved hypothetical protein
YP_001221790.1	putative two-component system response regulator (YP_061613.1| two-component system, regulatory protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00058528.1| COG0745: Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Thermobifida fusca]). pfam00072, Response_reg, Response regulator receiver domain. pfam00486, Trans_reg_C,Transcriptional regulatory protein, C terminal. InterPro: Response regulator receiver domain.; Specificity unclear
YP_001221791.1	putative two-component system sensor kinase (YP_061614.1| two-component system, sensor protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_627234.1| putative two-component system histidine kinase [Streptomyces coelicolor A3(2)]). pfam00672, HAMP, HAMP domain. pfam00512, HisKA, His Kinase A (phosphoacceptor) domain. Dimerisation and phosphoacceptor domain of histidine kinases. pfam02518, HATPase_c, Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase.; Specificity unclear
YP_001221792.1	conserved hypothetical protein (YP_061615.1| lipoprotein [Leifsonia xyli subsp. xyli str. CTCB07]; YP_056043.1| membrane spanning lipoprotein [Propionibacterium acnes KPA171202]). ogg: 8-oxoguanine DNA-glycosylase (ogg)
YP_001221793.1	putative amidophosphoribosyltransferase (YP_061616.1| competence protein F [Leifsonia xyli subsp. xyli str. CTCB07]; YP_056042.1| putative amidophosphoribosyltransferase [Propionibacterium acnes KPA171202]). weak similarity to: pfam00156, Pribosyltran,Phosphoribosyl transferase domain.; Conserved hypothetical protein
YP_001221794.1	putative ribosome-associated protein (YP_061617.1| sigma-54 modulation protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00228969.1| COG1544: Ribosome-associated protein Y (PSrp-1) [Kineococcus radiotolerans SRS30216]). pfam02482, Ribosomal_S30AE, Sigma 54 modulation protein / S30EA ribosomal protein.; Function unclear
YP_001221795.1	functions in protein export; can interact with acidic membrane phospholipids and the SecYEG protein complex; binds to preproteins; binds to ATP and undergoes a conformational change to promote membrane insertion of SecA/bound preprotein; ATP hydrolysis appears to drive release of the preprotein from SecA and deinsertion of SecA from the membrane; additional proteins SecD/F/YajC aid SecA recycling; exists in an equilibrium between monomers and dimers; may possibly form higher order oligomers; proteins in this cluster correspond SecA1; SecA2 is not essential and seems to play a role in secretion of a subset of proteins
YP_001221796.1	hypothetical protein (ZP_00192100.2| hypothetical protein Krad06000007 [Kineococcus radiotolerans SRS30216]; ZP_00294296.1| hypothetical protein Tfus02000501 [Thermobifida fusca]).
YP_001221797.1	hypothetical protein (ZP_00199350.1| hypothetical protein Krad06000009 [Kineococcus radiotolerans SRS30216]).
YP_001221798.1	hypothetical protein (NP_789084.1| putative membrane/secreted protein [Tropheryma whipplei TW08/27]; ZP_00228975.1| hypothetical protein Krad06000011 [Kineococcus radiotolerans SRS30216]).
YP_001221799.1	Region start changed from 1215161 to 1215047 (114 bases)
YP_001221800.1	putative two-component system sensor kinase (ZP_00228292.1| COG3920: Signal transduction histidine kinase [Kineococcus radiotolerans SRS30216]; NP_824193.1| putative two-component system sensor kinase [Streptomyces avermitilis MA-4680]). pfam02518, HATPase_c, Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase. InterPro: Histidine kinase C-terminal.; Specificity unclear
YP_001221801.1	putative transcriptional regulator (CAB08318.1| PROBABLE TRANSCRIPTIONAL REGULATORY PROTEIN WHIB-LIKE WHIB1 [Mycobacterium tuberculosis H37Rv]; NP_696183.1| WhiB-type transcription regulator [Bifidobacterium longum NCC2705]). pfam02467, Whib, Transcription factor WhiB. WhiB is a putative transcription factor in Actinobacteria,required for differentiation and sporulation.; Function unclear
YP_001221802.1	hypothetical membrane protein (YP_062753.1| hypothetical protein Lxx19280 [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00228293.1| hypothetical protein Krad06001594 [Kineococcus radiotolerans SRS30216]).
YP_001221803.1	putative alkyl hydroperoxide reductase (bacterioferritin comigratory protein) (NP_961263.1| Bcp [Mycobacterium avium subsp. paratuberculosis str. k10]; NP_826353.1| putative AhpC/TSA family protein [Streptomyces avermitilis MA-4680]). pfam00578, AhpC-TSA,AhpC/TSA family. This family contains proteins related to alkyl hydroperoxide reductase (AhpC) and thiol specific antioxidant (TSA).; Specificity unclear
YP_001221804.1	putative transcription factor (ZP_00198110.2| COG1329: Transcriptional regulators, ; NP_301347.1| putative transcription factor [Mycobacterium leprae]). pfam02559, CarD_TRCF, CarD-like/TRCF domain. InterPro: Transcription factor CarD; Function unclear
YP_001221806.1	conserved hypothetical protein (ZP_00226454.1| hypothetical protein Krad06003337 [Kineococcus radiotolerans SRS30216]; NP_627325.1| putative lipoprotein [Streptomyces coelicolor A3(2)]).
YP_001221808.1	putative L-asparagine permease, APC family (YP_062976.1| L-asparagine permease [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00226832.1| COG1113: Gamma-aminobutyrate permease and related permeases [Kineococcus radiotolerans SRS30216]). pfam00324, AA_permease, Amino acid permease. InterPro: Amino acid permease; Specificity unclear
YP_001221810.1	putative MFS permease (YP_061411.1| integral membrane efflux protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00283009.1| COG0477: Permeases of the major facilitator superfamily [Burkholderia fungorum LB400]). TIGRFAM( TIGR00900): H+ Antiporter protein; Specificity unclear
YP_001221811.1	putative transcriptional regulator, MarR family (NP_959753.1| hypothetical protein MAP0819 [Mycobacterium avium subsp. paratuberculosis str. k10]; NP_825072.1| putative MarR-family transcriptional regulator [Streptomyces avermitilis MA-4680]). pfam01047, MarR, MarR family. The Mar proteins are involved in the multiple antibiotic resistance, a non-specific resistance system.; Specificity unclear
YP_001221813.1	putative hydrolase/acyltransferase (NP_532260.1| hydrolase [Agrobacterium tumefaciens str. C58]; NP_981307.1| hydrolase, alpha/beta fold family [Bacillus cereus ATCC 10987]). pfam00561, Abhydrolase_1, alpha/beta hydrolase fold. This catalytic domain is found in a very wide range of enzymes. acid_CoA_mut_C: methylmalonyl-CoA muta; Function unclear
YP_001221814.1	putative glycosyl hydrolase, family 15 (YP_062268.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00292808.1| COG3387: Glucoamylase and related glycosyl hydrolases [Thermobifida fusca]). pfam00723, Glyco_hydro_15, Glycosyl hydrolases family 15.; Function unclear
YP_001221815.1	catalyzes the formation of D-glucono-1,5-lactone 6-phosphate from D-glucose 6-phosphate
YP_001221817.1	putative small-conductance mechanosensitive channel (ZP_00227048.1| COG0668: Small-conductance mechanosensitive channel [Kineococcus radiotolerans SRS30216]; ZP_00023357.1| COG0668: Small-conductance mechanosensitive channel [Ralstonia metallidurans]). pfam00924, MS_channel, Mechanosensitive ion channel.; Function unclear
YP_001221818.1	putative arsenate permease, ArsB family (Arsenic efflux pump protein)(YP_062266.1| arsenical pump membrane protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_736635.1| conserved hypothetical protein [Corynebacterium efficiens YS-314]; ZP_00226785.1| COG1055: Na+/H+ antiporter NhaD and related arsenite permeases [Kineococcus radiotolerans SRS30216]). Involved in arsenical resistance. Thought to form the channel of an arsenite pump. 2a45: arsenical pump membrane protein pfam02040, ArsB, Arsenical pump membrane protein.; Specificity unclear
YP_001221819.1	putative transcriptional regulator, TetR family (NP_959728.1| hypothetical protein MAP0794 [Mycobacterium avium subsp. paratuberculosis str. k10]; AAD13556.1| LanK [Streptomyces cyanogenus]). pfam00440, TetR_N, Bacterial regulatory proteins, tetR family.; Specificity unclear
YP_001221820.1	putative drug exporter, RND family (YP_054789.1| putative membrane transport protein [Propionibacterium acnes KPA171202]; NP_824795.1| putative drug exporters of the RND superfamily [Streptomyces avermitilis MA-4680]). actII: Transport protein; Specificity unclear
YP_001221821.1	conserved membrane protein (NP_961301.1| hypothetical protein MAP2367c [Mycobacterium avium subsp. paratuberculosis str. k10]; NP_827281.1| putative membrane protein [Streptomyces avermitilis MA-4680]). Mtu_efflux: ABC transporter efflux pro; Function unclear
YP_001221823.1	conserved hypothetical protein, putative monooxygenase (ZP_00226413.1| COG1359: Uncharacterized conserved protein [Kineococcus radiotolerans SRS30216]; NP_959730.1| hypothetical protein MAP0796c [Mycobacterium avium subsp. paratuberculosis str. k10]). pfam03992, ABM,Antibiotic biosynthesis monooxygenase.
YP_001221824.1	putative sugar phosphate isomerase/epimerase (NP_627556.1| conserved hypothetical protein [Streptomyces coelicolor A3(2)]; ZP_00057048.1| COG1082: Sugar phosphate isomerases/epimerases [Thermobifida fusca]). pfam01261, AP_endonuc_2, AP endonuclease family 2.; Specificity unclear
YP_001221825.1	conserved hypothetical protein, putative sugar kinase (NP_601735.1| hypothetical protein [Corynebacterium glutamicum ATCC 13032]; ZP_00225866.1| COG3001: Fructosamine-3-kinase [Kineococcus radiotolerans SRS30216]). pfam03881, Fructosamin_kin, Fructosamine kinase. This family includes eukaryotic fructosamine-3-kinase enzymes. The family also includes bacterial members that have not been characterised but probably have a similar or identical function.
YP_001221826.1	putative trehalose-phosphate synthase (UDP-glucose-glucosephosphate glucosyltransferase) (YP_062264.1| trehalose-6-phosphate synthase [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00225984.1| COG0380: Trehalose-6-phosphate synthase [Kineococcus radiotolerans SRS30216]). pfam00982, Glyco_transf_20, Glycosyltransferase family 20.; High confidence in function and specificity
YP_001221827.1	putative trehalose-phosphatase (Trehalose 6-phosphate phosphatase) (ZP_00225983.1| COG1877: Trehalose-6-phosphatase [Kineococcus radiotolerans SRS30216]; NP_940299.1| Putative trehalose-phosphatase [Corynebacterium diphtheriae]). pfam02358,Trehalose_PPase, Trehalose-phosphatase. otsB: trehalose-phosphatase.; High confidence in function and specificity
YP_001221828.1	subunit A of antiporter complex involved in resistance to high concentrations of Na+, K+, Li+ and/or alkali
YP_001221829.1	putative multisubunit Na+/H+ antiporter, NADH-quinone dehydrogenase (ZP_00226457.1| COG1006: Multisubunit Na+/H+ antiporter, MnhC subunit [Kineococcus radiotolerans SRS30216]; NP_739178.1| putative Na+/H+ antiporter [Corynebacterium efficiens YS-314]). pfam00420,Oxidored_q2, NADH-ubiquinone/plastoquinone oxidoreductase chain 4L. TIGRFAM (TIGR00941): Multicomponent Na+:H+ antiporter.; High confidence in function and specificity
YP_001221830.1	subunit D of antiporter complex involved in resistance to high concentrations of Na+, K+, Li+ and/or alkali; contains an oxidoreductase domain; catalyzes the transfer of electrons from NADH to ubiquinone
YP_001221831.1	subunit E of antiporter complex involved in resistance to high concentrations of Na+, K+, Li+ and/or alkali; in S. meliloti it is known to be involved specifically with K+ transport
YP_001221832.1	putative multisubunit Na+/H+ antiporter, NADH-quinone dehydrogenase (ZP_00292641.1| hypothetical protein Tfus02001919 [Thermobifida fusca]; AAR35714.1| monovalent cation/proton antiporter, MrpF/PhaF family [Geobacter sulfurreducens PCA]).; High confidence in function and specificity
YP_001221833.1	putative multisubunit Na+/H+ antiporter, NADH-quinone dehydrogenase (ZP_00292640.1| COG1320: Multisubunit Na+/H+ antiporter, MnhG subunit [Thermobifida fusca]; ZP_00198672.2| COG1320: Multisubunit Na+/H+ antiporter, MnhG subunit [Kineococcus radiotolerans SRS30216]). pfam03334, PhaG_MnhG_YufB, Na+/H+ antiporter subunit.; Family membership
YP_001221834.1	catalyzes the dehydration of 2,3-dihydroxy-3-methylbutanoate to 3-methyl-2-oxobutanoate in valine and isoleucine biosynthesis
YP_001221835.1	acetolactate synthase large subunit; catalyzes the formation of 2-acetolactate from pyruvate
YP_001221836.1	with IlvI catalyzes the formation of 2-acetolactate from pyruvate, the small subunit is required for full activity and valine sensitivity; E.coli produces 3 isoenzymes of acetolactate synthase which differ in specificity to substrates, valine sensitivity and affinity for cofactors; also known as acetolactate synthase 3 small subunit
YP_001221837.1	catalyzes the formation of (R)-2,3-dihydroxy-3-methylbutanoate from (S)-2-hydroxy-2-methyl-3-oxobutanoate in valine and isoleucine biosynthesis
YP_001221838.1	Hypothetical protein
YP_001221839.1	Hypothetical protein
YP_001221840.1	conserved membrane protein (NP_869710.1| conserved hypothetical protein-putative transmembrane protein [Pirellula sp. 1]; ZP_00110025.1| COG4270: Predicted membrane protein [Nostoc punctiforme]).
YP_001221841.1	catalyzes the formation of 3-phosphonooxypyruvate from 3-phospho-D-glycerate in serine biosynthesis; can also reduce alpha ketoglutarate to form 2-hydroxyglutarate
YP_001221842.1	putative transcriptional regulator, TetR family (ZP_00198420.1| hypothetical protein Krad024089 [Kineococcus radiotolerans SRS30216]; NP_691916.1| transcriptional regulator [Oceanobacillus iheyensis HTE831]). InterPro: Bacterial regulatory proteins TetR family pfam00440, TetR_N, Bacterial regulatory proteins,tetR family.; Specificity unclear
YP_001221843.1	putative efflux MFS permease (CAE15934.1| unnamed protein product [Photorhabdus luminescens subsp. laumondii TTO1]; AAN50737.1| possible transmembrane-transport protein [Leptospira interrogans serovar lai str. 56601]). pfam00083, Sugar_tr, Sugar (and other) transporter.; Specificity unclear
YP_001221844.1	hypothetical membrane protein (NP_627991.1| putative membrane protein [Streptomyces coelicolor A3(2)]; ZP_00225753.1| hypothetical protein Krad06004516 [Kineococcus radiotolerans SRS30216]).
YP_001221845.1	catalyzes the oxidation of 3-isopropylmalate to 3-carboxy-4-methyl-2-oxopentanoate in leucine biosynthesis
YP_001221846.1	catalyzes the transamination of the branched-chain amino acids to their respective alpha-keto acids
YP_001221847.1	putative 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase, putative fumarylacetoacetate (FAA) hydrolase (YP_062251.1| 5-oxo-1,2,5-tricarboxilic-3-penten acid decarboxilase [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00293380.1| COG0179: 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Thermobifida fusca]). pfam01557,FAA_hydrolase, Fumarylacetoacetate (FAA) hydrolase family.; Function unclear
YP_001221849.1	Charges one glutamine molecule and pairs it to its corresponding RNA trinucleotide during protein translation
YP_001221850.1	putative thioredoxin reductase (YP_062249.1| pyridine nucleotide- disulfide oxidoreductase [Leifsonia xyli subsp. xyli str. CTCB07]; YP_028840.1| thioredoxin reductase, putative [Bacillus anthracis str. Sterne]). ,pfam00070, Pyr_redox, Pyridine nucleotide-disulphide oxidoreductase. This family includes both class I and class II oxidoreductases and also NADH oxidases and peroxidases.; Function unclear
YP_001221851.1	conserved hypothetical protein (AAB84461.1| DNA-binding protein [Bacillus subtilis]; AAO79850.1| conserved hypothetical protein [Bacteroides thetaiotaomicron VPI-5482]).
YP_001221852.1	hypothetical protein (NP_737865.1| conserved hypothetical protein [Corynebacterium efficiens YS-314]).
YP_001221853.1	putative K+ channel protein, beta subunit (ZP_00228108.1| COG0667: Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Kineococcus radiotolerans SRS30216]; CAD19081.1| potassium channel beta chain [Stigmatella aurantiaca]). Pfam: Aldo/keto reductase family. This family includes a number of K+ ion channel beta chain regulatory domains - these are reported to have oxidoreductase activity. Voltage-gated potassium channel beta-1 subunit (K+ channel beta-1 subunit) (Kv-beta-1). ACCESSORY POTASSIUM CHANNEL PROTEIN WHICH MODULATES THE ACTIVITY OF THE PORE-FORMING ALPHA SUBUNIT (BY SIMILARITY). InterPro: Aldo/keto reductase family; Function unclear
YP_001221854.1	putative potassium channel protein subunit (ZP_00228108.1| COG0667: Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Kineococcus radiotolerans SRS30216]; CAD19081.1| potassium channel beta chain [Stigmatella aurantiaca]). pfam00248,Aldo_ket_red, Aldo/keto reductase family. This family includes a number of K+ ion channel beta chain regulatory domains - these are reported to have oxidoreductase activity.; Function unclear
YP_001221855.1	putative transcriptional regulator, TetR family (NP_624827.1| putative regulatory protein [Streptomyces coelicolor A3(2)]; NP_959089.1| hypothetical protein MAP0155 [Mycobacterium avium subsp. paratuberculosis str. k10]). pfam00440, TetR_N, Bacterial regulatory proteins,tetR family.; Specificity unclear
YP_001221856.1	putative short-chain dehydrogenase (ZP_00229050.1| COG1028: Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Kineococcus radiotolerans SRS30216]; CAB58271.1| putative dehydrogenase (putative secreted protein) [Streptomyces coelicolor A3(2)]). pfam00106, adh_short,short chain dehydrogenase. This family contains a wide variety of dehydrogenases. InterPro: Short-chain dehydrogenase/reductase (SDR) superfamily; Function unclear
YP_001221857.1	conserved membrane protein, TerC family (NP_738469.1| putative integral membrane export protein [Corynebacterium efficiens YS-314]; YP_061942.1| membrane protein, tellurium resistance [Leifsonia xyli subsp. xyli str. CTCB07]). pfam03741, TerC, Integral membrane protein TerC family. This family contains a number of integral membrane proteins that also contains the TerC protein. TerC has been implicated in resistance to tellurium. This protein may be involved in efflux of tellurium ions.; Function unclear
YP_001221858.1	Hypothetical protein
YP_001221859.1	putative Zn-dependant hydrolase (NP_335238.1| conserved hypothetical protein [Mycobacterium tuberculosis CDC1551]; NP_630432.1| conserved hypothetical protein SC3A7.08 [Streptomyces coelicolor A3(2)]). pfam00753,Lactamase_B, Metallo-beta-lactamase superfamily. menD: 2-succinyl-6-hydroxy-24-cyclohex; Function unclear
YP_001221860.1	putative serine protease, family S51 , related to cyanophycinase (NP_824488.1| hypothetical protein [Streptomyces avermitilis MA-4680]; YP_056776.1| hypothetical protein PPA2111 [Propionibacterium acnes KPA171202]). pfam03575, Peptidase_S51, Peptidase family S51.; Function unclear
YP_001221861.1	Excises uracil residues from the DNA which can arise as a result of misincorporation of dUMP residues by DNA polymerase or due to deamination of cytosine
YP_001221862.1	putative acetyltransferase (YP_062723.1| phosphinothricin acetyltransferase protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00054060.1| COG1247: Sortase and related acyltransferases [Magnetospirillum magnetotacticum]). pfam00583, Acetyltransf_1,Acetyltransferase (GNAT) family. This family contains proteins with N-acetyltransferase functions.; Function unclear
YP_001221863.1	Region start changed from 1284588 to 1284360 (-228 bases)
YP_001221864.1	putative hexulose-6-phosphate synthase (D-arabino 3-hexulose 6-phosphate formaldehyde lyase) (CAD28138.1| putative 3-hexulose-6-phosphate synthase [Rhodococcus opacus]; BAA90546.1| 3-hexulose-6-phosphate synthase [Mycobacterium gastri]). pfam00215, OMPdecase, Orotidine 5'-phosphate decarboxylase / HUMPS family.; High confidence in function and specificity
YP_001221865.1	putative 6-phospho-3-hexuloisomerase (BAA90545.1| 6-phospho- 3-hexuloisomerase [Mycobacterium gastri]; CAD28139.1| putative 6-phospho-3-hexuloisomerase [Rhodococcus opacus]). pfam01380, SIS, SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars. Presumably the SIS domains bind to the end-product of the pathway.; Function unclear
YP_001221866.1	putative transcriptional regulator, LuxR family (CAD28140.1| putative LuxR-like transcriptional regulator [Rhodococcus opacus]). pfam02518, HATPase_c, Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase. pfam00196,GerE, Bacterial regulatory proteins, luxR family.; Specificity unclear
YP_001221867.1	putative 5'-nucleotidase (YP_056763.1| 5'-nucleotidase/2',3'-cyclic phosphodiesterase or related esterase [Propionibacterium acnes KPA171202]; NP_736947.1| 5'-nucleotidase [Corynebacterium efficiens YS-314]). pfam00149, Metallophos, Calcineurin-like phosphoesterase. pfam02872, 5_nucleotid_C, 5'-nucleotidase, C-terminal domain. InterPro: 5-Nucleotidase; Function unclear
YP_001221868.1	putative Asp/Glu-tRNA amidotransferase (ZP_00058755.1| COG0154: Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Thermobifida fusca]; ZP_00111119.1| COG0154: Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Nostoc punctiforme]). pfam01425, Amidase,Amidase.; Specificity unclear
YP_001221869.1	conserved membrane protein (NP_738052.1| conserved hypothetical protein [Corynebacterium efficiens YS-314]; NP_631844.1| putative membrane protein. [Streptomyces coelicolor A3(2)]). pfam01925, DUF81, Domain of unknown function DUF81. This integral membrane protein family has no known function.; Function unclear
YP_001221870.1	putative siderophore-interacting protein (ZP_00227633.1| COG2375: Siderophore-interacting protein [Kineococcus radiotolerans SRS30216]; NP_737293.1| conserved hypothetical protein [Corynebacterium efficiens YS-314]). involved in the intracellular removol of iron from siderophores. pfam04954, SIP, Siderophore-interacting protein.; Specificity unclear
YP_001221871.1	putative short-chain alcohol dehydrogenase (ZP_00227858.1| COG1028: Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Kineococcus radiotolerans SRS30216]; YP_061632.1| oxidoreductase [Leifsonia xyli subsp. xyli str. CTCB07]). pfam00106, adh_short, short chain dehydrogenase. This family contains a wide variety of dehydrogenases.; Function unclear
YP_001221872.1	hypothetical protein (ZP_00299320.1| hypothetical protein Gmet02002474 [Geobacter metallireducens GS-15]; ZP_00189534.3| hypothetical protein Krad06003867 [Kineococcus radiotolerans SRS30216]).
YP_001221873.1	putative pyridine nucleotide-disulphide oxidoreductase (CAA73871.1| mercuric reductase/glutathione reductase/ dihydrolipoamide dehydrogenase [Mycobacterium tuberculosis]; NP_821842.1| putative oxidoreductase [Streptomyces avermitilis MA-4680]). pfam00070, Pyr_redox,Pyridine nucleotide-disulphide oxidoreductase. This family includes both class I and class II oxidoreductases and also NADH oxidases and peroxidases. pfam02852,Pyr_redox_dim, Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain.; Function unclear
YP_001221874.1	Catalyzes the reversible hydration of unsaturated fatty acyl-CoA to beta-hydroxyacyl-CoA
YP_001221875.1	putative arginase (YP_061703.1| arginase [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00291576.1| COG0010: Arginase/agmatinase/ formimionoglutamate hydrolase,arginase family [Thermobifida fusca]). pfam00491,Arginase, Arginase family.; Specificity unclear
YP_001221876.1	putative F420-dependent NADP reductase (ZP_00228826.1| COG2085: Predicted dinucleotide-binding enzymes [Kineococcus radiotolerans SRS30216]; AAR32680.1| conserved hypothetical protein [Streptomyces hygroscopicus]). pfam03807, F420_oxidored, NADP oxidoreductase coenzyme F420-dependent.; Function unclear
YP_001221877.1	conserved hypothetical protein, ; ZP_00326969.1| COG1842: Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Trichodesmium erythraeum IMS101]). pfam04012, PspA_IM30, PspA/IM30 family.; Function unclear
YP_001221878.1	conserved hypothetical protein (NP_336889.1| conserved hypothetical protein [Mycobacterium tuberculosis CDC1551]; ZP_00227832.1| COG1512: Beta-propeller domains of methanol dehydrogenase type [Kineococcus radiotolerans SRS30216]). pfam04536, DUF477, Domain of unknown function (DUF477). The function of this presumed domain is unknown. EIIA-LAC: PTS system lactose-specifi
YP_001221879.1	hypothetical protein (NP_336075.1| conserved hypothetical protein [Mycobacterium tuberculosis CDC1551]).
YP_001221881.1	putative pyridoxamine-phosphate oxidase (NP_628586.1| putative oxidase [Streptomyces coelicolor A3(2)]; ZP_00013664.1| COG0259: Pyridoxamine-phosphate oxidase [Rhodospirillum rubrum]). pfam01243,Pyridox_oxidase, Pyridoxamine 5'-phosphate oxidase.; Specificity unclear
YP_001221882.1	putative glutamine amidotransferase (ZP_00331246.1| COG2071: Predicted glutamine amidotransferases [Moorella thermoacetica ATCC 39073]; NP_302088.1| possible amidotransferase [Mycobacterium leprae TN]). pfam00117,GATase, Glutamine amidotransferase class-I. InterPro: Glutamine amidotransferase class-I; Function unclear
YP_001221883.1	putative short chain alcohol dehydrogenase (AAO42633.1| putative short-chain dehydrogenase [Ralstonia eutropha]; AAO57656.1| oxidoreductase, short chain dehydrogenase/reductase family [Pseudomonas syringae pv. tomato str. DC3000] pfam00106, adh_short, short chain dehydrogenase. This family contains a wide variety of dehydrogenases.; Function unclear
YP_001221884.1	putative short chain alcohol dehydrogenase (AAO57657.1| oxidoreductase, short chain dehydrogenase/reductase family [Pseudomonas syringae pv. tomato str. DC3000]; ZP_00126580.1| COG1028: Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Pseudomonas syringae pv. syringae B728a]). InterPro: Short-chain dehydrogenase/reductase (SDR) superfamily pfam00106,adh_short, short chain dehydrogenase. This family contains a wide variety of dehydrogenases.; High confidence in function and specificity
YP_001221885.1	putative MFS permease (ZP_00126581.1| COG0477: Permeases of the major facilitator superfamily [Pseudomonas syringae pv. syringae B728a]; NP_992822.1| putative sugar transporter [Yersinia pestis biovar Medievalis str. 91001]). pfam00083, Sugar_tr, Sugar (and other) transporter.; Specificity unclear
YP_001221886.1	putative deacetylase (ZP_00126582.1| COG0726: Predicted xylanase/chitin deacetylase [Pseudomonas syringae pv. syringae B728a]; NP_738966.1| conserved hypothetical protein [Corynebacterium efficiens YS-314]). pfam01522, Polysacc_deac_1, Polysaccharide deacetylase. This domain is found in polysaccharide deacetylase. This family of polysaccharide deacetylases includes NodB (nodulation protein B from Rhizobium) which is a chitooligosaccharide deacetylase. It also includes chitin deacetylase from yeast, and endoxylanases which hydrolyses glucosidic bonds in xylan.; Specificity unclear
YP_001221887.1	Region start changed from 1311968 to 1311911 (-57 bases)
YP_001221888.1	putative transcriptional regulator, LacI family (NP_886234.1| LacI family transcriptional regulator [Bordetella parapertussis 12822]; NP_535765.1| transcriptional regulator, LacI family [Agrobacterium tumefaciens str. C58]). pfam00356, LacI, Bacterial regulatory proteins, lacI family. pfam00532, Peripla_BP_1,Periplasmic binding proteins and sugar binding domain of the LacI family.; Specificity unclear
YP_001221889.1	conserved hypothetical protein (NP_865622.1| conserved hypothetical protein [Pirellula sp. 1]; ZP_00117918.1| COG1305: Transglutaminase-like enzymes,putative cysteine proteases [Cytophaga hutchinsonii]). pfam01841, Transglut_core, Transglutaminase-like superfamily. This family includes animal transglutaminases and other bacterial proteins of unknown function.; Family membership
YP_001221890.1	hypothetical protein TIGR00426: competence protein ComEA helix
YP_001221891.1	catalyzes a two-step reaction, first charging an arginine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; class-I aminoacyl-tRNA synthetase
YP_001221892.1	hypothetical protein (YP_061720.1| hypothetical protein Lxx06820 [Leifsonia xyli subsp. xyli str. CTCB07]; NP_825215.1| hypothetical protein SAV4038 [Streptomyces avermitilis MA-4680]).
YP_001221893.1	Diaminopimelate decarboxylase (DAP decarboxylase)(YP_061724.1| diaminopimelate decarboxylase [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00228463.1| COG0019: Diaminopimelate decarboxylase [Kineococcus radiotolerans SRS30216]). pfam02784, Orn_Arg_deC_N,Pyridoxal-dependent decarboxylase, pyridoxal binding domain. pfam00278, Orn_DAP_Arg_deC, Pyridoxal-dependent decarboxylase, C-terminal sheet domain.; High confidence in function and specificity
YP_001221894.1	catalyzes the formation of L-aspartate 4-semialdehyde from L-homoserine
YP_001221895.1	catalyzes the formation of L-threonine from O-phospho-L-homoserine
YP_001221896.1	catalyzes the formation of O-phospho-L-homoserine from L-homoserine in threonine biosynthesis from asparate
YP_001221897.1	An RNA-DNA helicase that actively releases nascent mRNAs from paused transcription complexes
YP_001221898.1	recognizes the termination signals UAG and UAA during protein translation a specificity which is dependent on amino acid residues residing in loops of the L-shaped tRNA-like molecule of RF1; this protein is similar to release factor 2
YP_001221899.1	putative methylase of peptide chain release factors (YP_061731.1| methyltransferase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_824087.1| putative methyltransferase [Streptomyces avermitilis MA-4680]). TIGRFam: hemK_fam: modification methylase HemK; Function unclear
YP_001221900.1	putative hydrolase/phosphatase (ZP_00167336.1| COG1011: Predicted hydrolase (HAD superfamily) [Ralstonia eutropha JMP134]; NP_671096.1| putative phosphatase [Yersinia pestis KIM]). pfam00702, Hydrolase, haloacid dehalogenase-like hydrolase.; Family membership
YP_001221901.1	conserved hypothetical protein (ZP_00228471.1| COG0009: Putative translation factor (SUA5) [Kineococcus radiotolerans SRS30216]; NP_824086.1| hypothetical protein SAV2910 [Streptomyces avermitilis MA-4680]). pfam01300, Sua5_yciO_yrdC, yrdC domain. This domain has been shown to preferentially bind to dsRNA. The domain is found in SUA5 as well as HypF and YrdC.
YP_001221902.1	putative undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphate transferase (YP_061734.1| undecaprenyl-phosphate alpha-N-acetylglucosaminyltransferase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_824083.1| putative teichoic acid linkage unit synthesis (synthesis of undecaprenylpyrophosphate-N-aetylglucosamine), Streptomyces avermitilis MA-4680). pfam00953, Glycos_transf_4, Glycosyl transferase InterPro: Glycosyl transferase family 4; Function unclear
YP_001221903.1	conserved membrane protein (YP_061735.1| membrane protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_737918.1| hypothetical protein [Corynebacterium efficiens YS-314]). eventually involved in ATP synthesis (weak similarity to AtpI); Function unclear
YP_001221904.1	Produces ATP from ADP in the presence of a proton gradient across the membrane. Subunit A is part of the membrane proton channel F0
YP_001221905.1	ATP synthase C chain (Lipid-binding protein) (YP_061737.1| ATP synthase, C chain [Leifsonia xyli subsp. xyli str. CTCB07]; AAS68133.1| ATP synthase C subunit [Bifidobacterium animalis]). THIS IS ONE OF THE THREE CHAINS OF THE NONENZYMATIC COMPONENT (CF(0) SUBUNIT) OF THE ATPASE COMPLEX. pfam00137, ATP-synt_C, ATP synthase subunit C.; High confidence in function and specificity
YP_001221906.1	Produces ATP from ADP in the presence of a proton gradient across the membrane. Subunit B is part of the membrane proton channel.
YP_001221907.1	produces ATP from ADP in the presence of a proton gradient across the membrane; the delta subunit is part of the catalytic core of the ATP synthase complex
YP_001221908.1	produces ATP from ADP in the presence of a proton gradient across the membrane; the alpha chain is a catalytic subunit
YP_001221909.1	Produces ATP from ADP in the presence of a proton gradient across the membrane. The gamma chain is a regulatory subunit
YP_001221910.1	Produces ATP from ADP in the presence of a proton gradient across the membrane. The beta chain is a regulatory subunit
YP_001221911.1	produces ATP from ADP in the presence of a proton gradient across the membrane; the epsilon subunit is part of the catalytic core of the ATP synthase complex
YP_001221912.1	conserved hypothetical protein (YP_061745.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_738499.1| conserved hypothetical protein [Corynebacterium efficiens YS-314]). pfam03883, DUF328,Protein of unknown function (DUF328). Members of this family are functionally uncharacterised.
YP_001221913.1	putative DNA-3-methyladenine glycosylase I (3-methyladenine-DNA glycosylase I constitutive) (YP_061746.1| DNA-3-methyladenine glycosydase I [Leifsonia xyli subsp. xyli str. CTCB07]; NP_629291.1| DNA-3-methyladenine glycosylase I [Streptomyces coelicolor A3(2)]). HYDROLYSIS OF THE DEOXYRIBOSE N-GLYCOSIDIC BOND TO EXCISE 3-METHYLADENINE FROM THE DAMAGED DNA POLYMER FORMED BY ALKYLATION LESIONS. pfam03352, Adenine_glyco,Methyladenine glycosylase. The DNA-3-methyladenine glycosylase I is constitutively expressed and is specific for the alkylated 3-methyladenine DNA. tag: DNA-3-methyladenine glycosylase I; High confidence in function and specificity
YP_001221914.1	putative methylated-DNA--protein-cysteine methyltransferase (6-O- methylguanine-DNA methyltransferase) (YP_061747.1| methylated-DNA- protein-cysteine S-methyltransferase [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00267484.1| COG0350: Methylated DNA-protein cysteine methyltransferase [Pseudomonas fluorescens PfO-1]). pfam02870, Methyltransf_1N, 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain. pfam01035, Methyltransf_1, 6-O-methylguanine DNA methyltransferase, DNA binding domain.; High confidence in function and specificity
YP_001221915.1	transcriptional regulatory protein, AsnC family (NP_823787.1| putative AsnC-family transcriptional regulator [Streptomyces avermitilis MA-4680]; ZP_00059068.1| COG1522: Transcriptional regulators [Thermobifida fusca]). InterPro: Bacterial regulatory proteins AsnC family pfam01037, AsnC_trans_reg, AsnC family. The AsnC family is a family of similar bacterial transcription regulatory proteins.; Specificity unclear
YP_001221916.1	hypothetical protein containing putative FHA domain (YP_056718.1| hypothetical protein PPA2047 [Propionibacterium acnes KPA171202]).
YP_001221917.1	putative protein serine/threonine phosphatase (YP_062154.1| protein phosphatase [Leifsonia xyli subsp. xyli str. CTCB07]; AAO44187.1| protein phosphatase [Tropheryma whipplei str. Twist]). pfam00481, PP2C,Protein phosphatase 2C. Protein phosphatase 2C is a Mn++ or Mg++ dependent protein serine/threonine phosphatase. InterPro: Protein phosphatase 2C domain.; Specificity unclear
YP_001221918.1	putative 2,3,4,5-tetrahydropyridine-2-carboxylate N-succinyltransferase (YP_061899.1| 2,3,4,5-tetrahydropyridine-2-carboxylate N-succinyltransferase [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00226272.1| COG2171: Tetrahydrodipicolinate N-succinyltransferase [Kineococcus radiotolerans SRS30216]).; Specificity unclear
YP_001221919.1	catalyzes the formation of succinate and diaminoheptanedioate from succinyldiaminoheptanedioate
YP_001221920.1	conserved membrane protein (YP_061901.1| integral membrane protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_789128.1| putative integral membrane protein [Tropheryma whipplei TW08/27]). mraY: phospho-N-acetylmuramoyl-pentape; Conserved hypothetical protein
YP_001221921.1	conserved hypothetical protein (YP_061902.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_301785.1| conserved hypothetical protein [Mycobacterium leprae TN]).
YP_001221922.1	putative O-methyltransferase (YP_061903.1| O-methyltransferase [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00227539.1| COG4122: Predicted O-methyltransferase [Kineococcus radiotolerans SRS30216]). pfam01596, Methyltransf_3, O-methyltransferase. Members of this family are O-methyltransferases. The family includes catechol o-methyl- transferase, caffeoyl-CoA O-methyltransferase and a family of bacterial O-methyltransferases that may be involved in antibiotic production. InterPro: O-methyltransferase (family 3) pts-sorbose: PTS system sorbose subfam; Specificity unclear
YP_001221923.1	putative sec-independent protein translocase protein, twin arginine pathway (ZP_00227544.1| COG1826: Sec-independent protein secretion pathway components [Kineococcus radiotolerans SRS30216]; YP_055357.1| conserved protein, putative twin arginine translocation complex component [Propionibacterium acnes KPA171202]).; High confidence in function and specificity
YP_001221924.1	putative transcriptional regulator, LysR-family (NP_828178.1| putative LysR-family transcriptional regulator [Streptomyces avermitilis MA-4680]; ZP_00226031.1| COG0583: Transcriptional regulator [Kineococcus radiotolerans SRS30216]). pfam00126, HTH_1,Bacterial regulatory helix-turn-helix protein, lysR family. pfam03466, LysR_substrate, LysR substrate binding domain.; Specificity unclear
YP_001221926.1	putative ATP-binding protein (NP_301793.1| MRP-family ATP-binding protein [Mycobacterium leprae TN]; NP_939359.1| Putative ATP-binding protein [Corynebacterium diphtheriae NCTC 13129]). pfam00142, Fer4_NifH, 4Fe-4S iron sulfur cluster binding proteins, NifH/frxC family. contains a second N-terminal domain: pfam01883, DUF59,Domain of unknown function DUF59. This family includes prokaryotic proteins of unknown function. InterPro: Domain of unknown function DUF59; Function unclear
YP_001221927.1	putative membrane protein (YP_061906.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_824287.1| putative integral membrane protein [Streptomyces avermitilis MA-4680]). pfam06210, DUF1003,Protein of unknown function (DUF1003). This family consists of several hypothetical bacterial proteins of unknown function.; Function unclear
YP_001221928.1	putative Mg2+ transporter, MgtE family (YP_061907.1| protein containg CBS domains [Leifsonia xyli subsp. xyli str. CTCB07]; NP_789177.1| conserved hypothetical protein [Tropheryma whipplei TW08/27]). ,pfam03448, MgtE_N, MgtE intracellular domain. This domain is found in eubacterial magnesium transporters of the MgtE family pfam01769. This region of similarity is presumed to be an intracellular domain, that may be involved in magnesium binding. , pfam00571, CBS, CBS domain. CBS domains are small intracellular modules of unknown function.; Specificity unclear
YP_001221929.1	conserved membrane protein (YP_061908.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_737795.1| conserved hypothetical protein [Corynebacterium efficiens YS-314]).
YP_001221930.1	putative Xaa-Pro aminopeptidase (Aminopeptidase P I)(Aminoacylproline aminopeptidase I) (YP_061909.1| aminopeptidase P [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00225551.1| COG0006: Xaa-Pro aminopeptidase [Kineococcus radiotolerans SRS30216]). , pfam05195, AMP_N,Aminopeptidase P, N-terminal domain. , pfam00557,Peptidase_M24, metallopeptidase family M24.; High confidence in function and specificity
YP_001221931.1	putative membrane protein with hydrolase activity (NP_954765.1| hypothetical protein [Gordonia westfalica]; ZP_00120778.2| hypothetical protein Blon020650 [Bifidobacterium longum DJO10A]; NP_789235.1| putative integral membrane protein (possible nuclease activity)[Tropheryma whipplei TW08/27]). pfam03372,Exo_endo_phos, Endonuclease/Exonuclease/phosphatase family. This large family of proteins includes magnesium dependent endonucleases and a large number of phosphatases involved in intracellular signalling (in C-terminal half of the protein).; Function unclear
YP_001221932.1	putative phosphoesterase (YP_061910.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00225549.1| COG0613: Predicted metal-dependent phosphoesterases (PHP family) [Kineococcus radiotolerans SRS30216]). pfam02231, PHP_N, PHP domain N-terminal region. The PHP (Polymerase and Histidinol Phosphatase) domain is a putative phosphoesterase domain.; Function unclear
YP_001221933.1	putative ATP dependant RNA helicase (YP_061912.1| ATP-dependent RNA helicase [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00057513.1| COG0513: Superfamily II DNA and RNA helicases [Thermobifida fusca]; CAB08305.1| PROBABLE ATP-DEPENDENT RNA HELICASE RHLE [Mycobacterium tuberculosis H37Rv]). pfam00270, DEAD, DEAD/DEAH box helicase. Members of this family include the DEAD and DEAH box helicases. pfam00271, Helicase_C, Helicase conserved C-terminal domain.; Specificity unclear
YP_001221934.1	conserved hypothetical protein (YP_061913.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_629315.1| conserved hypothetical protein [Streptomyces coelicolor A3(2)]).
YP_001221935.1	putative membrane protein (YP_061914.1| hypothetical protein Lxx09200 [Leifsonia xyli subsp. xyli str. CTCB07]).
YP_001221936.1	conserved hypothetical protein (NP_337832.1| hypothetical protein MT3304 [Mycobacterium tuberculosis CDC1551]; YP_061915.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]).
YP_001221937.1	putative ATP-dependant DNA helicase/nuclease (YP_061916.1| ATP-dependent DNA helicase [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00291865.1| COG0210: Superfamily I DNA and RNA helicases [Thermobifida fusca]). pfam00580, UvrD-helicase, UvrD/REP helicase. The Rep family helicases are composed of four structural domains. The Rep family function as dimers. REP helicases catalyse ATP dependent unwinding of double stranded DNA to single stranded DNA. Some members have large insertions near to the carboxy-terminus relative to other members of the family. COG2887, RecB family exonuclease [DNA replication,recombination, and repair] domain at the C-terminus; Specificity unclear
YP_001221938.1	putative ATP-dependent DNA helicase (YP_061917.1| ATP-dependent DNA helicase [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00227594.1| COG0210: Superfamily I DNA and RNA helicases [Kineococcus radiotolerans SRS30216]). pfam00580, UvrD-helicase, UvrD/REP helicase. The Rep family helicases are composed of four structural domains. The Rep family function as dimers. REP helicases catalyse ATP dependent unwinding of double stranded DNA to single stranded DNA. COG1074, RecB, ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair] (C-terminal).; Specificity unclear
YP_001221939.1	putative phosphotransferase (YP_061918.1| macrolide 2'-phosphotransferase [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00227597.1| COG3173: Predicted aminoglycoside phosphotransferase [Kineococcus radiotolerans SRS30216]). pfam01636, APH, Phosphotransferase enzyme family. This family consists of bacterial antibiotic resistance proteins, which confer resistance to various aminoglycosides. degV: degV family protein; Specificity unclear
YP_001221940.1	putative NTP pyrophosphohydrolase (YP_061919.1| NADH pyrophosphatase [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00227598.1| COG2816: NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid- binding [Kineococcus radiotolerans SRS30216]). pfam00293, NUDIX, NUDIX domain.; Specificity unclear
YP_001221941.1	putative ATP-dependent DNA helicase (YP_061920.1| ATP-dependent DNA helicase II [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00227601.1| COG0210: Superfamily I DNA and RNA helicases [Kineococcus radiotolerans SRS30216]). pfam00580, UvrD-helicase, UvrD/REP helicase. The Rep family helicases are composed of four structural domains. The Rep family function as dimers. REP helicases catalyse ATP dependent unwinding of double stranded DNA to single stranded DNA. InterPro: UvrD/REP helicase.; Specificity unclear
YP_001221942.1	conserved hypothetical protein (CAA16661.1| CONSERVED HYPOTHETICAL PROTEIN [Mycobacterium tuberculosis H37Rv]; NP_939100.1| Conserved hypothetical protein [Corynebacterium diphtheriae NCTC 13129]). bcl-2: Apoptosis regulator
YP_001221943.1	conserved hypothetical protein (YP_061922.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_824237.1| hypothetical protein SAV3061 [Streptomyces avermitilis MA-4680]).
YP_001221944.1	putative ATP-dependant serine protease protein containing a PDZ domain, family S16 (ZP_00227615.1| COG3480: Predicted secreted protein containing a PDZ domain [Kineococcus radiotolerans SRS30216]; YP_061923.1| secreted protein [Leifsonia xyli subsp. xyli str. CTCB07]). pfam00595, PDZ, PDZ domain (Also known as DHR or GLGF). PDZ domains are found in diverse signaling proteins. , pfam05362, Lon_C, Lon protease (S16) C-terminal proteolytic domain. The Lon serine proteases must hydrolyse ATP to degrade protein substrates.; Function unclear
YP_001221945.1	conseved membrane protein (YP_061924.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_789569.1| putative integral membrane protein [Tropheryma whipplei TW08/27]). TIGR00367: K+-dependent Na+/Ca+ exchan
YP_001221946.1	putative peroxiredoxin (NP_624490.1| hypothetical protein SCJ1.03c [Streptomyces coelicolor A3(2)]; ZP_00092626.1| COG1225: Peroxiredoxin [Azotobacter vinelandii]). pfam00578, AhpC-TSA, AhpC/TSA family. This family contains proteins related to alkyl hydroperoxide reductase (AhpC) and thiol specific antioxidant (TSA).; Specificity unclear
YP_001221947.1	conserved hypothetical protein, putative protein kinase (ZP_00017319.1| hypothetical protein [Chloroflexus aurantiacus]; ZP_00112431.1| COG0661: Predicted unusual protein kinase [Nostoc punctiforme]). , pfam03109, ABC1,ABC1 family.; Function unclear
YP_001221948.1	putative transcriptional regulator, PadR family (NP_625650.1| conserved hypothetical protein [Streptomyces coelicolor A3(2)]; NP_959288.1| hypothetical protein MAP0354c [Mycobacterium avium subsp. paratuberculosis str. k10]). pfam03551, PadR, Transcriptional regulator PadR-like family.; Specificity unclear
YP_001221949.1	catalyzes the radical-mediated insertion of two sulfur atoms into an acyl carrier protein (ACP) bound to an octanoyl group to produce a lipoyl group
YP_001221950.1	lipoyl/octanoyltransferase; catalyzes the transfer of the lipoyl/octanoyl moiety of lipoyl/octanoyl-ACP onto lipoate-dependent enzymes like pyruvate dehydrogenase and the glycine cleavage system H protein
YP_001221951.1	putative siderophore-interacting protein (NP_625898.1| conserved hypothetical protein SCI41.06 [Streptomyces coelicolor A3(2)]; NP_337475.1| siderophore utilization protein [Mycobacterium tuberculosis CDC1551]). pfam04954, SIP, Siderophore-interacting protein.; Specificity unclear
YP_001221954.1	conserved membrane protein (YP_051757.1| putative membrane protein [Erwinia carotovora subsp. atroseptica SCRI1043]; ZP_00228341.1| COG1284: Uncharacterized conserved protein [Kineococcus radiotolerans SRS30216]). pfam02588, DUF161, Uncharacterized BCR, YitT family COG1284. This is probably a bacterial ABC transporter permease (personal obs:Yeats C) (twice).; Function unclear
YP_001221955.1	putative membrane protein (AAM35479.1| inner membrane protein [Xanthomonas axonopodis pv. citri str. 306]; ZP_00226239.1| COG1299: Phosphotransferase system,fructose-specific IIC component [Kineococcus radiotolerans SRS30216]). bcl-2: Apoptosis regulator; Hypothetical protein
YP_001221957.1	putative cation efflux protein, CDF family (BAD34981.1| hypothetical protein [Arthrobacter globiformis]; ZP_00227400.1| COG0053: Predicted Co/Zn/Cd cation transporters [Kineococcus radiotolerans SRS30216]). pfam01545, Cation_efflux, Cation efflux family. Members of this family are integral membrane proteins, that are found to increase tolerance to divalent metal ions such as cadmium, zinc, and cobalt. These proteins are thought to be efflux pumps that remove these ions from cells.; Function unclear
YP_001221958.1	putative transcriptional regulator, ArsR family (NP_600134.1| predicted arsR family transcriptional regulator [Corynebacterium glutamicum ATCC 13032]; H70757 probable transcription regulator - Mycobacterium tuberculosis (strain H37RV)). pfam01022, HTH_5, Bacterial regulatory protein, arsR family.; Specificity unclear
YP_001221959.1	putative arsenate reductase (NP_898754.1| putative arsenate reductase (ArsC) [Rhodococcus erythropolis]; CAF21520.1| Low molecular weight phosphotyrosine protein phosphatase [Corynebacterium glutamicum ATCC 13032]). pfam01451, LMWPc, Low molecular weight phosphotyrosine protein phosphatase. InterPro: Low molecular weight phosphotyrosine protein phosphatase.; Function unclear
YP_001221960.1	putative transcriptional regulator, TetR family (ZP_00188267.2| COG1309: Transcriptional regulator [Rubrobacter xylanophilus DSM 9941]; G69677 transcription regulator of polyketide synthase operon pksA - Bacillus subtilis). InterPro: Bacterial regulatory proteins TetR family pfam00440, TetR_N, Bacterial regulatory proteins,tetR family.; Specificity unclear
YP_001221961.1	putative carboxylesterase (B69680 para-nitrobenzyl esterase (EC 3.1.1.-) - Bacillus subtilis; AAP03116.1| putative carboxyesterase [Streptomyces griseochromogenes]). pfam00135, COesterase,Carboxylesterase.; Specificity unclear
YP_001221963.1	putative hydrolase (NP_301650.1| putative oxidoreductase [Mycobacterium leprae TN]; NP_627387.1| putative hydrolase [Streptomyces coelicolor A3(2)]). pfam00561, Abhydrolase_1, alpha/beta hydrolase fold. This catalytic domain is found in a very wide range of enzymes. ispD: 4-diphosphocytidyl-2C-methyl-D-er; Function unclear
YP_001221964.1	putative acetyltransferase (YP_061542.1| acetyltransferase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_826247.1| putative acetyltransferase [Streptomyces avermitilis MA-4680]). pfam00583,Acetyltransf_1, Acetyltransferase (GNAT) family. This family contains proteins with N-acetyltransferase functions.; Function unclear
YP_001221965.1	Hypothetical protein
YP_001221966.1	putative ATP-dependent RNA helicase (YP_062280.1| ATP-dependent RNA helicase [Leifsonia xyli subsp. xyli str. CTCB07]; CAB00899.1| PROBABLE COLD-SHOCK DEAD-BOX PROTEIN A HOMOLOG DEAD (ATP-dependent RNA helicase deaD homolog) [Mycobacterium tuberculosis H37Rv]). Cold-shock DEAD-box protein A homolog (ATP-dependent RNA helicase deaD homolog). Has a helix-destabilizing activity (By similarity). pfam00270, DEAD, DEAD/DEAH box helicase. Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. pfam00271, Helicase_C, Helicase conserved C-terminal domain. pfam03880, DbpA, DbpA RNA binding domain. This RNA binding domain is found at the C-terminus of a number of DEAD helicase proteins.; Function unclear
YP_001221967.1	Hypothetical protein
YP_001221968.1	putative methyltransferase (NP_823028.1| hypothetical protein SAV1852 [Streptomyces avermitilis MA-4680]; ZP_00225290.1| COG4106: Trans-aconitate methyltransferase [Kineococcus radiotolerans SRS30216]).; Function unclear
YP_001221969.1	putative transcriptional regulator, Cro/CI family (ZP_00210190.1| COG1396: Predicted transcriptional regulators [Magnetospirillum magnetotacticum]; ZP_00225291.2| COG1396: Predicted transcriptional regulators [Kineococcus radiotolerans SRS30216]). pfam01381, HTH_3, Helix-turn-helix. This large family of DNA binding helix-turn helix proteins includes Cro and CI.; Specificity unclear
YP_001221970.1	hypothetical membrane protein , pfam03793, PASTA,PASTA domain. This domain is found at the C termini of several Penicillin-binding proteins and bacterial serine/threonine kinases.; Hypothetical protein
YP_001221972.1	putative carboxylesterase/phospholipase (ZP_00048910.1| COG0400: Predicted esterase [Magnetospirillum magnetotacticum]; NP_769886.1| bll3246 [Bradyrhizobium japonicum USDA 110]). pfam02230,Abhydrolase_2, Phospholipase/Carboxylesterase. This family consists of both phospholipases and carboxylesterases with broad substrate specificity. InterPro: Phospholipase/Carboxylesterase; Function unclear
YP_001221973.1	putative dioxygenase (NP_769887.1| dioxygenase [Bradyrhizobium japonicum USDA 110]; ZP_00007110.1| COG0346: Lactoylglutathione lyase and related lyases [Rhodobacter sphaeroides]). pfam00903, Glyoxalase,Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily (twice). InterPro: Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily.; Function unclear
YP_001221975.1	Hypothetical protein
YP_001221976.1	conserved hypothetical protein (ZP_00186867.2| hypothetical protein Rxyl021934 [Rubrobacter xylanophilus DSM 9941]; YP_062966.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]).
YP_001221978.1	putative NDP-sugar phosphate epimerase (ZP_00126896.1| COG0702: Predicted nucleoside-diphosphate-sugar epimerases [Pseudomonas syringae pv. syringae B728a]; ZP_00227125.1| COG0451: Nucleoside-diphosphate-sugar epimerases [Kineococcus radiotolerans SRS30216]; CAC80137.1| progesterone 5-beta-reductase [Digitalis purpurea]).; Function unclear
YP_001221979.1	conserved membrane protein (ZP_00057288.1| COG2311: Predicted membrane protein [Thermobifida fusca]; CAF20253.1| putative membrane protein [Corynebacterium glutamicum ATCC 13032]). pfam04171, DUF405, Protein of unknown function (DUF405). Predicted to be an integral membrane protein. pfam04235, DUF418, Protein of unknown function (DUF418). Probable integral membrane protein.; Function unclear
YP_001221980.1	putative multidrug ABC transporter, ATPase component (ZP_00227246.1| COG1131: ABC-type multidrug transport system, ATPase component [Kineococcus radiotolerans SRS30216]; NP_626193.1| putative ABC transporter, ATP-binding subunit [Streptomyces coelicolor A3(2)]). pfam00005, ABC_tran, ABC transporter.; Specificity unclear
YP_001221981.1	putative multidrug ABC transporter, permease component (ZP_00227245.1| COG0842: ABC-type multidrug transport system, permease component [Kineococcus radiotolerans SRS30216]; NP_827497.1| putative integral membrane transport protein [Streptomyces avermitilis MA-4680]).; Specificity unclear
YP_001221982.1	putative two-component system, sensor kinase (AAD45902.1| histidine kinase ChrS [Corynebacterium diphtheriae]; YP_061777.1| two-component system, sensor protein [Leifsonia xyli subsp. xyli str. CTCB07]). pfam02518, HATPase_c, Histidine kinase-, DNA gyrase B-,and HSP90-like ATPase.; Specificity unclear
YP_001221983.1	putative two-component system, response regulator (ZP_00200243.1| COG2197: Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Rubrobacter xylanophilus DSM 9941]; NP_294711.1| DNA-binding response regulator [Deinococcus radiodurans R1]). cd00156, REC, Signal receiver domain. pfam00196, GerE,Bacterial regulatory proteins, luxR family.; Specificity unclear
YP_001221984.1	putative sugar ABC transporter, substrate-binding protein (NP_244309.1| multiple sugar transport system (multiple sugar-binding protein) [Bacillus halodurans C-125]; AAN25480.1| probable sugar binding protein of ABC transporter for pentoses [Bifidobacterium longum NCC2705]). pfam00532, Peripla_BP_1, Periplasmic binding proteins and sugar binding domain of the LacI family. This family includes the periplasmic binding proteins, and the LacI family transcriptional regulators.; Specificity unclear
YP_001221985.1	putative sugar ABC transporter, ATP-binding protein (ZP_00225839.1| COG1129: ABC-type sugar transport system,ATPase component [Kineococcus radiotolerans SRS30216]; NP_626651.1| putative sugar-transport ATP binding protein [Streptomyces coelicolor A3(2)]). pfam00005, ABC_tran, ABC transporter(twice).; Specificity unclear
YP_001221986.1	putative sugar ABC transporter, permease component (YP_061240.1| L-arabinose ABC transporter, permease protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00121446.1| COG4214: ABC-type xylose transport system,permease component [Bifidobacterium longum DJO10A]). pfam02653, BPD_transp_2, Branched-chain amino acid transport system / permease component.; Specificity unclear
YP_001221988.1	putative signal peptidase I (Leader peptidase I) (ZP_00293226.1| COG0681: Signal peptidase I [Thermobifida fusca]; AAT59376.1| signal peptidase I [Bacillus thuringiensis serovar konkukian str. 97-27]). pfam00461,Peptidase_S26, Signal peptidase I.; Specificity unclear
YP_001221990.1	hypothetical secreted protein (only weak similarity to: AAP08264.1| Cell envelope-bound metalloprotease (camelysin) [Bacillus cereus ATCC 14579]; ZP_00293230.1| hypothetical protein Tfus02001419 [Thermobifida fusca]).
YP_001221991.1	hypothetical secreted protein (NP_737798.1| hypothetical protein [Corynebacterium efficiens YS-314];).
YP_001221992.1	putative two-component system, sensor histidine kinase (ZP_00200781.1| COG0642: Signal transduction histidine kinase [Exiguobacterium sp. 255-15]; ZP_00236041.1| sensory box histidine kinase PhoR [Bacillus cereus G9241]). smart00388, HisKA, His Kinase A (phosphoacceptor) domain; Dimerisation and phosphoacceptor domain of histidine kinases. pfam02518, HATPase_c,Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase. InterPro: Histidine kinase C-terminal.; Specificity unclear
YP_001221993.1	putative choline/glycine/betaine transporter, BCCT family (AAN69228.1| choline/carnitine/betaine transporter family protein [Pseudomonas putida KT2440]; CAB40689.1| putative BCCT family transporter [Streptomyces coelicolor A3(2)]). pfam02028, BCCT, BCCT family transporter. bcct: choline/carnitine/betaine transp; Specificity unclear
YP_001221994.1	putative diacylglycerol kinase (YP_055799.1| conserved protein with diacylglycerol kinase catalytic domain [Propionibacterium acnes KPA171202]; YP_062988.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]).; Function unclear
YP_001221995.1	putative ATPase (NP_719329.1| conserved hypothetical protein [Shewanella oneidensis MR-1]; ZP_00262873.1| COG4637: Predicted ATPase [Pseudomonas fluorescens PfO-1]).; Function unclear
YP_001221996.1	putative fatty acid desaturase (NP_631110.1| putative delta fatty acid desaturase [Streptomyces coelicolor A3(2)]; ZP_00190195.3| COG3239: Fatty acid desaturase [Kineococcus radiotolerans SRS30216]) Fatty acid desaturase with both delta-5 and delta-6 activities. May represent a component of the polyunsaturated fatty acid biosynthesis pathway. pfam00487, FA_desaturase, Fatty acid desaturase.; Specificity unclear
YP_001221997.1	putative Zn-dependent alcohol dehydrogenase (NP_631415.1| oxidoreductase. [Streptomyces coelicolor A3(2)]; AAN73270.1| (S)-specific alcohol dehydrogenase [Rhodococcus erythropolis]). , pfam00107, ADH_zinc_N, Zinc-binding dehydrogenase.; Specificity unclear
YP_001221998.1	Hypothetical protein
YP_001221999.1	conserved hypothetical protein (NP_627213.1| conserved hypothetical protein SCE50.18c [Streptomyces coelicolor A3(2)]; ZP_00225215.2| hypothetical protein Krad06002218 [Kineococcus radiotolerans SRS30216]).
YP_001222000.1	putative alpha-mannosidase (Alpha-D-mannoside mannohydrolase) (NP_828453.1| putative alpha-mannosidase [Streptomyces avermitilis MA-4680]; YP_056165.1| alpha-mannosidase [Propionibacterium acnes KPA171202]). pfam01074, Glyco_hydro_38, Glycosyl hydrolases family 38.; High confidence in function and specificity
YP_001222001.1	putative sugar ABC transporter, permease component (YP_061256.1| ABC transporter, permease protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_629566.1| putative integral membrane transport protein [Streptomyces coelicolor A3(2)]). pfam00528, BPD_transp_1, Binding-protein-dependent transport system inner membrane component.; Specificity unclear
YP_001222002.1	putative sugar ABC transporter, permease component (YP_061255.1| ABC transporter, permease protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00228402.1| COG1175: ABC-type sugar transport systems, permease components [Kineococcus radiotolerans SRS30216]). pfam00528,BPD_transp_1, Binding-protein-dependent transport system inner membrane component.; High confidence in function and specificity
YP_001222003.1	putative sugar ABC transporter, substrate binding protein (NP_629568.1| putative extracellular solute-binding lipoprotein [Streptomyces coelicolor A3(2)]; ZP_00228401.1| COG1653: ABC-type sugar transport system,periplasmic component [Kineococcus radiotolerans SRS30216]). pfam01547, SBP_bac_1, Bacterial extracellular solute-binding protein.; Specificity unclear
YP_001222004.1	putative transcriptional regulator, Rok family (YP_061254.1| transcriptional regulator, ROK family [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00191333.2| COG1940: Transcriptional regulator/sugar kinase [Kineococcus radiotolerans SRS30216]). pfam00480, ROK, ROK family. ROK_glcA_fam: ROK family protein (puta; Specificity unclear
YP_001222005.1	conserved hypothetical protein (NP_625062.1| hypothetical protein SCF81.18 [Streptomyces coelicolor A3(2)]; ZP_00225772.1| hypothetical protein Krad06004462 [Kineococcus radiotolerans SRS30216]).
YP_001222006.1	conserved secreted protein (ZP_00238872.1| conserved protein [Bacillus cereus G9241]; ZP_00274962.1| COG3369: Uncharacterized conserved protein [Ralstonia metallidurans CH34]).; Conserved hypothetical protein
YP_001222007.1	putative Zn-metalloprotease (NP_959994.1| hypothetical protein MAP1060c [Mycobacterium avium subsp. paratuberculosis str. k10]; ZP_00227674.1| COG2321: Predicted metalloprotease [Kineococcus radiotolerans SRS30216]). pfam04228, Zn_peptidase, Putative neutral zinc metallopeptidase. Members of this family have a predicted zinc binding motif characteristic of neutral zinc metallopeptidases.; Function unclear
YP_001222008.1	putative DNA alkylation repair enzyme (weak similarity; NP_899834.1| DNA alkylation repair enzyme [Chromobacterium violaceum ATCC 12472]; NP_720542.1| DNA alkylation repair enzyme [Streptococcus mutans UA159]). possibly COG4912: Predicted DNA alkylation repair enzyme; Conserved hypothetical protein
YP_001222009.1	putative NAD-dependant epimerase (NP_736669.1| hypothetical protein [Corynebacterium efficiens YS-314]; ZP_00227493.1| COG0451: Nucleoside-diphosphate-sugar epimerases [Kineococcus radiotolerans SRS30216]). pfam01370, Epimerase, NAD dependent epimerase/dehydratase family. This family of proteins utilise NAD as a cofactor. The proteins in this family use nucleotide-sugar substrates for a variety of chemical reactions.; Specificity unclear
YP_001222010.1	conserved hypothetical protein (YP_062270.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00294009.1| hypothetical protein Tfus02000211 [Thermobifida fusca]).
YP_001222011.1	putative ATP-dependent Clp protease adaptor protein (YP_062269.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; Q9S2G5|CLPS_STRCO ATP-dependent Clp protease adaptor protein clpS). pfam02617,ClpS, ATP-dependent Clp protease adaptor protein ClpS. In the bacterial cytosol, ATP-dependent protein degradation is performed by several different chaperone-protease pairs, including ClpAP. ClpS directly influences the ClpAP machine by binding to the N-terminal domain of the chaperone ClpA.; High confidence in function and specificity
YP_001222012.1	putative two-component system, response regulator (ZP_00228547.1| COG2197: Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Kineococcus radiotolerans SRS30216]; YP_061872.1| two-component system, regulatory protein [Leifsonia xyli subsp. xyli str. CTCB07]). cd00156, REC, Signal receiver domain. pfam00196, GerE, Bacterial regulatory proteins,luxR family.; Specificity unclear
YP_001222013.1	putative two-component system sensor kinase (YP_061873.1| two-component system, sensor protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_627597.1| putative two component sensor kinase [Streptomyces coelicolor A3(2)]). pfam02518, HATPase_c, Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase.; Specificity unclear
YP_001222014.1	putative ABC transporter, permease component (YP_061874.1| ABC transporter, integral membrane subunit [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00198462.2| COG0477: Permeases of the major facilitator superfamily [Kineococcus radiotolerans SRS30216]). weak similarity to: COG1277, NosY, ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only] lspA: lipoprotein signal peptidase; Function unclear
YP_001222015.1	putative multidrug ABC transporter, ATP-binding protein (YP_061875.1| ABC transporter, ATP-binding protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_737963.1| putative transport ATP-binding protein [Corynebacterium efficiens YS-314]). pfam00005, ABC_tran, ABC transporter.; Specificity unclear
YP_001222016.1	putative aminotransferase (ZP_00225649.1| COG0436: Aspartate/tyrosine/ aromatic aminotransferase [Kineococcus radiotolerans SRS30216]; NP_825694.1| putative aminotransferase [Streptomyces avermitilis MA-4680]). pfam00155, Aminotran_1_2, Aminotransferase class I and II. InterPro: Aminotransferases class-I; Specificity unclear
YP_001222017.1	hypothetical protein (ZP_00228066.1| hypothetical protein Krad06002257 [Kineococcus radiotolerans SRS30216]; NP_629174.1| putative lipoprotein [Streptomyces coelicolor A3(2)]).
YP_001222018.1	hypothetical protein (ZP_00188960.2| hypothetical protein Krad06004713 [Kineococcus radiotolerans SRS30216]; NP_789426.1| hypothetical protein [Tropheryma whipplei TW08/27]).
YP_001222019.1	putative serine protease (NP_737560.1| putative serine protease, heat shock protein [Corynebacterium efficiens YS-314]; YP_062302.1| serine protease [Leifsonia xyli subsp. xyli str. CTCB07]). pfam00089,Trypsin, Trypsin. pfam00595, PDZ, PDZ domain (Also known as DHR or GLGF). PDZ domains are found in diverse signaling proteins. InterPro: Serine proteases trypsin family.; Function unclear
YP_001222020.1	putative glycosyl transferase (YP_062303.1| glucosyltransferase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_826208.1| putative glycosyl transferase [Streptomyces avermitilis MA-4680]). pfam00535,Glycos_transf_2, Glycosyl transferase. Diverse family,transferring sugar from UDP-glucose, UDP-N-acetyl-galactosamine, GDP-mannose or CDP-abequose, to a range of substrates including cellulose, dolichol phosphate and teichoic acids.; Function unclear
YP_001222021.1	putative transferase, putative phosphatidylglycerophosphate synthase (YP_062304.1| transferase [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00293849.1| COG0558: Phosphatidylglycerophosphate synthase [Thermobifida fusca]).; Specificity unclear
YP_001222022.1	putative glycosyl transferase (YP_062305.1| glycosyltransferase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_630828.1| putative glycosyltransferase [Streptomyces coelicolor A3(2)]). pfam00535,Glycos_transf_2, Glycosyl transferase. Diverse family,transferring sugar from UDP-glucose, UDP-N-acetyl-galactosamine, GDP-mannose or CDP-abequose, to a range of substrates including cellulose, dolichol phosphate and teichoic acids.; Function unclear
YP_001222023.1	putative CDP-glycerol:poly(glycerophosphate) glycerophosphotransferase (Polyglycerol phosphate polymerase) (YP_062607.1| teichoic acid synthase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_267077.1| teichoic acid biosynthesis protein [Lactococcus lactis subsp. lactis Il1403]). pfam04464, Glyphos_transf, CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase. Wall-associated teichoic acids are a heterogeneous class of phosphate-rich polymers that are covalently linked to the cell wall peptidoglycan of gram-positive bacteria. They consist of a main chain of phosphodiester-linked polyols and/or sugar moieties attached to peptidoglycan via a linkage unit. CDP-glycerol:poly(glycerophosphate) glycerophosphotransferase is responsible for the polymerisation of the main chain of the teichoic acid by sequential transfer of glycerol-phosphate units from CDP-glycerol to the linkage unit lipid.; Function unclear
YP_001222024.1	conserved membrane protein (YP_062301.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_301803.1| putative membrane protein [Mycobacterium leprae]).
YP_001222025.1	putative transcriptional regulator, Cro/CI family (CAD12221.1| hypothetical protein [Corynebacterium glutamicum]; AAN62096.1| conserved hypothetical protein [Pseudomonas aeruginosa]). pfam01381, HTH_3, Helix-turn-helix. This large family of DNA binding helix-turn helix proteins includes Cro and CI.; Specificity unclear
YP_001222026.1	hypothetical protein (YP_062300.1| hypothetical protein Lxx13690 [Leifsonia xyli subsp. xyli str. CTCB07]).
YP_001222027.1	putative polysaccharide/polyol phosphate ABC transporter, ATP-binding protein (YP_062299.1| lipopolysaccharide exporter [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00058569.1| COG1134: ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Thermobifida fusca]). MAYBE INVOLVED IN THE BIOSYNTHESIS OF TEICHOIC ACIDS. pfam00005, ABC_tran, ABC transporter. InterPro: AAA ATPase superfamily.; Specificity unclear
YP_001222028.1	putative polysaccharide/polyol phosphate ABC transporter, permease component (YP_062298.1| lipopolysaccharide exporter [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00058570.1| COG1682: ABC-type polysaccharide/polyol phosphate export systems, permease component [Thermobifida fusca]). MAYBE INVOLVED IN THE BIOSYNTHESIS OF TEICHOIC ACIDS. pfam01061, ABC2_membrane,ABC-2 type transporter.; Specificity unclear
YP_001222029.1	putative sugar nucleotidyltransferase (ZP_00226670.1| COG1213: Predicted sugar nucleotidyltransferases [Kineococcus radiotolerans SRS30216]; ZP_00058566.1| COG1213: Predicted sugar nucleotidyltransferases [Thermobifida fusca]; NP_810634.1| putative glucose-1-P -cytidylyltransferase [Bacteroides thetaiotaomicron VPI-5482]). MAYBE INVOLVED IN THE BIOSYNTHESIS OF TEICHOIC ACIDS. pfam00483,NTP_transferase, Nucleotidyl transferase. This family includes a wide range of enzymes which transfer nucleotides onto phosphosugars.; Specificity unclear
YP_001222030.1	putative ABC transporter, ATP-binding protein (YP_062297.1| ABC transporter, ATP-binding protein [Leifsonia xyli subsp. xyli str. CTCB07]; cNP_696828.1| ATP-binding protein of ABC transporter system [Bifidobacterium longum NCC2705]). pfam00005, ABC_tran,ABC transporter.; Specificity unclear
YP_001222031.1	conserved membrane protein, putative ABC transporter permease component (YP_062296.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; YP_056499.1| ABC transporter associated permease [Propionibacterium acnes KPA171202]).
YP_001222032.1	conserved hypothetical protein (YP_062295.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00228314.1| hypothetical protein Krad06001616 [Kineococcus radiotolerans SRS30216]).
YP_001222033.1	catalyzes the formation of 5-phospho-alpha-D-ribose 1-diphosphate and nicotinate from nicotinate D-ribonucleotide and diphosphate
YP_001222034.1	conserved hypothetical protein (ZP_00228361.1| COG3046: Uncharacterized protein related to deoxyribodipyrimidine photolyase [Kineococcus radiotolerans SRS30216]; NP_624520.1| conserved hypothetical protein SCJ1.33 [Streptomyces coelicolor A3(2)]). pfam04244, DPRP, Deoxyribodipyrimidine photolyase-related protein.; Function unclear
YP_001222035.1	converts L-glutamate to D-glutamate, a component of peptidoglycan
YP_001222036.1	RNase PH; tRNA nucleotidyltransferase; forms hexamers in Bacillus subtilis; phosphoroltic 3'-5' exoribonuclease; involved in maturation of tRNA precursors and removes terminal nucleotides near CCA acceptor arms of mature tRNAs
YP_001222037.1	putative xanthosine triphosphate pyrophosphatase (YP_062291.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00228325.1| COG0127: Xanthosine triphosphate pyrophosphatase [Kineococcus radiotolerans SRS30216]; NP_739010.1| conserved hypothetical protein [Corynebacterium efficiens YS-314]). , cd00515, HAM1, NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. TIGR00042: HAM1 protein; Function unclear
YP_001222038.1	putative cobalt-zinc-cadmium efflux permease, CDF family (Cation efflux system protein)(YP_063177.1| cobalt-zinc-cadmium efflux permease [Leifsonia xyli subsp. xyli str. CTCB07]; NP_630824.1| putative efflux protein [Streptomyces coelicolor A3(2)]). , pfam01545,Cation_efflux, Cation efflux family. Members of this family are integral membrane proteins, that are found to increase tolerance to divalent metal ions such as cadmium,zinc, and cobalt. These proteins are thought to be efflux pumps that remove these ions from cells.; High confidence in function and specificity
YP_001222039.1	conserved membrane protein (YP_062290.1| integral membrane protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_789563.1| putative integral membrane protein [Tropheryma whipplei TW08/27]; NP_940604.1| Putative integral membrane protein [Corynebacterium diphtheriae NCTC 13129]). pfam00597, DedA, DedA family. This family combines the DedA related proteins and YIAN/YGIK family. Members of this family are not functionally characterised. These proteins contain multiple predicted transmembrane regions.; Function unclear
YP_001222040.1	Region start changed from 1472365 to 1472374 (-9 bases)
YP_001222041.1	putative ATPase, type II/type IV pathway secretion protein (AAO44286.1| putative type II/type IV pathway secretion protein [Tropheryma whipplei str. Twist]; ZP_00228298.1| COG4962: Flp pilus assembly protein, ATPase CpaF [Kineococcus radiotolerans SRS30216]). pfam00437,GSPII_E, Type II/IV secretion system protein. This family contains both type II and type IV pathway secretion proteins from bacteria. VirB11 ATPase is a subunit of the Agrobacterium tumefaciens transfer DNA (T-DNA) transfer system, a type IV secretion pathway required for delivery of T-DNA and effector proteins to plant cells during infection.; Function unclear
YP_001222042.1	conserved membrane protein, putative pilus assembly protein (NP_789510.1| putative membrane protein [Tropheryma whipplei TW08/27]; NP_628691.1| putative integral membrane protein [Streptomyces coelicolor A3(2)]). pfam00482, GSPII_F, Bacterial type II secretion system protein F domain.; Function unclear
YP_001222043.1	conserved membrane protein, putative pilus assembly protein (NP_789509.1| putative membrane protein [Tropheryma whipplei TW08/27]; ZP_00228300.1| COG2064: Flp pilus assembly protein TadC [Kineococcus radiotolerans SRS30216]). pfam00482, GSPII_F, Bacterial type II secretion system protein F domain.; Function unclear
YP_001222044.1	conserved membrane protein (ZP_00228301.1| hypothetical protein Krad06001602 [Kineococcus radiotolerans SRS30216]; NP_789508.1| putative membrane protein [Tropheryma whipplei TW08/27]). may be involved in pilus assembly
YP_001222045.1	conserved secreted protein (ZP_00228302.1| hypothetical protein Krad06001603 [Kineococcus radiotolerans SRS30216]; NP_789507.1| putative membrane protein [Tropheryma whipplei TW08/27]). may be involved in pilus assembly only weak similarity to: COG4961, TadG, Flp pilus assembly protein TadG [Intracellular trafficking and secretion]
YP_001222046.1	conserved hypothetical protein (ZP_00228303.1| hypothetical protein Krad06001604 [Kineococcus radiotolerans SRS30216]; NP_789506.1| putative membrane/secreted protein [Tropheryma whipplei TW08/27]). may be involved in pilus assembly. only weak similarity to: COG4961, TadG, Flp pilus assembly protein TadG [Intracellular trafficking and secretion].
YP_001222047.1	puataive secreted protein (NP_789505.1| putative membrane protein [Tropheryma whipplei TW08/27]). may be involved in pilus assembly.; Hypothetical protein
YP_001222048.1	putative MFS permease (CAE40411.1| probable transporter [Bordetella pertussis]; NP_787325.1| multidrug efflux protein [Tropheryma whipplei str. Twist]; ZP_00226080.1| COG0477: Permeases of the major facilitator superfamily [Kineococcus radiotolerans SRS30216]). pfam00083, Sugar_tr, Sugar (and other) transporter.; Specificity unclear
YP_001222049.1	Peptide chain release factor 2 (RF-2) (YP_062287.1| peptide chain release factor 2 [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00228305.1| COG1186: Protein chain release factor B [Kineococcus radiotolerans SRS30216]). Peptide chain release factor 2 directs the termination of translation in response to the peptide chain termination codons UGA and UAA (By similarity). pfam00472, RF-1,Peptidyl-tRNA hydrolase domain. This domain is found in peptide chain release factors such as RF-1 and RF-2, and a number of smaller proteins of unknown function. This domain contains the peptidyl-tRNA hydrolase activity. prfB: peptide chain release factor 2.; High confidence in function and specificity
YP_001222050.1	putative ABC transporter, ATP-binding protein involved in cell division (NP_789501.1| cell division ATP-binding protein FtsE [Tropheryma whipplei TW08/27]). pfam00005, ABC_tran, ABC transporter.; High confidence in function and specificity
YP_001222051.1	putative ABC transporter, permease component,involved in cell division (YP_062285.1| cell division protein [Leifsonia xyli subsp. xyli str. CTCB07]; AAO44297.1| cell division protein FtsX [Tropheryma whipplei str. Twist]). pfam02687, FtsX, Predicted permease. This is a family of predicted permeases and hypothetical transmembrane proteins. ftsX: cell division ABC transporter pe; High confidence in function and specificity
YP_001222052.1	binds to ssrA RNA (tmRNA) and is required for its successful binding to ribosomes; also appears to function in the trans-translation step by promoting accommodation of tmRNA into the ribosomal A site; SmpB protects the tmRNA from RNase R degradation in Caulobacter crescentus; both the tmRNA and SmpB are regulated in cell cycle-dependent manner; functions in release of stalled ribosomes from damaged mRNAs and targeting proteins for degradation
YP_001222053.1	putative iron ABC transporter, permease component (NP_359235.1| ABC transporter membrane-spanning permease -unknown substrate [Streptococcus pneumoniae R6]; ZP_00313850.1| COG1178: ABC-type Fe3+ transport system,permease component [Clostridium thermocellum ATCC 27405]).; Specificity unclear
YP_001222054.1	putative iron ABC transporter, ATPase component (NP_359236.1| ABC transporter ATP-binding protein -unknown substrate [Streptococcus pneumoniae R6]; ZP_00313849.1| COG3842: ABC-type spermidine/putrescine transport systems, ATPase components [Clostridium thermocellum ATCC 27405]). pfam00005, ABC_tran, ABC transporter. InterPro: AAA ATPase superfamily; Specificity unclear
YP_001222055.1	putative iron ABC transporter, substrate-binding protein (NP_359237.1| ABC transporter substrate-binding protein - unknown substrate [Streptococcus pneumoniae R6]; ZP_00313848.1| COG1840: ABC-type Fe3+ transport system, periplasmic component [Clostridium thermocellum ATCC 27405]).; Specificity unclear
YP_001222056.1	putative MFS-type efflux protein (ZP_00228110.1| COG0477: Permeases of the major facilitator superfamily [Kineococcus radiotolerans SRS30216]; NP_733510.1| putative transmembrane efflux protein. [Streptomyces coelicolor A3(2)]). pfam00083, Sugar_tr, Sugar (and other) transporter.; Specificity unclear
YP_001222057.1	putative monophosphatase (ZP_00227046.1| COG0483: Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monnophosphatase family [Kineococcus radiotolerans SRS30216]; NP_824226.1| putative monophosphatase [Streptomyces avermitilis MA-4680]). pfam00459, Inositol_P, Inositol monophosphatase family.; Specificity unclear
YP_001222058.1	putative GTPase (ZP_00227044.1| COG1162: Predicted GTPases [Kineococcus radiotolerans SRS30216]; CAF19467.1| putative GTPase [Corynebacterium glutamicum ATCC 13032]).; Function unclear
YP_001222059.1	catalyzes the formation of 5-O-(1-carboxyvinyl)-3-phosphoshikimate from phosphoenolpyruvate and 3-phosphoshikimate in tryptophan biosynthesis
YP_001222060.1	RNA polymerase sigma-factor, ECF subfamily (Sigma-24) (NP_962258.1| SigH [Mycobacterium avium subsp. paratuberculosis str. k10]; ZP_00227040.1| COG1595: DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Kineococcus radiotolerans SRS30216]). ,pfam04542, Sigma70_r2, Sigma-70 region 2. , pfam04545,Sigma70_r4, Sigma-70, region 4.; Specificity unclear
YP_001222061.1	putative anti-sigma factor involved in the regulation of oxidative stress, putative regulation of sigH (directly upstream) (NP_939084.1| Putative anti sigma factor [Corynebacterium diphtheriae NCTC13129]; NP_824213.1| putative anti-sigma factor [Streptomyces avermitilis MA-4680]). COG5662, Predicted transmembrane transcriptional regulator [Transcription]; Specificity unclear
YP_001222062.1	putative acetyl transferase (AAP83142.1| putative acetyltransferase [Lysobacter enzymogenes]; ZP_00107049.1| COG0454: Histone acetyltransferase HPA2 and related acetyltransferases [Nostoc punctiforme]). pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family. This family contains proteins with N-acetyltransferase functions. InterPro: GCN5-related N-acetyltransferase; Function unclear
YP_001222063.1	kgd; produces succinic semialdehyde; part of alternative pathway from alpha-ketoglutarate to succinate; essential for normal growth
YP_001222064.1	catalyzes the synthesis of xanthosine monophosphate by the NAD+ dependent oxidation of inosine monophosphate
YP_001222065.1	conserved membrane protein (ZP_00227019.1| COG1253: Hemolysins and related proteins containing CBS domains [Kineococcus radiotolerans SRS30216]; NP_828257.1| putative integral membrane protein [Streptomyces avermitilis MA-4680]). pfam01595, DUF21, Domain of unknown function DUF21. This transmembrane region has no known function. pfam00571, CBS, CBS domain. CBS domains are small intracellular modules of unknown function. pfam03471, CorC_HlyC, Transporter associated domain. This small domain is found in a family of proteins with the pfam01595 domain and two CBS domains with this domain found at the C-terminus of the proteins, the domain is also found at the C terminus of some Na+/H+ antiporters.; Function unclear
YP_001222066.1	conserved membrane protein (ZP_00227018.1| COG1253: Hemolysins and related proteins containing CBS domains [Kineococcus radiotolerans SRS30216]; NP_828256.1| putative integral membrane protein [Streptomyces avermitilis MA-4680]). pfam01595, DUF21, Domain of unknown function DUF21. This transmembrane region has no known function. pfam00571, CBS, CBS domain. CBS domains are small intracellular modules of unknown function.; Function unclear
YP_001222067.1	putative NADH-dependent flavin oxidoreductase (AAK73169.1| NADH-dependent flavin oxidoreductase [Brevibacterium sp. HCU]; NP_739487.1| putative NADH-dependent flavin oxidoreductase [Corynebacterium efficiens YS-314]). pfam00724, Oxidored_FMN, NADH:flavin oxidoreductase / NADH oxidase family.InterPro: NADH:flavin oxidoreductase/NADH oxidase; Function unclear
YP_001222068.1	putative sugar kinase (BAA94841.1| hypothetical protein [Arthrobacter sp. Q36]). pfam01256, Carb_kinase,Carbohydrate kinase. InterPro: Uncharacterized protein family UPF0031; Function unclear
YP_001222069.1	conserved hypothetical protein (ZP_00227777.1| COG2353: Uncharacterized conserved protein [Kineococcus radiotolerans SRS30216]; NP_939578.1| Putative secreted protein [Corynebacterium diphtheriae NCTC 13129]).; Function unclear
YP_001222070.1	conserved hypothetical protein (NP_737931.1| conserved hypothetical protein [Corynebacterium efficiens YS-314]; ZP_00228490.1| COG0011: Uncharacterized conserved protein [Kineococcus radiotolerans SRS30216]). pfam01910, DUF77, Domain of unknown function DUF77. Domain of unknown function.; Function unclear
YP_001222071.1	putative MFS permease (NP_384591.1| PUTATIVE TRANSPORT TRANSMEMBRANE PROTEIN [Sinorhizobium meliloti 1021]; YP_046983.1| putative permease (MFS superfamily) [Acinetobacter sp. ADP1]). pfam00083, Sugar_tr, Sugar (and other) transporter.; Specificity unclear
YP_001222072.1	putative two-component system response regulator (ZP_00225674.1| COG2197: Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Kineococcus radiotolerans SRS30216]; NP_737890.1| putative transcription regulator [Corynebacterium efficiens YS-314]). pfam00196, GerE, Bacterial regulatory proteins, luxR family. pfam00072, Response_reg, Response regulator receiver domain.; Specificity unclear
YP_001222073.1	putative membrane protein (ZP_01131051.1| hypothetical protein A20C1_00590 [marine actinobacterium PHSC20C1]; AAT89627.1| hypothetical protein Lxx18970 [Leifsonia xyli subsp. xyli str. CTCB07]).
YP_001222074.1	putative two-component system sensor kinase (BAB98004.1| Two-component system, sensory transduction histidine kinases [Corynebacterium glutamicum ATCC 13032]; NP_696797.1| possible histidine kinase sensor of two component system [Bifidobacterium longum NCC2705]). pfam02518, HATPase_c, Histidine kinase-, DNA gyrase B-,and HSP90-like ATPase.; Specificity unclear
YP_001222075.1	putative two-component system response regulator (ZP_00225674.1| COG2197: Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Kineococcus radiotolerans SRS30216]; NP_737890.1| putative transcription regulator [Corynebacterium efficiens YS-314]). pfam00072, Response_reg, Response regulator receiver domain. pfam00196, GerE, Bacterial regulatory proteins, luxR family.; Specificity unclear
YP_001222076.1	Catalyzes the conversion of acetyl-CoA and L-homoserine to CoA and O-acetyl-L-homoserine
YP_001222077.1	catalyzes the formation of L-methionine and acetate from O-acetyl-L-homoserine and methanethiol
YP_001222078.1	putative oxidoreductase/short chain dehydrogenase (NP_630900.1| putative oxidoreductase. [Streptomyces coelicolor A3(2)]; NP_601406.1| putative short-chain dehydrogenase [Corynebacterium glutamicum ATCC 13032]). pfam00106, adh_short, short chain dehydrogenase. This family contains a wide variety of dehydrogenases. InterPro: Short-chain dehydrogenase/reductase (SDR) superfamily; Function unclear
YP_001222079.1	putative transcriptional regulator, TetR-family (AAK45993.1| transcriptional regulator, TetR family [Mycobacterium tuberculosis CDC1551]; NP_627555.1| putative transcriptional regulator [Streptomyces coelicolor A3(2)]). pfam00440, TetR_N, Bacterial regulatory proteins, tetR family.; Specificity unclear
YP_001222080.1	putative transporter involved in metal resistance (ZP_00121878.1| COG0861: Membrane protein TerC, possibly involved in tellurium resistance [Bifidobacterium longum DJO10A]; NP_738469.1| putative integral membrane export protein [Corynebacterium efficiens YS-314]). , pfam03741,TerC, Integral membrane protein TerC family.; Function unclear
YP_001222081.1	putative serine/threonine protein phosphatase (NP_787218.1| protein phosphatase [Tropheryma whipplei str. Twist]; ZP_00024666.1| COG0631: Serine/threonine protein phosphatase [Ralstonia metallidurans]). pfam00481,PP2C, Protein phosphatase 2C. Protein phosphatase 2C is a Mn++ or Mg++ dependent protein serine/threonine phosphatase.; Specificity unclear
YP_001222082.1	dehydratase component, catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate
YP_001222083.1	catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate in leucine biosynthesis; forms a heterodimer of LeuC/D
YP_001222084.1	adds enolpyruvyl to UDP-N-acetylglucosamine as a component of cell wall formation; gram-positive bacteria have 2 copies of MurA which are active
YP_001222086.1	catalyzes the NAD(P)H-dependent reduction of glycerol 3-phosphate to glycerone phosphate
YP_001222087.1	D-alanine--D-alanine ligase (D-alanylalanine synthetase) (D-Ala-D-Ala ligase) (NP_629695.1| D-alanine-D-alanine ligase [Streptomyces coelicolor A3(2)]; ZP_00059114.1| COG1181: D-alanine-D-alanine ligase and related ATP-grasp enzymes [Thermobifida fusca]). pfam01820, Dala_Dala_ligas, D-ala D-ala ligase. This family contains D-alanine--D-alanine ligase enzymes EC:6.3.2.4.; High confidence in function and specificity
YP_001222088.1	putative glycosyl transferase (AAK64294.1| unknown [Brevibacterium flavum]; NP_737258.1| putative glycosyl transferase [Corynebacterium efficiens YS-314]). pfam00535, Glycos_transf_2, Glycosyl transferase. Diverse family, transferring sugar from UDP-glucose, UDP-N-acetyl-galactosamine, GDP-mannose or CDP-abequose, to a range of substrates including cellulose, dolichol phosphate and teichoic acids.; Function unclear
YP_001222089.1	hypothetical protein (NP_789197.1| conserved hypothetical lipoprotein [Tropheryma whipplei TW08/27]; NP_627822.1| putative secreted protein [Streptomyces coelicolor A3(2)]).
YP_001222090.1	thiamine-monophosphate kinase (Thiamine-phosphate kinase)(NP_629697.1| putative thiamine monphosphate kinase [Streptomyces coelicolor A3(2)]; ZP_00059104.1| COG0611: Thiamine monophosphate kinase [Thermobifida fusca]).; High confidence in function and specificity
YP_001222091.1	putative DNA methylase (CAF20026.1| N6-adenine-specific methylase [Corynebacterium glutamicum ATCC 13032]; ZP_00228410.1| COG0742: N6-adenine-specific methylase [Kineococcus radiotolerans SRS30216]). pfam03602, Cons_hypoth95, Conserved hypothetical protein 95.; Specificity unclear
YP_001222092.1	putative regulatory protein, ATPase (NP_626353.1| putative regulatory protein [Streptomyces coelicolor A3(2)]; ZP_00225463.1| COG0714: MoxR-like ATPases [Kineococcus radiotolerans SRS30216]). pfam00004, AAA,ATPase family associated with various cellular activities (AAA). AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes.; Function unclear
YP_001222093.1	conserved memebrane protein (NP_626354.1| putative membrane protein [Streptomyces coelicolor A3(2)]; ZP_00225464.1| COG1721: Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [Kineococcus radiotolerans SRS30216]). InterPro: Protein of unknown function DUF58 pfam01882, DUF58,Protein of unknown function DUF58.; Function unclear
YP_001222094.1	putative membrane-bound protease (NP_626355.1| putative membrane protein [Streptomyces coelicolor A3(2)]; ZP_00057749.1| COG1305: Transglutaminase-like enzymes, putative cysteine proteases [Thermobifida fusca]). pfam01841, Transglut_core, Transglutaminase-like superfamily. This family includes animal transglutaminases and other bacterial proteins of unknown function. Sequence conservation in this superfamily primarily involves three motifs that centre around conserved cysteine, histidine,and aspartate residues that form the catalytic triad in the structurally characterised transglutaminase, the human blood clotting factor XIIIa'. On the basis of the experimentally demonstrated activity of the Methanobacterium phage pseudomurein endoisopeptidase, it is proposed that many, if not all, microbial homologues of the transglutaminases are proteases and that the eukaryotic transglutaminases have evolved from an ancestral protease.; Function unclear
YP_001222095.1	ATP-dependent DNA helicase recG (ZP_00059102.1| COG1200: RecG-like helicase [Thermobifida fusca]; NP_629701.1| putative ATP-dependent DNA helicase [Streptomyces coelicolor A3(2)]). Critical role in recombination and DNA repair. Help process Holliday junction intermediates to mature products by catalyzing branch migration. Has a DNA unwinding activity characteristic of a DNA helicase with a 3 to 5 polarity. RecG unwind branched duplex DNA (Y-DNA) (By similarity). InterPro: DEAD/DEAH box helicase pfam00270, DEAD,DEAD/DEAH box helicase. pfam00271, Helicase_C, Helicase conserved C-terminal domain. recG: ATP-dependent DNA helicase RecG; High confidence in function and specificity
YP_001222096.1	Catalyzes the conversion of ATP and pantetheine 4'-phosphate to diphosphate and 3'-dephospho-coA
YP_001222097.1	conserved hypothetical protein (ZP_00228407.1| COG1399: Predicted metal-binding, possibly nucleic acid-binding protein [Kineococcus radiotolerans SRS30216]; NP_629705.1| hypothetical protein [Streptomyces coelicolor A3(2)]). pfam02620, DUF177, Uncharacterized ACR, COG1399.
YP_001222098.1	some L32 proteins have zinc finger motifs consisting of CXXC while others do not
YP_001222099.1	cytoplasmic enzyme involved in processing rRNA and some mRNAs; substrates typically have dsRNA regions; forms a homodimer; have N-terminal nuclease and C-terminal RNA-binding domains; requires magnesium as preferred ion for activity
YP_001222100.1	Involved in base excision repair of DNA damaged by oxidation or by mutagenic agents. Acts as DNA glycosylase that recognizes and removes damaged bases
YP_001222101.1	putative acetyltransferase (NP_822401.1| hypothetical protein SAV1226 [Streptomyces avermitilis MA-4680]; NP_285343.1| hypothetical protein [Deinococcus radiodurans]). pfam00583, Acetyltransf_1,Acetyltransferase (GNAT) family. This family contains proteins with N-acetyltransferase functions (duplicated). InterPro: GCN5-related N-acetyltransferase; Function unclear
YP_001222102.1	putative chromosome segregation ATPase (NP_823834.1| putative chromosome segregation protein [Streptomyces avermitilis MA-4680]; Q9CBT5|SMC_MYCLE Chromosome partition protein smc). PLAYS AN IMPORTANT ROLE IN CHROMOSOME STRUCTURE AND PARTITIONING. ESSENTIAL FOR CHROMOSOME PARTITION (BY SIMILARITY). pfam02463, SMC_N,RecF/RecN/SMC N terminal domain. This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. pfam06470, SMC_hinge, SMC proteins Flexible Hinge Domain. pfam02483, SMC_C, SMC family, C-terminal domain. This Pfam family represents a conserved domain towards the C-terminus of the SMC family proteins.; High confidence in function and specificity
YP_001222103.1	Signal recognition particle component (SRP54)(NP_904493.1| signal recognition particle-docking protein FtsY [Porphyromonas gingivalis W83]; ZP_00098684.1| COG0552: Signal recognition particle GTPase [Desulfitobacterium hafniense]). Binds to the signal sequence of presecretory protein when they emerge from the ribosomes and transfers them to TRAM (translocating chain-associating membrane protein). pfam02881, SRP54_N, SRP54-type protein, helical bundle domain. pfam00448, SRP54,SRP54-type protein, GTPase domain. This family includes relatives of the G-domain of the SRP54 family of proteins. InterPro: Cell division transporter substrate-binding protein FtsY; High confidence in function and specificity
YP_001222104.1	Signal recognition particle protein (srp54) (AAL32278.1| signal recognition particle protein subunit [Arcanobacterium pyogenes]; NP_695507.1| signal recognition particle protein [Bifidobacterium longum NCC2705]; NP_823824.1| putative signal recognition particle [Streptomyces avermitilis MA-4680]). NECESSARY FOR EFFICIENT EXPORT OF EXTRA-CYTOPLASMIC PROTEINS. BINDS TO THE SIGNAL SEQUENCE WHEN IT EMERGES FROM THE RIBOSOMES (BY SIMILARITY). pfam00448, SRP54, SRP54-type protein,GTPase domain. This family includes relatives of the G-domain of the SRP54 family of proteins. pfam02978,SRP_SPB, Signal peptide binding domain. pfam02881,SRP54_N, SRP54-type protein, helical bundle domain.; High confidence in function and specificity
YP_001222105.1	putative lyase (AAL78051.1| ORFC [Saccharopolyspora erythraea]; ZP_00051953.2| COG0346: Lactoylglutathione lyase and related lyases [Magnetospirillum magnetotacticum]; NP_821960.1| hypothetical protein SAV785 [Streptomyces avermitilis MA-4680]). pfam00903,Glyoxalase, Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily.; Function unclear
YP_001222106.1	putative membrane-associated serine protease,subfamily S1C (YP_061252.1| serine protease [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00292210.1| COG0265: Trypsin-like serine proteases, typically periplasmic,contain C-terminal PDZ domain [Thermobifida fusca]). contains two domains: N-terminal, pfam02674, Colicin_V,Colicin V production protein. C-terminal, pfam00089,Trypsin, Trypsin. InterPro: Serine proteases trypsin family.; Function unclear
YP_001222107.1	Region start changed from 1549235 to 1549196 (-39 bases)
YP_001222108.1	binds to lower part of 30S body where it stabilizes two domains; required for efficient assembly of 30S; in Escherichia coli this protein has nuclease activity
YP_001222109.1	putative RNA-binding protein (YP_062402.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00198094.1| COG1837: Predicted RNA-binding protein (contains KH domain)[Kineococcus radiotolerans SRS30216]). pfam00013, KH, KH domain. KH motifs can bind RNA in vitro.; Function unclear
YP_001222110.1	Essential for efficient processing of 16S rRNA
YP_001222111.1	methylates guanosine-37 in various tRNAs; uses S-adenosyl-L-methionine to transfer methyl group to tRNA
YP_001222112.1	putative methionine aminopeptidase (Peptidase M) (YP_062397.1| methionine aminopeptidase [Leifsonia xyli subsp. xyli str. CTCB07]; AAN25516.1| methionine aminopeptidase [Bifidobacterium longum NCC2705]). Removes the amino-terminal methionine from nascent proteins. pfam00557, Peptidase_M24, metallopeptidase family M24.; High confidence in function and specificity
YP_001222113.1	Hypothetical protein
YP_001222114.1	this protein is located at the 30S-50S ribosomal subunit interface and may play a role in the structure and function of the aminoacyl-tRNA binding site
YP_001222115.1	putative signal peptidase I (Leader peptidase I)(YP_062656.1| signal peptidase I [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00225759.1| COG0681: Signal peptidase I [Kineococcus radiotolerans SRS30216]). pfam00461, Peptidase_S26, Signal peptidase I.; Function unclear
YP_001222116.1	RNH2; RNase HII; binds manganese; endonuclease which specifically degrades the RNA of RNA-DNA hybrids
YP_001222117.1	conserved hypothetical protein (YP_062394.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; CAA98339.1| CONSERVED HYPOTHETICAL PROTEIN [Mycobacterium tuberculosis H37Rv]; CAF20372.1| putative CTP synthase (UTP-ammonia lyase) [Corynebacterium glutamicum ATCC 13032]).; Function unclear
YP_001222118.1	conserved hypothetical protein, putative endonuclease (YP_062393.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_629736.1| hypothetical protein [Streptomyces coelicolor A3(2)]; CAA98371.1| CONSERVED HYPOTHETICAL PROTEIN [Mycobacterium tuberculosis H37Rv]). pfam02021, UPF0102, Uncharacterised protein family UPF0102. The function of this family is unknown.
YP_001222119.1	putative ATP-dependant serine protease (NP_789248.1| conserved hypothetical protein [Tropheryma whipplei TW08/27]; YP_062392.1| competence protein M [Leifsonia xyli subsp. xyli str. CTCB07]). pfam05362,Lon_C, Lon protease (S16) C-terminal proteolytic domain. The Lon serine proteases must hydrolyse ATP to degrade protein substrates. pfam00004, AAA, ATPase family associated with various cellular activities (AAA). (pfam01078, Mg_chelatase, Magnesium chelatase, subunit ChlI. Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX.); Function unclear
YP_001222120.1	putative DNA processing protein (YP_062391.1| DNA processing factor [Leifsonia xyli subsp. xyli str. CTCB07]; NP_789249.1| putative DNA processing protein [Tropheryma whipplei TW08/27]). , pfam02481, SMF, SMF family. The SMF family (DNA processing chain A, dprA) are a group of bacterial proteins.; Function unclear
YP_001222121.1	putative tyrosine recombinase (NP_961892.1| XerC [Mycobacterium avium subsp. paratuberculosis str. k10]; NP_789250.1| putative DNA recombinase [Tropheryma whipplei TW08/27]). pfam02899, Phage_integr_N, Phage integrase, N-terminal SAM-like domain. pfam00589, Phage_integrase,Phage integrase family. Members of this family cleave DNA substrates by a series of staggered cuts, during which the protein becomes covalently linked to the DNA through a catalytic tyrosine residue at the carboxy end of the alignment. The catalytic site residues in CRE recombinase are Arg-173, His-289, Arg-292 and Tyr-324.; Specificity unclear
YP_001222122.1	putative metalloprotease, family M23B (NP_696656.1| narrowly conserved hypothetical protein in M23/M37 peptidase family [Bifidobacterium longum NCC2705]; NP_789252.1| hypothetical protein [Tropheryma whipplei TW08/27]). pfam01551, Peptidase_M37, Peptidase family M23/M37. Members of this family are zinc metallopeptidases with a range of specificities. InterPro: Peptidase family M23/M37.; Function unclear
YP_001222123.1	putative sugar MFS permease (YP_062390.1| sugar transporter [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00198873.1| COG0477: Permeases of the major facilitator superfamily [Kineococcus radiotolerans SRS30216]). pfam00083, Sugar_tr, Sugar (and other) transporter. SP: Sugar transporter; Specificity unclear
YP_001222124.1	one of the last subunits in the assembly of the 30S subunit; absence of S2 does not inhibit assembly but results in an inactive subunit
YP_001222125.1	EF-Ts; functions during elongation stage of protein translation; forms a dimer; associates with EF-Tu-GDP complex and promotes exchange of GDP to GTP resulting in regeneration of the active form of EF-Tu
YP_001222126.1	Catalyzes the phosphorylation of UMP to UDP
YP_001222127.1	frrA; Rrf; Frr; ribosome-recycling factor; release factor 4; RF4; recycles ribosomes upon translation termination along with release factor RF-3 and elongation factor EF-G; A GTPase-dependent process results in release of 50S from 70S; inhibited by release factor RF-1; essential for viability; structurally similar to tRNAs
YP_001222128.1	putative phosphatidate cytidylyltransferase (CDP-diacylglycerol synthase) (CTP:phosphatidate cytidylyltransferase) (NP_337459.1| phosphatidate cytidylyltransferase, putative [Mycobacterium tuberculosis CDC1551]; YP_062197.1| phosphatidate cytidylyltransferase [Leifsonia xyli subsp. xyli str. CTCB07]). pfam01148,CTP_transf_1, Cytidylyltransferase family. The members of this family are integral membrane protein cytidylyltransferases.; Specificity unclear
YP_001222129.1	conserved hypothetical protein (YP_062198.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_789259.1| hypothetical protein [Tropheryma whipplei TW08/27]).
YP_001222130.1	conserved secreted protein, putative transglycosylase (YP_062199.1| secreted protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00291803.1| COG0741: Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Thermobifida fusca]). weak similarity to: pfam01464, SLT,Transglycosylase SLT domain.; Conserved hypothetical protein
YP_001222131.1	Putative Na(+)/H(+) antiporter, CPA1 family (YP_061417.1| Na+/H+ antiporter [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00189223.3| COG0025: NhaP-type Na+/H+ and K+/H+ antiporters [Kineococcus radiotolerans SRS30216]). pfam00999, Na_H_Exchanger, Sodium/hydrogen exchanger family. Na/H antiporters are key transporters in maintaining the pH of actively metabolising cells. The molecular mechanisms of antiport are unclear. TIGRFAM (TIGR00831): Na+/H+ antiporter.; High confidence in function and specificity
YP_001222132.1	putative ATP-/GTP-binding protein (YP_062200.1| ATP/GTP-binding protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00293982.1| hypothetical protein Tfus02000184 [Thermobifida fusca]).; Conserved hypothetical protein
YP_001222133.1	conserved hypothetical protein, putative hydrolase (YP_062201.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00228488.1| COG2945: Predicted hydrolase of the alpha/beta superfamily [Kineococcus radiotolerans SRS30216]). weak similarity to: pfam00561, Abhydrolase_1, alpha/beta hydrolase fold. This catalytic domain is found in a very wide range of enzymes. gatB: glutamyl-tRNA(Gln) amidotransferas; Function unclear
YP_001222134.1	conserved membrane protein, AI-E2 family (NP_789283.1| conserved hypothetical integral membrane protein [Tropheryma whipplei TW08/27]; NP_629892.1| putative membrane protein [Streptomyces coelicolor A3(2)]). , pfam01594, UPF0118, Domain of unknown function DUF20. This transmembrane region is found in putative permeases and predicted transmembrane proteins it has no known function.; Conserved hypothetical protein
YP_001222135.1	conserved hypothetical protein (YP_062203.1| large Ala/Glu-rich protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_789284.1| putative low complexity hydrophilic protein [Tropheryma whipplei TW08/27]).
YP_001222136.1	conserved membrane protein (YP_062204.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_787545.1| unknown [Tropheryma whipplei str. Twist]).
YP_001222137.1	putative thioredoxin (YP_062205.1| thioredoxin [Leifsonia xyli subsp. xyli str. CTCB07]; YP_055812.1| putative thioredoxin [Propionibacterium acnes KPA171202]). pfam00085, Thioredoxin, Thioredoxin. Thioredoxins are small enzymes that participate in redox reactions, via the reversible oxidation of an active centre disulfide bond. cd00189, TPR, Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2) -[ASL]-X(4)-[PKE] is the consensus sequence.; Family membership
YP_001222138.1	catalyzes the transfer of a segment of a 1,4-alpha-D-glucan chain to a primary hydroxy group in a similar glucan chain
YP_001222139.1	putative glycosidase (YP_062207.1| alpha-amylase [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00228507.1| COG0366: Glycosidases [Kineococcus radiotolerans SRS30216]). , pfam00128, Alpha-amylase, Alpha amylase,catalytic domain. Alpha amylase is classified as family 13 of the glycosyl hydrolases.; Specificity unclear
YP_001222140.1	putative glucan phosphorylase (NP_733664.1| putative glycogen phosphorylase [Streptomyces coelicolor A3(2)]; ZP_00228508.1| COG0058: Glucan phosphorylase [Kineococcus radiotolerans SRS30216]). pfam00343,Phosphorylase, Carbohydrate phosphorylase. The members of this family catalyse the formation of glucose 1-phosphate from one of the following polyglucoses; glycogen, starch,glucan or maltodextrin.; Specificity unclear
YP_001222141.1	hypothetical secreted protein (ZP_00414486.1| hypothetical protein ArthDRAFT_0607 [Arthrobacter sp. FB24]).
YP_001222142.1	putative glycosyl hydrolase (ZP_00228514.1| COG1523: Type II secretory pathway, pullulanase PulA and related glycosidases [Kineococcus radiotolerans SRS30216]; YP_055821.1| putative glycogen debranching enzyme [Propionibacterium acnes KPA171202]). pfam02922,Isoamylase_N, Isoamylase N-terminal domain. This domain is found in a range of enzymes that act on branched substrates - isoamylase, pullulanase and branching enzyme. pfam00128, Alpha-amylase, Alpha amylase, catalytic domain. Alpha amylase is classified as family 13 of the glycosyl hydrolases. InterPro: Glycoside hydrolase family 13; Specificity unclear
YP_001222143.1	putative cysteine desulfurase (NP_629622.1| putative pyridoxal-phosphate-dependent aminotransferase [Streptomyces coelicolor A3(2)]; YP_062359.1| cysteine desulfurase [Leifsonia xyli subsp. xyli str. CTCB07]). Catalyzes the removal of elemental sulfur from cysteine to produce alanine (By similarity). pfam00266, Aminotran_5,Aminotransferase class-V. InterPro: Aminotransferase class-V; Specificity unclear
YP_001222144.1	catalyzes a sulfuration reaction to synthesize 2-thiouridine at the U34 position of tRNAs
YP_001222145.1	this protein catalyzes the formation of phosphodiester linkages between 5'-phosphoryl and 3'-hydroxyl groups in double-stranded DNA using NAD as a coenzyme and as the energy source for the reaction; essential for DNA replication and repair of damaged DNA; similar to ligase LigB
YP_001222146.1	conserved secreted protein (YP_062355.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_626621.1| putative secreted protein [Streptomyces coelicolor A3(2)]).
YP_001222147.1	putative secreted protein (NP_716552.1| conserved hypothetical protein [Shewanella oneidensis MR-1]). pfam03724, META, Domain of unknown function (306). Small domain family found in proteins of of unknown function.
YP_001222148.1	putative glutamyl-tRNA(Gln) amidotransferase subunit C (Glu-ADT subunit C) (YP_062354.1| glutamyl-tRNA amidotransferase subunit C [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00228527.1| COG0721: Asp-tRNAAsn/Glu-tRNAGln amidotransferase C subunit [Kineococcus radiotolerans SRS30216]). pfam02686, Glu-tRNAGln, Glu-tRNAGln amidotransferase C subunit. This is a family of Glu-tRNAGln amidotransferase C subunits. The Glu-tRNA Gln amidotransferase enzyme itself is an important translational fidelity mechanism replacing incorrectly charged Glu-tRNAGln with the correct Gln-tRANGln via transmidation of the misacylated Glu-tRNAGln. This activity supplements the lack of glutaminyl-tRNA synthetase activity in gram-positive eubacterteria,cyanobacteria, Archaea, and organelles. InterPro: Glutamyl-tRNA(Gln) amidotransferase C subunit TIGRFam: gatC: glutamyl-tRNA(Gln) amidotransferase; High confidence in function and specificity
YP_001222149.1	allows the formation of correctly charged Asn-tRNA(Asn) or Gln-tRNA(Gln) through the transamidation of misacylated Asp-tRNA(Asn) or Glu-tRNA(Gln) in organisms which lack either or both of asparaginyl-tRNA or glutaminyl-tRNA synthetases; reaction takes place in the presence of glutamine and ATP through an activated phospho-Asp-tRNA(Asn) or phospho-Glu-tRNA
YP_001222150.1	allows the formation of correctly charged Asn-tRNA(Asn) or Gln-tRNA(Gln) through the transamidation of misacylated Asp-tRNA(Asn) or Glu-tRNA(Gln) in organisms which lack either or both of asparaginyl-tRNA or glutaminyl-tRNA synthetases; reaction takes place in the presence of glutamine and ATP through an activated phospho-Asp-tRNA(Asn) or phospho-Glu-tRNA
YP_001222151.1	putative ABC transporter ATP-binding protein (CAF19765.1| ATPase component of ABC transporters with duplicated ATPase domains [Corynebacterium glutamicum ATCC 13032]; NP_630815.1| putative ABC transporter [Streptomyces coelicolor A3(2)]). pfam00005, ABC_tran, ABC transporter (2 times). InterPro: AAA ATPase superfamily.; Function unclear
YP_001222152.1	putative secreted protein (CAF19985.1| conserved hypothetical protein [Corynebacterium glutamicum ATCC 13032]). Mtu_fam_11: Mycobacterium tuberculosis
YP_001222153.1	conserved membrane protein (ZP_00226283.1| COG0586: Uncharacterized membrane-associated protein [Kineococcus radiotolerans SRS30216]; NP_737534.1| conserved hypothetical protein [Corynebacterium efficiens YS-314]). pfam00597, DedA, DedA family. This family combines the DedA related proteins and YIAN/YGIK family. Members of this family are not functionally characterised. InterPro: DedA family TIGR00367: K+-dependent Na+/Ca+ exchanger; Function unclear
YP_001222154.1	conserved hypothetical protein (YP_061421.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00227520.1| hypothetical protein Krad06003909 [Kineococcus radiotolerans SRS30216]).
YP_001222155.1	activates fatty acids by binding to coenzyme A
YP_001222156.1	conserved hypothetical protein (NP_960888.1| hypothetical protein MAP1954c [Mycobacterium avium subsp. paratuberculosis str. k10]; NP_631754.1| conserved hypothetical protein [Streptomyces coelicolor A3(2)]).
YP_001222157.1	putative dehydrogenase (YP_062999.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_961968.1| hypothetical protein MAP3034 [Mycobacterium avium subsp. paratuberculosis str. k10]). pfam01593, Amino_oxidase, Flavin containing amine oxidoreductase. This family consists of various amine oxidases, including maze polyamine oxidase (PAO) and various flavin containing monoamine oxidases (MAO).; Specificity unclear
YP_001222158.1	putative short-chain dehydrogenase (ZP_00228984.1| COG1028: Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Kineococcus radiotolerans SRS30216]; ZP_00107839.1| COG1028: Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Nostoc punctiforme]; CAB76332.1| putative oxidoreductase. [Streptomyces coelicolor A3(2)]). pfam00106, adh_short,short chain dehydrogenase. This family contains a wide variety of dehydrogenases. InterPro: Short-chain dehydrogenase/reductase (SDR) superfamily.; Function unclear
YP_001222159.1	activates fatty acids by binding to coenzyme A
YP_001222160.1	putative short chain dehydrogenase/oxidoreductase (NP_336791.1| oxidoreductase, short-chain dehydrogenase/reductase family [Mycobacterium tuberculosis CDC1551]; NP_535663.1| dehydrogenase [Agrobacterium tumefaciens str. C58]). pfam00106, adh_short, short chain dehydrogenase. This family contains a wide variety of dehydrogenases. InterPro: Short-chain dehydrogenase/reductase (SDR) superfamily.; Specificity unclear
YP_001222161.1	putative acetylornithine deacetylase (EAA64290.1| hypothetical protein AN1583.2 [Aspergillus nidulans FGSC A4]; ZP_00128135.1| COG0624: Acetylornithine deacetylase/ Succinyl-diaminopimelate desuccinylase and related deacylases [Pseudomonas syringae pv. syringae B728a]).,pfam01546, Peptidase_M20, Peptidase family M20/M25/M40. This family includes a range of zinc metallopeptidases belonging to several families in the peptidase classification.; Specificity unclear
YP_001222162.1	conserved hypothetical protein, putative phosphoesterase (NP_828681.1| hypothetical protein SAV7505 [Streptomyces avermitilis MA-4680]; NP_302694.1| conserved hypotehical protein [Mycobacterium leprae TN]). InterPro: Uncharacterized protein family UPF0025 TIGR00040: conserved hypothetical protein; Function unclear
YP_001222163.1	putative acetyltransferase (NP_102782.1| hypothetical protein mlr1123 [Mesorhizobium loti MAFF303099]; NP_422206.1| acetyltransferase, GNAT family [Caulobacter crescentus CB15]). pfam00583, Acetyltransf_1,Acetyltransferase (GNAT) family. This family contains proteins with N-acetyltransferase functions. TIGR00729: ribonuclease HII; Function unclear
YP_001222164.1	putative sulfite oxidase (NP_822473.1| hypothetical protein SAV1298 [Streptomyces avermitilis MA-4680]; ZP_00051501.1| COG2041: Sulfite oxidase and related enzymes [Magnetospirillum magnetotacticum]). pfam00174,Oxidored_molyb, Oxidoreductase molybdopterin binding domain. This domain is found in a variety of oxidoreductases.; Function unclear
YP_001222165.1	Region start changed from 1614740 to 1614770 (-30 bases)
YP_001222166.1	conserved hypothetical protein (AAT89246.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. , CTCB07]; ZP_01090609.1| hypothetical protein DSM3645_12896 [Blastopirellula marina DSM 3645])
YP_001222167.1	conserved hypothetical protein (ZP_00198062.1| COG3662: Uncharacterized protein conserved in bacteria [Kineococcus radiotolerans SRS30216]; ZP_00274370.1| COG3662: Uncharacterized protein conserved in bacteria [Ralstonia metallidurans CH34]). menD: 2-succinyl-6-hydroxy-24-cyclohex
YP_001222168.1	DNA polymerase IV (YP_062348.1| DNA polymerase IV [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00225516.1| COG0389: Nucleotidyltransferase/DNA polymerase involved in DNA repair [Kineococcus radiotolerans SRS30216]). Poorly processive error-prone DNA polymerase involved in untargeted mutagenesis. Copies undamaged DNA at stalled replication forks which arise in vivo from mismatched or misaligned primer ends. These misaligned primers can be extended by polIV. Exhibits no 3-5 exonuclease (proofreading) activity. May be involved in translesional synthesis in conjunction with the beta clamp from polIII (By similarity). pfam00817, IMS, impB/mucB/samB family. These proteins are involved in UV protection. InterPro: UMUC family (DNA-repair).; High confidence in function and specificity
YP_001222169.1	putative membrane protein (YP_063067.1| hypothetical protein Lxx23000 [Leifsonia xyli subsp. xyli str. CTCB07]).
YP_001222170.1	UDP-glucose 6-dehydrogenase (UDP-Glc dehydrogenase) (ZP_00226352.1| COG1004: Predicted UDP-glucose 6-dehydrogenase [Kineococcus radiotolerans SRS30216]; NP_334746.1| UDP-glucose 6-dehydrogenase [Mycobacterium tuberculosis CDC1551]). pfam03721, UDPG_MGDP_dh_N, UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain. pfam00984, UDPG_MGDP_dh, UDP-glucose/GDP-mannose dehydrogenase family, central domain. pfam03720,UDPG_MGDP_dh_C, UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain. InterPro: UDP-glucose/GDP-mannose dehydrogenase family.; High confidence in function and specificity
YP_001222171.1	Malto-oligosyltrehalose trehalohydrolase (4- alpha-D-{(1->4)-alpha- D-glucano}trehalose trehalohydrolase) (Q44316|TREZ_ARTSQ Malto-oligosyltrehalose trehalohydrolase (MTHase) 4-alpha-D-{(1->4)-alpha-D-glucano}trehalose trehalohydrolase) ; Q53238|TREZ_RHIS1 Malto-oligosyltrehalose trehalohydrolase (MTHase) (4-alpha-D-{(1->4)-alpha-D-glucano}trehalose trehalohydrolase) (Maltooligosyl trehalose trehalohydrolase)). , pfam02922,Isoamylase_N, Isoamylase N-terminal domain. This domain is found in a range of enzymes that act on branched substrates - isoamylase, pullulanase and branching enzyme. , pfam00128, Alpha-amylase, Alpha amylase, catalytic domain. Alpha amylase is classified as family 13 of the glycosyl hydrolases. , InterPro: Glycoside hydrolase family 13.; High confidence in function and specificity
YP_001222172.1	Maltooligosyl trehalose synthase ((14)-alpha-D-glucan 1-alpha- D-glucosylmutase) (Q44315|TREY_ARTSQ Maltooligosyl trehalose synthase ((1,4)-alpha-D-glucan 1-alpha-D-glucosylmutase); AAB95368.1| maltooligosyl trehalose synthase [Brevibacterium helvolum]). Catalyzes the conversion of maltooligosaccharide into the non-reducing saccharide maltooligosyl trehalose (alpha-maltooligosyl alpha-D-glucoside) by intramolecular transglycosylation.; High confidence in function and specificity
YP_001222173.1	putative glucan debranching enzyme (BAA94842.1| glycogen debranching enzyme [Arthrobacter sp. Q36]; AAR83844.1| glycogen debranching enzyme [Brevibacterium helvolum]). pfam02922, Isoamylase_N, Isoamylase N-terminal domain. This domain is found in a range of enzymes that act on branched substrates - isoamylase, pullulanase and branching enzyme. pfam00128, Alpha-amylase, Alpha amylase,catalytic domain. Alpha amylase is classified as family 13 of the glycosyl hydrolases.; High confidence in function and specificity
YP_001222174.1	conserved hypothetical protein (YP_062346.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_782141.1| conserved protein [Clostridium tetani E88]; NP_831863.1| hypothetical protein [Bacillus cereus ATCC 14579]).; Function unclear
YP_001222175.1	putative ABC-type transporter, permease component (NP_737744.1| conserved hypothetical protein [Corynebacterium efficiens YS-314]; ZP_00120538.2| COG4721: Predicted membrane protein [Bifidobacterium longum DJO10A]; YP_062345.1| ABC transporter, permease protein [Leifsonia xyli subsp. xyli str. CTCB07]).; Function unclear
YP_001222176.1	putative ABC transporter, ATP-binding protein (ZP_00120537.1| COG1122: ABC-type cobalt transport system,ATPase component [Bifidobacterium longum DJO10A]; YP_062344.1| ABC transporter, ATP-binding protein [Leifsonia xyli subsp. xyli str. CTCB07]). cd00267,ABC_ATPase, ABC (ATP-binding cassette) transporter nucleotide-binding domain (duplicated). InterPro: AAA ATPase superfamily; Specificity unclear
YP_001222177.1	putative ABC transporter, permease component (YP_062343.1| ABC-type cobalt transport system [Leifsonia xyli subsp. xyli str. CTCB07]; NP_600308.1| ABC-type transporter, permease component [Corynebacterium glutamicum ATCC 13032]). pfam02361, CbiQ, Cobalt transport protein.; Specificity unclear
YP_001222178.1	conserved hypothetical protein (YP_062342.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_737747.1| hypothetical protein [Corynebacterium efficiens YS-314]). pfam00485, PRK,Phosphoribulokinase / Uridine kinase family. InterPro: ATP/GTP-binding site motif A (P-loop); Function unclear
YP_001222179.1	hypothetical protein (YP_062341.1| Hypothetical protein Lxx14200 [Leifsonia xyli subsp. xyli str. CTCB07]).
YP_001222180.1	conserved hypothetical protein (ZP_00228025.1| COG3824: Uncharacterized protein conserved in bacteria [Kineococcus radiotolerans SRS30216]; NP_857503.1| CONSERVED HYPOTHETICAL PROTEIN [Mycobacterium bovis AF2122/97]). pfam06262, DUF1025, Domain of unknown function (DUF1025). Family of bacterial protein with undetermined function.
YP_001222181.1	3'-5' exoribonuclease specific for small oligoribonuclotides
YP_001222182.1	putative membrane protein (NP_789296.1| putative integral membrane protein [Tropheryma whipplei TW08/27]; NP_629003.1| putative integral membrane protein [Streptomyces coelicolor A3(2)]).; Hypothetical protein
YP_001222183.1	Region start changed from 1633243 to 1633300 (-57 bases)
YP_001222184.1	catalyzes the formation of nicotinamide adenine dinucleotide (NAD) from nicotinic acid adenine dinucleotide (NAAD) using either ammonia or glutamine as the amide donor and ATP; ammonia-utilizing enzymes include the ones from Bacillus and Escherichia coli while glutamine-utilizing enzymes include the Mycobacterial one; forms homodimers
YP_001222185.1	hypothetical protein (YP_062230.1| hypothetical protein Lxx12850 [Leifsonia xyli subsp. xyli str. CTCB07]; NP_787532.1| unknown [Tropheryma whipplei str. Twist]).
YP_001222187.1	putative peptide methionine sulfoxide reductase (Protein- methionine-S-oxide reductase) (ZP_00301868.1| COG0225: Peptide methionine sulfoxide reductase [Novosphingobium aromaticivorans DSM 12444]; Q9RTB6|MSRA_DEIRA Peptide methionine sulfoxide reductase msrA (Protein-methionine-S-oxide reductase) (Peptide Met(O)reductase)). pfam01625, PMSR, Peptide methionine sulfoxide reductase. This enzyme repairs damaged proteins. Methionine sulfoxide in proteins is reduced to methionine. msrA: peptide methionine sulfoxide redu; High confidence in function and specificity
YP_001222190.1	putative transcriptional regulator, MarR-family (NP_627419.1| putative MarR-family transcriptional repressor [Streptomyces coelicolor A3(2)]; NP_824874.1| putative MarR-family transcriptional regulator [Streptomyces avermitilis MA-4680]). pfam01047, MarR, MarR family. The Mar proteins are involved in the multiple antibiotic resistance, a non-specific resistance system.; Specificity unclear
YP_001222191.1	putative secreted protein (YP_062227.1| hypothetical protein Lxx12820 [Leifsonia xyli subsp. xyli str. CTCB07]; NP_789301.1| putative secreted protein [Tropheryma whipplei TW08/27]).
YP_001222192.1	ChvD; in Agrobacterium tumefaciens, mutations in both Walker boxes were found to affect virulence
YP_001222193.1	putative thioesterase (ZP_00227872.1| COG0824: Predicted thioesterase [Kineococcus radiotolerans SRS30216]; NP_789303.1| hypothetical protein [Tropheryma whipplei TW08/27]). pfam03061, 4HBT, Thioesterase superfamily. This family contains a wide variety of enzymes, principally thioesterases. InterPro: 4-hydroxybenzoyl-CoA thioesterase family active site.; Function unclear
YP_001222194.1	putative acyl-coenzyme A thioesterase II (YP_062222.1| acyl-CoA thioesterase II [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00227900.1| COG1946: Acyl-CoA thioesterase [Kineococcus radiotolerans SRS30216]). pfam02551, Acyl_CoA_thio, Acyl-CoA thioesterase. This family represents the thioesterase II domain (duplicated). tesB: acyl-CoA thioesterase II; Specificity unclear
YP_001222195.1	conserved hypothetical protein (YP_062221.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_826546.1| hypothetical protein SAV5369 [Streptomyces avermitilis MA-4680]).
YP_001222196.1	hemoglobin-like protein, truncated hemoglobin family (NP_826547.1| putative globin [Streptomyces avermitilis MA-4680]; ZP_00058748.1| COG2346: Truncated hemoglobins [Thermobifida fusca])., , pfam01152,Bac_globin, Bacterial-like globin. This family of heme binding proteins are found mainly in bacteria. However they can also be found in some protozoa and plants as well., COG2346, Truncated hemoglobins.; Function unclear
YP_001222197.1	conserved membrane protein (YP_061871.1| small-conductance mechanosensitive channel [Leifsonia xyli subsp. xyli str. CTCB07]; NP_625136.1| conserved hypothetical protein [Streptomyces coelicolor A3(2)]; NP_626892.1| putative membrane protein [Streptomyces coelicolor A3(2)])., , pfam00924, MS_channel,Mechanosensitive ion channel., COG0668, MscS, Small-conductance mechanosensitive channel.; Family membership
YP_001222198.1	Aminopeptidase N (Lysyl aminopeptidase) (Alanine aminopeptidase) (YP_061876.1| aminopeptidase N [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00225907.1| COG0308: Aminopeptidase N [Kineococcus radiotolerans SRS30216]). pfam01433, Peptidase_M1, Peptidase family M1. Members of this family are aminopeptidases. InterPro: Aminopeptidase N APN (CD13); High confidence in function and specificity
YP_001222199.1	conserved hypothetical protein (ZP_00225908.1| hypothetical protein Krad06004249 [Kineococcus radiotolerans SRS30216]; CAA16043.1| CONSERVED HYPOTHETICAL PROTEIN [Mycobacterium tuberculosis H37Rv]). weak similarity to: COG3917, NahD, 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis,transport, and catabolism]; pfam01323, DSBA, DSBA-like thioredoxin domain. This family contains a diverse set of proteins with a thioredoxin-like structure.
YP_001222200.1	catalyzes the interconversion of ribose 5-phosphate to ribulose 5-phosphate; enzyme from E. coli shows allose 6-phosphate isomerase activity
YP_001222201.1	putative formamidopyrimidine-DNA glycosylase involved in DNA repair (YP_061878.1| DNA glycosylase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_787524.1| putative DNA glycosylase [Tropheryma whipplei str. Twist]). pfam01149, Fapy_DNA_glyco, Formamidopyrimidine-DNA glycosylase N-terminal domain. Formamidopyrimidine-DNA glycosylase (Fpg) is a DNA repair enzyme that excises oxidised purines from damaged DNA. pfam06831, H2TH,Formamidopyrimidine-DNA glycosylase H2TH domain.; High confidence in function and specificity
YP_001222202.1	putative stress induced DNA-binding protein (YP_061879.1| starvation- induced DNA-binding protein [Leifsonia xyli subsp. xyli str. CTCB07]; AAO44492.1| stress induced DNA-binding protein [Tropheryma whipplei str. Twist]). pfam00210, Ferritin, Ferritin-like domain. This family contains ferritins and other ferritin-like proteins such as members of the DPS family and bacterioferritins.; Specificity unclear
YP_001222203.1	Hypothetical protein
YP_001222204.1	Tig; RopA; peptidyl-prolyl cis/trans isomerase; promotes folding of newly synthesized proteins; binds ribosomal 50S subunit; forms a homodimer
YP_001222205.1	hydrolyzes proteins to small peptides; with the ATPase subunits ClpA or ClpX, ClpP degrades specific substrates
YP_001222206.1	hydrolyzes proteins to small peptides; with the ATPase subunits ClpA or ClpX, ClpP degrades specific substrates
YP_001222207.1	putative monooxygenase (ZP_00292953.1| COG2141: Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Thermobifida fusca]; NP_822383.1| putative monooxygenase [Streptomyces avermitilis MA-4680]). pfam00296, Bac_luciferase,Luciferase-like monooxygenase. InterPro: bacterial luciferase family protein; Function unclear
YP_001222208.1	binds and unfolds substrates as part of the ClpXP protease
YP_001222209.1	putative peptidyl-dipeptidase (Dipeptidyl carboxypeptidase) (AAM40709.1| peptidyl-dipeptidase [Xanthomonas campestris pv. campestris str. ATCC 33913]; ZP_00198809.2| COG0339: Zn-dependent oligopeptidases [Kineococcus radiotolerans SRS30216]). REMOVES DIPEPTIDES FROM THE C-TERMINI OF N-BLOCKED TRIPEPTIDES TETRAPEPTIDES AND LARGER PEPTIDES. pfam01432, Peptidase_M3, Peptidase family M3.; High confidence in function and specificity
YP_001222210.1	putative methylase (NP_823056.1| putative methyltransferase-UbiE family [Streptomyces avermitilis MA-4680]; NP_335290.1| methyltransferase, UbiE/COQ5 family [Mycobacterium tuberculosis CDC1551]). InterPro: ubiE/COQ5 methyltransferase; Function unclear
YP_001222211.1	hypothetical protein (YP_061805.1| hypothetical protein Lxx07900 [Leifsonia xyli subsp. xyli str. CTCB07]).
YP_001222212.1	putative acetyltransferase, GNAT family (YP_061806.1| acetyltransferase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_107750.1|; Function unclear
YP_001222213.1	valine--tRNA ligase; ValRS; converts valine ATP and tRNA(Val) to AMP PPi and valyl-tRNA(Val); class-I aminoacyl-tRNA synthetase type 1 subfamily; has a posttransfer editing process to hydrolyze mischarged Thr-tRNA(Val) which is done by the editing domain
YP_001222214.1	catalyzes the phosphorylation and decarboxylation of oxaloacetate to form phosphoenolpyruvate using GTP
YP_001222215.1	putative transcriptional regulator, Cro/CI family (ZP_00227904.1| COG3800: Predicted transcriptional regulator [Kineococcus radiotolerans SRS30216]; ZP_00057955.1| COG1396: Predicted transcriptional regulators [Thermobifida fusca]). pfam01381, HTH_3, Helix-turn-helix. This large family of DNA binding helix-turn helix proteins includes Cro and CI. pfam06114, DUF955,Domain of unknown function (DUF955). Family of bacterial and viral proteins with undetermined function. InterPro: Helix-turn-helix motif.; Specificity unclear
YP_001222216.1	putative oligopeptide ABC transporter ATP-binding protein, two fused domains (NP_768244.1| ABC transporter ATP-binding protein [Bradyrhizobium japonicum]; ZP_00191786.2| COG1123: ATPase components of various ABC-type transport systems, contain duplicated ATPase [Kineococcus radiotolerans SRS30216]).; Specificity unclear
YP_001222217.1	putative oligopeptide ABC transporter, permease component (ZP_00228687.1| COG1173: ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Kineococcus radiotolerans SRS30216]; NP_768243.1| ABC transporter permease protein [Bradyrhizobium japonicum]). pfam00528, BPD_transp_1,Binding-protein-dependent transport system inner membrane component. InterPro: Binding-protein-dependent transport systems inner membrane component pfam00528, BPD_transp_1,Binding-protein-dependent transport system inner membrane component. The alignments cover the most conserved region of the proteins, which is thought to be located in a cytoplasmic loop between two transmembrane domains. The members of this family have a variable number of transmembrane helices.; Specificity unclear
YP_001222218.1	putative oligopeptide ABC transporter, permease component (ZP_00228686.1| COG0601: ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Kineococcus radiotolerans SRS30216]; NP_641209.1| ABC transporter permease [Xanthomonas axonopodis pv. citri str. 306]). pfam00528, BPD_transp_1,Binding-protein-dependent transport system inner membrane component.; Specificity unclear
YP_001222219.1	putative oligopeptide ABC transporter, substrate-binding protein (NP_641208.1| ABC transporter oligopeptide binding protein [Xanthomonas axonopodis pv. citri str. 306]; ZP_00191783.2| COG0747: ABC-type dipeptide transport system, periplasmic component [Kineococcus radiotolerans SRS30216]). pfam00496, SBP_bac_5, Bacterial extracellular solute-binding proteins, family 5. InterPro: Bacterial extracellular solute-binding protein family 5.; Specificity unclear
YP_001222220.1	putative transcriptional regulator, TetR family (ZP_00189647.3| COG1309: Transcriptional regulator [Kineococcus radiotolerans SRS30216]; NP_518756.1| PROBABLE TRANSCRIPTION REGULATOR PROTEIN [Ralstonia solanacearum GMI1000]). pfam00440, TetR_N, Bacterial regulatory proteins, tetR family.; Specificity unclear
YP_001222221.1	putative expansin (AAK16222.1| cellulase CelA [Clavibacter michiganensis subsp. sepedonicus]; XP_367645.1| hypothetical protein MG07556.4 [Magnaporthe grisea 70-15]; AAL24497.1| alpha-expansin [Oryza sativa]).; Function unclear
YP_001222222.1	putative SAM-dependant methyltransferase (NP_962393.1| hypothetical protein MAP3459 [Mycobacterium avium subsp. paratuberculosis str. k10]; ZP_00276697.1| COG0500: SAM-dependent methyltransferases [Ralstonia metallidurans CH34]). InterPro: SAM (and some other nucleotide) binding motif; Specificity unclear
YP_001222223.1	IleRS; catalyzes the formation of isoleucyl-tRNA(Ile) from isoleucine and tRNA(Ile); since isoleucine and other amino acids such as valine are similar, there are additional editing function in this enzyme; one is involved in hydrolysis of activated valine-AMP and the other is involved in deacylation of mischarged Val-tRNA(Ile); there are two active sites, one for aminoacylation and one for editing; class-I aminoacyl-tRNA synthetase family type 2 subfamily; some organisms carry two different copies of this enzyme; in some organisms, the type 2 subfamily is associated with resistance to the antibiotic pseudomonic acid (mupirocin)
YP_001222224.1	folylpolyglutamate synthase (Folylpoly-gamma-glutamate synthetase) (YP_061811.1| folylpolyglutamate synthase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_787604.1| folylpolyglutamate synthase; dihydrofolate synthase [Tropheryma whipplei str. Twist]; NP_826629.1| putative folylpolyglutamate synthase [Streptomyces avermitilis MA-4680]). Conversion of folates to polyglutamate derivatives. pfam01225, Mur_ligase, Mur ligase family, catalytic domain. This family contains a number of related ligase enzymes which have EC numbers 6.3.2.*. pfam02875, Mur_ligase_C, Mur ligase family,glutamate ligase domain.; High confidence in function and specificity
YP_001222225.1	putative membrane protein (YP_061812.1| membrane protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00226697.1| hypothetical protein Krad06002845 [Kineococcus radiotolerans SRS30216]).
YP_001222226.1	putative nucleoside diphosphate kinase (NDP kinase) (Nucleoside-2-P kinase) (YP_061813.1| nucleoside diphosphate kinase [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00198869.1| COG0105: Nucleoside diphosphate kinase [Kineococcus radiotolerans SRS30216]). smart00562,NDK, These are enzymes that catalyze nonsubstrate specific conversions of nucleoside diphosphates to nucleoside triphosphates. These enzymes play important roles in bacterial growth, signal transduction and pathogenicity. InterPro: Nucleoside diphosphate kinase; High confidence in function and specificity
YP_001222227.1	conserved membrane protein (AAS20061.1| conserved hypothetical protein [Arthrobacter aurescens]; ZP_00227045.1| COG4243: Predicted membrane protein [Kineococcus radiotolerans SRS30216]).; Function unclear
YP_001222228.1	putative ribonuclease (YP_061815.1| ribonuclease G [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00292466.1| COG1530: Ribonucleases G and E [Thermobifida fusca]). pfam00575, S1, S1 RNA binding domain. The S1 domain occurs in a wide range of RNA associated proteins. RNaseEG: ribonuclease Rne/Rng family; Function unclear
YP_001222229.1	conserved hypothetical protein (YP_061816.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00293669.1| hypothetical protein Tfus02001029 [Thermobifida fusca]).
YP_001222230.1	50S ribosomal protein L21 (YP_061817.1| 50S ribosomal protein L21 [Leifsonia xyli subsp. xyli str. CTCB07]; CAB03777.1| PROBABLE 50S RIBOSOMAL PROTEIN L21 RPLU [Mycobacterium tuberculosis H37Rv]; NP_940119.1| 50S ribosomal protein L21 [Corynebacterium diphtheriae NCTC 13129]). This protein binds to 23S ribosomal RNA in the presence of protein L20. pfam00829, Ribosomal_L21p,Ribosomal prokaryotic L21 protein.; High confidence in function and specificity
YP_001222231.1	involved in the peptidyltransferase reaction during translation
YP_001222232.1	essential GTPase; exhibits high exchange rate for GTP/GDP; associates with 50S ribosomal subunit; involved in regulation of chromosomal replication
YP_001222233.1	catalyzes the formation of glutamate 5-phosphate from glutamate in proline biosynthesis
YP_001222234.1	Catalyzes the phosphorylation of L-glutamate during the proline biosynthesis pathway
YP_001222235.1	hypothetical membrane protein (YP_061822.1| hypothetical protein Lxx08090 [Leifsonia xyli subsp. xyli str. CTCB07]).
YP_001222236.1	transfers an adenyl group from ATP to NaMN to form nicotinic acid adenine dinucleotide (NaAD) which is then converted to the ubiquitous compound NAD by NAD synthetase; essential enzyme in bacteria
YP_001222237.1	conserved hypothetical protein (YP_061824.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]).
YP_001222238.1	conserved hypothetical protein (YP_061825.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00197999.1| COG0799: Uncharacterized homolog of plant Iojap protein [Kineococcus radiotolerans SRS30216]). pfam02410, DUF143, Domain of unknown function DUF143. This domain has no known function nor do any of the proteins that possess it.; Function unclear
YP_001222239.1	conserved hypothetical protein (NP_952619.1| conserved hypothetical protein [Geobacter sulfurreducens PCA]; NP_282311.1| hypothetical protein Cj1164c [Campylobacter jejuni subsp. jejuni NCTC 11168]).; Function unclear
YP_001222240.1	hypothetical protein (only weak similarities to: NP_980009.1| conserved hypothetical protein [Bacillus cereus ATCC 10987]).
YP_001222242.1	putative esterase (YP_061243.1| secreted hydrolase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_631558.1| putative secreted hydrolase [Streptomyces coelicolor A3(2)]). cd00229, SEST, Streptomyces scabies esterase is a causal agent of the potato scab disease. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases. InterPro: GDSL lipolytic enzyme TIGR00365: glutaredoxin-related protein; Function unclear
YP_001222243.1	putative transcriptional regulator, DeoR family (YP_061707.1| transcriptional regulator, DeoR family [Leifsonia xyli subsp. xyli str. CTCB07]; NP_738434.1| putative deoR-family transcriptional regulator [Corynebacterium efficiens YS-314]). pfam00455, DeoR,Bacterial regulatory proteins, deoR family.; Hypothetical protein
YP_001222244.1	putative 1-phosphofructokinase (YP_061708.1| 1-phosphofructokinase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_738438.1| putative 1-phosphofructokinase [Corynebacterium efficiens YS-314]). pfam00294, PfkB, pfkB family carbohydrate kinase. This family includes a variety of carbohydrate and pyrimidine kinases. InterPro: PfkB family of carbohydrate kinases; Specificity unclear
YP_001222245.1	phosphoenolpyruvate-dependent fructose phosphotransferase system, EIIA, EIIB, EIIC (YP_054858.1| phosphotransferase system [Propionibacterium acnes KPA171202]; YP_061709.1| PTS system, fructose-specific permease, transmembrane protein [Leifsonia xyli subsp. xyli str. CTCB07]). pfam00359, PTS_EIIA_2,Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2. , pfam02379, PTS_IIB_fruc, PTS system,Fructose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. The sugar-specific permease of the PTS consists of three domains (IIA, IIB and IIC). IIB is is phosphorylated by phospho-IIA, before the phosphoryl group is transferred to the sugar substrate. , pfam02378, PTS_EIIC,Phosphotransferase system, EIIC. , InterPro: Phosphotransferase system EIIC fruA: PTS system IIA component fructo; High confidence in function and specificity
YP_001222246.1	phosphotransferase system, phosphocarrier protein HPr (ZP_00226194.1| COG1925: Phosphotransferase system,HPr-related proteins [Kineococcus radiotolerans SRS30216]; YP_055065.1| phosphocarrier protein HPr [Propionibacterium acnes KPA171202]). pfam00381, PTS-HPr,PTS HPr component phosphorylation site.; High confidence in function and specificity
YP_001222247.1	putative short-chain dehydrogenase/oxidoreductase (NP_828433.1| putative oxidoreductase [Streptomyces avermitilis MA-4680]; NP_640936.1| oxidoreductase [Xanthomonas axonopodis pv. citri str. 306]). pfam00106,adh_short, short chain dehydrogenase. This family contains a wide variety of dehydrogenases. InterPro: Short-chain dehydrogenase/reductase (SDR) superfamily.; Function unclear
YP_001222249.1	putative ATP-dependent helicase (NP_822750.1| putative ATP-dependent helicase [Streptomyces avermitilis MA-4680]; ZP_00293629.1| COG4581: Superfamily II RNA helicase [Thermobifida fusca]). pfam00270, DEAD, DEAD/DEAH box helicase. Members of this family include the DEAD and DEAH box helicases. pfam00271, Helicase_C, Helicase conserved C-terminal domain.; Specificity unclear
YP_001222250.1	putative short chain dehydrogenase/oxidoreductase (NP_624645.1| putative oxidoreductase [Streptomyces coelicolor A3(2)]; CAA17300.1| Possible oxidoreductase [Mycobacterium tuberculosis H37Rv]). pfam00106, adh_short,short chain dehydrogenase. This family contains a wide variety of dehydrogenases.; Specificity unclear
YP_001222251.1	catalyzes the formation of L-histidinol phosphate from imidazole-acetol phosphate and glutamate in histidine biosynthesis
YP_001222252.1	putative hydrolase (ZP_00108734.1| COG0596: Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [Nostoc punctiforme]; NP_295075.1| dihydrolipoamide acetyltransferase-related protein [Deinococcus radiodurans R1]). pfam00561, Abhydrolase_1,alpha/beta hydrolase fold. This catalytic domain is found in a very wide range of enzymes. InterPro: Alpha/beta hydrolase fold hupD: hydrogenase expression/formation; Function unclear
YP_001222253.1	putative hydrolase/acyltransferase (ZP_00227961.1| COG1075: Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [Kineococcus radiotolerans SRS30216]; AAN48022.1| alpha/beta hydrolase fold [Leptospira interrogans serovar lai str. 56601]). pfam00561, Abhydrolase_1, alpha/beta hydrolase fold. This catalytic domain is found in a very wide range of enzymes. TIGR00253: conserved hypothetical prote; Function unclear
YP_001222254.1	putative efflux MFS permease (YP_061828.1| transmembrane efflux pump [Leifsonia xyli subsp. xyli str. CTCB07]; NP_627842.1| putative transmembrane efflux protein [Streptomyces coelicolor A3(2)]). efflux_EmrB: drug resistance transport; Specificity unclear
YP_001222255.1	putative Zn-dependant oxidoreductase (NP_628012.1| putative quinone oxidoreductase [Streptomyces coelicolor A3(2)]; XP_468289.1| putative quinone oxidoreductase [Oryza sativa (japonica cultivar-group)]). pfam00107,ADH_zinc_N, Zinc-binding dehydrogenase. InterPro: Zinc-containing alcohol dehydrogenase superfamily; Function unclear
YP_001222256.1	conserved hypothetical protein (YP_061830.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00227945.1| COG2353: Uncharacterized conserved protein [Kineococcus radiotolerans SRS30216]). pfam04264, YceI, YceI like family. E. coli YceI is a base-induced periplasmic protein. Its function has not yet been characterised.; Function unclear
YP_001222257.1	putative hydrolase/acyltransferase (NP_661840.1| hydrolase, alpha/beta hydrolase fold family [Chlorobium tepidum TLS]; NP_821687.1| putative hydrolase [Streptomyces avermitilis MA-4680]). pfam00561,Abhydrolase_1, alpha/beta hydrolase fold. This catalytic domain is found in a very wide range of enzymes.; Function unclear
YP_001222258.1	putative hydrolase/acyltransferase (ZP_00283301.1| COG0596: Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [Burkholderia fungorum LB400]; NP_822882.1| putative 3-oxoadipate enol-lactone hydrolase [Streptomyces avermitilis MA-4680]). pfam00561,Abhydrolase_1, alpha/beta hydrolase fold. This catalytic domain is found in a very wide range of enzymes.; Function unclear
YP_001222259.1	conserved membrane protein (YP_062173.1| integral membrane protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_789315.1| putative integral membrane protein. [Tropheryma whipplei TW08/27]). TIGR00040: conserved hypothetical prot; Conserved hypothetical protein
YP_001222260.1	DNA polymerase III alpha subunit (ZP_00225627.1| COG0587: DNA polymerase III, alpha subunit [Kineococcus radiotolerans SRS30216]; NP_827731.1| putative DNA polymerase III alpha subunit [Streptomyces avermitilis MA-4680]). DNA POLYMERASE III IS A COMPLEX MULTICHAIN ENZYME RESPONSIBLE FOR MOST OF THE REPLICATIVE SYNTHESIS IN BACTERIA. THIS DNA POLYMERASE ALSO EXHIBITS 3 TO 5 EXONUCLEASE ACTIVITY. THE ALPHA CHAIN IS THE DNA POLYMERASE. polc: DNA polymerase III alpha subuni; High confidence in function and specificity
YP_001222261.1	catalyzes the formation of D-glucono-1,5-lactone 6-phosphate from D-glucose 6-phosphate
YP_001222262.1	putative carboxymethylenebutenolidase (EC 3.1.1.45) (Dienelactone hydrolase) (NP_216570.1| hypothetical protein Rv2054 [Mycobacterium tuberculosis H37Rv]; NP_531327.1| carboxymethylenebutenolidase [Agrobacterium tumefaciens str. C58 (U. Washington)] ). pfam01738, DLH,Dienelactone hydrolase family. InterPro: Dienelactone hydrolase.; Function unclear
YP_001222263.1	putative transcriptional regulator, LytR family (YP_061827.1| transcriptional regulator, LytR family [Leifsonia xyli subsp. xyli str. CTCB07]; NP_787856.1| transcriptional regulator [Tropheryma whipplei str. Twist]). pfam03816, LytR_cpsA_psr, Cell envelope-related transcriptional attenuator domain.; Specificity unclear
YP_001222264.1	putative transcriptional regulator, LysR family (NP_534506.1| transcriptional regulator, LysR family [Agrobacterium tumefaciens str. C58]; YP_050354.1| LysR-family transcriptional regulator [Erwinia carotovora subsp. atroseptica SCRI1043]). pfam00126, HTH_1, Bacterial regulatory helix-turn-helix protein, lysR family. pfam03466, LysR_substrate, LysR substrate binding domain. The structure of this domain is known and is; Specificity unclear
YP_001222265.1	putative acetyltransferase (YP_048512.1| putative acetyltransferase [Erwinia carotovora subsp. atroseptica SCRI1043]; ZP_00217564.1| COG0454: Histone acetyltransferase HPA2 and related acetyltransferases [Burkholderia cepacia R18194]). pfam00583, Acetyltransf_1,Acetyltransferase (GNAT) family. This family contains proteins with N-acetyltransferase functions.; Function unclear
YP_001222266.1	putative nicotinamide mononucleotide transporter,PnuC family (CAF18632.1| mononucleotide transporter [Corynebacterium glutamicum ATCC 13032]; YP_056127.1| nicotinamide mononucleotide transporter [Propionibacterium acnes KPA171202]). pfam04973, NMN_transporter,Nicotinamide mononucleotide transporter. Members of this family are integral membrane proteins that are involved in transport of nicotinamide mononucleotide.; Specificity unclear
YP_001222268.1	putative oxidoreductase (NP_301411.1| putative oxidoreductase [Mycobacterium leprae TN]; ZP_00198753.2| COG0667: Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Kineococcus radiotolerans SRS30216]). pfam00248, Aldo_ket_red, Aldo/keto reductase family. This family includes a number of K+ ion channel beta chain regulatory domains - these are reported to have oxidoreductase activity.; Function unclear
YP_001222269.1	conserved hypothetical protein (YP_062174.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00227742.1| COG4850: Uncharacterized conserved protein [Kineococcus radiotolerans SRS30216]; CAF20598.1| ATPase component of ABC transporters with duplicated ATPase domains [Corynebacterium glutamicum ATCC 13032]).; Function unclear
YP_001222270.1	conserved hypothetical protein (ZP_00189333.2| COG2135: Uncharacterized conserved protein [Kineococcus radiotolerans SRS30216]; NP_629361.1| conserved hypothetical protein SC7E4.11 [Streptomyces coelicolor A3(2)]). pfam02586, DUF159, Uncharacterised ACR, COG2135.
YP_001222271.1	putative proline/glycine/betaine/choline ABC transporter, ATP-binding protein (AAP55490.1| PROV-like protein [Leifsonia xyli subsp. xyli]; NP_938494.1| choline transport system ATP-binding protein [Corynebacterium diphtheriae NCTC 13129]). PROBABLY INVOLVED IN OSMOPROTECTION. pfam00005, ABC_tran, ABC transporter.; Specificity unclear
YP_001222272.1	putative proline/glycine/betaine/choline ABC transporter, permease component (YP_062177.1| ABC-type glycine betaine transport, permease protein [Leifsonia xyli subsp. xyli str. CTCB07]; YP_055115.1| ABC transporter-associated permease [Propionibacterium acnes KPA171202]). pfam00528, BPD_transp_1, Binding-protein-dependent transport system inner membrane component.; Specificity unclear
YP_001222273.1	putative proline/glycine/betaine/choline ABC transporter, permease component (YP_062178.1| ABC-type glycine betaine transport, permease protein [Leifsonia xyli subsp. xyli str. CTCB07]; YP_055114.1| ABC transporter-associated permease [Propionibacterium acnes KPA171202]). pfam00528, BPD_transp_1, Binding-protein-dependent transport system inner membrane component. InterPro: Binding-protein-dependent transport systems inner membrane component.; Specificity unclear
YP_001222274.1	putative proline/glycine/betaine/choline ABC transporter, substrate-binding protein (YP_062179.1| ABC-type glycine betaine transport, substrate-binding protein [Leifsonia xyli subsp. xyli str. CTCB07]; YP_055113.1| putative substrate-binding protein [Propionibacterium acnes KPA171202]). pfam04069, OpuAC, Substrate binding domain of ABC-type glycine betaine transport system. Part of a high affinity multicomponent binding-protein-dependent transport system involved in bacterial osmoregulation.; Specificity unclear
YP_001222276.1	putative chalcone synthase/polyketide synthase III (ZP_00225533.1| COG3424: Predicted naringenin-chalcone synthase [Kineococcus radiotolerans SRS30216]; ZP_00204033.1| COG3424: Predicted naringenin-chalcone synthase [Psychrobacter sp. 273-4]). pfam00195,Chal_sti_synt_N, Chalcone and stilbene synthases, N-terminal domain. The C-terminal domain of Chalcone synthase is reported to be structurally; Specificity unclear
YP_001222277.1	putative methylase (ZP_00225534.1| COG0500: SAM-dependent methyltransferases [Kineococcus radiotolerans SRS30216]; NP_285650.1| hypothetical protein [Deinococcus radiodurans]).; Specificity unclear
YP_001222278.1	putative monooxygenase (AAF12452.1| oxidoreductase,putative [Deinococcus radiodurans]; ZP_00225535.1| COG0654: 2-polyprenyl- 6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Kineococcus radiotolerans SRS30216]). pfam01494, FAD_binding_3, FAD binding domain. This domain is involved in FAD binding in a number of enzymes. pfam01360, Monooxygenase,Monooxygenase. This family includes diverse enzymes that utilise FAD. InterPro: Aromatic-ring hydroxylase (flavoprotein monooxygenase).; Function unclear
YP_001222279.1	putative polyprenyltransferase (YP_061829.1| 1,4-dihydroxy- 2-naphthoate octaprenyltransferase [Leifsonia xyli subsp. xyli str. CTCB07]; CAC17489.1| putative integral membrane protein [Streptomyces coelicolor A3(2)]; ZP_00004483.1| COG0382: 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Rhodobacter sphaeroides]). pfam01040, UbiA, UbiA prenyltransferase family. InterPro: UbiA prenyltransferase.; Function unclear
YP_001222280.1	putative acetyltransferase (ZP_00198496.1| COG0454: Histone acetyltransferase HPA2 and related acetyltransferases [Kineococcus radiotolerans SRS30216]; ZP_00294382.1| COG0454: Histone acetyltransferase HPA2 and related acetyltransferases [Thermobifida fusca]). pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family. This family contains proteins with N-acetyltransferase functions.; Function unclear
YP_001222281.1	putative N-acetyltransferase (ZP_00170037.2| COG1247: Sortase and related acyltransferases [Ralstonia eutropha JMP134]; AAN70415.1| phosphinothricin N-acetyltransferase, putative [Pseudomonas putida KT2440]). pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family. This family contains proteins with N-acetyltransferase functions. InterPro: GCN5-related N-acetyltransferase; Function unclear
YP_001222283.1	cytochrome bd-type menaquinol oxidase subunit I (YP_062182.1| cytochrome D ubiquinol oxidase subunit I [Leifsonia xyli subsp. xyli str. CTCB07]; NP_628129.1| putative cytochrome oxidase subunit I [Streptomyces coelicolor A3(2)]). pfam01654, Bac_Ubq_Cox, Bacterial Cytochrome Ubiquinol Oxidase. This family are the alternative oxidases found in many bacteria which oxidise ubiquinol and reduce oxygen as part of the electron transport chain.; High confidence in function and specificity
YP_001222284.1	cytochrome bd-type menaquinol oxidase subunit II (YP_062183.1| cytochrome D ubiquinol oxidase subunit II [Leifsonia xyli subsp. xyli str. CTCB07]; NP_628130.1| putative cytochrome oxidase subunit II [Streptomyces coelicolor A3(2)]). pfam02322, Cyto_ox_2, Cytochrome oxidase subunit II. This Family consists of cytochrome bd type terminal oxidases that catalyses Quinol dependent,Na+ independent oxygen uptake. InterPro: Cytochrome bd ubiquinol oxidase subunit II cydB: cytochrome d ubiquinol oxidase; High confidence in function and specificity
YP_001222285.1	ABC transporter, ATP-binding protein involved in cytochrome bd biosynthesis (AAP55500.1| cytochrome oxidase subunit IV [Leifsonia xyli subsp. xyli]; NP_628131.1| putative ABC transporter [Streptomyces coelicolor A3(2)]). , pfam00005, ABC_tran, ABC transporter. InterPro: ABC transporter transmembrane region; High confidence in function and specificity
YP_001222286.1	ABC transporter, fused permease/ATP-binding protein involved in the biosynthesis of cytochrom bd (YP_062185.1| ABC transporter, ATP-binding protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00293394.1| COG4987: ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Thermobifida fusca]). pfam00005, ABC_tran, ABC transporter.; High confidence in function and specificity
YP_001222287.1	conserved hypothetical protein, putative 4-amino-4-deoxychorismate lyase (YP_062186.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_822350.1| hypothetical protein SAV1175 [Streptomyces avermitilis MA-4680]).; Function unclear
YP_001222288.1	putative anthranilate synthase component I (YP_062187.1| anthranilate synthase component I [Leifsonia xyli subsp. xyli str. CTCB07]; AAO44483.1| anthranilate synthase component I [Tropheryma whipplei str. Twist]). ,pfam04715, Anth_synt_I_N, Anthranilate synthase component I, N terminal region. , pfam00425, Chorismate_bind,chorismate binding enzyme.; High confidence in function and specificity
YP_001222289.1	leucine--tRNA ligase; LeuRS; class-I aminoacyl-tRNA synthetase; charges leucine by linking carboxyl group to alpha-phosphate of ATP and then transfers aminoacyl-adenylate to its tRNA; due to the large number of codons that tRNA(Leu) recognizes, the leucyl-tRNA synthetase does not recognize the anticodon loop of the tRNA, but instead recognition is dependent on a conserved discriminator base A37 and a long arm; an editing domain hydrolyzes misformed products; in Methanothermobacter thermautotrophicus this enzyme associates with prolyl-tRNA synthetase
YP_001222290.1	putative protein involved in DNA uptake (NP_622578.1| DNA uptake protein and related DNA-binding proteins [Thermoanaerobacter tengcongensis]; NP_789319.1| putative DNA uptake protein [Tropheryma whipplei TW08/27]).; Specificity unclear
YP_001222291.1	conserved membrane protein, putatively involved in DNA uptake (ZP_00293576.1| COG0658: Predicted membrane metal-binding protein [Thermobifida fusca]). pfam03772,Competence, Competence protein. Members of this family are integral membrane proteins with 6 predicted transmembrane helices. Some members of this family have been shown to be essential for bacterial competence in uptake of extracellular DNA. These proteins may transport DNA across the cell membrane.; Function unclear
YP_001222292.1	DNA polymerase III, delta subunit (YP_062389.1| DNA polymerase III, delta subunit [Leifsonia xyli subsp. xyli str. CTCB07]; NP_626802.1| putative DNA-binding protein [Streptomyces coelicolor A3(2)]).; High confidence in function and specificity
YP_001222293.1	binds directly to the 16S rRNA and is involved in post-translational inhibition of arginine and ornithine decarboxylase
YP_001222294.1	putative NUDIX hydrolase (NP_822596.1| putative MutT/NUDIX-family protein [Streptomyces avermitilis MA-4680]; ZP_00058247.1| COG0494: NTP pyrophosphohydrolases including oxidative damage repair enzymes [Thermobifida fusca]). pfam00293, NUDIX, NUDIX domain.; Function unclear
YP_001222295.1	conserved hypothetical protein, putative amidohydrolase (ZP_00228134.1| COG1228: Imidazolonepropionase and related amidohydrolases [Kineococcus radiotolerans SRS30216]; NP_229522.1| conserved hypothetical protein [Thermotoga maritima]). pfam01979, Amidohydro_1, Amidohydrolase family. This family of enzymes are a a large metal dependent hydrolase superfamily. pyrC_multi: dihydroorotase multifunct; Function unclear
YP_001222296.1	NDP sugar epimerase, putative cell-division inhibitor (ZP_00225407.2| COG1090: Predicted nucleoside-diphosphate sugar epimerase [Kineococcus radiotolerans SRS30216]; NP_244757.1| cell-division inhibitor [Bacillus halodurans C-125]). pfam01370, Epimerase, NAD dependent epimerase/dehydratase family.; Function unclear
YP_001222297.1	binds to the ribosome on the universally-conserved alpha-sarcin loop
YP_001222298.1	Hypothetical protein
YP_001222299.1	Hypothetical protein
YP_001222300.1	Hypothetical protein
YP_001222301.1	Region start changed from 1765816 to 1765744 (72 bases)
YP_001222302.1	putative phosphatase (ZP_00306861.1| COG0546: Predicted phosphatases [Ferroplasma acidarmanus]; ZP_00292966.1| COG0546: Predicted phosphatases [Thermobifida fusca])., , pfam00702, Hydrolase, haloacid dehalogenase-like hydrolase. This family are structurally different from the alpha/ beta hydrolase family (pfam00561). This family includes L-2-haloacid dehalogenase, epoxide hydrolases and phosphatases.,InterPro: Haloacid dehalogenase/epoxide hydrolase family ,serB: phosphoserine phosphatase SerB; Function unclear
YP_001222303.1	catalyzes the oxygen-independent formation of protoporphyrinogen-IX from coproporphyrinogen-III
YP_001222304.1	conserved hypothetical protein (NP_824345.1| hypothetical protein SAV3169 [Streptomyces avermitilis MA-4680]; ZP_00292803.1| hypothetical protein Tfus02001595 [Thermobifida fusca]). pfam00903, Glyoxalase,Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily.
YP_001222305.1	conserved hypothetical protein (NP_254020.1| conserved hypothetical protein [Pseudomonas aeruginosa PA01]; AAM41875.1| conserved hypothetical protein [Xanthomonas campestris pv. campestris str. ATCC 33913]).
YP_001222306.1	Negative regulator of class I heat shock genes (grpE-dnaK-dnaJ and groELS operons). Prevents heat-shock induction of these operons
YP_001222307.1	chaperone (YP_062381.1| DnaJ protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00198394.1| COG0484: DnaJ-class molecular chaperone with C-terminal Zn finger domain [Kineococcus radiotolerans SRS30216]). pfam00226,DnaJ, DnaJ domain. DnaJ domains (J-domains) are associated with hsp70 heat-shock system and it is thought that this domain mediates the interaction. pfam00684, DnaJ_CXXCXGXG,DnaJ central domain (4 repeats). pfam01556, DnaJ_C, DnaJ C terminal region. This family consists of the C terminal region form the DnaJ protein. DnaJ is a chaperone associated with the Hsp70 heat-shock system involved in protein folding and renaturation after stress. InterPro: DnaJ C terminal domain TIGR00270: conserved hypothetical prote; High confidence in function and specificity
YP_001222308.1	in Escherichia coli RsmE methylates the N3 position of the U1498 base in 16S rRNA; cells lacking this function can grow, but are outcompeted by wild-type; SAM-dependent m(3)U1498 methyltransferase
YP_001222309.1	putative HIT family hydrolase (YP_062379.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00120249.2| COG0537: Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Bifidobacterium longum DJO10A]). pfam01230,HIT, HIT domain.; Function unclear
YP_001222310.1	putative phosphate starvation-induced ATPase (YP_062378.1| phosphate starvation-induced protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_826760.1| putative phosphate starvation-induced protein [Streptomyces avermitilis MA-4680]). pfam02562, PhoH, PhoH-like protein. PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation.; Function unclear
YP_001222311.1	putative metal-dependent hydrolase (YP_062377.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00226332.1| COG0319: Predicted metal-dependent hydrolase [Kineococcus radiotolerans SRS30216]). pfam02130, UPF0054, Uncharacterized protein family UPF0054.; Function unclear
YP_001222312.1	conserved membrane protein (YP_062376.1| hemolysin containing CBS domains [Leifsonia xyli subsp. xyli str. CTCB07]; YP_055649.1| conserved protein, putative hemolysin [Propionibacterium acnes KPA171202]). pfam01595,DUF21, Domain of unknown function DUF21. This transmembrane region has no known function. pfam00571,CBS, CBS domain. CBS domains are small intracellular modules of unknown function. They are mostly found in 2 or four copies within a protein. pfam03471, CorC_HlyC,Transporter associated domain. This small domain is found in a family of proteins with the pfam01595 domain and two CBS domains with this domain found at the C-terminus of the proteins, the domain is also found at the C terminus of some Na+/H+ antiporters. This domain is also found in CorC that is involved in Magnesium and cobalt efflux. The function of this domain is uncertain but might be involved in modulating transport of ion substrates.; Function unclear
YP_001222313.1	Era; Escherichia coli Ras-like protein; Bex; Bacillus Era-complementing segment; essential protein in Escherichia coli that is involved in many cellular processes; GTPase; binds the cell membrane through apparent C-terminal domain; mutants are arrested during the cell cycle; Streptococcus pneumoniae Era binds to RNA and Escherichia coli Era binds 16S rRNA and 30S ribosome
YP_001222314.1	putative two-component system, sensor kinase (YP_062374.1| two-component system, sensor protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_825857.1| putative two-component system sensor kinase [Streptomyces avermitilis MA-4680]). pfam02518, HATPase_c, Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase.; Specificity unclear
YP_001222315.1	putative two-component system, response regulator (YP_062373.1| two-component system, regulatory protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_825858.1| putative two-component system response regulator [Streptomyces avermitilis MA-4680]). cd00156, REC, Signal receiver domain. pfam00196, GerE, Bacterial regulatory proteins, luxR family.; Specificity unclear
YP_001222316.1	putative membrane bound esterase (YP_062370.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00121628.2| COG0627: Predicted esterase [Bifidobacterium longum DJO10A]; NP_939557.1| Putative membrane protein [Corynebacterium diphtheriae NCTC 13129]). pfam00756, Esterase, Putative esterase. This family contains Esterase D. However it is not clear if all members of the family have the same function.; Function unclear
YP_001222317.1	conserved membrane protein (ZP_00121629.1| COG2898: Uncharacterized conserved protein [Bifidobacterium longum DJO10A]; NP_600193.1| hypothetical protein NCgl0927 [Corynebacterium glutamicum ATCC 13032]). pfam04329,DUF470, Family of unknown function (DUF470). pfam04330,DUF471, Family of unknown function (DUF471). pfam04331,DUF472, Family of unknown function (DUF472). gntP: gluconate transporter; Function unclear
YP_001222318.1	2-isopropylmalate synthase (Alpha-isopropylmalate synthase) (YP_062368.1| 2-isopropylmalate synthase [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00226323.1| COG0119: Isopropylmalate/homocitrate/ citramalate synthases [Kineococcus radiotolerans SRS30216]).; High confidence in function and specificity
YP_001222319.1	conserved membrane protein (YP_062367.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_718896.1| conserved hypothetical protein [Shewanella oneidensis MR-1]). pfam03458, UPF0126, UPF0126 domain. Domain always found as pair in bacterial membrane proteins of unknown function. This domain contains three transmembrane helices. The conserved glycines are suggestive of an ion channel (C. Yeats unpublished obs.)(duplicated).
YP_001222320.1	DNA repair protein/recombination protein (Q9L2H3|RECO_STRCO DNA repair protein recO (Recombination protein O); ZP_00226321.1| COG1381: Recombinational DNA repair protein (RecF pathway)[Kineococcus radiotolerans SRS30216]). pfam02565, RecO, Recombination protein O.; High confidence in function and specificity
YP_001222321.1	putative undecaprenyl pyrophosphate synthetase (YP_062365.1| undecaprenyl pyrophosphate synthetase [Leifsonia xyli subsp. xyli str. CTCB07]; Q82BS5|UPS2_STRAW Undecaprenyl pyrophosphate synthetase 2 (UPP synthetase 2)(Di-trans-poly-cis-decaprenylcistransferase 2)). , pfam01255,UPP_synthetase, Putative undecaprenyl diphosphate synthase. , InterPro: Undecaprenyl pyrophosphate synthetase family; High confidence in function and specificity
YP_001222322.1	putative oxidoreductase (NP_627076.1| putative oxidoreductase. [Streptomyces coelicolor A3(2)]; AAT60489.1| oxidoreductase, Gfo/Idh/MocA family [Bacillus thuringiensis serovar konkukian str. 97-27]). pfam01408,GFO_IDH_MocA, Oxidoreductase family, NAD-binding Rossmann fold. pfam02894, GFO_IDH_MocA_C, Oxidoreductase family, C-terminal alpha/beta domain.; Function unclear
YP_001222323.1	Catalyzes a two-step reaction, first charging a glycine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA
YP_001222324.1	conserved hypothetical protein (YP_056922.1| putative transcriptional regulator [Propionibacterium acnes KPA171202]; NP_484703.1| probable transcription regulator [Nostoc sp. PCC 7120]). pfam04073, YbaK, YbaK / prolyl-tRNA synthetases associated domain. This domain of unknown function is found in numerous prokaryote organisms.
YP_001222325.1	conserved hypothetical protein (ZP_00226827.1| COG2761: Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Kineococcus radiotolerans SRS30216]; NP_294382.1| frnE protein [Deinococcus radiodurans]; CAF21228.1| Predicted dithiol-disulfide isomerase [Corynebacterium glutamicum ATCC 13032]). pfam01323, DSBA, DSBA-like thioredoxin domain. This family contains a diverse set of proteins with a thioredoxin-like structure pfam00085. This family also includes 2-hydroxychromene-2-carboxylate (HCCA) isomerase enzymes catalyse one step in prokaryotic polyaromatic hydrocarbon (PAH) catabolic pathways.; Function unclear
YP_001222326.1	putative tRNA-dihydrouridine synthase (ZP_00225742.1| COG0042: tRNA-dihydrouridine synthase [Kineococcus radiotolerans SRS30216]; NP_626738.1| conserved hypothetical protein SCC82.03c [Streptomyces coelicolor A3(2)]). Catalyzes the synthesis of dihydrouridine a modified base found in the D-loop of most tRNAs (By similarity). pfam01207, Dus, Dihydrouridine synthase (Dus). Members of this family catalyse the reduction of the 5,6-double bond of a uridine residue on tRNA.; Specificity unclear
YP_001222327.1	dGTPase family type 2 subfamily; presumably hydrolyzes dGTP to deoxyguanosine and triphosphate
YP_001222328.1	synthesizes RNA primers at the replication forks
YP_001222329.1	putative oligopeptide ABC transporter, substrate-binding protein (YP_061855.1| ABC transporter, solute-binding protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_696509.1| probable solute-binding protein of ABC transporter for peptides [Bifidobacterium longum NCC2705]; NP_827846.1| putative solute binding transport lipoprotein [Streptomyces avermitilis MA-4680]). pfam00496, SBP_bac_5, Bacterial extracellular solute-binding proteins, family 5.; Specificity unclear
YP_001222330.1	putative oligopeptide ABC transporter, permease component (YP_061856.1| ABC transporter, permease protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_696510.1| probable permease of ABC transporter for peptides [Bifidobacterium longum NCC2705]). pfam00528,BPD_transp_1, Binding-protein-dependent transport system inner membrane component.; Specificity unclear
YP_001222331.1	putative oligopeptide ABC transporter, permease component(ZP_00120658.1| COG1173: ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Bifidobacterium longum DJO10A]; YP_061857.1| ABC transporter, permease protein [Leifsonia xyli subsp. xyli str. CTCB07]). pfam00528, BPD_transp_1, Binding-protein-dependent transport system inner membrane component.; Specificity unclear
YP_001222332.1	putative oligopeptide ABC transporter, ATP-binding protein (duplicated ATPase domain; YP_061858.1| ABC transporter, ATP-binding protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_696512.1| ATP binding protein of ABC transporter [Bifidobacterium longum NCC2705]).; Specificity unclear
YP_001222333.1	putative oligopeptide ABC transporter, ATP-binding protein (YP_061859.1| oligopeptide porter [Leifsonia xyli subsp. xyli str. CTCB07]; NP_798466.1| oligopeptide ABC transporter, ATP-binding protein [Vibrio parahaemolyticus RIMD 2210633]). pfam00005, ABC_tran, ABC transporter.; Specificity unclear
YP_001222334.1	putative 2-hydroxyacid dehydrogenase (YP_061860.1| phosphoglycerate dehydrogenase [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00226123.1| COG0111: Phosphoglycerate dehydrogenase and related dehydrogenases [Kineococcus radiotolerans SRS30216]). pfam02826, 2-Hacid_dh_C, D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain.; Specificity unclear
YP_001222335.1	conserved hypothetical protein (ZP_00058653.1| COG2706: 3-carboxymuconate cyclase [Thermobifida fusca]; NP_822705.1| putative secreted protein [Streptomyces avermitilis MA-4680]).; Function unclear
YP_001222337.1	putative polypeptide deformylase (YP_061861.1| polypeptide deformylase [Leifsonia xyli subsp. xyli str. CTCB07]; Q83HQ3|DEF_TROW8 Peptide deformylase (PDF) (Polypeptide deformylase); P96275|DEF_MYCTU Peptide deformylase (PDF) (Polypeptide deformylase)). pfam01327,Pep_deformylase, Polypeptide deformylase.; High confidence in function and specificity
YP_001222338.1	conserved membrane protein, putative transporter of the DMT family (YP_061862.1| Integral membrane protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_789391.1| putative integral membrane protein [Tropheryma whipplei TW08/27]; ZP_00059265.1| COG0697: Permeases of the drug/metabolite transporter (DMT) superfamily [Thermobifida fusca]).; Family membership
YP_001222339.1	putative glycosyltransferase (YP_061863.1| glucosyltransferase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_787440.1| glycosyltransferase [Tropheryma whipplei str. Twist]; ZP_00058706.1| COG0438: Glycosyltransferase [Thermobifida fusca]). pfam00534,Glycos_transf_1, Glycosyl transferases group 1. Members of this family transfer activated sugars to a variety of substrates, including glycogen, Fructose-6-phosphate and lipopolysaccharides. Members of this family transfer UDP,ADP, GDP or CMP linked sugars. InterPro: Glycosyl transferases group 1; Specificity unclear
YP_001222340.1	putative membrane-.bound acyltranferase (ZP_00057849.1| COG1835: Predicted acyltransferases [Thermobifida fusca]; NP_962944.1| hypothetical protein MAP4010c [Mycobacterium avium subsp. paratuberculosis str. k10]). PUTATIVELY INVOLVED IN BIOSYNTHESIS OF EPS. pfam01757, Acyl_transf_3, Acyltransferase family. This family includes a range of acyltransferase enzymes.; Specificity unclear
YP_001222341.1	putative fucose synthase (GDP-4-keto-6-deoxy-D-mannose- 3,5-epimerase-4-reductase) (NP_336015.1| fucose synthetase [Mycobacterium tuberculosis CDC1551]; ZP_00199161.1| COG0451: Nucleoside-diphosphate-sugar epimerases [Kineococcus radiotolerans SRS30216]). pfam01370, Epimerase, NAD dependent epimerase/dehydratase family. This family of proteins utilise NAD as a cofactor.; High confidence in function and specificity
YP_001222342.1	putative D-GDP-mannose dehydratase (EC 4.2.1.47) (AAN05764.1| GDP-D-mannose-dehydratase MdhtA [Mycobacterium avium]; ZP_00227152.1| COG1089: GDP-D-mannose dehydratase [Kineococcus radiotolerans SRS30216]). Conversion of GDP-D-mannose to GDP-4-keto-6-D-deoxymannose (By similarity). PUTATIVELY INVOLVED IN EPS BIOSYNTHESIS pfam01370, Epimerase, NAD dependent epimerase/dehydratase family. This family of proteins utilise NAD as a cofactor. The proteins in this family use nucleotide-sugar substrates for a variety of chemical reactions.; High confidence in function and specificity
YP_001222343.1	putative glycosyl transferase (ZP_00225721.1| COG0438: Glycosyltransferase [Kineococcus radiotolerans SRS30216]; ZP_00049876.2| COG0438: Glycosyltransferase [Magnetospirillum magnetotacticum]; NP_707945.1| putative colanic biosynthesis glycosyl transferase [Shigella flexneri 2a str. 301]). PUTATIVELY INVOLVED IN BIOSYNTHESIS OF EPS. pfam00534, Glycos_transf_1, Glycosyl transferases group 1. Members of this family transfer activated sugars to a variety of substrates, including glycogen, Fructose-6-phosphate and lipopolysaccharides. Members of this family transfer UDP, ADP, GDP or CMP linked sugars.; Specificity unclear
YP_001222344.1	putative acetyltransferase involved in polysaccharide biosynthesis (ZP_00033229.1| COG0110: Acetyltransferase (isoleucine patch superfamily)[Burkholderia fungorum]; NP_864963.1| putative colanic acid biosynthesis acetyltransferase [Pirellula sp. 1]; ZP_00227153.1| COG0110: Acetyltransferase (isoleucine patch superfamily)[Kineococcus radiotolerans SRS30216]).; Specificity unclear
YP_001222345.1	putative pyruvyltransferase (YP_009110.1| conserved domain protein [Desulfovibrio vulgaris subsp. vulgaris str. Hildenborough]; only weak similarities to: CAB01946.1| ExpA4 [Sinorhizobium meliloti]; AMSJ_ERWAM Amylovoran biosynthesis protein amsJ). PUTATIVELY INVOLVED IN BIOSYNTHESIS OF EPS. pfam04230, PS_pyruv_trans,Polysaccharide pyruvyl transferase. Pyruvyl-transferases involved in peptidoglycan-associated polymer biosynthesis.; Hypothetical protein
YP_001222346.1	putative glycosyl transferase (sp|P71237|WCAC_ECOLI Putative colanic acid biosynthesis glycosyl transferase wcaC; NP_707952.1| putative glycosyl transferase [Shigella flexneri 2a str. 301]). PUTATIVELY INVOLVED IN BIOSYNTHESIS OF EPS. pfam00534, Glycos_transf_1, Glycosyl transferases group 1. Members of this family transfer activated sugars to a variety of substrates, including glycogen, Fructose-6-phosphate and lipopolysaccharides. Members of this family transfer UDP, ADP, GDP or CMP linked sugars.; Specificity unclear
YP_001222347.1	wzy1; essential for colanic acid biosynthesis; colanic acid is an exopolysaccharide produced under stress conditions that confers acid and heat tolerance
YP_001222348.1	Region start changed from 1819358 to 1819193 (165 bases)
YP_001222349.1	putative serine acetyltransferase (NP_745280.1| serine O-acetyltransferase, putative [Pseudomonas putida KT2440]; NP_228475.1| serine acetyltransferase [Thermotoga maritima]) . PUTATIVELY INVOLVED IN BIOSYNTHESIS OF EPS. InterPro: Bacterial transferase hexapeptide repeat; Specificity unclear
YP_001222350.1	putative membrane protein involved in the synthesis/export of EPS (NP_105963.1| probable succinoglycan transport protein [Mesorhizobium loti]; NP_266368.1| polysaccharide biosynthesis export protein [Lactococcus lactis subsp. lactis]). PUTATIVELY INVOLVED IN BIOSYNTHESIS OF EPS. pfam01943, Polysacc_synt,Polysaccharide biosynthesis protein. Members of this family are integral membrane proteins.; Family membership
YP_001222351.1	putative undecaprenyl-phosphate glycosyl-1-phosphate transferase (NP_959898.1| hypothetical protein MAP0964c [Mycobacterium avium subsp. paratuberculosis str. k10]; AAM94041.1| putative undecaprenyl-phosphate glycosyl-1-phosphate transferase; glucose-1-phosphate transferase [Streptomyces sp. 139]; NP_695455.1| undecaprenyl-phosphate sugar phosphotransferase [Bifidobacterium longum NCC2705]). PUTATIVELY INVOLVED IN BIOSYNTHESIS OF EPS. pfam02397, Bac_transf, Bacterial sugar transferase. This Pfam family represents a conserved region from a number of different bacterial sugar transferases, involved in diverse biosynthesis pathways.; Specificity unclear
YP_001222352.1	hypothetical protein (ZP_00049742.1| hypothetical protein Magn023325 [Magnetospirillum magnetotacticum]).
YP_001222353.1	putative cold shock protein A (ZP_00047730.1| COG1278: Cold shock proteins [Magnetospirillum magnetotacticum]; YP_063017.1| cold shock protein [Leifsonia xyli subsp. xyli str. CTCB07]). pfam00313, CSD,'Cold-shock' DNA-binding domain. InterPro: Cold-shock DNA-binding domain; Family membership
YP_001222354.1	putative DNA polymerase I (YP_061866.1| DNA polymerase I [Leifsonia xyli subsp. xyli str. CTCB07]; NP_733604.1| putative DNA polymerase I [Streptomyces coelicolor A3(2)]). pfam00476, DNA_pol_A, DNA polymerase family A. InterPro: Replicative DNA polymerase; Specificity unclear
YP_001222356.1	conserved hypothetical protein (YP_061867.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_626020.1| conserved hypothetical protein [Streptomyces coelicolor A3(2)]).
YP_001222357.1	putative transcriptional regulator, PadR family (YP_054926.1| transcriptional regulator [Propionibacterium acnes KPA171202]; NP_737543.1| conserved hypothetical protein [Corynebacterium efficiens YS-314]). pfam03551,PadR, Transcriptional regulator PadR-like family.; Specificity unclear
YP_001222358.1	conserved hypothetical protein (YP_061869.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00190504.2| hypothetical protein Krad06002672 [Kineococcus radiotolerans SRS30216]; NP_826961.1| hypothetical protein SAV5784 [Streptomyces avermitilis MA-4680]).
YP_001222359.1	3-oxoacyl-[acyl-carrier-protein] synthase 1 (Beta-ketoacyl-ACP synthase 1) (YP_062220.1| 3-oxoacyl-[acyl-carrier-protein] synthase I [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00226800.1| COG0304: 3-oxoacyl-(acyl-carrier-protein) synthase [Kineococcus radiotolerans SRS30216]). Catalyzes the condensation reaction of fatty acid synthesis by the addition to an acyl acceptor of two carbons from malonyl-ACP (By similarity). pfam00109,ketoacyl-synt, Beta-ketoacyl synthase, N-terminal domain. pfam02801, Ketoacyl-synt_C, Beta-ketoacyl synthase, C-terminal domain. InterPro: Beta-ketoacyl synthase.; High confidence in function and specificity
YP_001222360.1	carries the fatty acid chain in fatty acid biosynthesis
YP_001222361.1	FabH; beta-ketoacyl-acyl carrier protein synthase III; catalyzes the condensation of acetyl-CoA with malonyl-ACP to initiate cycles of fatty acid elongation; differs from 3-oxoacyl-(acyl carrier protein) synthase I and II in that it utilizes CoA thioesters as primers rather than acyl-ACPs
YP_001222362.1	putative malonyl CoA-acyl carrier protein transacylase (YP_062217.1| [acyl-carrier protein] S-malonyltransferase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_626633.1| malonyl CoA:acyl carrier protein malonyltransferase [Streptomyces coelicolor A3(2)]). pfam00698, Acyl_transf_1, Acyl transferase domain. InterPro: Acyl transferase domain fabD: malonyl CoA-acyl carrier protein; High confidence in function and specificity
YP_001222363.1	putative transcriptional regulator (YP_062216.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_826966.1| hypothetical protein SAV5789 [Streptomyces avermitilis MA-4680]).; Function unclear
YP_001222364.1	E1 component; part of pyruvate dehydrogenase; forms a complex with DlaT and LpdC
YP_001222365.1	putative thiol-specific antioxidant protein,thioredoxin peroxidase (YP_062214.1| AhpC/TSA family protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_626616.1| putative thiol-specific antioxidant protein [Streptomyces coelicolor A3(2)]). pfam00578, AhpC-TSA,AhpC/TSA family. This family contains proteins related to alkyl hydroperoxide reductase (AhpC) and thiol specific antioxidant (TSA).; Family membership
YP_001222366.1	putative membrane protein (NP_103276.1| unknown protein [Mesorhizobium loti MAFF303099]; NP_868937.1| conserved hypothetical protein [Pirellula sp. 1]). pfam07077, DUF1345, Protein of unknown function (DUF1345).
YP_001222367.1	putative transcriptional regulator, TetR family (YP_062890.1| transcriptional regulator, TetR family [Leifsonia xyli subsp. xyli str. CTCB07]; YP_056115.1| tetracycline repressor protein [Propionibacterium acnes KPA171202]). pfam00440, TetR_N, Bacterial regulatory proteins, tetR family. pfam02909, TetR_C, Tetracyclin repressor, C-terminal all-alpha domain.; Specificity unclear
YP_001222368.1	conserved membrane protein, BioY-family (YP_062891.1| biotin synthase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_979945.1| bioY family protein [Bacillus cereus ATCC 10987]; NP_787339.1| biotin synthesis BioY protein [Tropheryma whipplei str. Twist]) pfam02632, BioY,BioY family. A number of bacterial genes are involved in bioconversion of pimelate into dethiobiotin.; Conserved hypothetical protein
YP_001222369.1	putative metal ABC transporter, ATP-binding protein (YP_062894.1| ABC- transporter, ATP-binding protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00269416.1| COG1122: ABC-type cobalt transport system, ATPase component [Rhodospirillum rubrum]). pfam00005, ABC_tran,ABC transporter. InterPro: AAA ATPase superfamily; Specificity unclear
YP_001222370.1	putative metal ABC transporter, permease component (YP_062895.1| ABC-type cobalt transport system, permease protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00271172.1| COG0619: ABC-type cobalt transport system,permease component CbiQ and related transporters [Rhodospirillum rubrum]). pfam02361, CbiQ, Cobalt transport protein.; Specificity unclear
YP_001222372.1	conserved hypothetical protein (YP_061971.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_789442.1| conserved hypothetical protein [Tropheryma whipplei TW08/27]; ZP_00059437.1| COG0327: Uncharacterized conserved protein [Thermobifida fusca]). pfam01784, NIF3, NIF3 (NGG1p interacting factor 3). TIGR00486: conserved hypothetical prote; Function unclear
YP_001222373.1	conserved hypothetical protein (YP_061972.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00226791.1| COG1579: Zn-ribbon protein,nucleic acid-binding [Kineococcus radiotolerans SRS30216]). pfam02591, DUF164, Uncharacterized ACR,COG1579. InterPro: DUF164; Function unclear
YP_001222374.1	putative polyphosphate glucokinase (Polyphosphate-glucose phosphotransferase) (YP_061973.1| glucokinase [Leifsonia xyli subsp. xyli str. CTCB07]; YP_056789.1| polyphosphate glucokinase/ transcriptional regulator [Propionibacterium acnes KPA171202]). , pfam00480, ROK,ROK family. , glk: glucokinase; Specificity unclear
YP_001222375.1	conserved hypothetical protein (NP_940013.1| Conserved hypothetical protein [Corynebacterium diphtheriae NCTC 13129]; ZP_00121553.1| hypothetical protein Blon021481 [Bifidobacterium longum DJO10A]).
YP_001222376.1	catalyzes the formation of tetrahydrofolate and 2-dehydropantoate from 5,10-methylenetetrahydrofolate and 3-methyl-2-oxobutanoate
YP_001222377.1	putative glutamine synthetase II (Glutamate--ammonia ligase 2)(YP_061977.1| glutamine synthetase [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00226485.1| COG0174: Glutamine synthetase [Kineococcus radiotolerans SRS30216]). pfam03951, Gln-synt_N, Glutamine synthetase,beta-Grasp domain. pfam00120, Gln-synt_C, Glutamine synthetase, catalytic domain. InterPro: Glutamine synthetase.; High confidence in function and specificity
YP_001222378.1	catalyzes the ATP-dependent addition of AMP to a subunit of glutamine synthetase; also catalyzes the reverse reaction - deadenylation; adenylation/deadenylation of glutamine synthetase subunits is important for the regulation of this enzyme
YP_001222379.1	Glutamine synthetase I (Glutamate--ammonia ligase) (YP_061980.1| glutamine synthetase [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00198695.2| COG0174: Glutamine synthetase [Kineococcus radiotolerans SRS30216]). pfam03951, Gln-synt_N, Glutamine synthetase, beta-Grasp domain. pfam00120, Gln-synt_C, Glutamine synthetase,catalytic domain. GlnA: glutamine synthetase type I; High confidence in function and specificity
YP_001222380.1	conserved membrane protein (YP_061981.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_626449.1| putative integral membrane protein [Streptomyces coelicolor A3(2)]; ZP_00189987.2| COG1714: Predicted membrane protein/domain [Kineococcus radiotolerans SRS30216]). pfam06271, RDD, RDD family.; Function unclear
YP_001222381.1	putative chaperone ( pfam00226, DnaJ, DnaJ domain. DnaJ domains (J-domains) are associated with hsp70 heat-shock system and it is thought that this domain mediates the interaction.; Family membership
YP_001222382.1	conserved membrane protein (YP_061982.1| integral membrane protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00198696.2| hypothetical protein Krad06003323 [Kineococcus radiotolerans SRS30216]).; Conserved hypothetical protein
YP_001222383.1	putative serine/threonine protein kinase (AAO44694.1| putative serine/threonine-protein kinase [Tropheryma whipplei str. Twist]; NP_601379.1| serine/threonine protein kinase [Corynebacterium glutamicum ATCC 13032]). pfam00069, Pkinase, Protein kinase domain. smart00220, S_TKc, Serine/Threonine protein kinases, catalytic domain; Phosphotransferases. Serine or threonine-specific kinase subfamily.; Family membership
YP_001222384.1	putative pyruvate/2-oxoglutarate dehydrogenase complex dihydrolipoamide acyltransferase (E2) component (YP_061986.1| dihydrolipoamide acetyltransferase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_789198.1| putative lipoamide acyltransferase [Tropheryma whipplei TW08/27]). pfam00364, Biotin_lipoyl, Biotin-requiring enzyme. pfam02817, E3_binding, e3 binding domain. This family represents a small domain of the E2 subunit of 2-oxo-acid dehydrogenases responsible for the binding of the E3 subunit. pfam00198, 2-oxoacid_dh, 2-oxoacid dehydrogenases acyltransferase (catalytic domain).; Specificity unclear
YP_001222385.1	E3 component of pyruvate complex; catalyzes the oxidation of dihydrolipoamide to lipoamide
YP_001222386.1	catalyzes the removal of N-terminal amino acids preferably leucine from various peptides
YP_001222387.1	conserved hypothetical protein (YP_061989.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00058376.1| hypothetical protein [Thermobifida fusca]; NP_961765.1| hypothetical protein MAP2831 [Mycobacterium avium subsp. paratuberculosis str. k10]). pfam05601, DUF774, Protein of unknown function (DUF774). This family consists of several uncharacterised Actinomycete proteins of unknown function.; Function unclear
YP_001222388.1	putative MFS permease (YP_061990.1| major facilitator superfamily permease [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00226285.1| COG0477: Permeases of the major facilitator superfamily [Kineococcus radiotolerans SRS30216]). pfam00083, Sugar_tr, Sugar (and other) transporter. InterPro: General substrate transporters.; Specificity unclear
YP_001222389.1	sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released
YP_001222390.1	putative UDP-N-acetylmuramyl tripeptide synthase(YP_061992.1| UDP-N-acetylmuramyl tripeptide synthetase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_787626.1| UDP-N-acetylmuramyl tripeptide synthase-like protein [Tropheryma whipplei str. Twist]). , pfam01225,Mur_ligase, Mur ligase family, catalytic domain. ,InterPro: Cytoplasmic peptidoglycan synthetases N-terminal.; High confidence in function and specificity
YP_001222391.1	putative glutamine amidotransferase (YP_061993.1| cobyric acid synthase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_621720.1| predicted glutamine amidotransferase [Thermoanaerobacter tengcongensis]; AAC84011.1| cobyric acid synthase CobQ [Heliobacillus mobilis]).; Function unclear
YP_001222392.1	conserved hypothetical protein (YP_062003.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00226189.1| hypothetical protein Krad06003778 [Kineococcus radiotolerans SRS30216]).
YP_001222393.1	decatenates newly replicated chromosomal DNA and relaxes positive and negative DNA supercoiling
YP_001222394.1	decatenates newly replicated chromosomal DNA and relaxes positive and negative DNA supercoiling
YP_001222395.1	conserved hypothetical protein (ZP_00226205.1| COG1524: Uncharacterized proteins of the AP superfamily [Kineococcus radiotolerans SRS30216]; ZP_00291972.1| COG1524: Uncharacterized proteins of the AP superfamily [Thermobifida fusca]). pfam01663, Phosphodiest, Type I phosphodiesterase/nucleotide pyrophosphatase.
YP_001222396.1	putative DNA-binding protein (NP_789210.1| conserved DNA-binding protein [Tropheryma whipplei TW08/27]; NP_629978.1| putative DNA-binding protein [Streptomyces coelicolor A3(2)]).
YP_001222397.1	conserved hypothetical protein (YP_062008.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00226691.1| hypothetical protein Krad06002945 [Kineococcus radiotolerans SRS30216]).
YP_001222398.1	putative membrane protein (NP_789212.1| putative membrane protein [Tropheryma whipplei TW08/27]; NP_629988.1| putative membrane protein [Streptomyces coelicolor A3(2)]).; Conserved hypothetical protein
YP_001222399.1	putative deoxyuridine 5'-triphosphate pyrophosphatase (NP_823575.1| putative deoxyuridine 5'-triphosphate pyrophosphatase [Streptomyces avermitilis MA-4680]; NP_789213.1| deoxyuridine 5'-triphosphate nucleotidohydrolase [Tropheryma whipplei TW08/27]). pfam00692, dUTPase, dUTPase. dUTPase hydrolyses dUTP to dUMP and pyrophosphate.; High confidence in function and specificity
YP_001222400.1	conserved hypothetical protein (NP_787614.1| unknown [Tropheryma whipplei str. Twist]; NP_823574.1| hypothetical protein SAV2398 [Streptomyces avermitilis MA-4680]).
YP_001222401.1	conserved membrane protein (NP_629996.1| putative membrane protein [Streptomyces coelicolor A3(2)]; NP_696556.1| narrowly conserved hypothetical transmembrane protein [Bifidobacterium longum NCC2705]).; Conserved hypothetical protein
YP_001222402.1	Catalyzes the conversion of citrate to isocitrate
YP_001222403.1	catalyzes the formation of 1-deoxy-D-xylulose 5-phosphate from pyruvate and D-glyceraldehyde 3-phosphate
YP_001222404.1	Fatty oxidation complex alpha subunit (ZP_00294150.1| COG1250: 3-hydroxyacyl-CoA dehydrogenase [Thermobifida fusca]; NP_823410.1| putative fatty acid oxidation complex alpha-subunit [Streptomyces avermitilis MA-4680]). FAOA AND FAOB ARE THE ALPHA AND BETA SUBUNITS OF THE MULTIFUNCTIONAL ENZYME COMPLEX OF THE FATTY ACID DEGRADATION CYCLE. N-terminal: COG1024, CaiD, Enoyl-CoA hydratase/carnithine racemase; pfam00378, ECH, Enoyl-CoA hydratase/isomerase family. C-terminal: COG1250, FadB, 3-hydroxyacyl-CoA dehydrogenase; pfam02737, 3HCDH_N, 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain. pfam00725, 3HCDH, 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain (twice).; High confidence in function and specificity
YP_001222405.1	putative 3-oxoacyl-CoA thiolase (NP_823409.1| putative 3-oxoacyl-CoA thiolase [Streptomyces avermitilis MA-4680]; ZP_00294151.1| COG0183: Acetyl-CoA acetyltransferase [Thermobifida fusca]). pfam00108,Thiolase_N, Thiolase, N-terminal domain. pfam02803,Thiolase_C, Thiolase, C-terminal domain.; High confidence in function and specificity
YP_001222406.1	putative Ribonuclease D (NP_630139.1| putative ribonuclease [Streptomyces coelicolor A3(2)]; ZP_00294153.1| COG0349: Ribonuclease D [Thermobifida fusca]). InterPro: 3-5 exonuclease. pfam01612, 3_5_exonuc,3'-5' exonuclease. pfam00570, HRDC, HRDC domain. The HRDC (Helicase and RNase D C-terminal) domain has a putative role in nucleic acid binding.; Specificity unclear
YP_001222407.1	conserved hypothetical protein (ZP_00226661.1| hypothetical protein Krad06002913 [Kineococcus radiotolerans SRS30216]; NP_630141.1| conserved hypothetical protein [Streptomyces coelicolor A3(2)]).
YP_001222408.1	putative pyrimidine reductase (NP_787520.1| 5-amino-6-(5-phospho- ribosylamino)uracil reductase [Tropheryma whipplei str. Twist]; ZP_00292785.1| COG1985: Pyrimidine reductase, riboflavin biosynthesis [Thermobifida fusca]). pfam01872, RibD_C, RibD C-terminal domain.; Function unclear
YP_001222409.1	conserved protein putatively involved in Fe-S assembly (ZP_00228362.1| COG2166: SufE protein probably involved in Fe-S center assembly [Kineococcus radiotolerans SRS30216]; CAB07067.1| CONSERVED HYPOTHETICAL PROTEIN [Mycobacterium tuberculosis H37Rv]). InterPro: UPF0050_DUF pfam02657, SufE, Fe-S metabolism associated domain. This family consists of the SufE-related proteins. These have been implicated in Fe-S metabolism and export.; Function unclear
YP_001222410.1	Thiosulfate sulfurtransferase (ZP_00228363.1| COG2897: Rhodanese-related sulfurtransferase [Kineococcus radiotolerans SRS30216]; P96888|THT2_MYCTU Putative thiosulfate sulfurtransferase SSEA). pfam00581, Rhodanese,Rhodanese-like domain. Rhodanese has an internal duplication.; High confidence in function and specificity
YP_001222411.1	putative ATPase (NP_823384.1| putative ATP/GTP-binding protein [Streptomyces avermitilis MA-4680]; ZP_00228364.1| COG1485: Predicted ATPase [Kineococcus radiotolerans SRS30216]). pfam03969, AFG1_ATPase, AFG1-like ATPase. This family of proteins contains a P-loop motif and are predicted to be ATPases.; Function unclear
YP_001222412.1	putative ammonium transporter, Amt family (ZP_00225603.1| COG0004: Ammonia permease [Kineococcus radiotolerans SRS30216]; Q10968|AMT_MYCTU Probable ammonium transporter)., , pfam00909, Ammonium_transp,Ammonium Transporter Family.; High confidence in function and specificity
YP_001222413.1	putative aldo/keto-reductase (NP_823025.1| putative oxidoreductase [Streptomyces avermitilis MA-4680]; BAB99752.1| Aldo/keto reductases, related to diketogulonate reductase [Corynebacterium glutamicum ATCC 13032]). InterPro: Aldo/keto reductase family pfam00248,Aldo_ket_red, Aldo/keto reductase family.; Function unclear
YP_001222414.1	hypothetical protein (only weak match to putative transcriptional regulator (NP_784581.1| transcription regulator [Lactobacillus plantarum WCFS1]).
YP_001222415.1	putative methyltransferase, HemK family (NP_822468.1| putative methytransferase [Streptomyces avermitilis MA-4680]; ZP_00225817.1| COG2890: Methylase of polypeptide chain release factors [Kineococcus radiotolerans SRS30216]). TIGRFam: hemK_fam: modification methylase, HemK; Function unclear
YP_001222416.1	Endo-1,4-beta-xylanase precursor (ZP_00191610.3| COG3693: Beta-1,4-xylanase [Kineococcus radiotolerans SRS30216]; NP_242986.1| alkaline xylanase A (1,4-beta-D-xylan xylanohydrolase) [Bacillus halodurans C-125]). pfam00331, Glyco_hydro_10, Glycosyl hydrolase family 10.; High confidence in function and specificity
YP_001222417.1	Endo-14-beta-xylanase precursor (ZP_00191610.3| COG3693: Beta-1,4-xylanase [Kineococcus radiotolerans SRS30216]; T30910 xylanase (EC 3.2.1.-) - Caldocellum saccharolyticum). pfam02018, CBM_4_9, Carbohydrate binding domain. pfam00331, Glyco_hydro_10, Glycosyl hydrolase family 10. pfam02494, HYR, HYR domain.; High confidence in function and specificity
YP_001222420.1	conserved hypothetical protein (NP_721208.1| conserved hypothetical protein [Streptococcus mutans UA159]; ZP_00056756.1| COG0702: Predicted nucleoside-diphosphate-sugar epimerases [Thermobifida fusca]).; Function unclear
YP_001222421.1	conserved hypothetical protein (ZP_00096355.1| COG0494: NTP pyrophosphohydrolases including oxidative damage repair enzymes [Novosphingobium aromaticivorans]; NP_629734.1| conserved hypothetical protein SC2E1.17 [Streptomyces coelicolor A3(2)]). pfam00293, NUDIX, NUDIX domain. mutt: mutator mutT protein; Function unclear
YP_001222422.1	conserved hypothetical protein, ; NP_924649.1| probable peptidase [Gloeobacter violaceus]). pfam01738,DLH, Dienelactone hydrolase family.; Family membership
YP_001222423.1	putative short chain dehydrogenase/oxidoreductase (ZP_00228097.1| COG1028: Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Kineococcus radiotolerans SRS30216]; NP_789380.1| putative oxidoreductase [Tropheryma whipplei TW08/27]). pfam00106, adh_short, short chain dehydrogenase. This family contains a wide variety of dehydrogenases.; Function unclear
YP_001222425.1	putative glycerophosphoryl diester phosphodiesterase (EC 3.1.4.46) (ZP_00225962.1| COG0584: Glycerophosphoryl diester phosphodiesterase [Kineococcus radiotolerans SRS30216]; CAB09602.1| POSSIBLE GLYCEROPHOSPHORYL DIESTER PHOSPHODIESTERASE [Mycobacterium tuberculosis H37Rv]; NP_828103.1| putative glycerophosphoryl diester phosphodiesterase [Streptomyces avermitilis MA-4680]). GLYCEROPHOSPHORYL DIESTER PHOSPHODIESTERASE HYDROLYZES DEACYLATED PHOSPHOLIPIDS TO G3P AND THE CORRESPONDING ALCOHOLS. InterPro: Glycerophosphoryl diester phosphodiesterase pfam03009,GDPD, Glycerophosphoryl diester phosphodiesterase family. E. coli has two sequence related isozymes of glycerophosphoryl diester phosphodiesterase (GDPD) -periplasmic and cytosolic. This family also includes agrocinopine synthase, the similarity to GDPD has been noted. This family appears to have weak but not significant matches to mammalian phospholipase C pfam00388, which suggests that this family may adopt a TIM barrel fold.; Specificity unclear
YP_001222426.1	conserved hypothetical protein (CAF21487.1| putative membrane-associated GTPase [Corynebacterium glutamicum ATCC 13032]; NP_216566.1| hypothetical protein Rv2050 [Mycobacterium tuberculosis H37Rv]).
YP_001222428.1	putative helicase (NP_695922.1| probable helicase [Bifidobacterium longum NCC2705]; NP_625906.1| putative helicase [Streptomyces coelicolor A3(2)]). pfam00270,DEAD, DEAD/DEAH box helicase.; Family membership
YP_001222429.1	Sec-independent twin-arginine protein translocase (ZP_00225800.1| COG0805: Sec-independent protein secretion pathway component TatC [Kineococcus radiotolerans SRS30216]; NP_787448.1| twin-arginine translocase TatC component [Tropheryma whipplei str. Twist]). pfam00902,TatC, Sec-independent protein translocase protein . The bacterial Tat system has a remarkable ability to transport folded proteins even enzyme complexes across the cytoplasmic membrane.; High confidence in function and specificity
YP_001222430.1	sec-independent twin-arginine protein translocase protein (Q10703|TATA_MYCTU Sec-independent protein translocase protein tatA/E homolog; P72267|TATA_RHOER Sec-independent protein translocase protein tatA/E homolog). pfam02416, MttA_Hcf106, mttA/Hcf106 family. Members of this protein family are involved in a sec independent translocation mechanism.; High confidence in function and specificity
YP_001222431.1	putative transcriptional regulator, DeoR family (ZP_00225803.1| COG2378: Predicted transcriptional regulator [Kineococcus radiotolerans SRS30216]; CAB04764.1| ORF11(1) [Rhodococcus erythropolis]).; Specificity unclear
YP_001222432.1	putative transcriptional regulator (ZP_00225804.1| COG2378: Predicted transcriptional regulator [Kineococcus radiotolerans SRS30216]; NP_960766.1| hypothetical protein MAP1832c [Mycobacterium avium subsp. paratuberculosis str. k10]).; Specificity unclear
YP_001222433.1	Putative peptidyl-prolyl cis-trans isomerase (NP_787447.1| putative FKBP-type peptidyl-prolyl cis-trans isomerase [Tropheryma whipplei str. Twist]; NP_827862.1| putative FK-506 binding protein, peptidyl-prolyl cis-trans isomerase [Streptomyces avermitilis MA-4680]). pfam00254,FKBP_C, FKBP-type peptidyl-prolyl cis-trans isomerase.; Function unclear
YP_001222434.1	putative methyltransferase (NP_625926.1| conserved hypothetical protein SCI41.34c [Streptomyces coelicolor A3(2)]; ZP_00199185.2| COG2519: tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Kineococcus radiotolerans SRS30216]). pfam01135, PCMT,Protein-L-isoaspartate(D-aspartate) O-methyltransferase (PCMT). TIGRFam: pimt: protein-L-isoaspartate O-methyltr; Function unclear
YP_001222435.1	putative phosphatase (ZP_00047611.2| COG0637: Predicted phosphatase/phosphohexomutase [Magnetospirillum magnetotacticum]; ZP_00227166.1| COG0637: Predicted phosphatase/phosphohexomutase [Kineococcus radiotolerans SRS30216]). pfam00702, Hydrolase, haloacid dehalogenase-like hydrolase.; Function unclear
YP_001222436.1	conserved hypothetical protein (NP_625937.1| conserved hypothetical protein [Streptomyces coelicolor A3(2)]; ZP_00227165.1| hypothetical protein Krad06001765 [Kineococcus radiotolerans SRS30216]). pfam05601, DUF774,Protein of unknown function (DUF774). This family consists of several uncharacterised Actinomycete proteins of unknown function.; Family membership
YP_001222437.1	catalyzes a two-step reaction; charges a cysteine by linking its carboxyl group to the alpha-phosphate of ATP then transfers the aminoacyl-adenylate to its tRNA
YP_001222438.1	phosphatase activity in Escherichia coli not kinase; involved in bacitracin resistance as bacitracin supposedly sequesters undecaprenyl disphosphate which reduces the pool of lipid carrier available to the cell
YP_001222439.1	putative metallopeptidase, peptidase family M20A (ZP_00228596.1| COG0624: Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Kineococcus radiotolerans SRS30216]; NP_625951.1| putative peptidase [Streptomyces coelicolor A3(2)]). pfam01546, Peptidase_M20, Peptidase family M20/M25/M40. This family includes a range of zinc metallopeptidases belonging to several families in the peptidase classification.; Specificity unclear
YP_001222440.1	putative magnesium and cobalt transporter, MIT family (ZP_00226389.1| COG0598: Mg2+ and Co2+ transporters [Kineococcus radiotolerans SRS30216]; ZP_00292887.1| COG0598: Mg2+ and Co2+ transporters [Thermobifida fusca]). , pfam01544, CorA, CorA-like Mg2+ transporter protein.,InterPro: Magnesium and cobalt transport protein CorA.; Specificity unclear
YP_001222441.1	conserved hypothetical protein, putative UDP-glucose 4-epimerase (ZP_00227689.1| COG0451: Nucleoside-diphosphate-sugar epimerases [Kineococcus radiotolerans SRS30216]; NP_107357.1| hypothetical protein mll6957 [Mesorhizobium loti MAFF303099]). pfam01370, Epimerase,NAD dependent epimerase/dehydratase family. This family of proteins utilise NAD as a cofactor. The proteins in this family use nucleotide-sugar substrates for a variety of chemical reactions.; Function unclear
YP_001222442.1	putative chaperone (NP_787408.1| chaperone protein [Tropheryma whipplei str. Twist]; NP_785551.1| chaperone protein DnaJ [Lactobacillus plantarum WCFS1]). pfam00226,DnaJ, DnaJ domain. DnaJ domains (J-domains) are associated with hsp70 heat-shock system and it is thought that this domain mediates the interaction. DnaJ-domain is therefore part of a chaperone (protein folding) system.; Function unclear
YP_001222443.1	glycine betaine/carnitine/choline ABC transport system permease protein (NP_627156.1| putative permease membrane component [Streptomyces coelicolor A3(2)]; CAD91243.1| hypothetical protein [Nonomuraea sp. ATCC 39727]). pfam00528, BPD_transp_1, Binding-protein-dependent transport system inner membrane component.; Specificity unclear
YP_001222444.1	glycine betaine/carnitine/choline ABC transporter ATP-binding protein (NP_826323.1| putative ABC transporter ATP-binding protein [Streptomyces avermitilis MA-4680]; NP_627157.1| putative ABC transporter ATP-binding protein [Streptomyces coelicolor A3(2)]). cd00267, ABC_ATPase, ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop andWalker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.; Specificity unclear
YP_001222445.1	putative glycine/betaine/choline ABC transporter,permease (NP_627158.1| putative permease membrane component [Streptomyces coelicolor A3(2)]; CAD91241.1| hypothetical protein [Nonomuraea sp. ATCC 39727]); Specificity unclear
YP_001222446.1	putative glycine betaine/carnitine/choline ABC transporter, substrate-binding protein (Osmoprotectant-binding protein) (CAD91240.1| hypothetical protein [Nonomuraea sp. ATCC 39727]; NP_627159.1| putative permease binding-protein component [Streptomyces coelicolor A3(2)]). MEMBER OF A HIGH AFFINITY MULTICOMPONENT BINDING-PROTEIN-DEPENDENT TRANSPORT SYSTEM FOR GLYCINE, BETAINE, CARNITINE AND CHOLINE. pfam04069,OpuAC, Substrate binding domain of ABC-type glycine betaine transport system. Part of a high affinity multicomponent binding-protein-dependent transport system involved in bacterial osmoregulation. This domain is often fused to the permease component of the transporter complex. Family members are often integral membrane proteins or predicted to be attached to the membrane by a lipid anchor. Glycine betaine is involved in protection from high osmolarity environments for example in Bacillus subtilis. The family member OpuBC is closely related, and involved in choline transport. Choline is necessary for the biosynthesis of glycine betaine. L-carnitine is important for osmoregulation in Listeria monocytogenes. Family also contains proteins binding l-proline (ProX),histidine (HisX) and taurine (TauA).; Specificity unclear
YP_001222447.1	putative helicase (NP_826317.1| hypothetical protein SAV5140 [Streptomyces avermitilis MA-4680]; ZP_00293999.1| COG1061: DNA or RNA helicases of superfamily II [Thermobifida fusca]). pfam00270, DEAD,DEAD/DEAH box helicase.; Specificity unclear
YP_001222448.1	putative acyl-CoA dehydrogenase (ZP_00281635.1| COG1960: Acyl-CoA dehydrogenases [Burkholderia fungorum LB400]; NP_396585.1| acyl-CoA dehydrogenase [Agrobacterium tumefaciens str. C58]). pfam02771, Acyl-CoA_dh_N, Acyl-CoA dehydrogenase, N-terminal domain. pfam02770, Acyl-CoA_dh_M, Acyl-CoA dehydrogenase, middle domain. pfam00441, Acyl-CoA_dh, Acyl-CoA dehydrogenase, C-terminal domain.; Specificity unclear
YP_001222449.1	conserved hypothetical protein (ZP_00209207.1| COG2514: Predicted ring-cleavage extradiol dioxygenase [Magnetospirillum magnetotacticum]; NP_738598.1| conserved hypothetical protein [Corynebacterium efficiens YS-314]). containing two domains of pfam00903, Glyoxalase,Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily.; Function unclear
YP_001222450.1	putative esterase (ZP_00293606.1| COG2755: Lysophospholipase L1 and related esterases [Thermobifida fusca]; NP_822814.1| hypothetical protein SAV1638 [Streptomyces avermitilis MA-4680]). pfam00657,Lipase_GDSL, GDSL-like Lipase/Acylhydrolase.; Function unclear
YP_001222451.1	putative D-alanyl-D-alanine carboxypeptidase (Penicillin-binding protein) (NP_787455.1| serine-type D-Ala-D-Ala carboxypeptidase [Tropheryma whipplei str. Twist]; AAC32488.1| penicillin binding protein PbpA [Streptomyces clavuligerus]). , pfam00768, Peptidase_S11,D-alanyl-D-alanine carboxypeptidase.; High confidence in function and specificity
YP_001222452.1	putative rRNA methylase (NP_696042.1| possible tRNA/rRNA methyltransferase [Bifidobacterium longum NCC2705]; NP_827973.1| putative rRNA methylase [Streptomyces avermitilis MA-4680]). pfam00588,SpoU_methylase, SpoU rRNA Methylase family. This family of proteins probably use S-AdoMet.; Specificity unclear
YP_001222453.1	putative NAD-dependent deacetylase, SIR2 family regulatory protein (NP_961194.1| hypothetical protein MAP2260 [Mycobacterium avium subsp. paratuberculosis str. k10]; NP_821712.1| putative Sir2-family regulator protein [Streptomyces avermitilis MA-4680]). Modulates the activities of several enzymes which are inactive in their acetylated form. pfam02146, SIR2, Sir2 family.; Specificity unclear
YP_001222454.1	putative phosphoglycerate mutase (ZP_00272306.1| COG0406: Fructose-2,6-bisphosphatase [Ralstonia metallidurans CH34]; ZP_00189764.2| COG0406: Fructose-2,6- bisphosphatase [Kineococcus radiotolerans SRS30216]). pfam00300, PGAM, Phosphoglycerate mutase family.; Specificity unclear
YP_001222455.1	putative mannosyltransferase, glycosyl transferase family 1 (NP_780975.1| mannosyltransferase [Clostridium tetani E88]; NP_254135.1| glycosyltransferase WbpY [Pseudomonas aeruginosa PA01]). pfam00534,Glycos_transf_1, Glycosyl transferases group 1. Members of this family transfer UDP, ADP, GDP or CMP linked sugars.; Specificity unclear
YP_001222456.1	putative hydrolase (NP_249520.1| probable hydrolase [Pseudomonas aeruginosa PA01]; NP_824268.1| putative hydrolase [Streptomyces avermitilis MA-4680]). pfam00561,Abhydrolase_1, alpha/beta hydrolase fold. This catalytic domain is found in a very wide range of enzymes.; Function unclear
YP_001222457.1	putative trehalose synthase (Maltose alpha-D-glucosyltransferase) (ZP_00228506.1| COG0366: Glycosidases [Kineococcus radiotolerans SRS30216]; NP_823979.1| putative trehalose synthase [Streptomyces avermitilis MA-4680]). pfam00128, Alpha-amylase, Alpha amylase, catalytic domain. Alpha amylase is classified as family 13 of the glycosyl hydrolases.; Specificity unclear
YP_001222458.1	3'-5' exonuclease of DNA polymerase III
YP_001222459.1	RpmE2; there appears to be two types of ribosomal proteins L31 in bacterial genomes; some contain a CxxC motif while others do not; Bacillus subtilis has both types; the proteins in this cluster do not have the CXXC motif; RpmE is found in exponentially growing Bacilli while YtiA was found after exponential growth; expression of ytiA is controlled by a zinc-specific transcriptional repressor; RpmE contains one zinc ion and a CxxC motif is responsible for this binding; forms an RNP particle along with proteins L5, L18, and L25 and 5S rRNA; found crosslinked to L2 and L25 and EF-G; may be near the peptidyltransferase site of the 50S ribosome
YP_001222460.1	putative molybdate ABC transporter ATP-binding protein (NP_827656.1| putative ABC transporter ATP-binding protein [Streptomyces avermitilis MA-4680]; ZP_00192057.2| COG1119: ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Kineococcus radiotolerans SRS30216]). pfam00005,ABC_tran, ABC transporter.; Specificity unclear
YP_001222461.1	putative glycosyl transferase (ZP_00228927.1| COG0438: Glycosyltransferase [Kineococcus radiotolerans SRS30216]; ZP_00120280.2| COG0438: Glycosyltransferase [Bifidobacterium longum DJO10A]). InterPro: Glycosyl transferases group 1 pfam00534, Glycos_transf_1, Glycosyl transferases group 1.; Function unclear
YP_001222462.1	catalyzes the formation of ADP-glucose and diphosphate from ATP and alpha-D-glucose 1-phosphate
YP_001222463.1	putative phosphoserine phosphatase (O-phosphoserine phosphohydrolase) (NP_696939.1| probable phosphoserine phosphatase [Bifidobacterium longum NCC2705]; ZP_00209254.1| COG0560: Phosphoserine phosphatase [Magnetospirillum magnetotacticum]). pfam00702, Hydrolase,haloacid dehalogenase-like hydrolase. This family includes L-2-haloacid dehalogenase, epoxide hydrolases and phosphatases. serB: phosphoserine phosphatase SerB.; Specificity unclear
YP_001222464.1	putative proteinkinase or phosphotransferase (ZP_00238793.1| putative protein kinase [Bacillus cereus G9241]; ZP_00305365.1| COG3173: Predicted aminoglycoside phosphotransferase [Novosphingobium aromaticivorans DSM 12444]). pfam01636, APH, Phosphotransferase enzyme family.; Function unclear
YP_001222465.1	putative 3-oxoacyl-[acyl-carrier protein] reductase (ZP_00059542.1| COG1028: Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Thermobifida fusca]; NP_626084.1| probable 3-oxacyl-(acyl-carrier-protein) reductase [Streptomyces coelicolor A3(2)] ). pfam00106, adh_short,short chain dehydrogenase. This family contains a wide variety of dehydrogenases.; Specificity unclear
YP_001222466.1	hypothetical protein (ZP_00228932.1| hypothetical protein Krad06000613 [Kineococcus radiotolerans SRS30216]; NP_827633.1| putative membrane protein [Streptomyces avermitilis MA-4680]).
YP_001222467.1	conserved hypothetical protein (YP_062125.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_827632.1| hypothetical protein SAV6456 [Streptomyces avermitilis MA-4680]).
YP_001222468.1	conserved membrane protein (ZP_00228934.1| COG3346: Uncharacterized conserved protein [Kineococcus radiotolerans SRS30216]; NP_302130.1| conserved membrane protein [Mycobacterium leprae TN]).; Conserved hypothetical protein
YP_001222469.1	putative ABC transporter ATP-binding protein (ZP_00228938.1| COG0488: ATPase components of ABC transporters with duplicated ATPase domains [Kineococcus radiotolerans SRS30216]; NP_827602.1| putative ABC transporter ATP-binding protein [Streptomyces avermitilis MA-4680]). InterPro: AAA ATPase superfamily pfam00005,ABC_tran, ABC transporter (twice).; Function unclear
YP_001222470.1	conserved hypothetical protein (ZP_00228941.1| COG2151: Predicted metal-sulfur cluster biosynthetic enzyme [Kineococcus radiotolerans SRS30216]; NP_827507.1| hypothetical protein SAV6331 [Streptomyces avermitilis MA-4680]). pfam01883, DUF59, Domain of unknown function DUF59.; Function unclear
YP_001222471.1	putative ABC transporter, ATP-binding protein,putatively involved in Fe-S cluster assembly (YP_062121.1| multidrug Resistance Exporter [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00228942.1| COG0396: ABC-type transport system involved in Fe-S cluster assembly, ATPase component [Kineococcus radiotolerans SRS30216]). pfam00005,ABC_tran, ABC transporter. InterPro: ABC transporter.; Function unclear
YP_001222472.1	putative 2Fe-2S ferredoxin (YP_062120.1| benzene 1,2-dioxygenase, ferredoxin protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_787463.1| dioxygenase ferredoxin subunit [Tropheryma whipplei str. Twist]). pfam00355,Rieske, Rieske [2Fe-2S] domain. The rieske domain has a [2Fe-2S] centre. Two conserved cysteines that one Fe ion while the other Fe ion is coordinated by two conserved histidines. InterPro: Rieske iron-sulfur protein 2Fe-2S subunit; Specificity unclear
YP_001222473.1	conserved hypothetical protein (YP_062119.1| ABC transporter, membrane component [Leifsonia xyli subsp. xyli str. CTCB07]; NP_827502.1| hypothetical protein SAV6326 [Streptomyces avermitilis MA-4680]). pfam01458,UPF0051, Uncharacterized protein family (UPF0051).
YP_001222474.1	conserved hypothetical protein (NP_626190.1| conserved hypothetical protein [Streptomyces coelicolor A3(2)]; ZP_00228944.1| COG0719: ABC-type transport system involved in Fe-S cluster assembly, permease component [Kineococcus radiotolerans SRS30216]). pfam01458, UPF0051,Uncharacterized protein family (UPF0051). InterPro: Uncharacterized protein family UPF0051.
YP_001222475.1	conserved membrane protein, putative cytochrome oxidase assembly protein (YP_062117.1| cytochrome oxidase assembly protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_789364.1| putative cytochrome synthase [Tropheryma whipplei TW08/27]). , pfam02628, COX15-CtaA,Cytochrome oxidase assembly protein. This is a family of integral membrane proteins.; High confidence in function and specificity
YP_001222476.1	converts protoheme IX and farnesyl diphosphate to heme O
YP_001222477.1	catalyzes the formation of ribose 5-phosphate and xylulose 5-phosphate from sedoheptulose 7-phosphate and glyceraldehyde 3-phosphate; can transfer ketol groups between several groups; in Escherichia coli there are two tkt genes, tktA expressed during exponential growth and the tktB during stationary phase
YP_001222478.1	catalyzes the reversible formation of D-erythrose 4-phosphate and D-fructose 6-phosphate from sedoheptulose 7-phosphate and D-glyceraldehyde 3-phosphate
YP_001222479.1	putative glucose-6-phosphate isomerase (Phosphoglucose isomerase)(Phosphohexose isomerase) (YP_062113.1| glucose-6-phosphate isomerase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_789360.1| glucose-6-phosphate isomerase [Tropheryma whipplei TW08/27]). pfam00342, PGI, Phosphoglucose isomerase. Phosphoglucose isomerase catalyses the interconversion of glucose-6-phosphate and fructose-6-phosphate.; High confidence in function and specificity
YP_001222480.1	catalyzes the formation of D-glucono-1,5-lactone 6-phosphate from D-glucose 6-phosphate
YP_001222481.1	putative glucose-6-P dehydrogenase effector (YP_062111.1| oxppcycle protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00228950.1| COG3429: Glucose-6-P dehydrogenase subunit [Kineococcus radiotolerans SRS30216]).; High confidence in function and specificity
YP_001222482.1	putative 6-phosphogluconolactonase (ZP_00294052.1| COG0363: 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Thermobifida fusca]; Q9XAB7|6PGL_STRCO 6-phosphogluconolactonase (6PGL)). pfam01182, Glucosamine_iso, Glucosamine-6-phosphate isomerases/6-phosphogluconolactonase.; High confidence in function and specificity
YP_001222483.1	putative electron transport protein (Rieske iron-sulfur protein) (YP_062109.1| electron transport protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_827476.1| putative electron transport protein [Streptomyces avermitilis MA-4680]).; Function unclear
YP_001222484.1	putative protein-export membrane protein (YP_062108.1| protein-export membrane protein SecG [Leifsonia xyli subsp. xyli str. CTCB07]; NP_695892.1| protein- export membrane protein SecG [Bifidobacterium longum NCC2705]; AAG16895.1| SecG [Streptomyces lividans]). pfam03840, SecG, Preprotein translocase SecG subunit.; Conserved hypothetical protein
YP_001222485.1	Reversibly isomerizes the ketone sugar dihydroxyacetone phosphate to the aldehyde sugar glyceraldehyde-3-phosphate
YP_001222486.1	Converts 3-phospho-D-glycerate to 3-phospho-D-glyceroyl phosphate during the glycolysis pathway
YP_001222487.1	putative glyceraldehyde 3-phosphate dehydrogenase (YP_062105.1| glyceraldehyde 3-phosphate dehydrogenase [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00228958.1| COG0057: Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Kineococcus radiotolerans SRS30216]). pfam00044, Gp_dh_N,Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain. GAPDH is a tetrameric NAD-binding enzyme involved in glycolysis and glyconeogenesis. pfam02800, Gp_dh_C,Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain.; High confidence in function and specificity
YP_001222488.1	superoxide dismutase [Mn/Fe] (YP_062104.1| superoxide dismutase [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00198450.2| COG0605: Superoxide dismutase [Kineococcus radiotolerans SRS30216]). , pfam00081,Sod_Fe_N, Iron/manganese superoxide dismutases, alpha-hairpin domain. , pfam02777, Sod_Fe_C, Iron/manganese superoxide dismutases, C-terminal domain. , InterPro: Manganese and iron superoxide dismutase (SODM); High confidence in function and specificity
YP_001222489.1	conserved hypothetical protein, whiA homolog (YP_062103.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00228959.1| COG1481: Uncharacterized protein conserved in bacteria [Kineococcus radiotolerans SRS30216]; NP_335917.1| conserved hypothetical protein [Mycobacterium tuberculosis CDC1551]). WhiA maybe a regulator which is essential for sporulation in Streptomyces pfam02650, DUF199,Uncharacterized BCR, COG1481.; Function unclear
YP_001222490.1	conserved hypothetical protein, putative kinase (YP_062102.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00228961.1| COG1660: Predicted P-loop-containing kinase [Kineococcus radiotolerans SRS30216]; NP_626216.1| conserved hypothetical protein [Streptomyces coelicolor A3(2)]). pfam03668, ATP_bind_2, P-loop ATPase protein family.; Function unclear
YP_001222491.1	The UvrABC repair system catalyzes the recognition and processing of DNA lesions. UvrC both incises the 5' and 3' sides of the lesion. The N-terminal half is responsible for the 3' incision and the C-terminal half is responsible for the 5' incision
YP_001222492.1	The UvrABC repair system catalyzes the recognition and processing of DNA lesions. UvrA is an ATPase and a DNA-binding protein. A damage recognition complex composed of 2 uvrA and 2 uvrB subunits scans DNA for abnormalities. When the presence of a lesion has been verified by uvrB, the uvrA molecules dissociate
YP_001222493.1	The UvrABC repair system catalyzes the recognition and processing of DNA lesions. The beta-hairpin of the Uvr-B subunit is inserted between the strands, where it probes for the presence of a lesion
YP_001222494.1	dephospho-CoA kinase (YP_062097.1| dephospho-CoA kinase [Leifsonia xyli subsp. xyli str. CTCB07]; Q82A24|COAE_STRAW Dephospho-CoA kinase (Dephosphocoenzyme A kinase)). Catalyzes the phosphorylation of the 3-hydroxyl group of dephosphocoenzyme A to form coenzyme A (By similarity). pfam01121, CoaE, Dephospho-CoA kinase.; High confidence in function and specificity
YP_001222495.1	in Escherichia coli this protein is involved in binding to the leader sequence of mRNAs and is itself bound to the 30S subunit; autoregulates expression via a C-terminal domain; in most gram negative organisms this protein is composed of 6 repeats of the S1 domain while in gram positive there are 4 repeats; the S1 nucleic acid-binding domain is found associated with other proteins
YP_001222496.1	conserved hypothetical protein (YP_062095.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00226344.1| COG4805: Uncharacterized protein conserved in bacteria [Kineococcus radiotolerans SRS30216]). pfam05960, DUF885, Bacterial protein of unknown function (DUF885). This family consists of several hypothetical bacterial proteins several of which are putative membrane proteins.; Function unclear
YP_001222497.1	PTS system, IIA component (YP_044170.1| PTS system,mannitol-specific IIA component [Staphylococcus aureus subsp. aureus MSSA476]; NP_244719.1| PTS system, mannitol-specific enzyme II, A component [Bacillus halodurans C-125]). , pfam00359, PTS_EIIA_2, Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2.; Specificity unclear
YP_001222498.1	has 3'-5' exonuclease, 5'-3' exonuclease and 5'-3'polymerase activities, primarily functions to fill gaps during DNA replication and repair
YP_001222499.1	conserved hypothetical protein, putative thioesterase (ZP_00057601.1| COG2050: Uncharacterized protein, possibly involved in aromatic compounds catabolism [Thermobifida fusca]; ZP_00227222.1| COG2050: Uncharacterized protein, possibly involved in aromatic compounds catabolism [Kineococcus radiotolerans SRS30216]). pfam03061, 4HBT, Thioesterase superfamily. This family contains a wide variety of enzymes,principally thioesterases.; Function unclear
YP_001222500.1	putative response regulator involved in antitermination (YP_062092.1| two-component system,regulatory protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00291532.1| COG3707: Response regulator with putative antiterminator output domain [Thermobifida fusca]). cd00156, REC, Signal receiver domain. pfam03861,ANTAR, ANTAR domain. ANTAR (AmiR and NasR transcription antitermination regulators) is an RNA-binding domain found in bacterial transcription antitermination regulatory proteins.; Specificity unclear
YP_001222501.1	pyruvate kinase (YP_062088.1| pyruvate kinase II [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00225692.1| COG0469: Pyruvate kinase [Kineococcus radiotolerans SRS30216]). pfam00224, PK, Pyruvate kinase, barrel domain. pfam02887, PK_C, Pyruvate kinase, alpha/beta domain.; High confidence in function and specificity
YP_001222502.1	glutamate synthase is composed of subunits alpha and beta; beta subunit is a flavin adenine dinucleotide-NADPH dependent oxidoreductase; provides electrons to the alpha subunit, which binds L-glutamine and 2-oxoglutarate and forms L-glutamate
YP_001222503.1	glutamate synthase (NADPH), alpha subunit (CAG18963.1| putative glutamate synthase, large subunit [Photobacterium profundum]; BAA75929.1| glutamine 2-oxoglutarate aminotransferase large subunit [Corynebacterium glutamicum]). pfam04897, Glu_synth_NTN,Glutamate synthase amidotransferase domain. pfam04898,Glu_syn_central, Glutamate synthase central domain. pfam01645, Glu_synthase, Conserved region in glutamate synthase. The aligned region of these proteins contains a putative FMN binding site and Fe-S cluster. pfam01493,GXGXG, GXGXG motif. InterPro: Ferredoxin-dependent glutamate synthase; High confidence in function and specificity
YP_001222504.1	transfers the N-acyl diglyceride moiety to the prospective N-terminal cysteine in prolipoprotein
YP_001222505.1	catalyzes the formation of indole and glyceraldehyde 3-phosphate from indoleglycerol phosphate in tryptophan biosynthesis
YP_001222506.1	catalyzes the formation of L-tryptophan from L-serine and 1-(indol-3-yl)glycerol 3-phosphate
YP_001222507.1	involved in tryptophan biosynthesis; amino acid biosynthesis; converts 1-(2-carboxyphenylamino)-1-deoxy-D-ribulose 5-phosphate to C(1)-(3-indolyl)-glycerol 3-phosphate and carbon dioxide and water
YP_001222508.1	putative membrane protein (YP_062081.1| mambrane protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_626301.1| putative membrane protein [Streptomyces coelicolor A3(2)]; ZP_00226960.1| COG3125: Heme/copper-type cytochrome/quinol oxidase, subunit 4 [Kineococcus radiotolerans SRS30216]).; Hypothetical protein
YP_001222509.1	conserved membrane protein (YP_062080.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00226959.1| hypothetical protein Krad06002361 [Kineococcus radiotolerans SRS30216]; NP_827348.1| putative membrane protein [Streptomyces avermitilis MA-4680]).
YP_001222510.1	with component II, the glutamine amidotransferase, catalyzes the formation of anthranilate from chorismate and glutamine
YP_001222511.1	PR-AMP cyclohydrolase; functions in histidine biosynthesis from PRPP; converts 1-(5-phosphoribosyl)-AMP to 1-(5-phosphoribosyl)-5-[(5- phosphoribosylamino)methylideneamino]imidazole-4- carboxyamide during the histidine biosynthesis pathway; binds zinc and magnesium; forms homodimers
YP_001222512.1	catalyzes the conversion of 5-[(5-phospho-1-deoxyribulos-1-ylamino)methylideneamino]- 1-(5-phosphoribosyl)imidazole-4-carboxamideand glutamine to imidazole-glycerol phosphate, 5-aminoimidazol-4-carboxamideribonucleotide and glutamate; the HisF subunit acts as a cyclase
YP_001222513.1	long form of enzyme; catalyzes the formation of N'-5'-phosphoribosyl-ATP from phosphoribosyl pyrophosphate; crucial role in histidine biosynthesis; forms active dimers and inactive hexamers which is dependent on concentration of substrates and inhibitors
YP_001222514.1	catalyzes the formation of 1-(5-phosphoribosyl)-AMP from 1-(5-phosphoribolsyl)-ATP in histidine biosynthesis
YP_001222515.1	putative peptidyl-prolyl cis-trans isomerase (AAF04134.1| FK506 binding protein [Mycobacterium smegmatis]; YP_061894.1| FKBP-type peptidyl-prolyl cis-trans isomerase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_737516.1| putative peptidylprolyl isomerase [Corynebacterium efficiens YS-314]). PPIases accelerate the folding of proteins. pfam00254, FKBP_C, FKBP-type peptidyl-prolyl cis-trans isomerase. InterPro: FKBP-type peptidyl-prolyl cis-trans isomerase (PPIase); High confidence in function and specificity
YP_001222516.1	catalyzes the interconversion of D-ribulose 5-phosphate to xylulose 5-phosphate
YP_001222517.1	putative rRNA cytosine-C5-methylase (SUN protein,FMU protein) (ZP_00057727.1| COG0144: tRNA and rRNA cytosine-C5-methylases [Thermobifida fusca]; ZP_00226945.1| COG0144: tRNA and rRNA cytosine-C5-methylases [Kineococcus radiotolerans SRS30216]). cd00620,Methyltransferase_Sun, N-terminal RNA binding domain of the methyltransferase Sun. The rRNA-specific 5-methylcytidine transferase Sun, also known as RrmB or Fmu shares the RNA-binding non-catalytic domain with the transcription termination factor NusB. pfam01189,Nol1_Nop2_Sun, NOL1/NOP2/sun family.; Specificity unclear
YP_001222518.1	methionyl-tRNA formyltransferase (YP_062073.1| methionyl-tRNA formyltransferase [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00291734.1| COG0223: Methionyl-tRNA formyltransferase [Thermobifida fusca]). Modify the free amino group of the aminoacyl moiety of methionyl-tRNA(fMet). The formyl group appears to play a dual role in the initiator identity of N-formylmethionyl-tRNA by: (I) promoting its recognition by IF2 and (II) impairing its binding to EFTu-GTP. pfam00551, Formyl_trans_N, Formyl transferase. pfam02911, Formyl_trans_C, Formyl transferase, C-terminal domain. fmt: methionyl-tRNA formyltransferase; High confidence in function and specificity
YP_001222519.1	binding of PriA to forked DNA starts the assembly of the primosome, also possesses 3'-5' helicase activity
YP_001222520.1	catalyzes the formation of S-adenosylmethionine from methionine and ATP; methionine adenosyltransferase
YP_001222521.1	catalyzes the conjugation of cysteine to 4'-phosphopantothenate to form 4-phosphopantothenoylcysteine, which is then decarboxylated to form 4'-phosphopantotheine
YP_001222522.1	Promotes RNA polymerase assembly. Latches the N- and C-terminal regions of the beta' subunit thereby facilitating its interaction with the beta and alpha subunits
YP_001222523.1	putative fusion protein guanylate kinase (GMP kinase)/integration host factor (IHF) (YP_062068.1| guanylate kinase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_787491.1| guanylate kinase; integration host factor fusion protein [Tropheryma whipplei str. Twist]; Q827Q3|KGUA_STRAW Guanylate kinase (GMP kinase)). Essential for recycling GMP and indirectly cGMP. pfam00625, Guanylate_kin, Guanylate kinase. InterPro: Guanylate kinase.; High confidence in function and specificity
YP_001222524.1	putative orotidine 5-phosphate decarboxylase (OMP decarboxylase) (YP_062067.1| orotidine 5'-phosphate decarboxylase [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00226927.1| COG0284: Orotidine-5'- phosphate decarboxylase [Kineococcus radiotolerans SRS30216]). pfam00215, OMPdecase, Orotidine 5'-phosphate decarboxylase / HUMPS family.; High confidence in function and specificity
YP_001222525.1	putative carbamoyl-phosphate synthase large subunit (CAG19020.1| putative carbamoylphosphate synthase large subunit [Photobacterium profundum]; AAB39256.1| carbamoylphosphate synthetase large subunit [Salmonella typhimurium]). pfam00289, CPSase_L_chain, Carbamoyl-phosphate synthase L chain, N-terminal domain (twice). pfam02786, CPSase_L_D2, Carbamoyl-phosphate synthase L chain, ATP binding domain (twice). pfam02787, CPSase_L_D3,Carbamoyl-phosphate synthetase large chain,oligomerisation domain. pfam02142, MGS, MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in Carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine.; High confidence in function and specificity
YP_001222526.1	catalyzes production of carbamoyl phosphate from bicarbonate and glutamine in pyrimidine and arginine biosynthesis pathways; forms an octamer composed of four CarAB dimers
YP_001222527.1	conserved hypothetical protein (NP_625765.1| putative integral membrane protein [Streptomyces coelicolor A3(2)]; YP_062064.1| hypothetical protein Lxx11080 [Leifsonia xyli subsp. xyli str. CTCB07]).
YP_001222528.1	catalyzes the formation of N-carbamoyl-L-aspartate from (S)-dihydroorotate in pyrimidine biosynthesis
YP_001222529.1	catalyzes the transfer of the carbamoyl moiety from carbamoyl phosphate to L- aspartate in pyrimidine biosynthesis
YP_001222530.1	regulates pyrimidine biosynthesis by binding to the mRNA of the pyr genes, also has been shown to have uracil phosphoribosyltransferase activity
YP_001222531.1	putative acetyl-coenzyme A synthetase (Acetate--CoA ligase) (ZP_00190335.3| COG0365: Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Kineococcus radiotolerans SRS30216]; ZP_00293126.1| COG0365: Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Thermobifida fusca]; ACSA_STRAW Acetyl-coenzyme A synthetase (Acetate--CoA ligase) (Acyl-activating enzyme)). pfam00501, AMP-binding, AMP-binding enzyme.; Specificity unclear
YP_001222532.1	putative anion ABC transporter, permease component (ZP_00226717.1| COG0600: ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Kineococcus radiotolerans SRS30216]; ZP_00267258.1| COG0600: ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Pseudomonas fluorescens PfO-1]). pfam00528,BPD_transp_1, Binding-protein-dependent transport system inner membrane component. InterPro: Binding-protein-dependent transport systems inner membrane component.; Specificity unclear
YP_001222533.1	putative anion ABC transporter, substrate-binding protein (ZP_00226718.1| COG0715: ABC-type nitrate/sulfonate/bicarbonate transport systems,periplasmic components [Kineococcus radiotolerans SRS30216]; NP_959079.1| hypothetical protein MAP0145 [Mycobacterium avium subsp. paratuberculosis str. k10]). InterPro: Bacterial extracellular solute-binding proteins family 3.; Specificity unclear
YP_001222534.1	putative anion ABC transporter, ATP-binding protein (NP_959078.1| hypothetical protein MAP0145 [Mycobacterium avium subsp. paratuberculosis str. k10]; ZP_00226719.1| COG1116: ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Kineococcus radiotolerans SRS30216]). pfam00005, ABC_tran, ABC transporter.; Specificity unclear
YP_001222535.1	putative antitermination protein (ZP_00291753.1| COG0781: Transcription termination factor [Thermobifida fusca]; Q9KXR0|NUSB_STRCO N utilization substance protein B homolog (NusB protein)). pfam01029, NusB, NusB family. The NusB protein is involved in the regulation of rRNA biosynthesis by transcriptional antitermination. InterPro: Antitermination protein NusB; High confidence in function and specificity
YP_001222536.1	Involved in peptide bond synthesis; alters the affinity of the ribosome for aminoacyl-tRNA
YP_001222537.1	catalyzes the formation of 3-dehydroshikimate from 3-dehydroquinate in chorismate biosynthesis
YP_001222538.1	putative short-chain dehydrogenase/reductase (ZP_00226581.1| COG1028: Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Kineococcus radiotolerans SRS30216]; NP_830063.1| 3-oxoacyl-[acyl-carrier protein] reductase [Bacillus cereus ATCC 14579]). pfam00106, adh_short, short chain dehydrogenase. This family contains a wide variety of dehydrogenases.; Function unclear
YP_001222539.1	catalyzes the formation of 3-dehydroquinate from 3-deoxy-arabino-heptulonate 7-phosphate; functions in aromatic amino acid biosynthesis
YP_001222540.1	shikimate kinase (YP_062054.1| shikimate kinase I [Leifsonia xyli subsp. xyli str. CTCB07]; P95014|AROK_MYCTU Shikimate kinase (SK)). pfam01202, SKI,Shikimate kinase.; High confidence in function and specificity
YP_001222541.1	catalyzes the formation of chorismate from 5-O-(1-carboxyvinyl)-3-phosphoshikimate in aromatic amino acid biosynthesis
YP_001222542.1	Shikimate 5-dehydrogenase (YP_062052.1| shikimate 5-dehydrogenase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_301440.1| putative shikimate 5-dehydrogenase [Mycobacterium leprae TN]). pfam01488, Shikimate_DH,Shikimate / quinate 5-dehydrogenase. aroE: shikimate 5-dehydrogenase; High confidence in function and specificity
YP_001222543.1	putative aminodeoxychorismate lyase (YP_055887.1| aminodeoxychorismate lyase [Propionibacterium acnes KPA171202]; NP_787502.1| hypothetical protein TWT374 [Tropheryma whipplei str. Twist]). pfam02618, ADC_lyase,Aminodeoxychorismate lyase. This family contains several aminodeoxychorismate lyase proteins. Aminodeoxychorismate lyase is a pyridoxal 5'-phosphate-dependent enzyme that converts 4-aminodeoxy- chorismate to pyruvate and p-aminobenzoate, a precursor of folic acid in bacteria.; Function unclear
YP_001222544.1	similar to RuvC resolvase with substantial differences; NMR structural information suggests this protein is monomeric; unknown cellular function
YP_001222545.1	Catalyzes a two-step reaction, first charging an alanyl molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA
YP_001222546.1	hypothetical protein (YP_062048.1| Hypothetical protein Lxx10900 [Leifsonia xyli subsp. xyli str. CTCB07]; CAD47949.1| hypothetical protein [Arthrobacter nicotinovorans]).
YP_001222547.1	primary rRNA binding protein; nucleates 30S assembly; involved in translational accuracy with proteins S5 and S12; interacts with protein S5; involved in autogeneously regulating ribosomal proteins by binding to pseudoknot structures in the polycistronic mRNA; interacts with transcription complex and functions similar to protein NusA in antitermination
YP_001222548.1	putative ATPase (YP_062045.1| ATPase related to the helicase subunit [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00291928.1| COG2256: ATPase related to the helicase subunit of the Holliday junction resolvase [Thermobifida fusca]). pfam00004, AAA, ATPase family associated with various cellular activities (AAA).; Function unclear
YP_001222549.1	conserved hypothetical protein, putative ATPase (YP_062043.1| ATPase involved in DNA repair [Leifsonia xyli subsp. xyli str. CTCB07]; NP_828017.1| hypothetical protein SAV6841 [Streptomyces avermitilis MA-4680]; ZP_00057393.1| COG0419: ATPase involved in DNA repair [Thermobifida fusca]). pfam03993, DUF349, Domain of Unknown Function (DUF349). This domain is found singly or as up to five tandem repeats in a small set of bacterial proteins (twice).; Function unclear
YP_001222550.1	hypothetical protein (YP_062042.1| Hypothetical protein Lxx10830 [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00121330.2| hypothetical protein Blon021233 [Bifidobacterium longum DJO10A]).
YP_001222551.1	GTP pyrophosphokinase (ATP:GTP 3-pyrophosphotransferase) (ppGpp synthetase I) ((P)ppGpp synthetase) (YP_062041.1| GTP pyrophosphokinase [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00291937.1| COG0317: Guanosine polyphosphate pyrophosphohydrolases/ synthetases [Thermobifida fusca]). pfam01966, HD, HD domain. HD domains are metal dependent phosphohydrolases. pfam04607,RelA_SpoT, Region found in RelA / SpoT proteins. pfam02824, TGS, TGS domain. The TGS domain is named after ThrRS, GTPase, and SpoT. pfam01842, ACT, ACT domain. This family of domains generally have a regulatory role. ACT domains are linked to a wide range of metabolic enzymes that are regulated by amino acid concentration. InterPro: RelA/SpoT family protein spoT_relA: RelA/SpoT family protein; High confidence in function and specificity
YP_001222552.1	conserved hypothetical protein (YP_062040.1| thiosulfate sulfurtransferase [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00293320.1| COG0607: Rhodanese-related sulfurtransferase [Thermobifida fusca]). pfam00581,Rhodanese, Rhodanese-like domain.; Family membership
YP_001222553.1	forms a complex with SecD and YajC; SecDFyajC stimulates the proton motive force-driven protein translocation; seems to modulate the cycling of SecA by stabilizing its membrane-inserted state and appears to be required for the release of mature proteins from the extracytoplasmic side of the membrane; in some organisms, such as Bacillus subtilis, SecD is fused to SecF
YP_001222554.1	part of the preprotein secretory system; when complexed with proteins SecF and YajC, SecDFyajC stimulates the proton motive force-driven protein translocation, and appears to be required for the release of mature proteins from the extracytoplasmic side of the membrane
YP_001222555.1	Region start changed from 2052547 to 2052460 (-87 bases)
YP_001222556.1	promotes strand exchange during homologous recombination; RuvAB complex promotes branch migration; RuvABC complex scans the DNA during branch migration and resolves Holliday junctions at consensus sequences; forms hexameric rings around opposite DNA arms; requires ATP for branch migration and orientation of RuvAB complex determines direction of migration
YP_001222557.1	plays an essential role in ATP-dependent branch migration of the Holliday junction
YP_001222558.1	endonuclease; resolves Holliday structures; forms a complex of RuvABC; the junction binding protein RuvA forms a hexameric ring along with the RuvB helicase and catalyzes branch migration; RuvC then interacts with RuvAB to resolve the Holliday junction by nicking DNA strands of like polarity
YP_001222559.1	conserved hypothetical protein (YP_062033.1| Hypothetical protein Lxx10750 [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00057401.1| COG0217: Uncharacterized conserved protein [Thermobifida fusca]; CAB10838.1| HIGHLY CONSERVED HYPOTHETICAL PROTEIN [Mycobacterium tuberculosis H37Rv]). pfam01709, DUF28, Domain of unknown function DUF28. InterPro: Domain of unknown function DUF28.; Function unclear
YP_001222560.1	with PdxST is involved in the biosynthesis of pyridoxal 5'-phosphate; PdxT catalyzes the hydrolysis of glutamine to glutamate and ammonia; PdxS utilizes the ammonia to synthesize pyridoxal 5'-phosphate
YP_001222561.1	with PdxT forms pyridoxal 5'-phosphate from glutamine, either ribose 5-phosphate or ribulose 5-phosphate, and either glyceraldehyde 3-phosphate or dihydroxyacetone phosphate
YP_001222562.1	conserved hypothetical protein (YP_062028.1| Hypothetical protein Lxx10700 [Leifsonia xyli subsp. xyli str. CTCB07]; NP_827999.1| putative HIT family protein [Streptomyces avermitilis MA-4680]). pfam01230, HIT, HIT domain. InterPro: HIT (Histidine triad) family; Family membership
YP_001222563.1	catalyzes a two-step reaction, first charging a threonine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; catalyzes the formation of threonyl-tRNA(Thr) from threonine and tRNA(Thr)
YP_001222564.1	putative transcriptional regulator, Cro/CI family (YP_056970.1| transcriptional regulator [Propionibacterium acnes KPA171202]; P39140|DEOR_BACSU Deoxyribonucleoside regulator). pfam01381, HTH_3, Helix-turn-helix. This large family of DNA binding helix-turn helix proteins includes Cro and CI. pfam04198, Sugar-bind, Putative sugar-binding domain. This probable domain is found in bacterial transcriptional regulators such as DeoR and SorC.; Specificity unclear
YP_001222565.1	putative glycerol-3-phosphate dehydrogenase (NP_437021.1| putative glycerol-3-phosphate dehydrogenase protein [Sinorhizobium meliloti 1021]; NP_826180.1| putative glycerol-3-phosphate dehydrogenase [Streptomyces avermitilis MA-4680]). pfam01266, DAO, FAD dependent oxidoreductase. This family includes various FAD dependent oxidoreductases.; High confidence in function and specificity
YP_001222566.1	putative peroxidase (ZP_00293036.1| COG0386: Glutathione peroxidase [Thermobifida fusca]; ZP_00228459.1| COG0386: Glutathione peroxidase [Kineococcus radiotolerans SRS30216]; AAO68877.1| putative glutathione peroxidase; vitamin B12 transport periplasmic protein BtuE [Salmonella enterica subsp. enterica serovar Typhi Ty2]). pfam00255, GSHPx,Glutathione peroxidase. InterPro: Glutathione peroxidase; Specificity unclear
YP_001222567.1	conserved hypothetical protein (ZP_00226621.1| hypothetical protein Krad06003015 [Kineococcus radiotolerans SRS30216]; NP_631325.1| conserved hypothetical protein [Streptomyces coelicolor A3(2)]).
YP_001222568.1	conserved hypothetical protein (YP_062570.1| Hypothetical protein Lxx17000 [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00198676.1| COG3012: Uncharacterized protein conserved in bacteria [Kineococcus radiotolerans SRS30216]). pfam02810, SEC-C, SEC-C motif. The SEC-C motif found in the C-terminus of the SecA protein, in the middle of some SWI2 ATPases and also solo in several proteins. The motif is predicted to chelate zinc with the CXC and C[HC] pairs that constitute the most conserved feature of the motif. It is predicted to be a potential nucleic acid binding domain. InterPro: SEC-C motif
YP_001222569.1	putative PTS system hybrid protein (YP_061966.1| PTS system enzyme I [Leifsonia xyli subsp. xyli str. CTCB07]; NP_415716.1| PTS hybrid protein; putative PTS family enzyme I and HPr components [Escherichia coli K12]). , , pfam03610, EIIA-man, PTS system fructose IIA component (N-terminal). , pfam00381, PTS-HPr, PTS HPr component phosphorylation site (C-terminal)., COG1925,FruB, Phosphotransferase system, HPr-related proteins (C-terminal)., InterPro: Phosphocarrier HPr protein , EIIA-man: PTS system fructose subfamil; Conserved hypothetical protein
YP_001222570.1	putative dihydroxyacetone kinase (YP_061965.1| dihydroxyacetone kinase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_782355.1| dihydroxyacetone kinase [Clostridium tetani E88]) pfam02734, Dak2, DAK2 domain. This domain is the predicted phosphatase domain of the dihydroxyacetone kinase family. InterPro: Dak phosphatase domain; Function unclear
YP_001222571.1	with DhaL and DhaM forms dihydroxyacetone kinase, which is responsible for phosphorylating dihydroxyacetone; DhaK is the dihydroxyacetone binding subunit of the dihydroxyacetone kinase
YP_001222572.1	putative glycerol uptake facilitator protein, MIP family (YP_061539.1| glycerol uptake facilitator protein [Leifsonia xyli subsp. xyli str. CTCB07]; YP_056969.1| glycerol uptake facilitator protein [Propionibacterium acnes KPA171202]). cd00333, MIP, Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water,small neutral molecules, and ions out of and between cells. InterPro: MIP family.; High confidence in function and specificity
YP_001222573.1	putative glycerol kinase (ATP:glycerol 3-phosphotransferase) (YP_061540.1| glycerol kinase [Leifsonia xyli subsp. xyli str. CTCB07]; YP_056968.1| glycerol kinase 2 [Propionibacterium acnes KPA171202]). pfam00370, FGGY_N, FGGY family of carbohydrate kinases, N-terminal domain. pfam02782, FGGY_C, FGGY family of carbohydrate kinases, C-terminal domain.; High confidence in function and specificity
YP_001222574.1	conserved hypothetical protein (ZP_00106310.2| COG2135: Uncharacterized conserved protein [Nostoc punctiforme PCC 73102]; NP_824216.1| hypothetical protein SAV3040 [Streptomyces avermitilis MA-4680]). pfam02586,DUF159, Uncharacterised ACR, COG2135.
YP_001222575.1	Catalyzes the conversion of N-(5-phospho-D-ribosyl)-anthranilate and diphosphate to anthranilate and 5-phospho-alpha-D-ribose 1-diphosphate
YP_001222576.1	putative cytochrome c oxidase subunit III (YP_061962.1| cytochrome C oxidase subunit III [Leifsonia xyli subsp. xyli str. CTCB07]; AAS20084.1| cytochrome-c oxidase chain III [Arthrobacter aurescens]; T35533 cytochrome-c oxidase (EC 1.9.3.1) chain III - Streptomyces coelicolor). pfam00510, COX3, Cytochrome c oxidase subunit III.; Specificity unclear
YP_001222577.1	putative ubiquinol-cytochrome c reductase cytochrome c subunit (YP_061961.1| ubiquinol-cytochrome C reductase cytochrome C subunit [Leifsonia xyli subsp. xyli str. CTCB07]; NP_789452.1| cytochrome C heme-binding subunit [Tropheryma whipplei TW08/27]). pfam00034,Cytochrom_C, Cytochrome c (twice).; Specificity unclear
YP_001222578.1	putative menaquinol-cytochrome C reductase iron-sulfur subunit (Rieske iron- sulfur protein)(YP_061960.1| Rieske iron-sulphur component of ubiQ-cytB reductase [Leifsonia xyli subsp. xyli str. CTCB07]; AAO44345.1| ubiquinol-cytochrome c reductase iron-sulfur subunit [Tropheryma whipplei str. Twist]). pfam00355, Rieske,Rieske [2Fe-2S] domain. The rieske domain has a [2Fe-2S] centre.; High confidence in function and specificity
YP_001222579.1	putative menaquinol-cytochrome c reductase cytochrome B subunit (YP_061959.1| ubiquinol-cytochrome C reductase cytochrome B subunit [Leifsonia xyli subsp. xyli str. CTCB07]; AAO44346.1| ubiquinol- cytochrome c reductase cytochrome b subunit [Tropheryma whipplei str. Twist]).; High confidence in function and specificity
YP_001222580.1	putative rRNA methylase involved in antibiotic resistance (AAD12162.1| tylosin resistance protein [Streptomyces fradiae]; MYRA_MICGR MYCINAMICIN-RESISTANCE PROTEIN MYRA [Micromonospora griseorubida]). assignment unsure, also weak similarity to COG2226, UbiE, Methylase involved in ubiquinone/menaquinone biosynthesis. hemK_rel_arch: methylase putative pfam01209,Ubie_methyltran, ubiE/COQ5 methyltransferase family (weak similarity).; Function unclear
YP_001222581.1	putative acetyltransferase (YP_002588.1| acetyltransferase [Leptospira interrogans serovar Copenhageni str. Fiocruz L1-130]; YP_048936.1| putative GNAT-family acetyltransferase [Erwinia carotovora subsp. atroseptica SCRI1043]). pfam00583, Acetyltransf_1,Acetyltransferase (GNAT) family. InterPro: GCN5-related N-acetyltransferase.; Function unclear
YP_001222582.1	conserved membrane protein (NP_301662.1| putative membrane protein [Mycobacterium leprae TN]; NP_626410.1| putative integral membrane protein [Streptomyces coelicolor A3(2)]). s1: malonate transporter MadL subunit; Conserved hypothetical protein
YP_001222583.1	putative cytochrome c oxidase subunit I (NP_827224.1| putative cytochrome c oxidase subunit I [Streptomyces avermitilis MA-4680]; ZP_00293766.1| COG0843: Heme/copper-type cytochrome/quinol oxidases,subunit 1 [Thermobifida fusca]). pfam00115, COX1,Cytochrome C and Quinol oxidase polypeptide I. InterPro: Cytochrome c oxidase subunit I.; High confidence in function and specificity
YP_001222584.1	putative cytochrome c oxidase subunit II (Cytochrome AA3 subunit 2)(YP_062418.1| cytochrome C oxidase subunit II [Leifsonia xyli subsp. xyli str. CTCB07]; NP_787371.1| cytochrome c oxidase subunit II [Tropheryma whipplei str. Twist]). pfam00116, COX2,Cytochrome C oxidase subunit II, periplasmic domain. InterPro: Cytochrome c oxidase subunit II.; High confidence in function and specificity
YP_001222585.1	conserved hypothetical protein (YP_062419.1| Hypothetical protein Lxx15060 [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00354123.1| COG0316: Uncharacterized conserved protein [Kineococcus radiotolerans SRS30216]). pfam01521, HesB, HesB-like domain. InterPro: Hypothetical hesB/yadR/yfhF family TIGR00049: HesB/YadR/YfhF family protein
YP_001222586.1	putative metallopeptidase (YP_062420.1| peptidase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_961264.1| hypothetical protein MAP2330c [Mycobacterium avium subsp. paratuberculosis str. k10]). pfam01546, Peptidase_M20,Peptidase family M20/M25/M40. This family includes a range of zinc metallopeptidases belonging to several families in the peptidase classification. InterPro: Peptidase family M20/M25/M40; Family membership
YP_001222587.1	putative membrane protein (YP_062421.1| Hypothetical protein Lxx15070 [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00048249.2| hypothetical protein Magn021181 [Magnetospirillum magnetotacticum]; NP_626422.1| putative integral membrane protein [Streptomyces coelicolor A3(2)]).; Conserved hypothetical protein
YP_001222588.1	catalyzes the conversion of dihydroorotate to orotate in the pyrimidine biosynthesis pathway; uses a flavin nucleotide as an essential cofactor; class 2 enzymes are monomeric and compared to the class 1 class 2 possess an extended N terminus, which plays a role in the membrane association of the enzyme and provides the binding site for the respiratory quinones that serve as physiological electron acceptors
YP_001222589.1	putative transcriptional regulator (YP_062424.1| Hypothetical protein Lxx15110 [Leifsonia xyli subsp. xyli str. CTCB07]; CAE52895.1| regulatory protein [Streptomyces jumonjinensis]; NRDR_STRCL Putative regulatory protein nrdR). pfam03477, ATP-cone, ATP cone domain.; Function unclear
YP_001222590.1	catalyzes the oxidation of L-histidinol to L-histidinaldehyde and then to L-histidine in histidine biosynthesis; functions as a dimer
YP_001222591.1	putative flavin-dependent reductase/monooxygenase (YP_062426.1| flavin-dependent reductase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_625377.1| putative flavin-dependent reductase [Streptomyces coelicolor A3(2)]; AAS77584.1| NADH-dependent FMN oxydoreductase [Rhodococcus sp. XP]). pfam01613, Flavin_Reduct, Flavin reductase like domain. This is a flavin reductase family consisting of enzymes known to be flavin reductases as well as various oxidoreductase and monooxygenase components. InterPro: Flavin reductase-like domain.; Function unclear
YP_001222592.1	dnaE2; catalyzes DNA-template-directed extension of the 3'- end of a DNA strand by one nucleotide at a time; main replicative polymerase
YP_001222593.1	putative 23S rRNa-specific pseudouridine synthase (YP_062428.1| ribosomal large subunit pseudouridine synthase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_827309.1| putative ribosomal large subunit pseudouridine synthase [Streptomyces avermitilis MA-4680]). pfam01479, S4, S4 domain. pfam00849,PseudoU_synth_2, RNA pseudouridylate synthase. Members of this family are involved in modifying bases in RNA molecules.; Specificity unclear
YP_001222594.1	putative cell division initiation protein (YP_062430.1| cell division initiation protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_789188.1| putative cell division protein [Tropheryma whipplei TW08/27]; ZP_00226844.1| COG3599: Cell division initiation protein [Kineococcus radiotolerans SRS30216]). pfam05103, DivIVA,DivIVA protein.; Function unclear
YP_001222595.1	conserved membrane protein (YP_062431.1| Hypothetical protein Lxx15200 [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00291776.1| COG0762: Predicted integral membrane protein [Thermobifida fusca]).; Conserved hypothetical protein
YP_001222596.1	conserved hypothetical protein (AAT89327.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00209988.1| COG1799: Uncharacterized protein conserved in bacteria [Magnetospirillum magnetotacticum MS-1]). pfam04472, DUF552, Protein of unknown function (DUF552). Family of uncharacterized proteins. cynS: cyanate lyase
YP_001222597.1	conserved hypothetical protein (ZP_00291774.1| COG0325: Predicted enzyme with a TIM-barrel fold [Thermobifida fusca]; NP_827302.1| hypothetical protein SAV6126 [Streptomyces avermitilis MA-4680]). InterPro: Uncharacterized pyridoxal-5-phosphate dependent enzyme family UPF0001.
YP_001222598.1	GTPase; similar structure to tubulin; forms ring-shaped polymers at the site of cell division; other proteins such as FtsA, ZipA, and ZapA, interact with and regulate FtsZ function
YP_001222599.1	putative cell division protein (NP_787358.1| cell division protein FtsQ [Tropheryma whipplei str. Twist]; ZP_00050269.2| COG1589: Cell division septal protein [Magnetospirillum magnetotacticum]). pfam03799, FtsQ, Cell division protein FtsQ.; Function unclear
YP_001222600.1	putative UDP-N-acetylmuramate-alanine ligase (UDP-N- acetylmuramoyl- L-alanine synthetase) (YP_062436.1| UDP-N-acetylmuramate-alanine ligase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_789469.1| UDP-N-acetylmuramate--alanine ligase [Tropheryma whipplei TW08/27]). pfam01225,Mur_ligase, Mur ligase family, catalytic domain. This family contains a number of related ligase enzymes which have EC numbers 6.3.2.*. pfam02875, Mur_ligase_C, Mur ligase family, glutamate ligase domain. InterPro: Cytoplasmic peptidoglycan synthetases N-terminal.; High confidence in function and specificity
YP_001222601.1	UDP-N-acetylglucosamine--N-acetylmuramyl- (pentapeptide) pyrophosphoryl-undecaprenol N-acetylglucosamine transferase; involved in cell wall formation; inner membrane-associated; last step of peptidoglycan synthesis
YP_001222602.1	putative cell division membrane protein (YP_062438.1| cell division protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_827297.1| putative cell division protein FtsW [Streptomyces avermitilis MA-4680]). pfam01098, FTSW_RODA_SPOVE, Cell cycle protein. InterPro: Cell cycle proteins.; High confidence in function and specificity
YP_001222603.1	UDP-N-acetylmuramoylalanine--D-glutamate ligase; involved in peptidoglycan biosynthesis; cytoplasmic; catalyzes the addition of glutamate to the nucleotide precursor UDP-N-acetylmuramoyl-L-alanine during cell wall formation
YP_001222604.1	First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan
YP_001222605.1	putative UDP-N-acetylmuramoyl-tripeptide-D-alanyl-D-alanine ligase (UDP-MurNAc-pentapeptide synthetase) (D-alanyl-D- alanine-adding enzyme)(YP_062441.1| UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate-D-alanyl-alanyl ligase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_626347.1| putative UDP-N-acetylmuramoylalanyl- D-glutamyl-2,6-diaminopimelate-D-alanyl-alanyl ligase [Streptomyces coelicolor A3(2)]). Involved in cell wall formation. Catalyzes the final step in the synthesis of UDP-N-acetylmuramoyl-pentapeptide the precursor of murein (By similarity). pfam01225, Mur_ligase, Mur ligase family,catalytic domain. pfam02875, Mur_ligase_C, Mur ligase family, glutamate ligase domain.; High confidence in function and specificity
YP_001222606.1	putative UDP-N-acetylmuramoylalanyl-D-glutamate-2,6-diaminopimelate ligase (UDP-N-acetylmuramyl-tripeptide synthetase)(UDP-MurNAc-tripeptide synthetase) (YP_062442.1| UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase [Leifsonia xyli subsp. xyli str. CTCB07]; Q82AE1|MURE_STRAW UDP-N-acetylmuramoylalanyl-D-glutamate- 2,6-diaminopimelate ligase (UDP-N-acetylmuramyl-tripeptide synthetase)). Cell wall formation. Diaminopimelic acid adding enzyme (By similarity). pfam01225, Mur_ligase, Mur ligase family, catalytic domain. pfam02875, Mur_ligase_C, Mur ligase family,glutamate ligase domain. InterPro: Cytoplasmic peptidoglycan synthetases N-terminal.; Specificity unclear
YP_001222607.1	putative peptidoglycan glycosyltransferase/penicillin-binding protein (Peptidoglycan glycosyltransferase 3) (Penicillin-binding protein 3) (YP_062443.1| penicillin binding protein,transpeptidase domain [Leifsonia xyli subsp. xyli str. CTCB07]; NP_789476.1| penicillin-binding protein [Tropheryma whipplei TW08/27]). Cell wall formation. Essential for the formation of a septum of the murein sacculus. Synthesis of cross-linked peptidoglycan from the lipid intermediates. pfam03717, PBP_dimer, Penicillin-binding Protein dimerisation domain. This domain is found at the N terminus of Class B High Molecular Weight Penicillin-Binding Proteins. pfam00905, Transpeptidase,Penicillin binding protein transpeptidase domain. InterPro: Penicillin binding protein transpeptidase domain; High confidence in function and specificity
YP_001222608.1	conserved hypothetical protein (YP_062444.1| Hypothetical protein Lxx15330 [Leifsonia xyli subsp. xyli str. CTCB07]; NP_626350.1| putative membrane protein [Streptomyces coelicolor A3(2)]).
YP_001222609.1	putative S-adenosyl-methyltransferase (YP_062445.1| S-adenosyl- methyltransferase [Leifsonia xyli subsp. xyli str. CTCB07]; Q9S2W4|MRAW_STRCO S-adenosyl-methyltransferase mraW). pfam01795, Methyltransf_5, MraW methylase family. Members of this family are probably SAM dependent methyltransferases. InterPro: Methyltransferase family; Function unclear
YP_001222610.1	MraZ; UPF0040; crystal structure shows similarity to AbrB
YP_001222611.1	conserved membrane protein (YP_062447.1| membrane protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_789481.1| putative membrane protein [Tropheryma whipplei TW08/27]; ZP_00057748.1| hypothetical protein [Thermobifida fusca]).; Conserved hypothetical protein
YP_001222612.1	putative geranylgeranyl pyrophosphate synthetase (GGPP synthetase) [Includes: Dimethylallyltransferase (EC 2.5.1.1); Geranyltranstransferase (EC 2.5.1.10); Farnesyltranstransferase (EC 2.5.1.29)] (YP_062448.1| geranylgeranyl pyrophosphate synthase [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00225235.1| COG0142: Geranylgeranyl pyrophosphate synthase [Kineococcus radiotolerans SRS30216]). pfam00348, polyprenyl_synt,Polyprenyl synthetase. InterPro: Polyprenyl synthetase.; Specificity unclear
YP_001222613.1	conserved hypothetical protein, putative transcriptional regulator (YP_062449.1| Hypothetical protein Lxx15380 [Leifsonia xyli subsp. xyli str. CTCB07]; NP_733557.1| putative transcriptional regulatory protein [Streptomyces coelicolor A3(2)]; ZP_00056758.1| hypothetical protein [Thermobifida fusca]).
YP_001222614.1	conserved hypothetical protein potentially involved in cell wall degradation (YP_062450.1| lipoprotein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_630954.1| putative secreted protein [Streptomyces coelicolor A3(2)]; NP_765874.1| autolysin (N-acetylmuramoyl-L-alanine amidase [Staphylococcus epidermidis ATCC 12228]). three LysM motifs are present: pfam01476, LysM, LysM domain. The LysM (lysin motif) domain is about 40 residues long. It is found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function. InterPro: LysM motif pfam01476, LysM, LysM domain. The LysM (lysin motif) domain is about 40 residues long. It is found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function. The structure of this domain is known.; Function unclear
YP_001222615.1	putative eukaryotic-type serine/threonine protein kinase (YP_062451.1| serine/threonine kinase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_787344.1| serine/threonine-protein kinase [Tropheryma whipplei str. Twist]; NP_827268.1| putative eukaryotic-type serine/threonine protein kinase [Streptomyces avermitilis MA-4680]). pfam00069, Pkinase, Protein kinase domain. pfam03793, PASTA, PASTA domain. This domain is found at the C termini of several Penicillin-binding proteins and bacterial serine/threonine kinases (thrice). InterPro: Eukaryotic protein kinase smart00220, S_TKc,Serine/Threonine protein kinases, catalytic domain; Phosphotransferases. Serine or threonine-specific kinase subfamily. pfam00069, Pkinase, Protein kinase domain.; Specificity unclear
YP_001222616.1	putative phospho-2-dehydro-3-deoxyheptonate aldolase (Phospho-2- keto-3-deoxyheptonate aldolase) (YP_062452.1| 2-dehydro- 3-deoxyphosphoheptonate aldolase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_827262.1| putative 2-dehydro-3-deoxyphosphoheptonate aldolase [Streptomyces avermitilis MA-4680]). pfam01474,DAHP_synth_2, Class-II DAHP synthetase family. Members of this family are aldolase enzymes that catalyse the first step of the shikimate pathway.; High confidence in function and specificity
YP_001222617.1	putative 1-acyl-sn-glycerol-3-phosphate acyltransferase (Lysophosphatidic acid acyltransferase) (YP_062453.1| 1-acylglycerol- 3-phosphate O-acyltransferase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_827256.1| putative 1-acylglycerol-3-phosphate O-acyltransferase [Streptomyces avermitilis MA-4680]). ,pfam01553, Acyltransferase, Acyltransferase.; High confidence in function and specificity
YP_001222618.1	putative glucokinase, putative catabolite repressor (EC 2.7.1.2) (Glucose kinase) (NP_823156.1| putative sugar kinase [Streptomyces avermitilis MA-4680]; P40184|GLK_STRCO Glucokinase (Glucose kinase); NP_787341.1| glucokinase [Tropheryma whipplei str. Twist]). , REQUIRED FOR GLUCOSE REPRESSION OF MANY DIFFERENT GENES. , pfam00480, ROK, ROK family.; High confidence in function and specificity
YP_001222619.1	putative long-chain-fatty-acid-CoA ligase (Long-chain acyl-CoA synthetase) (YP_062455.1| long-chain-fatty-acid-CoA ligase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_827245.1| putative acyl-CoA synthetase, long-chain-fatty-acid:CoA ligase [Streptomyces avermitilis MA-4680]). pfam00501, AMP-binding, AMP-binding enzyme. InterPro: AMP-dependent synthetase and ligase; Specificity unclear
YP_001222620.1	putative polypeptide deformylase 2 (Polypeptide deformylase 2)(YP_062456.1| polypeptide deformylase [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00293948.1| COG0242: N-formylmethionyl-tRNA deformylase [Thermobifida fusca]). Removes the formyl group from the N-terminal Met of newly synthesized proteins. Requires at least a dipeptide for an efficient rate of reaction. N-terminal L-methionine is a prerequisite for activity but the enzyme has broad specificity at other positions. pfam01327,Pep_deformylase, Polypeptide deformylase. pept_deformyl: polypeptide deformylase; High confidence in function and specificity
YP_001222621.1	putative oxidoreductase (; AAO44726.1| pyridine nucleotide- disulphide oxidoreductase class I [Tropheryma whipplei str. Twist]). pfam00070, Pyr_redox, Pyridine nucleotide-disulphide oxidoreductase. This family includes both class I and class II oxidoreductases and also NADH oxidases and peroxidases. 23387, pfam02852, Pyr_redox_dim,Pyridine nucleotide-disulphide oxidoreductase,dimerisation domain.; Function unclear
YP_001222622.1	biotin-containing enzyme that catalyzes a two step carboxylation of pyruvate to oxaloacetate
YP_001222623.1	putative ATPase (YP_062459.1| plasmid partitioning protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_787759.1| putative plasmid partitioning protein [Tropheryma whipplei str. Twist]). InterPro: ParA family ATPase; Family membership
YP_001222624.1	putative transcriptional regulator, MerR family (YP_062460.1| Hypothetical protein Lxx15490 [Leifsonia xyli subsp. xyli str. CTCB07]; YP_055792.1| predicted transcriptional regulator [Propionibacterium acnes KPA171202]). pfam00376, MerR, MerR family regulatory protein. InterPro: Bacterial regulatory proteins MerR family.; Specificity unclear
YP_001222625.1	putative transcriptional regulator, MerR family (YP_062461.1| Hypothetical protein Lxx15500 [Leifsonia xyli subsp. xyli str. CTCB07]; NP_828158.1| hypothetical protein SAV6982 [Streptomyces avermitilis MA-4680]). pfam00376, MerR, MerR family regulatory protein. InterPro: Bacterial regulatory proteins MerR family.; Specificity unclear
YP_001222626.1	putative transcriptional regulator with FHA domain (YP_062462.1| Hypothetical protein Lxx15500 [Leifsonia xyli subsp. xyli str. CTCB07]; CAD67203.1| conserved hypothetical protein [Tropheryma whipplei TW08/27]; AAF07901.1| putative signal transduction protein GarA [Mycobacterium smegmatis]). InterPro: Forkhead-associated (FHA) domain; Function unclear
YP_001222627.1	putative Na+/H+-dicarboxylate symporter, DAACS family (NP_823991.1| putative sodium:dicarboxylate symporter [Streptomyces avermitilis MA-4680]; NP_601793.1| Na+/H+-dicarboxylate symporter [Corynebacterium glutamicum ATCC 13032]). pfam00375, SDF,Sodium:dicarboxylate symporter family.; Specificity unclear
YP_001222628.1	putative two-component system sensor kinase (NP_629573.1| putative two-component sensor kinase [Streptomyces coelicolor A3(2)]; Q9RC53|CITS_BACHD Sensor protein citS). pfam00989, PAS, PAS domain. pfam02518,HATPase_c, Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase. InterPro: Histidine kinase C-terminal sensory_box: PAS domain S-box; Specificity unclear
YP_001222629.1	putative two-component system response regulator (NP_629572.1| putative two-component response regulator [Streptomyces coelicolor A3(2)]; ZP_00198993.1| COG4565: Response regulator of citrate/malate metabolism [Kineococcus radiotolerans SRS30216]). cd00156, REC,Signal receiver domain. InterPro: Response regulator receiver domain; Specificity unclear
YP_001222630.1	putative zinc metalloprotease, family M4 (Q99132|PRT1_ERWCA Extracellular metalloprotease precursor; NP_626768.1| putative metalloprotease. [Streptomyces coelicolor A3(2)]). pfam02868,Peptidase_M4_C, Thermolysin metallopeptidase, alpha-helical domain. pfam01447, Peptidase_M4, Thermolysin metallopeptidase, catalytic domain. InterPro: Thermolysin metalloprotease (M4) family; Specificity unclear
YP_001222631.1	hypothetical protein (ZP_00413008.1| hypothetical protein ArthDRAFT_1891 [Arthrobacter sp. FB24]).
YP_001222632.1	conserved hypothetical protein (YP_061831.1| Hypothetical protein Lxx08190 [Leifsonia xyli subsp. xyli str. CTCB07]; NP_216549.1| hypothetical protein Rv2033c [Mycobacterium tuberculosis H37Rv]; ZP_00227509.1| hypothetical protein Krad06003896 [Kineococcus radiotolerans SRS30216]).
YP_001222633.1	putative transcriptional regulator, LacI family (CAB07149.1| TRANSCRIPTIONAL REGULATORY PROTEIN (PROBABLY LACI-FAMILY) [Mycobacterium tuberculosis H37Rv]; NP_940300.1| Putative LacI-family transcriptional regulator [Corynebacterium diphtheriae NCTC 13129]). pfam00532, Peripla_BP_1, Periplasmic binding proteins and sugar binding domain of the LacI family. smart00354,HTH_LACI, helix_turn _helix lactose operon repressor; Specificity unclear
YP_001222634.1	putative polyamine ABC transporter, substrate binding protein (NP_627660.1| putative secreted protein [Streptomyces coelicolor A3(2)]; ZP_00130059.1| COG4134: ABC-type uncharacterized transport system, periplasmic component [Desulfovibrio desulfuricans G20]). pfam01547,SBP_bac_1, Bacterial extracellular solute-binding protein. InterPro: Bacterial extracellular solute-binding protein family 1.; Specificity unclear
YP_001222635.1	putative polyamine ABC transporter, permease component (NP_827155.1| putative maltose permease [Streptomyces avermitilis MA-4680]; |NP_831069.1| Spermidine/putrescine transport system permease protein potB [Bacillus cereus ATCC 14579]). pfam00528,BPD_transp_1, Binding-protein-dependent transport system inner membrane component.; Specificity unclear
YP_001222636.1	putative polyamine ABC transporter, permease component (CAG77144.1| ABC transporter permease protein [Erwinia carotovora subsp. atroseptica SCRI1043]; ZP_00126942.1| COG1177: ABC-type spermidine/putrescine transport system, permease component II [Pseudomonas syringae pv. syringae B728a]). pfam00528, BPD_transp_1,Binding-protein-dependent transport system inner membrane component.; Specificity unclear
YP_001222637.1	putative polyamine ABC transporter, ATPase component (NP_579699.1| putative multiple sugar-binding transport ATP-binding protein [Pyrococcus furiosus DSM 3638]; ZP_00089377.1| COG3842: ABC-type spermidine/putrescine transport systems, ATPase components [Azotobacter vinelandii]). InterPro: AAA ATPase superfamily pfam00005, ABC_tran, ABC transporter.; Specificity unclear
YP_001222638.1	two-domain protein (Glycerophosphoryl diester phosphodiesterase, Inositol monophosphatase). N-terminal: COG0584, UgpQ, Glycerophosphoryl diester phosphodiesterase, pfam03009, GDPD, Glycerophosphoryl diester phosphodiesterase family (NP_823772.1| putative glycerophosphoryl diester phosphodiesterase [Streptomyces avermitilis MA-4680]; NP_622644.1| Glycerophosphoryl diester phosphodiesterase [Thermoanaerobacter tengcongensis]). C-terminal: COG0483, SuhB, Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family; pfam00459, Inositol_P,Inositol monophosphatase family (NP_699895.1| inositol monophosphatase family protein [Brucella suis 1330]; P44333|SUHB_HAEIN Inositol-1-monophosphatase (IMPase) (Inositol-1-phosphatase) (I-1-Pase)). Inositol-1-monophosphatase (EC 3.1.3.25) (IMPase) (Inositol-1-phosphatase) (I-1-Pase). InterPro: Inositol monophosphatase; High confidence in function and specificity
YP_001222641.1	putative Zinc-dependant dehydrogenase (NP_962452.1| hypothetical protein MAP3518c [Mycobacterium avium subsp. paratuberculosis str. k10]; NP_733654.1| putative oxidoreductase [Streptomyces coelicolor A3(2)]). InterPro: Zinc-containing alcohol dehydrogenase superfamily pfam00107, ADH_zinc_N, Zinc-binding dehydrogenase.; Function unclear
YP_001222642.1	conserved membrane protein (NP_832507.1| Integral membrane protein [Bacillus cereus ATCC 14579]; ZP_00227256.1| COG2324: Predicted membrane protein [Kineococcus radiotolerans SRS30216]).; Conserved hypothetical protein
YP_001222644.1	putative amine oxidase (NP_746273.1| conserved hypothetical protein [Pseudomonas putida KT2440]; ZP_00225945.1| COG1231: Monoamine oxidase [Kineococcus radiotolerans SRS30216]). , pfam01593, Amino_oxidase,Flavin containing amine oxidoreductase.; Function unclear
YP_001222645.1	putative RNA-binding heat shock protein (NP_626252.1| hypothetical protein [Streptomyces coelicolor A3(2)]; NP_601324.1| ribosome- associated heat shock protein [Corynebacterium glutamicum ATCC 13032]). smart00363, S4, S4 RNA-binding domain; Function unclear
YP_001222646.1	conserved hypothetical protein (ZP_00227630.1| hypothetical protein Krad06003512 [Kineococcus radiotolerans SRS30216]; NP_939566.1| Conserved hypothetical protein [Corynebacterium diphtheriae NCTC 13129]).
YP_001222650.1	putative chaperone (ZP_00041700.1| COG2214: DnaJ-class molecular chaperone [Xylella fastidiosa Ann-1]; NP_111006.1| Molecular chaperone (DnaJ-related) [Thermoplasma volcanium GSS1]). InterPro: DnaJ N-terminal domain pfam00226, DnaJ, DnaJ domain.; Family membership
YP_001222651.1	putative UDP-glucose-4-epimerase (NP_302449.1| probable UDP-glucose-4-epimerase [Mycobacterium leprae TN]; NP_630132.1| conserved hypothetical protein SC1C3.09 [Streptomyces coelicolor A3(2)]).; Function unclear
YP_001222653.1	putative dehydrogenase (NP_772800.1| blr6160 [Bradyrhizobium japonicum]; ZP_00228758.1| COG1319: Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Kineococcus radiotolerans SRS30216]). pfam00941, FAD_binding_5, FAD binding domain in molybdopterin dehydrogenase.; Function unclear
YP_001222654.1	putative dehydrogenase (ZP_00228757.1| COG1529: Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Kineococcus radiotolerans SRS30216]; NP_772801.1| blr6161 [Bradyrhizobium japonicum]). N-terminal: COG2080, CoxS, Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs; pfam01799, Fer2_2, [2Fe-2S] binding domain. C-terminal: COG1529, CoxL, Aerobic-type carbon monoxide dehydrogenase,large subunit CoxL/CutL homologs; pfam01315, Ald_Xan_dh_C,Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain.; pfam02738, Ald_Xan_dh_C2, Aldehyde oxidase and xanthine dehydrogenase, molybdopterin binding domain (; Function unclear
YP_001222655.1	putative amino acid permease, APC family (NP_336518.1| amino acid permease [Mycobacterium tuberculosis CDC1551]; NP_628774.1| putative amino acid transporter [Streptomyces coelicolor A3(2)]). InterPro: Amino acid permease pfam00324, AA_permease, Amino acid permease.; Specificity unclear
YP_001222656.1	conserved hypothetical protein (NP_823241.1| hypothetical protein SAV2065 [Streptomyces avermitilis MA-4680]; CAD47932.1| putative carbon monoxide dehydrogenase subunit F [Arthrobacter nicotinovorans]).; Function unclear
YP_001222659.1	putative guanine deaminase (Guanine aminohydrolase) (NP_746397.1| guanine aminohydrolase [Pseudomonas putida KT2440]; P76641|GUAD_ECOLI Guanine deaminase (Guanase) (Guanine aminase) (Guanine aminohydrolase) (GAH)). pfam01979, Amidohydro_1, Amidohydrolase family. This family of enzymes are a a large metal dependent hydrolase superfamily.; Specificity unclear
YP_001222660.1	putative membrane-associated acid phosphatase (ZP_00107252.1| COG0671: Membrane-associated phospholipid phosphatase [Nostoc punctiforme]; ZP_00052741.2| COG0671: Membrane-associated phospholipid phosphatase [Magnetospirillum magnetotacticum]). InterPro: PA-phosphatase related phosphoesterase smart00014, acidPPc,Acid phosphatase homologues pfam01569, PAP2, PAP2 superfamily.; Family membership
YP_001222662.1	conserved hypothetical protein (ZP_00228764.1| COG2068: Uncharacterized MobA-related protein [Kineococcus radiotolerans SRS30216]; NP_630344.1| conserved hypothetical protein [Streptomyces coelicolor A3(2)]).; Function unclear
YP_001222664.1	conserved hypothetical protein (ZP_00294077.1| COG0822: NifU homolog involved in Fe-S cluster formation [Thermobifida fusca]; NP_816042.1| NifU family protein [Enterococcus faecalis V583]). pfam01592, NifU_N, NifU-like N terminal domain. This domain is found in NifU in combination with pfam01106. This domain is found on isolated proteins in several bacterial species.; Function unclear
YP_001222665.1	putative gamma-glutamyltranspeptidase (ZP_00227294.1| COG0405: Gamma-glutamyltransferase [Kineococcus radiotolerans SRS30216]; NP_630062.1| putative transferase [Streptomyces coelicolor A3(2)]). g_glut_trans: gamma-glutamyltranspepti; High confidence in function and specificity
YP_001222666.1	putative efflux MFS permease (NP_824729.1| putative integral membrane transport protein [Streptomyces avermitilis MA-4680]; ZP_00186259.2| COG0477: Permeases of the major facilitator superfamily [Rubrobacter xylanophilus DSM 9941]). pfam00083, Sugar_tr, Sugar (and other) transporter. InterPro: General substrate transporters; Specificity unclear
YP_001222667.1	putative monooxygenase (NP_772138.1| blr5498 [Bradyrhizobium japonicum USDA 110]; ZP_00007886.1| COG2141: Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Rhodobacter sphaeroides]). pfam00296, Bac_luciferase, Luciferase-like monooxygenase.; Function unclear
YP_001222668.1	putative esterase (ZP_00220463.1| COG2755: Lysophospholipase L1 and related esterases [Burkholderia cepacia R1808]; NP_104793.1| hypothetical protein mlr3756 [Mesorhizobium loti MAFF303099]).; Function unclear
YP_001222669.1	putative sugar kinase (ZP_00292020.1| COG0063: Predicted sugar kinase [Thermobifida fusca]; NP_771587.1| bll4947 [Bradyrhizobium japonicum]). pfam03853, YjeF_N,YjeF-related protein N-terminus.; Function unclear
YP_001222670.1	Hypothetical protein
YP_001222671.1	putative Zinc-dependant quinone oxidoreductase (NADPH:quinone reductase) (ZP_00190206.2| COG0604: NADPH:quinone reductase and related Zn-dependent oxidoreductases [Kineococcus radiotolerans SRS30216]; NP_898787.1| putative quinone oxidoreductase [Rhodococcus erythropolis]). pfam00107, ADH_zinc_N, Zinc-binding dehydrogenase. InterPro: Zinc-containing alcohol dehydrogenase superfamily.; High confidence in function and specificity
YP_001222672.1	conserved hypothetical protein (ZP_00121600.2| COG1574: Predicted metal-dependent hydrolase with the TIM-barrel fold [Bifidobacterium longum DJO10A]; ZP_00225851.1| COG1574: Predicted metal-dependent hydrolase with the TIM-barrel fold [Kineococcus radiotolerans SRS30216]).; Function unclear
YP_001222673.1	putative transcriptional regulator (NP_845841.1| protease synthase and sporulation negative regulatory protein PAI 2 [Bacillus anthracis str. Ames]; ZP_00118684.1| COG2808: Transcriptional regulator [Cytophaga hutchinsonii]). pfam04299, Neg_reg, Negative transcriptional regulator. In Bacillus subtilis, family member PAI 2 is involved in the negative regulation of protease synthesis and sporulation.; Specificity unclear
YP_001222674.1	putative acyl-coenzyme A synthetase (ZP_00058202.1| COG0365: Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Thermobifida fusca]; NP_630298.1| putative acetyl-coenzyme A synthetase [Streptomyces coelicolor A3(2)]). InterPro: AMP-dependent synthetase and ligase pfam00501, AMP-binding, AMP-binding enzyme.; Specificity unclear
YP_001222675.1	putative arylesterase (ZP_00228881.1| COG0596: Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [Kineococcus radiotolerans SRS30216]; NP_832864.1| Arylesterase [Bacillus cereus ATCC 14579]). InterPro: Alpha/beta hydrolase fold pfam00561, Abhydrolase_1, alpha/beta hydrolase fold. This catalytic domain is found in a very wide range of enzymes.; Function unclear
YP_001222676.1	putative transcriptional regulator, LysR-family (AAN70636.1| transcriptional regulator, LysR family [Pseudomonas putida KT2440]; ZP_00091330.1| COG0583: Transcriptional regulator [Azotobacter vinelandii]). pfam00126, HTH_1, Bacterial regulatory helix-turn-helix protein, lysR family.; Hypothetical protein
YP_001222677.1	putative pyrophosphohydrolase (NP_939379.1| Putative NUDIX-family hydrolase [Corynebacterium diphtheriae NCTC 13129]; NP_765595.1| mutator protein mutT [Staphylococcus epidermidis ATCC 12228]). pfam00293,NUDIX, NUDIX domain. also high similarity to: COG1051, ADP-ribose pyrophosphatase; Family membership
YP_001222678.1	putative lipase (gb|AAA53485.1| lipase precursor [Streptomyces albus]; ZP_00228194.1| COG4188: Predicted dienelactone hydrolase [Kineococcus radiotolerans SRS30216]). InterPro: Esterase/lipase/thioesterase family active site pfam01738, DLH, Dienelactone hydrolase family.; Family membership
YP_001222679.1	putative membrane protein (CAA18059.1| PROBABLE CONSERVED TRANSMEMBRANE PROTEIN [Mycobacterium tuberculosis H37Rv]; ZP_00059568.1| COG2966: Uncharacterized conserved protein [Thermobifida fusca]). pfam06738, DUF1212, Protein of unknown function (DUF1212). This family represents a conserved region within a number of hypothetical proteins of unknown function found in eukaryotes, bacteria and archaea. Some family members are membrane proteins.; Family membership
YP_001222680.1	putative peptidase, family M20D (NP_739352.1| putative peptidase [Corynebacterium efficiens YS-314]; NP_628283.1| peptidase [Streptomyces coelicolor A3(2)]). ,pfam01546, Peptidase_M20, Peptidase family M20/M25/M40. This family includes a range of zinc metallopeptidases belonging to several families in the peptidase classification.; Specificity unclear
YP_001222681.1	putative transposase (NP_961542.1| hypothetical protein MAP2608 [Mycobacterium avium subsp. paratuberculosis str. k10]; NP_822059.1| putative transposase [Streptomyces avermitilis MA-4680])., ,pfam00665, rve, Integrase core domain. Integrase mediates integration of a DNA copy of the viral genome into the host chromosome.; Family membership
YP_001222682.1	putative transposase (NP_961542.1| hypothetical protein MAP2608 [Mycobacterium avium subsp. paratuberculosis str. k10]; NP_628857.1| putative insertion element IS1652 transposase [Streptomyces coelicolor A3(2)]).; Family membership
YP_001222683.1	conserved membrane protein (NP_737704.1| conserved hypothetical protein [Corynebacterium efficiens YS-314]; ZP_00209412.1| hypothetical protein Magn023696 [Magnetospirillum magnetotacticum]).
YP_001222684.1	conserved hypothetical protein, putative extracellular serine protease (NP_297821.1| hypothetical protein XF0531 [Xylella fastidiosa 9a5c]; NP_642686.1| conserved hypothetical protein [Xanthomonas axonopodis pv. citri str. 306]).; Function unclear
YP_001222687.1	putative acyl-CoA dehydrogenase (ZP_00140036.1| COG1960: Acyl-CoA dehydrogenases [Pseudomonas aeruginosa UCBPP-PA14]; ZP_00226266.1| COG1960: Acyl-CoA dehydrogenases [Kineococcus radiotolerans SRS30216]).; Function unclear
YP_001222688.1	putative oxidoreductase/monooxygenase (ZP_00228688.1| COG2141: Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Kineococcus radiotolerans SRS30216]; NP_794917.1| monooxygenase, DszA family [Pseudomonas syringae pv. tomato str. DC3000]).; Specificity unclear
YP_001222689.1	putative extracellular serine protease (NP_779168.1| conserved hypothetical protein [Xylella fastidiosa Temecula1]; ZP_00293497.1| COG3591: V8-like Glu-specific endopeptidase [Thermobifida fusca]).; Function unclear
YP_001222690.1	putative extracellular serine protease (NP_297821.1| hypothetical protein XF0531 [Xylella fastidiosa 9a5c]; NP_298723.1| hypothetical protein XF1434 [Xylella fastidiosa 9a5c]).; Conserved hypothetical protein
YP_001222691.1	putative shikimate MFS permease (ZP_00186986.1| COG0477: Permeases of the major facilitator superfamily [Rubrobacter xylanophilus DSM 9941]; NP_625306.1| putative integral membrane transport protein [Streptomyces coelicolor A3(2)]; NP_756685.1| Shikimate transporter [Escherichia coli CFT073]). InterPro: General substrate transporters pfam00083, Sugar_tr, Sugar (and other) transporter.; Specificity unclear
YP_001222692.1	putative choline dehydrogenase (AAS99880.1| choline oxidase [Arthrobacter globiformis]; NP_828122.1| putative GMC-family oxidoreductase [Streptomyces avermitilis MA-4680]). InterPro: Glucose-methanol-choline (GMC) oxidoreductase pfam00732, GMC_oxred_N, GMC oxidoreductase. This family of proteins bind FAD as a cofactor. pfam05199,GMC_oxred_C, GMC oxidoreductase. This domain found associated with pfam00732.; Specificity unclear
YP_001222693.1	putative betaine aldehyde dehydrogenase (EC 1.2.1.8) (NP_828124.1| putative betaine aldehyde dehydrogenase [Streptomyces avermitilis MA-4680]; NP_940508.1| betaine aldehyde dehydrogenase [Corynebacterium diphtheriae]). THIS IS A SOLUBLE NAD-DEPENDENT BETAINE ALDEHYDE-SPECIFIC DEHYDROGENASE. ESSENTIAL FOR THE UTILIZATION OF CHOLINE AS A PRECURSOR. InterPro: Aldehyde dehydrogenase family pfam00171, Aldedh,Aldehyde dehydrogenase family. This family of dehydrogenases act on aldehyde substrates. Members use NADP as a cofactor.; Specificity unclear
YP_001222694.1	high-affinity choline/glycine/betaine transport protein, BCCT family (CAG74648.1| high-affinity choline transport protein [Erwinia carotovora subsp. atroseptica SCRI1043]; NP_308387.1| high-affinity choline transport [Escherichia coli O157:H7]). High-affinity uptake of choline driven by a proton- motive force. InterPro: BCCT transporter pfam02028, BCCT, BCCT family transporter bcct: choline/carnitine/betaine transp; High confidence in function and specificity
YP_001222695.1	conserved hypothetical protein (ZP_00199506.1| hypothetical protein Krad06000279 [Kineococcus radiotolerans SRS30216]; NP_736786.1| hypothetical protein [Corynebacterium efficiens YS-314]).
YP_001222696.1	conserved hypothetical protein (ZP_00199507.1| COG4950: Uncharacterized protein conserved in bacteria [Kineococcus radiotolerans SRS30216]; NP_792620.1| alkylhydroperoxidase AhpD domain protein [Pseudomonas syringae pv. tomato str. DC3000]; NP_773540.1| bll6900 [Bradyrhizobium japonicum]). InterPro: Alkylhydroperoxidase AhpD family core domain ahpD_dom: alkylhydroperoxidase AhpD famil
YP_001222697.1	conserved hypothetical protein (ZP_00199507.1| COG4950: Uncharacterized protein conserved in bacteria [Kineococcus radiotolerans SRS30216]; NP_773541.1| bll6901 [Bradyrhizobium japonicum]). ahpD_dom: alkylhydroperoxidase AhpD fami; Function unclear
YP_001222698.1	putative monooxygenase (YP_048200.1| putative monooxygenase [Erwinia carotovora subsp. atroseptica SCRI1043]; NP_822331.1| putative monooxygenase [Streptomyces avermitilis MA-4680]). pfam00296,Bac_luciferase, Luciferase-like monooxygenase. InterPro: Bacterial luciferase weak similaritiy to pfam00296,Bac_luciferase, Luciferase-like monooxygenase.; Function unclear
YP_001222699.1	putative peptide ABC transporter, ATP-binding protein (two fused ATPase domains; NP_601634.1| ABC-type transporter, duplicated ATPase component [Corynebacterium glutamicum ATCC 13032]; NP_789094.1| putative ABC transporter ATP-binding subunit [Tropheryma whipplei TW08/27]). InterPro: AAA ATPase superfamily.; Specificity unclear
YP_001222700.1	putative peptide ABC transport system, permease component (YP_048202.1| ABC transporter permease protein [Erwinia carotovora subsp. atroseptica SCRI1043]; CAF21099.1| ABC-type dipeptide/oligopeptide/nickel transport systems, permease component [Corynebacterium glutamicum ATCC 13032]; NP_960023.1| hypothetical protein MAP1089 [Mycobacterium avium subsp. paratuberculosis str. k10]). pfam00528, BPD_transp_1, Binding-protein-dependent transport system inner membrane component. InterPro: Binding-protein-dependent transport systems inner membrane component.; Specificity unclear
YP_001222701.1	putative peptide ABC transporter, permease component (NP_738943.1| putative transport protein [Corynebacterium efficiens YS-314]; YP_048203.1| ABC transporter permease protein [Erwinia carotovora subsp. atroseptica SCRI1043]). pfam00528, BPD_transp_1, Binding-protein-dependent transport system inner membrane component.; Specificity unclear
YP_001222702.1	putative peptide ABC transporter, substrate-binding protein (CAF21101.1| ABC-type dipeptide/oligopeptide/nickel transport systems, secreted component [Corynebacterium glutamicum ATCC 13032]; YP_048204.1| ABC-type transporter, substrate binding protein [Erwinia carotovora subsp. atroseptica SCRI1043]; NP_960020.1| hypothetical protein MAP1086 [Mycobacterium avium subsp. paratuberculosis str. k10]). pfam00496,SBP_bac_5, Bacterial extracellular solute-binding proteins, family 5. InterPro: Bacterial extracellular solute-binding protein family 5.; Specificity unclear
YP_001222703.1	putative acetyltransferase (ZP_00191833.2| COG0454: Histone acetyltransferase HPA2 and related acetyltransferases [Kineococcus radiotolerans SRS30216]; ZP_00182088.2| COG0454: Histone acetyltransferase HPA2 and related acetyltransferases [Exiguobacterium sp. 255-15]). pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family. This family contains proteins with N-acetyltransferase functions.; Function unclear
YP_001222704.1	conserved membrane protein (ZP_00099616.1| COG4200: Uncharacterized protein conserved in bacteria [Desulfitobacterium hafniense]; CAB60257.1| MrsE protein [Bacillus sp. HIL-Y85/54728]; NP_721536.1| putative transporter, trans-membrane domain bacteriocin immunity protein [Streptococcus mutans UA159]). PUTATIVE MEMBRANE PROTEIN INVOLVED IN LANTIBIOTIC IMMUNITY; Function unclear
YP_001222705.1	conserved membrane protein (ZP_00099615.1| COG1277: ABC-type transport system involved in multi-copper enzyme maturation, permease component [Desulfitobacterium hafniense]; CAB60256.1| MrsG protein [Bacillus sp. HIL-Y85/54728]). PUTATIVELY INVOLVED IN IMMUNITY TO LANTIBIOTICS; Specificity unclear
YP_001222706.1	putative ABC transporter, ATP-binding protein (CAB60255.1| MrsF protein [Bacillus sp. HIL-Y85/54728]; ZP_00099614.1| COG1131: ABC-type multidrug transport system, ATPase component [Desulfitobacterium hafniense]). PUTATIVELY INVOLVED IN IMMUNITY TO LANTIBIOTIC. pfam00005,ABC_tran, ABC transporter. InterPro: AAA ATPase superfamily.; Specificity unclear
YP_001222707.1	putative two-component system, response regulator (NP_625929.1| putative two-component response regulator [Streptomyces coelicolor A3(2)]; ZP_00227053.1| COG2197: Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Kineococcus radiotolerans SRS30216]). PUTATIVELY INVOLVED IN BIOSYNTHESIS OF LANTIOTIC pfam00072, Response_reg, Response regulator receiver domain. pfam00196, GerE, Bacterial regulatory proteins, luxR family. InterPro: Response regulator receiver domain.; Specificity unclear
YP_001222708.1	putative two-component system, sensor kinase (NP_825857.1| putative two-component system sensor kinase [Streptomyces avermitilis MA-4680]; ZP_00228428.1| COG4585: Signal transduction histidine kinase [Kineococcus radiotolerans SRS30216]). PUTATIVELY INVOLVED IN BIOSYNTHESIS OF LANTIBIOTIC InterPro: Histidine kinase-DNA gyrase B- phytochrome-like ATPase.; Specificity unclear
YP_001222709.1	putative lantibiotic (clavicidin) precursor (LANA_ACTLG Lantibiotic actagardine (Gardimycin)). MAY INHIBIT PEPTIDOGLYCAN SYNTHESIS; Function unclear
YP_001222710.1	putative lantibiotic modifying protein (CAB60261.1| MrsM protein [Bacillus sp. HIL-Y85/54728]; CAD60521.1| CinM protein [Streptomyces cinnamoneus]). COULD BE IMPLICATED IN THE PROCESSING OR THE EXPORT PROCESS OF THE LANTIBIOTIC produced by Cmm_fin_1764. pfam05500, NisC,NisC-like family. Lantibiotics are peptide-derived, post-translationally modified antimicrobials produced by several bacterial strains.; Specificity unclear
YP_001222711.1	hypothetical protein containing PASTA domain pfam03793, PASTA, PASTA domain. This domain is found at the C termini of several Penicillin-binding proteins and bacterial serine/threonine kinases. It binds the beta-lactam stem, which implicates it in sensing D-alanyl-D-alanine - the PBP transpeptidase substrate. InterPro: Proline-rich region.; Family membership
YP_001222712.1	putative endonuclease (P50186|VSN1_NOCAE NaeI very-short-patch-repair endonuclease (V.NaeI); ZP_00149287.2| COG3727: DNA G:T-mismatch repair endonuclease [Methanococcoides burtonii DSM 6242]; ZP_00228987.1| COG3727: DNA G:T-mismatch repair endonuclease [Kineococcus radiotolerans SRS30216]). cd00221, Vsr, Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches. vsr: DNA mismatch endonuclease (vsr).; Specificity unclear
YP_001222714.1	hypothetical membrane protein (NP_789466.1| putative integral membrane protein [Tropheryma whipplei TW08/27]).; Hypothetical protein
YP_001222715.1	putative acyl-CoA dehydrogenase (ZP_00057322.1| COG1960: Acyl-CoA dehydrogenases [Thermobifida fusca]; XP_407376.1| hypothetical protein AN3239.2 [Aspergillus nidulans FGSC A4]; ZP_00226657.1| COG1960: Acyl-CoA dehydrogenases [Kineococcus radiotolerans SRS30216]).; Specificity unclear
YP_001222716.1	synchronizes cellular events by interacting with multiple targets with tandem G-domains; overexpression in Escherichia coli suppresses rrmJ mutation; structural analysis of the Thermotoga maritima ortholog shows different nucleotide binding affinities in the two binding domains
YP_001222717.1	putative cytidylate kinase (Cytidine monophosphate kinase) (YP_061643.1| cytidylate kinase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_827698.1| putative cytidylate kinase [Streptomyces avermitilis MA-4680]). pfam02224, Cytidylate_kin, Cytidylate kinase. InterPro: Cytidylate kinase.; High confidence in function and specificity
YP_001222718.1	catalyzes the formation of 4-hydroxyphenylpyruvate from prephenate
YP_001222719.1	putative pseudouridine synthase (YP_061641.1| RNA pseudouridine synthase [Leifsonia xyli subsp. xyli str. CTCB07]; YP_056094.1| ribosomal large subunit pseudouridine synthase B [Propionibacterium acnes KPA171202]). pfam01479, S4, S4 domain. pfam00849,PseudoU_synth_2, RNA pseudouridylate synthase. Members of this family are involved in modifying bases in RNA molecules.; Family membership
YP_001222720.1	conserved hypothetical protein, putative transcriptional regulator (YP_061640.1| Hypothetical protein Lxx05690 [Leifsonia xyli subsp. xyli str. CTCB07]; CAB52833.1| conserved hypothetical protein [Streptomyces coelicolor A3(2)]). pfam04079, DUF387,Putative transcriptional regulators (Ypuh-like). This family of conserved bacterial proteins are thought to possibly be helix-turn-helix type transcriptional regulators. potential Segregation and condensation protein B; Function unclear
YP_001222721.1	conserved hypothetical protein (YP_061639.1| Hypothetical protein Lxx05680 [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00057587.1| COG1354: Uncharacterized conserved protein [Thermobifida fusca]; NP_626041.1| conserved hypothetical protein [Streptomyces coelicolor A3(2)]). InterPro: DUF173 pfam02616, DUF173,Uncharacterised ACR, COG1354.; Function unclear
YP_001222722.1	putative ATPase involved in partitioning (YP_061638.1| chromosome partitioning protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_827684.1| putative partitioning or sporulation protein [Streptomyces avermitilis MA-4680]). pfam00991, ParA, ParA family ATPase. InterPro: ParA family ATPase; Function unclear
YP_001222723.1	site-specific tyrosine recombinase which cuts and rejoins DNA molecules; binds cooperatively to specific DNA consensus sites; forms a heterotetrameric complex with XerC; XerCD exhibit similar sequences; essential to convert chromosome dimers to monomers during cell division and functions during plasmid segregation; XerD specifically exchanges the bottom strands; cell division protein FtsK may regulate the XerCD complex; enzyme from Streptococcus group has unusual active site motifs
YP_001222724.1	putative NTP pyrophosphatase (YP_061636.1| NUDIX hydrolase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_827681.1| putative ADP-ribose pyrophosphatase [Streptomyces avermitilis MA-4680]). pfam00293, NUDIX,NUDIX domain.; Function unclear
YP_001222725.1	CTP synthase; cytidine triphosphate synthetase; catalyzes the ATP-dependent amination of UTP to CTP with either L-glutamine or ammonia as the source of nitrogen; in Escherichia coli this enzyme forms a homotetramer
YP_001222726.1	putative DNA repair protein (Recombination protein N) (YP_061634.1| DNA repair protein RecN [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00294027.1| COG0497: ATPase involved in DNA repair [Thermobifida fusca]). pfam02463,SMC_N, RecF/RecN/SMC N terminal domain. This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini,and two extended coiled-coil domains separated by a hinge in the middle. pfam02483, SMC_C, SMC family, C-terminal domain. recN: DNA repair protein RecN; High confidence in function and specificity
YP_001222727.1	catalyzes the phosphorylation of NAD to NADP
YP_001222728.1	putative rRNA methyltransferase (ZP_00294025.1| COG1189: Predicted rRNA methylase [Thermobifida fusca]; AAN24854.1| hemolysin-like protein with S4 domain found in bacteria and plants [Bifidobacterium longum NCC2705]). pfam01479, S4, S4 domain. Interpro: S4 domain. Interpro: Ribosomal RNA methyltransferase RrmJ/FtsJ.; Function unclear
YP_001222729.1	hypothetical protein (YP_061679.1| Hypothetical protein Lxx06150 [Leifsonia xyli subsp. xyli str. CTCB07]).
YP_001222730.1	conserved hypothetical protein, putative hydrolase (YP_061321.1| 4-nitrophenylphosphatase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_626059.1| hypothetical protein SCO1788 [Streptomyces coelicolor A3(2)]). pfam00702, Hydrolase, haloacid dehalogenase-like hydrolase.; Function unclear
YP_001222731.1	conserved hypothetical protein (ZP_00294017.1| COG0457: FOG: TPR repeat [Thermobifida fusca]; CAF21419.1| conserved hypothetical protein [Corynebacterium glutamicum ATCC 13032]).
YP_001222732.1	tyrosyl-tRNA synthetase (Tyrosine-tRNA ligase) (YP_061678.1| tyrosyl-tRNA synthetase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_827635.1| putative tyrosyl-tRNA synthetase [Streptomyces avermitilis MA-4680]). pfam00579, tRNA-synt_1b, tRNA synthetases class I (W and Y). pfam01479, S4, S4 domain.; High confidence in function and specificity
YP_001222733.1	conserved hypothetical protein, putative DNA-binding protein (YP_061677.1| Hypothetical protein Lxx06130 [Leifsonia xyli subsp. xyli str. CTCB07]; NP_939627.1| Putative DNA-binding protein [Corynebacterium diphtheriae NCTC 13129]).
YP_001222734.1	putative membrane protein (YP_061675.1| Hypothetical protein Lxx06110 [Leifsonia xyli subsp. xyli str. CTCB07]; NP_721449.1| conserved hypothetical protein, SatE [Streptococcus mutans UA159]).
YP_001222735.1	responsible for recognizing base lesions in the genome and initiating base excision DNA repair
YP_001222737.1	catalyzes the formation of arginine from (N-L-arginino)succinate
YP_001222738.1	catalyzes the formation of 2-N(omega)-(L-arginino)succinate from L-citrulline and L-aspartate in arginine biosynthesis, AMP-forming
YP_001222739.1	catalyzes the formation of L-citrulline from carbamoyl phosphate and L-ornithine in arginine biosynthesis and degradation
YP_001222740.1	catalyzes the formation of N-acetyl-l-glutamate 5-semialdehyde from 2-oxoglutarate and N(2)-acetyl-L-ornithine
YP_001222741.1	catalyzes the phosphorylation of N-acetyl-L-glutamate to form N-acetyl-L-glutamate 5-phosphate
YP_001222742.1	bifunctional arginine biosynthesis protein ArgJ; functions at the 1st and 5th steps in arginine biosynthesis; involved in synthesis of acetylglutamate from glutamate and acetyl-CoA and ornithine by transacetylation between acetylornithine and glutmate
YP_001222743.1	catalyzes the reduction of N-acetyl-5-glutamyl phosphate to N-acetyl-L-glutamate 5-semialdehyde in arginine biosynthesis and the reduction of N-acetyl-gamma-aminoadipyl-phosphate to N-acetyl-L-aminoadipate-semialdehyde in lysine biosynthesis; involved in both the arginine and lysine biosynthetic pathways; lysine is produced via the AAA pathway, lysine from alpha-aminoadipate
YP_001222744.1	catalyzes a two-step reaction, first charging a phenylalanine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; forms a tetramer of alpha(2)beta(2); binds two magnesium ions per tetramer; type 2 subfamily
YP_001222745.1	catalyzes a two-step reaction, first charging a phenylalanine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; forms a heterotetramer of alpha(2)beta(2); binds two magnesium ions per tetramer; type 1 subfamily
YP_001222746.1	putative glutamate ABC transpoter, permease component (NP_738457.1| glutamate transporter permease protein GluD [Corynebacterium efficiens YS-314]; NP_823136.1| putative glutamate permease [Streptomyces avermitilis MA-4680]). pfam00528, BPD_transp_1, Binding-protein-dependent transport system inner membrane component.; Specificity unclear
YP_001222747.1	putative glutamate ABC transpoter, permease component (NP_823137.1| putative glutamate permease [Streptomyces avermitilis MA-4680]; ZP_00293559.1| COG0765: ABC-type amino acid transport system, permease component [Thermobifida fusca]). pfam00528, BPD_transp_1,Binding-protein-dependent transport system inner membrane component. InterPro: Binding-protein-dependent transport systems inner membrane component.; Specificity unclear
YP_001222748.1	putative glutamate ABC transporter, substrate-binding protein (NP_823138.1| putative glutamate periplasmic binding protein [Streptomyces avermitilis MA-4680]; ZP_00293560.1| COG0834: ABC-type amino acid transport/signal transduction systems, periplasmic component/ domain [Thermobifida fusca]). pfam00497,SBP_bac_3, Bacterial extracellular solute-binding proteins, family 3.; Specificity unclear
YP_001222749.1	putative glutamate ABC transporter, ATP-binding protein (NP_629902.1| glutamate uptake system ATP-binding protein [Streptomyces coelicolor A3(2)]; ZP_00293561.1| COG1126: ABC-type polar amino acid transport system,ATPase component [Thermobifida fusca]). InterPro: AAA ATPase superfamily; Specificity unclear
YP_001222750.1	putaive rRNA methyltransferase (YP_061662.1| rRNA methyltransferase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_625873.1| putative rRNA methylase [Streptomyces coelicolor A3(2)]). pfam00588,SpoU_methylase, SpoU rRNA Methylase family. This family of proteins probably use S-AdoMet.; Function unclear
YP_001222751.1	binds directly to 23S ribosomal RNA prior to in vitro assembly of the 50S ribosomal subunit
YP_001222752.1	50S ribosomal protein L35 (YP_062721.1| 50S ribosomal protein L35 [Leifsonia xyli subsp. xyli str. CTCB07]; NP_787293.1| 50S ribosomal protein L35 [Tropheryma whipplei str. Twist]). pfam01632,Ribosomal_L35p, Ribosomal protein L35.; High confidence in function and specificity
YP_001222753.1	translation initiation factor IF-3 (YP_062722.1| translation initiation factor IF-3 [Leifsonia xyli subsp. xyli str. CTCB07]; NP_625876.1| putative translation initiation factor IF-3 [Streptomyces coelicolor A3(2)]). IF-3 binds to the 30S ribosomal subunit and shifts the equilibrum between 70S ribosomes and their 50S and 30S subunits in favor of the free subunits thus enhancing the availability of 30S subunits on which protein synthesis initiation begins. pfam05198, IF3_N, Translation initiation factor IF-3, N-terminal domain. pfam00707,IF3_C, Translation initiation factor IF-3, C-terminal domain.; High confidence in function and specificity
YP_001222754.1	hypothetical protein (ZP_00226864.1| COG0468: RecA/RadA recombinase [Kineococcus radiotolerans SRS30216]; NP_827912.1| hypothetical protein SAV6736 [Streptomyces avermitilis MA-4680]).
YP_001222755.1	hypothetical protein (NP_625878.1| hypothetical protein SCI35.24c [Streptomyces coelicolor A3(2)]; ZP_00291747.1| hypothetical protein Tfus02002786 [Thermobifida fusca]).; Function unclear
YP_001222756.1	catalyzes the formation of 5-(5-phospho-1-deoxyribulos-1-ylamino)methylideneamino-l- (5-phosphoribosyl)imidazole-4-carboxamide from 1-(5-phosphoribosyl)-5-[(5- phosphoribosylamino)methylideneamino] imidazole-4-carboxamide and the formation of 1-(2-carboxyphenylamino)-1-deoxy-D-ribulose 5-phosphate from N-(5-phospho-beta-D-ribosyl)anthranilate; involved in histidine and tryptophan biosynthesis
YP_001222757.1	with HisF IGPS catalyzes the conversion of phosphoribulosyl-formimino-5-aminoimidazole-4-carboxamide ribonucleotide phosphate and glutamine to imidazole-glycerol phosphate, 5-aminoimidazol-4-carboxamide ribonucleotide, and glutamate in histidine biosynthesis; the HisH subunit provides the glutamine amidotransferase activity that produces the ammonia necessary to HisF for the synthesis of imidazole-glycerol phosphate and 5-aminoimidazol-4-carboxamide ribonucleotide
YP_001222758.1	catalyzes the dehydration of D-erythro-1-(imidazol-4-yl)glycerol 3-phosphate to 3-(imidazol-4-yl)-2-oxopropyl phosphate in histidine biosynthesis
YP_001222759.1	conserved membrane protein (ZP_00292498.1| COG0739: Membrane proteins related to metalloendopeptidases [Thermobifida fusca]; NP_337294.1| conserved hypothetical protein [Mycobacterium tuberculosis CDC1551]). weak similarity to: pfam01476, LysM, LysM domain. It is found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function.
YP_001222760.1	Represses a number of genes involved in the response to DNA damage
YP_001222761.1	putative GTP-binding protein (NP_629920.1| conserved hypothetical protein SC4H2.17 [Streptomyces coelicolor A3(2)]; ZP_00293571.1| COG2262: GTPases [Thermobifida fusca]). pfam00071, Ras, Ras family. Includes sub-families Ras, Rab, Rac, Ral, Ran, Rap Ypt1 and more. Shares P-loop motif with GTP_EFTU, arf and myosin_head.; Function unclear
YP_001222762.1	putative rRNA methylase (ZP_00226409.1| COG2813: 16S RNA G1207 methylase RsmC [Kineococcus radiotolerans SRS30216]; ZP_00120705.1| COG2813: 16S RNA G1207 methylase RsmC [Bifidobacterium longum DJO10A]). pfam01170, UPF0020, Putative RNA methylase family UPF0020.; Conserved hypothetical protein
YP_001222763.1	involved in lysine biosynthesis; DAP epimerase; produces DL-diaminopimelate from LL-diaminopimelate
YP_001222764.1	IPP transferase; isopentenyltransferase; involved in tRNA modification; in Escherichia coli this enzyme catalyzes the addition of a delta2-isopentenyl group from dimethylallyl diphosphate to the N6-nitrogen of adenosine adjacent to the anticodon of tRNA species that read codons starting with uracil; further tRNA modifications may occur; mutations in miaA result in defects in translation efficiency and fidelity
YP_001222765.1	catalyzes the formation of 2-methylthio-N6-(dimethylallyl)adenosine (ms(2)i(6)A) at position 37 in tRNAs that read codons beginning with uridine from N6-(dimethylallyl)adenosine (i(6)A)
YP_001222766.1	putative recX, regulatory protein for recA activity (O50488|RECX_STRCO Regulatory protein recX; ZP_00058957.1| COG2137: Uncharacterized protein conserved in bacteria [Thermobifida fusca]). pfam02631, RecX, RecX family. RecX is a putative bacterial regulatory protein. The gene encoding RecX is found downstream of recA, and is thought to interact with the RecA protein.; Conserved hypothetical protein
YP_001222767.1	catalyzes the hydrolysis of ATP in the presence of single-stranded DNA, the ATP-dependent uptake of single-stranded DNA by duplex DNA, and the ATP-dependent hybridization of homologous single-stranded DNAs
YP_001222768.1	conserved hypothetical protein (NP_961784.1| hypothetical protein MAP2850c [Mycobacterium avium subsp. paratuberculosis str. k10]; BAB99349.1| Hypothetical protein [Corynebacterium glutamicum ATCC 13032]).
YP_001222769.1	putative transcriptional regulator, Cro/CI family (ZP_00293549.1| COG1396: Predicted transcriptional regulators [Thermobifida fusca]; H70878 probable regulator - Mycobacterium tuberculosis (strain H37RV)). pfam01381, HTH_3, Helix-turn-helix. This large family of DNA binding helix-turn helix proteins includes Cro and CI.; Specificity unclear
YP_001222770.1	conserved hypothetical protein (ZP_00047717.1| COG1546: Uncharacterized protein (competence- and mitomycin-induced) [Magnetospirillum magnetotacticum]; NP_629879.1| conserved hypothetical protein SC7C7.09 [Streptomyces coelicolor A3(2)]). pfam02464, CinA,Competence-damaged protein. InterPro: Competence-damaged protein cinA_cterm: competence/damage-inducible p; Function unclear
YP_001222771.1	putative CDP-diacylglycerol-glycerol-3-phosphate 3-phosphatidyl- transferase (NP_629878.1| phosphatidylglycerophosphate synthase [Streptomyces coelicolor A3(2)]; ZP_00058965.1| COG0558: Phosphatidyl-glycerophosphate synthase [Thermobifida fusca]). May catalyze the committed step to the synthesis of the acidic phospholipids. pfam01066, CDP-OH_P_transf, CDP-alcohol phosphatidyltransferase. InterPro: CDP-diacylglycerol-glycerol-3-phosphate 3-phosphatidyltransferase pgsA: CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase; Specificity unclear
YP_001222772.1	putative DNA translocase ftsK (Q82K93|FTSK_STRAW DNA translocase ftsK; ZP_00058968.1| COG1674: DNA segregation ATPase FtsK/SpoIIIE and related proteins [Thermobifida fusca]). DNA motor protein which is both required to move DNA out of the region of the septum during cell division and for the septum formation. Tracks DNA in an ATP-dependent manner by generating positive supercoils in front of it and negative supercoils behind it. InterPro: FtsK/SpoIIIE family pfam01580, FtsK_SpoIIIE,FtsK/SpoIIIE family. FtsK has extensive sequence similarity to wide variety of proteins from prokaryotes and plasmids, termed the FtsK/SpoIIIE family. This domain contains a putative ATP binding P-loop motif.; High confidence in function and specificity
YP_001222773.1	putative ABC transporter, permease component (ZP_00198031.1| COG0577: ABC-type antimicrobial peptide transport system, permease component [Kineococcus radiotolerans SRS30216]; ZP_00048178.2| COG0577: ABC-type antimicrobial peptide transport system, permease component [Magnetospirillum magnetotacticum]). pfam02687, FtsX,Predicted permease. This is a family of predicted permeases and hypothetical transmembrane proteins).; Specificity unclear
YP_001222774.1	putative ABC transporter, ATPase component (ZP_00225680.1| COG1136: ABC-type antimicrobial peptide transport system, ATPase component [Kineococcus radiotolerans SRS30216]; NP_811407.1| ABC transporter,ATP-binding protein [Bacteroides thetaiotaomicron VPI-5482]). InterPro: AAA ATPase superfamily pfam00005,ABC_tran, ABC transporter.; Specificity unclear
YP_001222775.1	conserved hypothetical protein, weak similarity to multidrug export proteins (NP_903507.1| probable multidrug efflux membrane protein [Chromobacterium violaceum ATCC 12472]; NP_251079.1| conserved hypothetical protein [Pseudomonas aeruginosa PA01]).; Function unclear
YP_001222776.1	putative hydrolase, metallo-beta-lactamase superfamily (NP_823691.1| putative hydrolase of the metallo-beta-lactamase superfamily [Streptomyces avermitilis MA-4680]; NP_629870.1| conserved hypothetical protein SC9A10.09 [Streptomyces coelicolor A3(2)]). pfam00753, Lactamase_B, Metallo-beta-lactamase superfamily.; Function unclear
YP_001222777.1	putative dihydrodipicolinate synthase (O86841|DAP1_STRCO Dihydrodipicolinate synthase 1 (DHDPS 1); ZP_00225471.1| COG0329: Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Kineococcus radiotolerans SRS30216]). pfam00701, DHDPS,Dihydrodipicolinate synthetase family. InterPro: Dihydrodipicolinate synthetase.; High confidence in function and specificity
YP_001222779.1	flavin dependent thymidylate synthase; ThyX; thymidylate synthase complementing protein; catalyzes the formation of dTMP and tetrahydrofolate from dUMP and methylenetetrahydrofolate; the enzyme from Mycobacterium tuberculosis forms homotetramers; uses FAD as a cofactor
YP_001222780.1	putative nucleoside-diphosphate sugar epimerase (ZP_00050154.1| COG1090: Predicted nucleoside-diphosphate sugar epimerase [Magnetospirillum magnetotacticum]; NP_827190.1| putative NAD dependent epimerase/dehydratase family [Streptomyces avermitilis MA-4680]).; Function unclear
YP_001222781.1	conserved membrane protein (P46830|YDAB_MYCBO Hypothetical 19.3 kDa protein in dapB 3'region (ORF Z); NP_629865.1| putative membrane protein [Streptomyces coelicolor A3(2)]).; Conserved hypothetical protein
YP_001222782.1	catalyzes the reduction of 2,3-dihydrodipicolinate to 2,3,4,5-tetrahydrodipicolinate in lysine and diaminopimelate biosynthesis
YP_001222783.1	putative phosphoglycerate mutase (NP_631275.1| putative phosphoglycerate mutase [Streptomyces coelicolor A3(2)]; Q8ZJU8|GPMB_SALTY Probable phosphoglycerate mutase gpmB (Phosphoglyceromutase) (PGAM)). pfam00300,PGAM, Phosphoglycerate mutase family.; Specificity unclear
YP_001222784.1	putative metallopeptidase, family M16 (ZP_00227821.1| COG0612: Predicted Zn-dependent peptidases [Kineococcus radiotolerans SRS30216]; O86835|YLD8_STRCO Hypothetical zinc protease SCO5738). pfam00675,Peptidase_M16, Insulinase (Peptidase family M16). pfam05193, Peptidase_M16_C, Peptidase M16 inactive domain. InterPro: Insulinase family (Peptidase family M16).; Specificity unclear
YP_001222785.1	hypothetical protein (ZP_00412660.1| hypothetical protein ArthDRAFT_2763 [Arthrobacter sp. FB24]; ZP_00658097.1| hypothetical protein NocaDRAFT_2263 [Nocardioides sp. JS614]).
YP_001222786.1	putative oxidoreductase (NP_733626.1| putative oxidoreductase [Streptomyces coelicolor A3(2)]; ZP_00106480.1| COG0667: Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Nostoc punctiforme]). pfam00248, Aldo_ket_red, Aldo/keto reductase family.; Function unclear
YP_001222787.1	conserved hypothetical protein, putative phospholipid-binding protein (NP_628200.1| conserved hypothetical protein [Streptomyces coelicolor A3(2)]; NP_960819.1| hypothetical protein MAP1885c [Mycobacterium avium subsp. paratuberculosis str. k10]). pfam01161, PBP,Phosphatidylethanolamine-binding protein.; Function unclear
YP_001222789.1	putative polyribonucleotide nucleotidyltransferase (Polynucleotide phosphorylase) (ZP_00227822.1| COG1185: Polyribonucleotide nucleotidyltransferase (polynucleotide phosphorylase) [Kineococcus radiotolerans SRS30216]; NP_787549.1| polyribonucleotide nucleotidyltransferase [Tropheryma whipplei str. Twist]). pfam01138, RNase_PH, 3' exoribonuclease family, domain 1. This family includes 3'-5' exoribonucleases (twice). pfam03725, RNase_PH_C, 3' exoribonuclease family, domain 2 (twice). pfam03726,PNPase, Polyribonucleotide nucleotidyltransferase, RNA binding domain. pfam00575, S1, S1 RNA binding domain. The S1 domain occurs in a wide range of RNA associated proteins.; High confidence in function and specificity
YP_001222790.1	primary rRNA binding protein; helps nucleate assembly of 30S; binds directly to the 16S rRNA and an intersubunit bridge to the 23S rRNA; autoregulates translation through interactions with the mRNA leader sequence
YP_001222791.1	putative MFS permease (ZP_00190511.2| COG0477: Permeases of the major facilitator superfamily [Kineococcus radiotolerans SRS30216]; NP_599375.1| permease of the major facilitator superfamily [Corynebacterium glutamicum ATCC 13032]).; Specificity unclear
YP_001222792.1	conserved hypothetical protein (ZP_00226454.1| hypothetical protein Krad06003337 [Kineococcus radiotolerans SRS30216]; NP_739263.1| conserved hypothetical protein [Corynebacterium efficiens YS-314]).
YP_001222793.1	putative dicarboxylate transporter, DASS family (NP_348217.1| 2-oxoglutarate/malate translocator [Clostridium acetobutylicum ATCC 824]; ZP_00322706.1| COG0471: Di- and tricarboxylate transporters [Pediococcus pentosaceus ATCC 25745])., pfam00939, Na_sulph_symp,Sodium:sulfate symporter transmembrane region.; Specificity unclear
YP_001222794.1	putative ATP-dependent DNA helicase (ZP_00226623.1| COG3973: Superfamily I DNA and RNA helicases [Kineococcus radiotolerans SRS30216]; ZP_00120699.1| COG3973: Superfamily I DNA and RNA helicases [Bifidobacterium longum DJO10A]). InterPro: UvrD/REP helicase pfam00580,UvrD-helicase, UvrD/REP helicase.; Function unclear
YP_001222795.1	putative membrane protein (ZP_00322542.1| COG4767: Glycopeptide antibiotics resistance protein [Pediococcus pentosaceus ATCC 25745]; NP_940629.1| Conserved integral membrane protein [Corynebacterium diphtheriae NCTC 13129]). pfam04892, VanZ, VanZ like family.; Hypothetical protein
YP_001222796.1	putative methionine synthase II (cobalamin-independent), 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferase (ZP_00226646.1| COG0620: Methionine synthase II (cobalamin-independent); NP_601330.1| methionine synthase II [Corynebacterium glutamicum ATCC 13032]). , pfam01717, Methionine_synt,Methionine synthase, vitamin-B12 independent.; High confidence in function and specificity
YP_001222797.1	catalyzes a salvage reaction resulting in the formation of AMP which is metabolically less costly than a de novo synthesis
YP_001222798.1	conserved membrane protein (NP_824217.1| putative integral membrane protein [Streptomyces avermitilis MA-4680]; ZP_00292627.1| hypothetical protein Tfus02001905 [Thermobifida fusca]).; Conserved hypothetical protein
YP_001222799.1	putative 2,5-diketo-D-gluconic acid reductase (NP_631409.1| oxidoreductase. [Streptomyces coelicolor A3(2)]; A45961 2,5-diketo-D-gluconate reductase (EC 1.1.1.-) - Corynebacterium sp. (strain SHS752001)). pfam00248, Aldo_ket_red, Aldo/keto reductase family. This family includes a number of K+ ion channel beta chain regulatory domains - these are reported to have oxidoreductase activity.; Specificity unclear
YP_001222800.1	putative lipoprotein signal peptidase (Signal peptidase II) (CAF20476.1| LIPOPROTEIN SIGNAL PEPTIDASE [Corynebacterium glutamicum ATCC 13032]; H70760 probable lipoprotein signal peptidase - Mycobacterium tuberculosis (strain H37RV)). This protein specifically catalyzes the removal of signal peptides from prolipoproteins (By similarity). lspA: lipoprotein signal peptidase pfam01252,Peptidase_A8, Signal peptidase (SPase) II.; Specificity unclear
YP_001222801.1	hypothetical protein (weak similaritiy to NP_625313.1| putative lipoprotein [Streptomyces coelicolor A3(2)]; NP_822599.1| hypothetical protein [Streptomyces avermitilis MA-4680]).
YP_001222802.1	putative cysteine peptidase, family C56 (NP_866072.1| proteinase I [Pirellula sp. 1]; ZP_00056842.1| COG0693: Putative intracellular protease/amidase [Thermobifida fusca]). pfam01965, DJ-1_PfpI, DJ-1/PfpI family. The family includes the protease PfpI. This domain is also found in transcriptional regulators.; Specificity unclear
YP_001222803.1	conserved hypothetical protein (ZP_00212210.1| COG3386: Gluconolactonase [Burkholderia cepacia R18194]; NP_925815.1| hypothetical protein gll2869 [Gloeobacter violaceus]) in eukaryotes a Ca-binding regulatory protein (pfam03758, SMP-30, Senescence marker protein-30 (SMP-30). SMP-30, also known as regucalcin, seems to play a critical role in the highly differentiated functions of the liver and kidney and to exert a major impact on Ca2+ homeostasis).; Family membership
YP_001222804.1	putative DNA-binding ferritin-like protein (ZP_00226002.1| COG0783: DNA-binding ferritin-like protein (oxidative damage protectant) [Kineococcus radiotolerans SRS30216]; NP_822781.1| hypothetical protein SAV1605 [Streptomyces avermitilis MA-4680]). pfam00210, Ferritin,Ferritin-like domain. This family contains ferritins and other ferritin-like proteins such as members of the DPS family and bacterioferritins.; Function unclear
YP_001222805.1	putative short chain dehydrogenase/oxidoreductase (NP_642446.1| 3-ketoacyl-acyl carrier protein reductase [Xanthomonas axonopodis pv. citri str. 306]; ZP_00052290.1| COG1028: Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Magnetospirillum magnetotacticum]). InterPro: Short-chain dehydrogenase/reductase (SDR) superfamily pfam00106, adh_short, short chain dehydrogenase. This family contains a wide variety of dehydrogenases.; Specificity unclear
YP_001222806.1	hypothetical protein (NP_631705.1| hypothetical protein [Streptomyces coelicolor A3(2)]; NP_883707.1| conserved hypothetical protein Bordetella parapertussis 12822]).
YP_001222807.1	putative two-component system sensor kinase (NP_825857.1| putative two-component system sensor kinase [Streptomyces avermitilis MA-4680]; ZP_00228428.1| COG4585: Signal transduction histidine kinase [Kineococcus radiotolerans SRS30216]). InterPro: Histidine kinase- DNA gyrase B- phytochrome-like ATPase pfam02518, HATPase_c,Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase.; Specificity unclear
YP_001222808.1	putative two-component system response regulator (NP_625929.1| putative two-component response regulator [Streptomyces coelicolor A3(2)]; ZP_00229057.1| COG2197: Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Kineococcus radiotolerans SRS30216]). InterPro: Response regulator receiver domain pfam00072, Response_reg, Response regulator receiver domain. pfam00196, GerE, Bacterial regulatory proteins,luxR family.; Specificity unclear
YP_001222809.1	putative D-alanyl-D-alanine carboxypeptidase (penicillin binding protein precursor) (NP_338276.1| D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family [Mycobacterium tuberculosis CDC1551]; ZP_00058807.1| COG2027: D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Thermobifida fusca]). InterPro: D-Ala-D-Ala carboxypeptidase 3 (S13) family pfam02113, Peptidase_S13,D-Ala-D-Ala carboxypeptidase 3 (S13) family. PBP4: D-alanyl-D-alanine carboxypeptid; High confidence in function and specificity
YP_001222810.1	DNA-invertase (Site-specific recombinase)(ZP_00016441.1| COG1961: Site-specific recombinases, DNA invertase Pin homologs [Rhodospirillum rubrum]; NP_061675.1| recombinase [Xylella fastidiosa]). InterPro: Site-specific recombinase pfam00239, Resolvase,Resolvase, N terminal domain. The N-terminal domain of the resolvase family (this family) contains the active site and the dimer interface.; Specificity unclear
YP_001222811.1	hypothetical protein (ZP_00227354.1| hypothetical protein Krad06001085 [Kineococcus radiotolerans SRS30216]; ZP_00050340.2| COG0532: Translation initiation factor 2 (IF-2; GTPase)[Magnetospirillum magnetotacticum]).
YP_001222812.1	conserved membrane protein (ZP_00294063.1| COG2339: Predicted membrane protein [Thermobifida fusca]; NP_628289.1| putative integral membrane protein [Streptomyces coelicolor A3(2)]).; Function unclear
YP_001222813.1	putative FAD/FMN-containing dehydrogenase/oxidoreductase (ZP_00227456.1| COG0277: FAD/FMN-containing dehydrogenases [Kineococcus radiotolerans SRS30216]; NP_826328.1| putative glycolate oxidase [Streptomyces avermitilis MA-4680]). InterPro: FAD linked oxidase C-terminal. pfam01565, FAD_binding_4, FAD binding domain. pfam02913, FAD-oxidase_C, FAD linked oxidases, C-terminal domain. glcD: glycolate oxidase subunit GlcD; Specificity unclear
YP_001222814.1	putative DNA glycosylase (ZP_00139319.1| COG0122: 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [Pseudomonas aeruginosa UCBPP-PA14]; ZP_00277968.1| COG0122: 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [Burkholderia fungorum LB400]). pfam06029,AlkA_N, AlkA N-terminal domain. pfam00730, HhH-GPD, HhH-GPD superfamily base excision DNA repair protein. This family contains a diverse range of structurally related DNA repair proteins.; Function unclear
YP_001222815.1	Region created by contig update
YP_001222816.1	catalyzes the ATP-dependent formation of a phosphodiester at the site of a single-strand break in duplex DNA and has been shown to have polymerase activity
YP_001222817.1	putative hydrolase (NP_437231.1| putative bifunctional enzyme 2-hydroxyhepta-2,4-diene-1,7-dioatesomerase 5-carboxymethyl-2-oxo- hex-3-ene-1,7-dioatedecarboxylase protein [Sinorhizobium meliloti 1021]; NP_697278.1| fumarylacetoacetate hydrolase family protein [Brucella suis 1330]). InterPro: Fumarylacetoacetate (FAA) hydrolase family pfam01557,FAA_hydrolase, Fumarylacetoacetate (FAA) hydrolase family.; Function unclear
YP_001222819.1	hypothetical protein pfam01442, Apolipoprotein,Apolipoprotein A1/A4/E family.
YP_001222820.1	catalyzes the formation of fumarate from aspartate
YP_001222821.1	conserved hypothetical protein (ZP_00326425.1| COG4328: Uncharacterized protein conserved in bacteria [Trichodesmium erythraeum IMS101]; NP_485314.1| hypothetical protein [Nostoc sp. PCC 7120]).
YP_001222822.1	putative glycosyl transferase (NP_968447.1| putative glycosyl transferase [Bdellovibrio bacteriovorus HD100]; ZP_00188968.2| COG0463: Glycosyltransferases involved in cell wall biogenesis [Kineococcus radiotolerans SRS30216]; NP_738216.1| putative prenol monophospho-mannose synthase [Corynebacterium efficiens YS-314]). InterPro: Glycosyl transferase family 2 pfam00535,Glycos_transf_2, Glycosyl transferase. Diverse family,transferring sugar from UDP-glucose, UDP-N-acetyl-galactosamine, GDP-mannose or CDP-abequose, to a range of substrates including cellulose, dolichol phosphate and teichoic acids.; Function unclear
YP_001222823.1	putative membrane protein (ZP_00121383.2| COG2246: Predicted membrane protein [Bifidobacterium longum DJO10A]; NP_627281.1| putative integral membrane protein [Streptomyces coelicolor A3(2)]). pfam04138, GtrA, GtrA-like protein. Members of this family are predicted to be integral membrane proteins with three or four transmembrane spans. They are involved in the synthesis of cell surface polysaccharides.; Hypothetical protein
YP_001222824.1	putative manganese transport protein, NRAMP family (NP_629145.1| putative metal ion transport protein [Streptomyces coelicolor A3(2)]; ZP_00188446.1| COG1914: Mn2+ and Fe2+ transporters of the NRAMP family [Rubrobacter xylanophilus DSM 9941]). pfam01566, Nramp,Natural resistance-associated macrophage protein. This family of membrane proteins are divalent cation transporters.; Specificity unclear
YP_001222825.1	putative xanthine/uracil permease, MFS superfamily (CAF19530.1| Xanthine/uracil permeases family [Corynebacterium glutamicum ATCC 13032]; NP_827562.1| putative hypoxanthine/guanine permease [Streptomyces avermitilis MA-4680]). , InterPro: Xanthine/uracil permeases family , pfam00860, Xan_ur_permease, Permease family. This family includes permeases for diverse substrates such as xanthine, uracil and vitamin C. However many members of this family are functionally uncharacterised and may transport other substrates.; Specificity unclear
YP_001222826.1	Hypothetical protein
YP_001222827.1	putative low-affinity inorganic phosphate permease (NP_599707.1| phosphate/sulphate permease [Corynebacterium glutamicum ATCC 13032]; NP_827595.1| putative transporter [Streptomyces avermitilis MA-4680]). InterPro: Phosphate transporter family pfam01384, PHO4, Phosphate transporter family.; Specificity unclear
YP_001222828.1	putative carboxylesterase type B (NP_949230.1| putative carboxylesterase [Rhodopseudomonas palustris CGA009]; CAA17259.1| Probable carboxylesterase LipT [Mycobacterium tuberculosis H37Rv]). InterPro: Carboxylesterases type-B pfam00135, COesterase,Carboxylesterase.; High confidence in function and specificity
YP_001222829.1	conserved hypothetical protein (NP_336756.1| conserved hypothetical protein [Mycobacterium tuberculosis CDC1551]; NP_940012.1| Conserved hypothetical protein [Corynebacterium diphtheriae]). pfam01928, CYTH, CYTH domain. pfam05235, CHAD, CHAD domain. The CHAD domain is an alpha-helical domain functionally associated with the pfam01928 domains. It has conserved histidines that may chelate metals.
YP_001222830.1	conserved hypothetical protein (|ZP_00059173.1| COG1295: Predicted membrane protein [Thermobifida fusca]; NP_737633.1| conserved hypothetical protein [Corynebacterium efficiens YS-314]). pfam03631,Ribonuclease_BN, Ribonuclease BN-like family. This family contains integral membrane proteins with 5 to 6 predicted transmembrane spans. The family include ribonuclease BN that is involved in tRNA maturation. This family of proteins does not seem to contain any completely conserved polar residues that would be expected in a nuclease enzyme, suggesting that many members of this family may not have this catalytic activity.; Family membership
YP_001222831.1	putative NADP-dependent oxidoreductase (ZP_00226498.1| COG2130: Putative NADP-dependent oxidoreductases [Kineococcus radiotolerans SRS30216]; NP_826953.1| putative oxidoreductase [Streptomyces avermitilis MA-4680]). InterPro: Zinc-containing alcohol dehydrogenase superfamily pfam00107, ADH_zinc_N, Zinc-binding dehydrogenase.; Function unclear
YP_001222832.1	putative NAD-dependent epimerase/dehydratase (ZP_00228901.1| COG0702: Predicted nucleoside-diphosphate-sugar epimerases [Kineococcus radiotolerans SRS30216]; AAO42400.1| putative pinoresinol- lariciresinol reductase [Arabidopsis thaliana]). InterPro: Isoflavone reductase; Family membership
YP_001222833.1	putative short chain dehydrogenase/oxidoreductase (NP_294134.1| oxidoreductase, short-chain dehydrogenase/reductase family [Deinococcus radiodurans]; NP_738947.1| putative reductase [Corynebacterium efficiens YS-314]). InterPro: Short-chain dehydrogenase/reductase (SDR) superfamily pfam00106, adh_short, short chain dehydrogenase. This family contains a wide variety of dehydrogenases.; Specificity unclear
YP_001222835.1	chaperone, heat shock protein, HSP20 family (CAD59401.1| putative heat shock protein 20_1 [Propionibacterium freudenreichii subsp. shermanii]; NP_821867.1| putative heat shock protein [Streptomyces avermitilis MA-4680]). InterPro: Heat shock hsp20 (alpha crystallin) proteins family pfam00011, HSP20, Hsp20/alpha crystallin family.; High confidence in function and specificity
YP_001222836.1	putative siderophore biosynthesis protein (NP_931792.1| hypothetical protein [Photorhabdus luminescens subsp. laumondii TTO1]; ZP_00162775.2| COG4264: Siderophore synthetase component [Anabaena variabilis ATCC 29413]). two-domain protein: N-terminal: putative acetyl transferase (NC_003155.2, AlcB,Streptomyces avermitilis MA-4680, putative aceytltranferase). C-terminal: NC_003155.2, Streptomyces avermitilis MA-4680, putative siderophore biosynthetic enzyme, AlcC. pfam04183, IucA_IucC, IucA / IucC family. IucA and IucC catalyse discrete steps in biosynthesis of the siderophore aerobactin from N epsilon-acetyl-N epsilon-hydroxylysine and citrate.; Function unclear
YP_001222837.1	putative monooxygenase/hydroxylase (NP_826448.1| putative monooxigenase, AlcA, Streptomyces avermitilis MA-4680; NP_405116.1| putative siderophore biosynthetic enzyme, Yersinia pestis; ZP_00119405.1| COG3486: Lysine/ornithine N-monooxygenase, Cytophaga hutchinsonii); Specificity unclear
YP_001222838.1	putative L-2,4-diaminobutyrate decarboxylase (NP_826449.1| putative L-2,4-diaminobutyrate decarboxylase [Streptomyces avermitilis MA-4680]; NP_405115.1| putative decarboxylase [Yersinia pestis]). InterPro: Pyridoxal-dependent decarboxylase family pfam00282, Pyridoxal_deC,Pyridoxal-dependent decarboxylase conserved domain.; Specificity unclear
YP_001222843.1	putative short chain dehydrogenase/oxidoreductase (NP_737722.1| putative oxidoreductase [Corynebacterium efficiens YS-314]; NP_641514.1| oxidoreductase [Xanthomonas axonopodis pv. citri str. 306])). pfam00106,adh_short, short chain dehydrogenase. This family contains a wide variety of dehydrogenases.; Specificity unclear
YP_001222844.1	hypothetical protein (ZP_00226806.1| hypothetical protein Krad06002561 [Kineococcus radiotolerans SRS30216]; NP_962000.1| hypothetical protein MAP3066c [Mycobacterium avium subsp. paratuberculosis str. k10]).
YP_001222845.1	putative membrane protein
YP_001222847.1	putative membrane protein containing a 2Fe-2S domain (ZP_00293646.1| COG4244: Predicted membrane protein [Thermobifida fusca]; ZP_00227494.1| COG2146: Ferredoxin subunits of nitrite reductase and ring-hydroxylating dioxygenases [Kineococcus radiotolerans SRS30216]). N:terminal: COG4244, COG4244, Predicted membrane protein C-terminal: InterPro: Rieske iron-sulfur protein 2Fe-2S subunit pfam00355, Rieske, Rieske [2Fe-2S] domain. COG2146, {NirD}, Ferredoxin subunits of nitrite reductase and ring-hydroxylating dioxygenases; Function unclear
YP_001222848.1	conserved hypothetical protein, putative protease (T35375 probable membrane protein - Streptomyces coelicolor; ZP_00228735.1| COG2268: Uncharacterized protein conserved in bacteria [Kineococcus radiotolerans SRS30216]). N-terminal: pfam01145, Band_7, SPFH domain / Band 7 family. C-terminal: pfam03149, Flotillin, Flotillin family.; Function unclear
YP_001222849.1	Function unclear
YP_001222850.1	hypothetical protein (NP_822693.1| hypothetical protein SAV1518 [Streptomyces avermitilis MA-4680]).
YP_001222851.1	putative sugar ABC transporter, binding protein (NP_624969.1| probable solute-binding lipoprotein. [Streptomyces coelicolor A3(2)]; ZP_00121005.2| COG1653: ABC-type sugar transport system, periplasmic component [Bifidobacterium longum DJO10A]). InterPro: Bacterial extracellular solute-binding protein family 1. pfam01547,SBP_bac_1, Bacterial extracellular solute-binding protein.; Specificity unclear
YP_001222852.1	putative sugar ABC transporter, permease component (ZP_00227865.1| COG1175: ABC-type sugar transport systems,permease components [Kineococcus radiotolerans SRS30216]; ZP_00121800.2| COG1175: ABC-type sugar transport systems,permease components [Bifidobacterium longum DJO10A]). pfam00528, BPD_transp_1, Binding-protein-dependent transport system inner membrane component.; Specificity unclear
YP_001222853.1	putative sugar ABC transporter, permease component (ZP_00121009.2| COG0395: ABC-type sugar transport system,permease component [Bifidobacterium longum DJO10A]; NP_631458.1| putative binding-protein dependent transport protein. [Streptomyces coelicolor A3(2)]). InterPro: Binding-protein-dependent transport systems inner membrane component. pfam00528, BPD_transp_1, Binding-protein-dependent transport system inner membrane component.; Specificity unclear
YP_001222854.1	putative beta-galactosidase (Q59140|BGAL_ARTSB Beta-galactosidase (Lactase); NP_823271.1| putative beta-galactosidase [Streptomyces avermitilis MA-4680]). pfam02837, Glyco_hydro_2_N, Glycosyl hydrolases family 2,sugar binding domain. pfam02836, Glyco_hydro_2_C, Glycosyl hydrolases family 2, TIM barrel domain. pfam02929,Bgal_small_N, Beta galactosidase small chain, N terminal domain. pfam02930, Bgal_small_C, Beta galactosidase small chain, C terminal domain.; High confidence in function and specificity
YP_001222855.1	putative sugar alcohol dehydrogenase (Q9ZBU1|XYOA_STRCO Probable xylitol oxidase; ZP_00228154.1| COG0277: FAD/FMN-containing dehydrogenases [Kineococcus radiotolerans SRS30216]). pfam01565,FAD_binding_4, FAD binding domain. This family consists of various enzymes that use FAD as a co-factor, most of the enzymes are; Specificity unclear
YP_001222856.1	putative glutaredoxin (ZP_00227600.1| COG0695: Glutaredoxin and related proteins [Kineococcus radiotolerans SRS30216]; NP_629335.1| putative glutaredoxin-like protein [Streptomyces coelicolor A3(2)]). InterPro: Thioredoxin. pfam00462, Glutaredoxin,Glutaredoxin. redox_disulf_1: redox-active disulfide; Function unclear
YP_001222857.1	conserved hypothetical protein, putative phosphotransferase (ZP_00228505.1| COG3281: Uncharacterized protein, probably involved in trehalose biosynthesis [Kineococcus radiotolerans SRS30216]; ZP_00293344.1| COG3281: Uncharacterized protein, probably involved in trehalose biosynthesis [Thermobifida fusca]).; Function unclear
YP_001222858.1	Hypothetical protein
YP_001222859.1	putative protease II (Oligopeptidase B)(NP_335233.1| protease II [Mycobacterium tuberculosis CDC1551]; NP_940260.1| Putative prolyl oligopeptidase [Corynebacterium diphtheriae NCTC 13129]). pfam02897,Peptidase_S9_N, Prolyl oligopeptidase, N-terminal beta-propeller domain. pfam00326, Peptidase_S9, Prolyl oligopeptidase family. InterPro: Prolyl oligopeptidase N-terminal beta-propeller domain.; High confidence in function and specificity
YP_001222860.1	hydroxyethylthiazole kinase (NP_713545.1| hydroxyethylthiazole kinase [Leptospira interrogans serovar lai str. 56601]; Q8X7G3|THIM_ECO57 Hydroxyethylthiazole kinase (4-methyl-5-beta-hydroxyethylthiazole kinase) (Thz kinase) (TH kinase)). pfam02110, HK, Hydroxyethylthiazole kinase family.; High confidence in function and specificity
YP_001222861.1	catalyzes the formation of thiamine monophosphate from 4-methyl-5-(beta-hydroxyethyl)-thiazole monophosphate and 4-amino-5-hydroxymethyl pyrimidine pyrophosphate
YP_001222862.1	conserved hypothetical protein, putative fusion protein. N-terminal: COG1917, COG1917, Uncharacterized conserved protein, contains double-stranded beta-helix domain (NP_534846.1| conserved hypothetical protein [Agrobacterium tumefaciens str. C58]; ZP_00105951.1| COG1917: Uncharacterized conserved protein, contains double-stranded beta-helix domain [Nostoc punctiforme]). C-terminal: similarity to NP_641577.1| hypothetical protein [Xanthomonas axonopodis pv. citri str. 306]; ZP_00205709.1| hypothetical protein Psyr022367 [Pseudomonas syringae pv. syringae B728a]). panD: aspartate 1-decarboxylase; Function unclear
YP_001222863.1	putative sugar MFS permease (BAC00372.1| Permeases of the major facilitator superfamily [Corynebacterium glutamicum ATCC 13032]; ZP_00227700.1| COG0477: Permeases of the major facilitator superfamily [Kineococcus radiotolerans SRS30216]). pfam00083, Sugar_tr, Sugar (and other) transporter. InterPro: General substrate transporters.; Specificity unclear
YP_001222864.1	Hypothetical protein
YP_001222865.1	putative DNA helicase (NP_787246.1| DNA helicase [Tropheryma whipplei str. Twist]). pfam00176, SNF2_N, SNF2 family N-terminal domain. pfam00271, Helicase_C, Helicase conserved C-terminal domain.; Function unclear
YP_001222866.1	putative glutathion S-transferase (ZP_00190023.2| COG0435: Predicted glutathione S-transferase [Kineococcus radiotolerans SRS30216]; NP_600487.1| predicted glutathione S-transferase [Corynebacterium glutamicum ATCC 13032]).; Family membership
YP_001222867.1	putative esterase (BAA82510.1| esterase HDE [petroleum-degrading bacterium HD-1]; ZP_00312658.1| COG0657: Esterase/lipase [Clostridium thermocellum ATCC 27405]).; Family membership
YP_001222868.1	Hypothetical protein
YP_001222869.1	conserved hypothetical protein (NP_241345.1| BH0479~unknown conserved protein in others [Bacillus halodurans C-125]; NP_993986.1| TPR-repeat-containing proteins [Yersinia pestis biovar Medievalis str. 91001]). weak similarity to: cd00189, TPR, Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi,plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; Function unclear
YP_001222871.1	putative Zn-dependant alcohol dehydrogenase (NP_102793.1| alcohol dehydrogenase [Mesorhizobium loti MAFF303099]; NP_532825.1| alcohol dehydrogenase [Agrobacterium tumefaciens str. C58]). pfam00107,ADH_zinc_N, Zinc-binding dehydrogenase.; Specificity unclear
YP_001222872.1	conserved hypothetical protein (CAA15545.1| CONSERVED HYPOTHETICAL PROTEIN [Mycobacterium tuberculosis H37Rv]; NP_925803.1| hypothetical protein gsl2857 [Gloeobacter violaceus PCC 7421]). pfam03992, ABM,Antibiotic biosynthesis monooxygenase.; Function unclear
YP_001222873.1	catalyzes the formation of acetate from pyruvate
YP_001222874.1	conserved hypothetical protein (NP_626020.1| conserved hypothetical protein [Streptomyces coelicolor A3(2)]; NP_602236.1| hypothetical protein NCgl2940 [Corynebacterium glutamicum ATCC13032]).; Function unclear
YP_001222875.1	putative Zn-dependant oxidoreductase (NP_733654.1| putative oxidoreductase [Streptomyces coelicolor A3(2)]; NP_962452.1| hypothetical protein MAP3518c [Mycobacterium avium subsp. paratuberculosis str. k10]). InterPro: Zinc-containing alcohol dehydrogenase superfamily pfam00107,ADH_zinc_N, Zinc-binding dehydrogenase.; Specificity unclear
YP_001222876.1	putative transcriptional regulator, LysR family (ZP_00267509.1| COG0583: Transcriptional regulator [Rhodospirillum rubrum]; NP_102796.1| probable transcriptional regulator [Mesorhizobium loti MAFF303099]). pfam00126, HTH_1, Bacterial regulatory helix-turn-helix protein, lysR family. pfam03466,LysR_substrate, LysR substrate binding domain.; Specificity unclear
YP_001222877.1	putative transcriptional regulator, TetR family (P09164|TER4_ECOLI Tetracycline repressor protein class D; NP_792454.1| transcriptional regulator, TetR family [Pseudomonas syringae pv. tomato str. DC3000]).; Specificity unclear
YP_001222878.1	putative lipase/esterase (ZP_00110422.1| COG2755: Lysophospholipase L1 and related esterases [Nostoc punctiforme]; NP_641188.1| conserved hypothetical protein [Xanthomonas axonopodis pv. citri str. 306]). pfam00657,Lipase_GDSL, GDSL-like Lipase/Acylhydrolase.
YP_001222879.1	putative membrane protein
YP_001222880.1	putative nucleoside-diphosphate-sugar epimerase (NP_822386.1| hypothetical protein [Streptomyces avermitilis MA-4680]; ZP_00227908.1| COG0702: Predicted nucleoside-diphosphate-sugar epimerases [Kineococcus radiotolerans SRS30216]).; Function unclear
YP_001222881.1	hypothetical protein (ZP_00198157.1| COG3832: Uncharacterized conserved protein [Kineococcus radiotolerans SRS30216]).
YP_001222882.1	putative sugarkinase (Glucose kinase) (CAB07107.1| POSSIBLE SUGAR KINASE [Mycobacterium tuberculosis H37Rv]; NP_822651.1| putative sugar kinase [Streptomyces avermitilis MA-4680]). pfam00480, ROK, ROK family.; Specificity unclear
YP_001222883.1	conserved hypothetical protein (NP_630250.1| hypothetical protein SC1A9.09 [Streptomyces coelicolor A3(2)]; ZP_00198190.1| COG1387: Histidinol phosphatase and related hydrolases of the PHP family [Kineococcus radiotolerans SRS30216]). pfam02231, PHP_N, PHP domain N-terminal region. The PHP (Polymerase and Histidinol Phosphatase) domain is a putative phosphoesterase domain. weak similarity to: COG1387, HIS2, Histidinol phosphatase and related hydrolases of the PHP family.
YP_001222884.1	putative cyanate MFS permease (ZP_00225824.1| COG2807: Cyanate permease [Kineococcus radiotolerans SRS30216]; NP_642656.1| MFS transporter [Xanthomonas axonopodis pv. citri str. 306]). TIGRFAM (TIGR00896): Cyanate transport system protein CynX; Specificity unclear
YP_001222885.1	conserved hypothetical protein (ZP_00199464.2| hypothetical protein Krad06000208 [Kineococcus radiotolerans SRS30216]; NP_216552.1| hypothetical protein Rv2036 [Mycobacterium tuberculosis H37Rv]).
YP_001222886.1	multifunctional Riboflavin biosynthesis protein ribF [Includes: Riboflavin kinase (EC 2.7.1.26) (Flavokinase); FMN adenylyltransferase (EC 2.7.7.2) (FAD pyrophosphorylase) (FAD synthetase)] (NP_823722.1| putative riboflavin kinase [Streptomyces avermitilis MA-4680]; NP_738481.1| riboflavin kinase/FMN adenylyltransferase [Corynebacterium efficiens YS-314]). pfam06574, Flavokinase, Riboflavin kinase (Flavokinase). pfam01687, FAD_Synth, Riboflavin kinase / FAD synthetase. InterPro: Riboflavin kinase / FAD synthetase ribF: riboflavin biosynthesis protein R.; High confidence in function and specificity
YP_001222887.1	putative membrane protein (NP_827963.1| putative integral membrane protein [Streptomyces avermitilis MA-4680]; ZP_00227300.1| hypothetical protein Krad06001357 [Kineococcus radiotolerans SRS30216]).
YP_001222888.1	putative membrane protein (NP_789537.1| putative membrane protein [Tropheryma whipplei TW08/27]; NP_625839.1| putative integral membrane protein [Streptomyces coelicolor A3(2)]).; Hypothetical protein
YP_001222889.1	catalyzes isomerization of specific uridines in RNA to pseudouridine; responsible for residues in T loops of many tRNAs
YP_001222890.1	Putative 2-dehydropantoate 2-reductase (NP_624781.1| putative oxidoreductase [Streptomyces coelicolor A3(2)]; NP_949896.1| putative 2-dehydropantoate 2-reductase [Rhodopseudomonas palustris CGA009]). Catalyzes the NADPH-dependent reduction of ketopantoate into pantoic acid (By similarity). pfam02558,ApbA, Ketopantoate reductase PanE/ApbA. InterPro: Ketopantoate reductase ApbA/PanE apbA_panE: 2-dehydropantoate 2-reductase; High confidence in function and specificity
YP_001222892.1	A/G-specific adenine glycosylase (NP_825884.1| putative adenine glycosylase [Streptomyces avermitilis MA-4680]; ZP_00293144.1| COG1194: A/G-specific DNA glycosylase [Thermobifida fusca]). ADENINE GLYCOSYLASE ACTIVE ON G-A MISPAIRS. MUTY ALSO CORRECTS ERROR-PRONE DNA SYNTHESIS PAST GO LESIONS WHICH ARE DUE TO THE OXIDATIVELY DAMAGED FORM OF GUANINE: 78-DIHYDRO-8- OXOGUANINE.; High confidence in function and specificity
YP_001222893.1	associates with free 30S ribosomal subunits; essential for efficient processing of 16S rRNA; in Escherichia coli rbfA is induced by cold shock
YP_001222894.1	Protects formylmethionyl-tRNA from spontaneous hydrolysis and promotes its binding to the 30S ribosomal subunits during initiation of protein synthesis. Also involved in the hydrolysis of GTP during the formation of the 70S ribosomal complex
YP_001222895.1	Region created by contig update
YP_001222896.1	modifies transcription through interactions with RNA polymerase affecting elongation, readthrough, termination, and antitermination
YP_001222897.1	catalyzes the formation of prolyl-tRNA(Pro) from proline and tRNA(Pro)
YP_001222898.1	putative NAD(P)H dependant steroid dehydrogenase/isomerase (AAL01055.1| putative steroid dehydrogenase [Photobacterium profundum]; NP_717355.1| 3-beta hydroxysteroid dehydrogenase/isomerase family protein [Shewanella oneidensis MR-1]). pfam01073, 3Beta_HSD, 3-beta hydroxysteroid dehydrogenase/isomerase family.; Specificity unclear
YP_001222899.1	putative acyl-CoA synthetase (ZP_00353402.1| COG0318: Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Kineococcus radiotolerans SRS30216]; two-domain protein: N-terminal (AA 1-330):COG0596, MhpC,Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily); pfam00561, Abhydrolase_1,alpha/beta hydrolase fold (NP_717353.1| hydrolase,alpha/beta hydrolase fold family [Shewanella oneidensis MR-1]). C-terminal (330- ):COG0318, CaiC, Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II; pfam00501,AMP-binding, AMP-binding enzyme (ZP_00039494.1| COG0318: Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Xylella fastidiosa Dixon]). InterPro: AMP-dependent synthetase and ligase.; Function unclear
YP_001222900.1	FabH; beta-ketoacyl-acyl carrier protein synthase III; catalyzes the condensation of acetyl-CoA with malonyl-ACP to initiate cycles of fatty acid elongation; differs from 3-oxoacyl-(acyl carrier protein) synthase I and II in that it utilizes CoA thioesters as primers rather than acyl-ACPs
YP_001222901.1	catalyzes the conversion of 2C-methyl-D-erythritol 2,4-cyclodiphosphate into 4-hydroxy-3-methyl-2-en-1-yl diphosphate; involved in isoprenoid synthesis
YP_001222902.1	putative membrane-associated zinc metalloprotease,family M50 (YP_062170.1| zinc metalloprotease [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00059010.1| COG0750: Predicted membrane-associated Zn-dependent proteases 1 [Thermobifida fusca]; NP_823738.1| hypothetical protein [Streptomyces avermitilis MA-4680]). InterPro: PDZ domain (also known as DHR or GLGF) TIGR00054: membrane-associated zinc met; Specificity unclear
YP_001222903.1	putative serine/threonine-protein kinase (NP_623114.1| Serine/threonine protein kinase [Thermoanaerobacter tengcongensis]; NP_785211.1| serine/threonine protein kinase (putative) [Lactobacillus plantarum WCFS1]). pfam00069, Pkinase, Protein kinase domain. InterPro: Serine/Threonine protein kinase.; Function unclear
YP_001222905.1	catalyzes the NADP-dependent rearrangement and reduction of 1-deoxy-D-xylulose-5-phosphate (DXP) to 2-C-methyl-D-erythritol 4-phosphate
YP_001222906.1	putative peptidyl-prolyl cis-trans isomerase (YP_062168.1| peptidylprolyl isomerase [Leifsonia xyli subsp. xyli str. CTCB07]; YP_056093.1| putative peptidyl-prolyl cis-trans isomerase [Propionibacterium acnes KPA171202]). pfam00254, FKBP_C, FKBP-type peptidyl-prolyl cis-trans isomerase (twice). InterPro: FKBP-type peptidyl-prolyl cis-trans isomerase (PPIase).; Family membership
YP_001222907.1	conserved hypothetical protein (YP_062164.1| Hypothetical protein Lxx12120 [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00310296.1| COG1764: Predicted redox protein, regulator of disulfide bond formation [Cytophaga hutchinsonii]). pfam02566, OsmC, OsmC-like protein. Osmotically inducible protein C (OsmC) is a stress -induced protein found in E. Coli. This family also contains a organic hydroperoxide detoxification protein that has a novel pattern of oxidative stress regulation.; Function unclear
YP_001222908.1	putative 4-aminobutyrate aminotransferase (Gamma-amino-N-butyrate transaminase) (YP_062163.1| 4-aminobutyrate aminotransferase [Leifsonia xyli subsp. xyli str. CTCB07]; P40829|GABT_MYCLE 4-aminobutyrate aminotransferase ((S)-3-amino-2-methylpropionate transaminase) (Gamma-amino-N-butyrate transaminase)). InterPro: 4-aminobutyrate aminotransferase bacterial.; High confidence in function and specificity
YP_001222909.1	putative asparaginase II (YP_062162.1| Hypothetical protein Lxx12130 [Leifsonia xyli subsp. xyli str. CTCB07]; NP_628361.1| hypothetical protein SCO4185 [Streptomyces coelicolor A3(2)]; ZP_00192634.1| COG4448: L-asparaginase II [Mesorhizobium sp. BNC1]). pfam06089,Asparaginase_II, L-asparaginase II.; Specificity unclear
YP_001222910.1	conserved hypothetical protein with duplicated ATPase domain (CAB77299.1| putative cell division-related protein [Streptomyces coelicolor A3(2)]; NP_737190.1| conserved hypothetical protein [Corynebacterium efficiens YS-314]). pfam01580, FtsK_SpoIIIE, FtsK/SpoIIIE family. FtsK has extensive sequence similarity to wide variety of proteins from prokaryotes and plasmids, termed the FtsK/SpoIIIE family. This domain contains a putative ATP binding P-loop motif. It is found in the FtsK cell division protein from E. coli and the stage III sporulation protein E SpoIIIE, which has roles in regulation of prespore specific gene expression in B. subtilis. A mutation in FtsK causes a temperature sensitive block in cell division and it is involved in peptidoglycan synthesis or modification. The SpoIIIE protein is implicated in intercellular chromosomal DNA transfer.; Family membership
YP_001222911.1	conserved membrane protein containing transglutaminase domain, putative cysteine protease (YP_062159.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00120584.1| COG1305: Transglutaminase-like enzymes, putative cysteine proteases [Bifidobacterium longum DJO10A]). pfam01027, UPF0005,Uncharacterised protein family UPF0005. pfam01841,Transglut_core, Transglutaminase-like superfamily. This family includes animal transglutaminases and other bacterial proteins of unknown function.; Function unclear
YP_001222912.1	conserved hypothetical protein (YP_062158.1| conserved hypothetical protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_696370.1| narrowly conserved hypothetical protein with duf54 [Bifidobacterium longum NCC2705]). pfam01882, DUF58, Protein of unknown function DUF58. This family of prokaryotic proteins have no known function. InterPro: Protein of unknown function DUF58.; Function unclear
YP_001222913.1	MoxR-like ATPase, putative regulator (YP_062157.1| methanol dehydrogenase regulatory protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_622051.1| MoxR-like ATPases [Thermoanaerobacter tengcongensis]). pfam00004, AAA,ATPase family associated with various cellular activities (AAA). AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes.; Function unclear
YP_001222914.1	putative RTX toxin (YP_062156.1| fibronectin-related protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00206687.1| COG5295: Autotransporter adhesin [Bifidobacterium longum DJO10A]; NP_696368.1| large protein with C-terminal fibronectin type III domain [Bifidobacterium longum NCC2705]). pfam00041, fn3,Fibronectin type III domain (twice). InterPro: Fibronectin type III domain.; Function unclear
YP_001222915.1	putative serine/threonine protein kinase (YP_062155.1| serine/ threonine kinase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_696367.1| probable serine/threonine-protein kinase [Bifidobacterium longum NCC2705]; NP_687353.1| serine/threonine protein kinase [Streptococcus agalactiae 2603V/R]). cd00180, S_TKc,Serine/Threonine protein kinases, catalytic domain. Phosphotransferases of the serine or threonine-specific kinase subfamily. pfam00069, Pkinase, Protein kinase domain.; Function unclear
YP_001222916.1	type II enzyme; in Escherichia coli this enzyme forms a trimer of dimers which is allosterically inhibited by NADH and competitively inhibited by alpha-ketoglutarate; allosteric inhibition is lost when Cys206 is chemically modified which also affects hexamer formation; forms oxaloacetate and acetyl-CoA and water from citrate and coenzyme A; functions in TCA cycle, glyoxylate cycle and respiration; enzyme from Helicobacter pylori is not inhibited by NADH
YP_001222917.1	catalyzes the formation of N-succinyl-LL-2,6-diaminopimelate from N-succinyl-L-2-amino-6-oxopimelate in lysine biosynthesis
YP_001222918.1	putative ferredoxin (YP_062518.1| ferredoxin [Leifsonia xyli subsp. xyli str. CTCB07]; NP_629284.1| ferredoxin [Streptomyces coelicolor A3(2)]). pfam00037,Fer4, 4Fe-4S binding domain. Superfamily includes proteins containing domains which bind to iron-sulfur clusters.; Specificity unclear
YP_001222919.1	putative fusion protein; conserved hypothetical protein, putative mycothiol biosynthesis + membrane protein (ZP_00057485.1| COG2120: Uncharacterized proteins,LmbE homologs [Thermobifida fusca]; NP_824314.1| hypothetical protein SAV3138 [Streptomyces avermitilis MA-4680]; YP_062519.1| hypothetical protein Lxx16250 [Leifsonia xyli subsp. xyli str. CTCB07]). pfam02585,DUF158, Uncharacterised LmbE-like protein, COG2120. pfam01284, MARVEL, Membrane-associating domain.; Function unclear
YP_001222920.1	putative Fe2+ permease, OFeT family (NP_827101.1| putative membrane protein [Streptomyces avermitilis MA-4680]; YP_062520.1| membrane protein [Leifsonia xyli subsp. xyli str. CTCB07]). pfam03239, FTR1, Iron permease FTR1 family.; Specificity unclear
YP_001222921.1	conserved secreted lipoprotein (YP_062521.1| lipoprotein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_827103.1| putative lipoprotein [Streptomyces avermitilis MA-4680]). pfam04302, DUF451, Protein of unknown function (DUF451). Putative lipoprotein.; Function unclear
YP_001222922.1	conserved hypothetical protein, putative Fe-dependant peroxidase (YP_062522.1| membrane protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_827102.1| hypothetical protein SAV5925 [Streptomyces avermitilis MA-4680]). pfam04261, Dyp_perox, Dyp-type peroxidase family. This family of dye-decolourising peroxidases lack a typical heme-binding region.; Function unclear
YP_001222923.1	Hypothetical protein
YP_001222924.1	GTP-binding protein typA/bipA homolog (YP_062523.1| GTP-binding protein elongation factor [Leifsonia xyli subsp. xyli str. CTCB07]; NP_629261.1| putative GTP-binding protein [Streptomyces coelicolor A3(2)]; ZP_00058492.1| COG1217: Predicted membrane GTPase involved in stress response [Thermobifida fusca]). pfam00009,GTP_EFTU, Elongation factor Tu GTP binding domain. pfam03144, GTP_EFTU_D2, Elongation factor Tu domain 2. pfam00679, EFG_C, Elongation factor G C-terminus.; Specificity unclear
YP_001222925.1	putative peptide ABC transporter, binding protein (YP_062530.1| dipeptide porter [Leifsonia xyli subsp. xyli str. CTCB07]; NP_822049.1| putative solute-binding dependent transport lipoprotein [Streptomyces avermitilis MA-4680]; NP_217101.1| hypothetical protein Rv2585c [Mycobacterium tuberculosis H37Rv]). pfam00496, SBP_bac_5,Bacterial extracellular solute-binding proteins, family 5.; Specificity unclear
YP_001222926.1	putative peptide ABC transporter, ATP-binding protein (duplicated ATPase domains) (YP_062526.1| oligopeptide porter [Leifsonia xyli subsp. xyli str. CTCB07]; NP_696512.1| ATP binding protein of ABC transporter [Bifidobacterium longum NCC2705]; NP_773349.1| bll6709 [Bradyrhizobium japonicum]). InterPro: AAA ATPase superfamily; Specificity unclear
YP_001222927.1	putative membrane protein (YP_062527.1| integral membrane protein [Leifsonia xyli subsp. xyli str. CTCB07]; YP_056519.1| hypothetical membane-associated protein [Propionibacterium acnes KPA171202]).; Conserved hypothetical protein
YP_001222928.1	putative peptide ABC transporter, permease component (YP_062528.1| ABC transporter, permease protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00056958.1| COG1173: ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Thermobifida fusca]; AAG09259.1| EppC [EDTA-degrading bacterium BNC1]). pfam00528, BPD_transp_1, Binding-protein-dependent transport system inner membrane component. InterPro: Binding-protein-dependent transport systems inner membrane component.; Specificity unclear
YP_001222929.1	putative peptide ABC transporter, permease component (YP_062529.1| ABC transporter, permease protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_824223.1| putative peptide ABC transporter permease protein [Streptomyces avermitilis MA-4680]). pfam00528,BPD_transp_1, Binding-protein-dependent transport system inner membrane component. InterPro: Binding-protein-dependent transport systems inner membrane component.; Specificity unclear
YP_001222930.1	putative peptide ABC transporter, substrate-binding protein (YP_062530.1| dipeptide porter [Leifsonia xyli subsp. xyli str. CTCB07]; NP_822049.1| putative solute-binding dependent transport lipoprotein [Streptomyces avermitilis MA-4680]). pfam00496, SBP_bac_5, Bacterial extracellular solute-binding proteins, family 5.; Specificity unclear
YP_001222931.1	conserved membran protein (YP_062531.1| integral membrane protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_625656.1| putative integral membrane protein [Streptomyces coelicolor A3(2)]). pfam02517, Abi, CAAX amino terminal protease family. Members of this family are probably proteases; the family contains CAAX prenyl protease. prfB: peptide chain release factor 2; Conserved hypothetical protein
YP_001222933.1	conserved membrane protein, putative transporter of the SSS family (ZP_00293132.1| COG4147: Predicted symporter [Thermobifida fusca]; NP_939157.1| Putative transport membrane protein [Corynebacterium diphtheriae NCTC 13129]). pfam00474, SSF, Sodium:solute symporter family. sss: SSS sodium solute transporter sup; Specificity unclear
YP_001222934.1	putative transcriptional regulator, RpiR family (CAF21466.1| transcriptional regulator, rpiR family [Corynebacterium glutamicum ATCC 13032]; NP_346833.1| Transcriptional regulator, RpiR family [Clostridium acetobutylicum]). pfam01418, HTH_6, Helix-turn-helix domain, rpiR family. pfam01380, SIS, SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. InterPro: SIS domain.; Specificity unclear
YP_001222935.1	putative phosphate/phosphonate ABC transporter,permease component (CAF21467.1| ABC-type phosphate/phosphonate transport system, permease component [Corynebacterium glutamicum ATCC 13032]; NP_691520.1| alkylphosphonate ABC tranporter permease [Oceanobacillus iheyensis HTE831]). pfam00528, BPD_transp_1, Binding-protein-dependent transport system inner membrane component. InterPro: Binding-protein-dependent transport systems inner membrane component.; Specificity unclear
YP_001222936.1	putative phosphate/phosphonate ABC transporter,permease component (CAF21468.1| ABC-type phosphate/phosphonate transport system, permease component [Corynebacterium glutamicum ATCC 13032]; ZP_00239895.1| phosphonates transport system permease protein phnE [Bacillus cereus G9241]). pfam00528, BPD_transp_1, Binding-protein-dependent transport system inner membrane component. InterPro: Binding-protein-dependent transport systems inner membrane component.; Specificity unclear
YP_001222937.1	putative phosphate/phosphonate ABC transporter, ATP-binding protein (CAF21469.1| ABC-type phosphate/phosphonate transport system, ATPase component [Corynebacterium glutamicum ATCC 13032]; YP_039609.1| putative ABC transport ATP-binding protein [Staphylococcus aureus subsp. aureus MRSA252]).; Specificity unclear
YP_001222938.1	putative phosphate/phosphonate ABC transporter,substrate-binding protein (CAF21470.1| ALKYLPHOSPHONATE ABC TRANPORTER (SECRETED PHOSPHATE-BINDING PROTEIN) [Corynebacterium glutamicum ATCC 13032]; NP_765811.1| alkylphosphonate ABC tranporter [Staphylococcus epidermidis ATCC 12228]).; Specificity unclear
YP_001222939.1	putative hydrolase/phosphatase (CAF21471.1| PUTATIVE PHOSPHOGLYCOLATE PHOSPHATASE [Corynebacterium glutamicum ATCC 13032]; NP_879254.1| putative hydrolase [Bordetella pertussis Tohama I]). pfam00702, Hydrolase,haloacid dehalogenase-like hydrolase.; Function unclear
YP_001222940.1	acts in conjunction with GvcH to form H-protein-S-aminomethyldihydrolipoyllysine from glycine
YP_001222941.1	part of multienzyme complex composed of H, L, P, and T proteins which catalyzes oxidation of glycine to yield carbon dioxide, ammonia, 5,10-CH2-H4folate and a reduced pyridine nucleotide; protein H is involved in transfer of methylamine group from the P to T protein; covalently bound to a lipoyl cofactor
YP_001222942.1	putative aminomethyltransferase (Glycine cleavage system T protein) (YP_055458.1| glycine cleavage system protein T [Propionibacterium acnes KPA171202]; Q82JI2|GCST_STRAW Aminomethyltransferase (Glycine cleavage system T protein)). pfam01571, GCV_T, Glycine cleavage T-protein (aminomethyl transferase). InterPro: Glycine cleavage T-protein (aminomethyl transferase).; High confidence in function and specificity
YP_001222944.1	putative transcriptional regulator (NP_898715.1| putative regulator [Rhodococcus erythropolis]; ZP_00056896.1| COG3682: Predicted transcriptional regulator [Thermobifida fusca]). only weak similarity to: pfam01047, MarR, MarR family.; Specificity unclear
YP_001222945.1	putative copper resistance protein (AAS20064.1| hypothetical protein [Arthrobacter aurescens]; AAP73994.1| putative copper resistance protein (CopC) [Rhodococcus erythropolis]). pfam04234, CopC, Copper resistance protein CopC. CopC is a bacterial blue copper protein that binds 1 atom of copper per protein molecule.; Conserved hypothetical protein
YP_001222946.1	putative cysteine desulfurase (YP_061934.1| cysteine desulfurase [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00294076.1| COG0520: Selenocysteine lyase [Thermobifida fusca]). pfam00266, Aminotran_5,Aminotransferase class-V. InterPro: Aminotransferase class-V.; Function unclear
YP_001222947.1	conserved hypothetical protein (YP_061935.1| NifU homolog [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00198827.3| COG0822: NifU homolog involved in Fe-S cluster formation [Kineococcus radiotolerans SRS30216]). pfam01592, NifU_N, NifU-like N terminal domain.
YP_001222948.1	conserved hypothetical protein (ZP_00293644.1| COG3668: Plasmid stabilization system protein [Thermobifida fusca]; NP_961886.1| hypothetical protein MAP2952c [Mycobacterium avium subsp. paratuberculosis str. k10]).
YP_001222949.1	putative glycosyl hydrolase containing C-terminal fibronectin/RTX domain (NP_811025.1| conserved hypothetical protein [Bacteroides thetaiotaomicron VPI-5482]; NP_695377.1| very narrowly conserved hypothetical protein [Bifidobacterium longum NCC2705]). , weak similarity to: COG3507, XynB, Beta-xylosidase
YP_001222950.1	putative acetyltransferase (ZP_00209608.1| COG1670: Acetyltransferases, including N-acetylases of ribosomal proteins [Magnetospirillum magnetotacticum MS-1]; ZP_00293653.1| COG1670: Acetyltransferases, including N-acetylases of ribosomal proteins [Thermobifida fusca]). pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family. This family contains proteins with N-acetyltransferase functions.; Function unclear
YP_001222953.1	hypothetical protein (only weak similarity to: NP_628387.1| hypothetical protein SCO4212 [Streptomyces coelicolor A3(2)]).
YP_001222954.1	hypothetical transcriptional regulator, MarR family (only weak similarities: NP_470525.1| ; ZP_00088731.2| COG1846: Transcriptional regulators [Azotobacter vinelandii]). pfam01047, MarR, MarR family. The Mar proteins are involved in the multiple antibiotic resistance, a non-specific resistance system.; Hypothetical protein
YP_001222955.1	conserved hypothetical protein, hypothetical two-component response regulator (NP_769771.1| two-component response regulator [Bradyrhizobium japonicum]; P_00217823.1| COG0745: Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Burkholderia cepacia R18194]). InterPro: Response regulator receiver domain pfam00072, Response_reg,Response regulator receiver domain. This domain receives the signal from the sensor partner in bacterial two-component systems.
YP_001222957.1	putative amino acid permease, APC family (ZP_00187138.1| COG0531: Amino acid transporters [Rubrobacter xylanophilus DSM 9941]; ZP_00127340.1| COG0531: Amino acid transporters [Pseudomonas syringae pv. syringae B728a]). pfam00324, AA_permease, Amino acid permease. InterPro: Amino acid permease.; Specificity unclear
YP_001222958.1	conserved hypothetical protein belonging to universal stress protein family (YP_094969.1| universal stress protein A (UspA) [Legionella pneumophila subsp. pneumophila str. Philadelphia 1]; ZP_00359330.1| COG0589: Universal stress protein UspA and related nucleotide-binding proteins [Chloroflexus aurantiacus]). 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.; Function unclear
YP_001222959.1	putative thiol-disulfide oxidoreductase (YP_061316.1| thiol:disulfide interchange protein [Leifsonia xyli subsp. xyli str. CTCB07]; AAS20062.1| hypothetical protein [Arthrobacter aurescens]). InterPro: Thioredoxin.; Function unclear
YP_001222960.1	hypothetical protein with peptidoglycan binding domain pfam01471, PG_binding_1, Putative peptidoglycan binding domain. This domain is composed of three alpha helices. This domain is found at the N or C terminus of a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function.
YP_001222961.1	hypothetical protein (CAD47973.1| hypothetical protein [Arthrobacter nicotinovorans]). mobB: molybdopterin-guanine dinucleotide
YP_001222962.1	putative gamma-aminobutyrate permease, APC family (NP_215036.1| Gamma-aminobutyrate permease [Mycobacterium tuberculosis H37Rv]; T44252 transport protein homolog [imported] - Arthrobacter sp. (strain TE1826)). pfam00324,AA_permease, Amino acid permease. InterPro: Amino acid permease.; Specificity unclear
YP_001222963.1	conserved hypothetical protein, phosphoglycerate mutase family (NP_625941.1| putative phosphatase [Streptomyces coelicolor A3(2)]; NP_336663.1| phosphoglycerate mutase family protein [Mycobacterium tuberculosis CDC1551]). pfam00300, PGAM, Phosphoglycerate mutase family. InterPro: Phosphoglycerate mutase family; Function unclear
YP_001222964.1	conserved hypothetical protein (NP_827821.1| hypothetical protein SAV6646 [Streptomyces avermitilis MA-4680]; NP_855807.1| CONSERVED HYPOTHETICAL PROTEIN [Mycobacterium bovis AF2122/97]).
YP_001222965.1	conserved hypothetical protein (CAB08660.1| CONSERVED HYPOTHETICAL PROTEIN [Mycobacterium tuberculosis H37Rv]; NP_827822.1| hypothetical protein SAV6646 [Streptomyces avermitilis MA-4680]). , pfam00454,PI3_PI4_kinase, Phosphatidylinositol 3- and 4-kinase.
YP_001222966.1	hypothetical protein , weak similarity to: COG4969,PilA, Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]
YP_001222967.1	hypothetical protein (AAN12593.1| gp32 [Mycobacteriophage Che9c]; YP_113190.1| Hypothetical protein MCA0678 [Methylococcus capsulatus str. Bath]). ,pfam06114, DUF955, Domain of unknown function (DUF955). Family of bacterial and viral proteins with undetermined function.
YP_001222968.1	translation-associated GTPase; the crystal structure of the Haemophilus influenzae YchF protein showed similarity to the yeast structure (PDB: 1NI3); fluorescence spectroscopy revealed nucleic acid binding; the yeast protein YBR025c interacts with the translation elongation factor eEF1
YP_001222969.1	putative 3'-5' exonuclease (YP_062544.1| DNA polymerase III, epsilon subunit [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00293652.1| COG0847: DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [Thermobifida fusca]). pfam00929, Exonuc_X-T, Exonuclease. This family includes a variety of exonuclease proteins,such as ribonuclease T and the epsilon subunit of DNA polymerase III.; Function unclear
YP_001222970.1	conserved hypothetical protein (YP_062546.1| Hypothetical protein Lxx16660 [Leifsonia xyli subsp. xyli str. CTCB07]; Q9CLG7|RMUC_PASMU DNA recombination protein rmuC homolog; ZP_00134138.1| COG1322: Uncharacterized protein conserved in bacteria [Actinobacillus pleuropneumoniae serovar 1 str. 4074]). pfam02646, RmuC,RmuC family. This family contains several bacterial RmuC DNA recombination proteins. The function of the RMUC protein is unknown but it is suspected that it is either a structural protein that protects DNA against nuclease action, or is itself involved in DNA cleavage at the regions of DNA secondary structures.; Family membership
YP_001222971.1	catalyzes the formation of glycerone phosphate and glyceraldehyde 3-phosphate from fructose 1,6, bisphosphate
YP_001222972.1	hypothetical membrane protein (YP_062549.1| Hypothetical protein Lxx16690 [Leifsonia xyli subsp. xyli str. CTCB07]).
YP_001222973.1	catalyzes the conversion of 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate into isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP); functions in the nonmevalonate isoprenoid biosynthesis pathway
YP_001222974.1	bidirectionally degrades single-stranded DNA into large acid-insoluble oligonucleotides
YP_001222975.1	catalyzes the bidirectional exonucleolytic cleavage of DNA
YP_001222976.1	conserved hypothetical protein (NP_629200.1| putative secreted protein [Streptomyces coelicolor A3(2)]; ZP_00225733.1| hypothetical protein Krad06004532 [Kineococcus radiotolerans SRS30216]).
YP_001222977.1	putative carbonic anhydrase (YP_062554.1| carbonic anhydrase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_338238.1| carbonic anhydrase [Mycobacterium tuberculosis CDC1551]). pfam00484, Pro_CA, Carbonic anhydrase.; Function unclear
YP_001222978.1	class II family (does not require metal); tetrameric enzyme; fumarase C; reversibly converts (S)-malate to fumarate and water; functions in the TCA cycle
YP_001222980.1	putative ATPase (YP_062557.1| PhoH-like protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_824412.1| putative ATP-binding protein [Streptomyces avermitilis MA-4680]). pfam01850, PIN, PIN domain. This PIN (PilT N terminus) domain is a compact domain of about 100 amino acids. pfam02562, PhoH, PhoH-like protein. PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation.; Function unclear
YP_001222981.1	putative undecaprenyl diphosphate synthase (YP_062559.1| undecaprenyl pyrophosphate synthetase [Leifsonia xyli subsp. xyli str. CTCB07]; BAD59670.1| putative undecaprenyl pyrophosphate synthetase [Nocardia farcinica]). , pfam01255, UPP_synthetase, Putative undecaprenyl diphosphate synthase. Previously known as uncharacterized protein family UPF0015, a single member of this family has been identified as an undecaprenyl diphosphate synthase. , uppS: undecaprenyl diphosphate synthas; High confidence in function and specificity
YP_001222982.1	conserved membrane protein, HlyIII family (YP_062560.1| hemolysin III family protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_629130.1| putative integral membrane protein [Streptomyces coelicolor A3(2)]; NP_696186.1| conserved hypothetical protein [Bifidobacterium longum NCC2705]). , pfam03006, UPF0073,Uncharacterised protein family (Hly-III / UPF0073). Members of this family are integral membrane proteins. This family includes a protein with hemolytic activity from Bacillus cereus. It is not clear if all the members of this family are hemolysins.; Function unclear
YP_001222983.1	putative sugar ABC transporter, substrate-binding protein (ZP_00049406.2| COG1653: ABC-type sugar transport system, periplasmic component [Magnetospirillum magnetotacticum MS-1]; CAB03653.1| PROBABLE Sn-GLYCEROL-3-PHOSPHATE-BINDING LIPOPROTEIN UGPB [Mycobacterium tuberculosis H37Rv]). pfam01547, SBP_bac_1, Bacterial extracellular solute-binding protein.; Specificity unclear
YP_001222984.1	putative glycerol ABC transporter, permease component (ZP_00356561.1| COG0395: ABC-type sugar transport system, permease component [Chloroflexus aurantiacus]; NP_600603.1| ABC-type transporter, permease component [Corynebacterium glutamicum ATCC 13032]). pfam00528, BPD_transp_1, Binding-protein-dependent transport system inner membrane component.; Specificity unclear
YP_001222985.1	putative glycerol ABC transporter, permease component (CAB03651.1| PROBABLE Sn-GLYCEROL-3-PHOSPHATE TRANSPORT INTEGRAL MEMBRANE PROTEIN ABC TRANSPORTER UGPA [Mycobacterium tuberculosis H37Rv]; NP_738124.1| putative ABC transporter permease protein [Corynebacterium efficiens YS-314]). pfam00528, BPD_transp_1, Binding-protein-dependent transport system inner membrane component.; Specificity unclear
YP_001222986.1	hypothetical membrane protein (AAS20077.1| membrane protein [Arthrobacter aurescens]; YP_062561.1| Hypothetical protein Lxx16880 [Leifsonia xyli subsp. xyli str. CTCB07]).
YP_001222987.1	conserved hypothetical protein (NP_737662.1| hypothetical protein CE1052 [Corynebacterium efficiens YS-314]; CAA17198.1| Mycothiol conjugate amidase Mca (Mycothiol S-conjugate amidase)[Mycobacterium tuberculosis H37Rv]). pfam02585, DUF158, Uncharacterised LmbE-like protein, COG2120. 3mg: DNA-3-methyladenine glycosylase
YP_001222988.1	hypothetical protein (YP_055275.1| hypothetical protein PPA0562 [Propionibacterium acnes KPA171202]; BAD59677.1| hypothetical protein [Nocardia farcinica]).
YP_001222989.1	transcription elongation factor (Transcript cleavage factor greA)(YP_062562.1| transcription elongation factor [Leifsonia xyli subsp. xyli str. CTCB07]; Q9ADK2|GREA_STRCO Transcription elongation factor greA (Transcript cleavage factor greA)). pfam03449,GreA_GreB_N, Prokaryotic transcription elongation factor,GreA/GreB, N-terminal domain. pfam01272, GreA_GreB,Prokaryotic transcription elongation factor, GreA/GreB, C-terminal domain.; High confidence in function and specificity
YP_001222990.1	catalyzes the formation of 2-oxobutanoate from L-threonine
YP_001222991.1	conserved membrane protein, AI-E2 family (YP_062564.1| integral membrane protein [Leifsonia xyli subsp. xyli str. CTCB07]; BAD60345.1| hypothetical protein [Nocardia farcinica])., pfam01594, UPF0118, Domain of unknown function DUF20. This transmembrane region is found in putative permeases and predicted transmembrane proteins it has no known function.
YP_001222992.1	conserved hypothetical protein (YP_062567.1| Hypothetical protein Lxx16960 [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00194535.1| COG3214: Uncharacterized protein conserved in bacteria [Mesorhizobium sp. BNC1]). pfam06224, DUF1006, Protein of unknown function (DUF1006). Family of conserved bacterial proteins with unknown function. aroC: chorismate synthase
YP_001222993.1	conserved hypothetical protein (YP_062568.1| LemA-like protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_787140.1| hypothetical protein TWT012 [Tropheryma whipplei str. Twist]). pfam04011, LemA, LemA family. The members of this family are related to the LemA protein.
YP_001222994.1	putative beta-glucosidase (Gentiobiase) (Cellobiase) (NP_826775.1| putative beta-glucosidase [Streptomyces avermitilis MA-4680]; AAN05440.1| beta-glycosidase [Thermus filiformis]). pfam00232,Glyco_hydro_1, Glycosyl hydrolase family 1. InterPro: Glycoside hydrolase family 1; Specificity unclear
YP_001222995.1	Region start changed from 2542743 to 2542734 (9 bases)
YP_001222996.1	putative amino acid permease, APC family (NP_625236.1| putative amino acid transporter protein [Streptomyces coelicolor A3(2)]; ZP_00187751.1| COG0531: Amino acid transporters [Rubrobacter xylanophilus DSM 9941]). pfam00324, AA_permease, Amino acid permease.; Specificity unclear
YP_001222997.1	conserved hypothetical protein (ZP_00227307.1| hypothetical protein Krad06001366 [Kineococcus radiotolerans SRS30216]; ZP_00029551.1| hypothetical protein [Burkholderia fungorum]; NP_051649.1| dessication-associated protein [Deinococcus radiodurans R1]).; Function unclear
YP_001222998.1	conserved hypothetical protein contains two domains: N-terminal: putative endoglucanase domain (CAD47882.1| hypothetical protein [Arthrobacter nicotinovorans]). C-terminal: pfam01757, Acyl_transf_3,Acyltransferase family. This family includes a range of acyltransferase enzymes (NP_946456.1| possible OpgC protein, require for succinylation of osmoregulated periplasmic glucans [Rhodopseudomonas palustris CGA009]; NP_771053.1| bll4413 [Bradyrhizobium japonicum USDA 110]).; Function unclear
YP_001222999.1	putative anti-sigma regulatory factor (Ser/Thr protein kinase) (NP_737815.1| hypothetical protein [Corynebacterium efficiens YS-314]; NP_681341.1| sigma-B activity negative regulator [Thermosynechococcus elongatus BP-1]).; Function unclear
YP_001223000.1	putative anti-sigma factor antagonist (ZP_00357937.1| COG1366: Anti-anti-sigma regulatory factor (antagonist of anti-sigma factor) [Chloroflexus aurantiacus]; NP_737814.1| putative anti-sigma factor antagonist [Corynebacterium efficiens YS-314]). pfam01740,STAS, STAS domain. The STAS (after Sulphate Transporter and AntiSigma factor antagonist) domain is found in the C terminal region of Sulphate transporters and bacterial antisigma factor antagonists. It has been suggested that this domain may have a general NTP binding function.; Function unclear
YP_001223001.1	putative glycosyl transferase (NP_737812.1 + NP_737813.1|| putative cellulose synthase catalytic subunit [Corynebacterium efficiens YS-314]; ZP_00020665.2| COG1215: Glycosyltransferases, probably involved in cell wall biogenesis [Chloroflexus aurantiacus]). pfam00535, Glycos_transf_2, Glycosyl transferase. Diverse family, transferring sugar from UDP-glucose, UDP-N-acetyl- galactosamine, GDP-mannose or CDP-abequose, to a range of substrates including cellulose,dolichol phosphate and teichoic acids. only weak similarity to: pfam03552, Cellulose_synt, Cellulose synthase.; Function unclear
YP_001223002.1	Sensory box histidine kinase/response regulator (NP_737811.1| putative regulatory protein [Corynebacterium efficiens YS-314]). , contains two domains: N-terminal,pfam01590, GAF, GAF domain. Domain present in phytochromes and cGMP-specific phosphodiesterases (ZP_00265410.1| COG2199: FOG: GGDEF domain [Pseudomonas fluorescens PfO-1]; ZP_00052301.2| COG2203: FOG: GAF domain [Magnetospirillum magnetotacticum MS-1]). , C-terminal,COG2208, RsbU, Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; smart00331, PP2C_SIG, Sigma factor PP2C-like phosphatases (ZP_00187433.1| COG2208: Serine phosphatase RsbU,regulator of sigma subunit; ZP_00356055.1| COG3706: Response regulator containing a CheY-like receiver domain and a GGDEF domain [Chloroflexus aurantiacus]).; Conserved hypothetical protein
YP_001223003.1	putative membrane-bound acyltransferase (ZP_00107696.1| COG1835: Predicted acyltransferases [Nostoc punctiforme PCC 73102]; AAO54531.1| acyltransferase family protein [Pseudomonas syringae pv. tomato str. DC3000]). pfam01757, Acyl_transf_3,Acyltransferase family. This family includes a range of acyltransferase enzymes.; Specificity unclear
YP_001223004.1	putative NADH dehydrogenase (YP_062580.1| NADH dehydrogenase, type 2 [Leifsonia xyli subsp. xyli str. CTCB07]; NP_631162.1| putative dehydrogenase [Streptomyces coelicolor A3(2)]). , pfam00070, Pyr_redox,Pyridine nucleotide-disulphide oxidoreductase. This family includes both class I and class II oxidoreductases and also NADH oxidases and peroxidases.; Specificity unclear
YP_001223005.1	putative serine peptidase, family S8 (YP_062581.1| serine protease [Leifsonia xyli subsp. xyli str. CTCB07]; NP_827909.1| putative secreted serine proteinase [Streptomyces avermitilis MA-4680]). pfam00082,Peptidase_S8, Subtilase family. Subtilases are a family of serine proteases. InterPro: Serine proteases subtilase family.; Function unclear
YP_001223006.1	conserved hypothetical protein (YP_062582.1| Hypothetical protein Lxx17160 [Leifsonia xyli subsp. xyli str. CTCB07]; NP_789712.1| hypothetical protein TW791 [Tropheryma whipplei TW08/27]). pfam04417, DUF501, Protein of unknown function (DUF501). Family of uncharacterised bacterial proteins. TIGR00162: conserved hypothetical protei
YP_001223007.1	conserved hypothetical protein (YP_062583.1| membrane protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_824709.1| hypothetical protein SAV3532 [Streptomyces avermitilis MA-4680]). pfam04977, DivIC,Septum formation initiator. DivIC from B. subtilis is necessary for both vegetative and sporulation septum formation.
YP_001223008.1	enolase; catalyzes the formation of phosphoenolpyruvate from 2-phospho-D-glycerate in glycolysis
YP_001223009.1	catalyzes a two-step reaction, first charging a histidine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; class II aminoacyl-tRNA synthetase; forms homodimers; some organisms have a paralogous gene, hisZ, that is similar to hisS and produces a protein that performs the first step in histidine biosynthesis along with HisG
YP_001223010.1	putative transcriptional regulator, TetR-family (YP_061371.1| transcriptional regulator, TetR family [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00228510.1| COG1309: Transcriptional regulator [Kineococcus radiotolerans SRS30216]; NP_824937.1| putative TetR-family transcriptional regulator [Streptomyces avermitilis MA-4680]). pfam00440, TetR_N, Bacterial regulatory proteins, tetR family.; Specificity unclear
YP_001223011.1	functions in degradation of stringent response intracellular messenger ppGpp; in Escherichia coli this gene is co-transcribed with the toxin/antitoxin genes mazEF; activity of MazG is inhibited by MazEF in vitro; ppGpp inhibits mazEF expression; MazG thus works in limiting the toxic activity of the MazF toxin induced during starvation; MazG also interacts with the GTPase protein Era
YP_001223012.1	putative Na+/H+ antiporter, NhaA family (NP_789716.1| putative sodium/proton antiporter [Tropheryma whipplei TW08/27]; AAL15616.1| sodium/proton antiporter [Streptomyces antibioticus]). , pfam06965,Na_H_antiport_1, Na+/H+ antiporter 1. , InterPro: Na+/H+ exchanger.; High confidence in function and specificity
YP_001223013.1	putative transcription-repair coupling factor (superfamily II helicase) (BAD59727.1| putative transcription-repair coupling factor [Nocardia farcinica]; ZP_00059332.1| COG1197: Transcription-repair coupling factor (superfamily II helicase) [Thermobifida fusca]; NP_824726.1| putative transcriptional-repair coupling factor [Streptomyces avermitilis MA-4680]). NECESSARY FOR STRAND-SPECIFIC REPAIR. A LESION IN THE TEMPLATE STRAND BLOCKS THE RNA POLYMERASE COMPLEX (RNAP). THE RNAP-DNA-RNA COMPLEX IS SPECIFICALLY RECOGNIZED BY TRCF WHICH RELEASES RNAP AND THE TRUNCATED TRANSCRIPT; THE TCRF MAY REPLACE RNAP AT THE LESION SITE AND THEN RECRUIT THE UVRA/B/C REPAIR SYSTEM (BY SIMILARITY). pfam02559,CarD_TRCF, CarD-like/TRCF domain. pfam00270, DEAD,DEAD/DEAH box helicase. pfam00271, Helicase_C, Helicase conserved C-terminal domain. pfam03461, TRCF, TRCF domain. InterPro: Transcription-repair coupling factor.; High confidence in function and specificity
YP_001223014.1	Enables the recycling of peptidyl-tRNAs produced at termination of translation
YP_001223015.1	the Ctc family of proteins consists of two types, one that contains the N-terminal ribosomal protein L25 domain only which in Escherichia coli binds the 5S rRNA while a subset of proteins contain a C-terminal extension that is involved in the stress response
YP_001223016.1	putative gluconokinase/dehydrogenase two-domain protein N-terminal: COG3265, GntK, Gluconate kinase (NP_738994.1| putative gluconokinase [Corynebacterium efficiens YS-314]; ZP_00057417.1| COG3265: Gluconate kinase [Thermobifida fusca]). C-terminal: COG0673, MviM,Predicted dehydrogenases and related proteins; pfam01408,GFO_IDH_MocA, Oxidoreductase family, NAD-binding Rossmann fold, pfam02894, GFO_IDH_MocA_C, Oxidoreductase family, C-terminal alpha/beta domain. (NP_622316.1| predicted dehydrogenases and related proteins [Thermoanaerobacter tengcongensis]; NP_782809.1| lipopolysaccharide biosynthesis protein [Clostridium tetani E88]). InterPro: Shikimate kinase; Function unclear
YP_001223017.1	catalyzes the formation of D-ribulose 5-phosphate from 6-phospho-D-gluconate
YP_001223018.1	hypothetical protein (YP_062601.1| Hypothetical protein Lxx17390 [Leifsonia xyli subsp. xyli str. CTCB07]).
YP_001223019.1	catalyzes the formation of 5-phospho-alpha-D-ribose 1-phosphate from D-ribose 5-phosphate and ATP
YP_001223020.1	forms a homotrimer; catalyzes the acetylation of glucosamine-1-phosphate and uridylation of N-acetylglucosamine-1-phosphate to produce UDP-GlcNAc; function in cell wall synthesis
YP_001223021.1	putative transcriptional regulator, MarR family (YP_062606.1| transcriptional regulator, MarR family [Leifsonia xyli subsp. xyli str. CTCB07]; NP_627350.1| putative MarR-family regulator [Streptomyces coelicolor A3(2)]). pfam01047, MarR, MarR family. The Mar proteins are involved in the multiple antibiotic resistance, a non-specific resistance system.; Specificity unclear
YP_001223022.1	conserved hypothetical protein, putative DNA-binding protein (ZP_00352245.1| COG1734: DnaK suppressor protein [Kineococcus radiotolerans SRS30216]; ZP_00238743.1| DnaK suppressor protein [Bacillus cereus G9241]). pfam01258, zf-dskA_traR, Prokaryotic dksA/traR C4-type zinc finger.
YP_001223023.1	putative monooxygenase (NP_601510.1| coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase [Corynebacterium glutamicum ATCC 13032]; NP_767884.1| flavin dependant oxidoreductase [Bradyrhizobium japonicum USDA 110]). pfam00296,Bac_luciferase, Luciferase-like monooxygenase.; Function unclear
YP_001223024.1	conserved membrane protein, LysE transporter family (CAA98398.1| PROBABLE CONSERVED INTEGRAL MEMBRANE PROTEIN [Mycobacterium tuberculosis H37Rv]; NP_638302.1| membrane transport protein [Xanthomonas campestris pv. campestris str. ATCC 33913]). pfam01810, LysE, LysE type translocator. This family consists of various hypothetical proteins and an l-lysine exporter LysE from Corynebacterium glutamicum which is proposed to be the first of a novel family of translocators.; Function unclear
YP_001223025.1	putative transcriptional regulator, LysR family (NP_822296.1| putative LysR-family transcriptional regulator [Streptomyces avermitilis MA-4680]; YP_116352.1| putative transcriptional regulator [Nocardia farcinica]). pfam00126, HTH_1, Bacterial regulatory helix-turn-helix protein, lysR family. pfam03466,LysR_substrate, LysR substrate binding domain.; Specificity unclear
YP_001223026.1	putative metal ABC transporter , permease component (YP_062479.1| ABC transporter, permease protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00121550.1| COG2011: ABC-type metal ion transport system, permease component [Bifidobacterium longum DJO10A]). pfam00528, BPD_transp_1,Binding-protein-dependent transport system inner membrane component. InterPro: Binding-protein-dependent transport systems inner membrane component.; Specificity unclear
YP_001223027.1	putative metal ABC transporter , ATP-binding protein (YP_062480.1| glycine betaine/proline porter [Leifsonia xyli subsp. xyli str. CTCB07]; NP_696132.1| ATP binding protein of ABC transporter [Bifidobacterium longum NCC2705]). pfam00005, ABC_tran, ABC transporter. InterPro: AAA ATPase superfamily.; Specificity unclear
YP_001223028.1	putative metal ABC transporter, substrate-binding protein (ZP_00121548.1| COG1464: ABC-type metal ion transport system, periplasmic component/surface antigen [Bifidobacterium longum DJO10A]; YP_120623.1| putative lipoprotein [Nocardia farcinica]). pfam03180,Lipoprotein_9, NLPA lipoprotein. This family of bacterial lipoproteins contains several antigenic members, that may be involved in bacterial virulence. Their precise function is unknown. However they are probably distantly related to pfam00497 which are solute binding proteins.; Specificity unclear
YP_001223030.1	putative ABC transporter, duplicated ATP-binding protein (YP_062608.1| oleandomycin resistance ATPase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_960308.1| hypothetical protein MAP1374c [Mycobacterium avium subsp. paratuberculosis str. k10]; ZP_00059317.1| COG0488: ATPase components of ABC transporters with duplicated ATPase domains [Thermobifida fusca]). pfam00005, ABC_tran,ABC transporter (twice). InterPro: AAA ATPase superfamily.; Specificity unclear
YP_001223031.1	putative DNA recombinase/integrase (BAA07372.1| ORF469 protein [Bacteriophage R4]; CAB09083.1| Probable phiRv1 integrase [Mycobacterium tuberculosis H37Rv]; NP_825645.1| putative integrase/recombinase [Streptomyces avermitilis MA-4680]).; Specificity unclear
YP_001223032.1	conserved hypothetical protein, ftsK homolog (NP_902149.1| cell division ftsk transmembrane protein [Chromobacterium violaceum ATCC 12472]; ZP_00217369.1| COG1674: DNA segregation ATPase FtsK/SpoIIIE and related proteins [Burkholderia cepacia R18194]). pfam01580,FtsK_SpoIIIE, FtsK/SpoIIIE family. FtsK has extensive sequence similarity to wide variety of proteins from prokaryotes and plasmids, termed the FtsK/SpoIIIE family. This domain contains a putative ATP binding P-loop motif.; Family membership
YP_001223035.1	putative endonuclease (NP_821177.1| putative endonuclease VII [Streptomyces avermitilis MA-4680]; AAN12731.1| gp89 [Mycobacteriophage Omega]) pfam02945,Endonuclease_7, Recombination endonuclease VII.; Function unclear
YP_001223036.1	putative endonuclease (NP_487703.1| unknown protein [Nostoc sp. PCC 7120]; CAD54902.1| putative lysogenic conversion protein [Bacteriophage P2-EC46]). pfam01844,HNH, HNH endonuclease.; Hypothetical protein
YP_001223037.1	hypothetical protein (NP_744426.1| hypothetical protein PP2277 [Pseudomonas putida KT2440])
YP_001223040.1	hypothetical secreted protein, putative pilin (NP_935571.1| type IV pilin PilA [Vibrio vulnificus YJ016]; ZP_00224593.1| COG4969: Tfp pilus assembly protein, major pilin PilA [Burkholderia cepacia R1808]). weak similarity to: COG4969, PilA, Tfp pilus assembly protein, major pilin PilA; pfam00114, Pilin, Pilin (bacterial filament).; Hypothetical protein
YP_001223042.1	putative recombinase/resolvase (AAG24402.1| site-specific recombinase [Actinobacillus actinomycetemcomitans]; CAE46772.1| recombinase [Yersinia enterocolitica]). pfam00239, Resolvase, Resolvase, N terminal domain. The N-terminal domain of the resolvase family (this family) contains the active site and the dimer interface.; Hypothetical protein
YP_001223044.1	hypothetical protein (only weak similarities to endonucleases: pfam01541, GIY-YIG, GIY-YIG catalytic domain. This domain called GIY-YIG is found in the amino terminal region of excinuclease abc subunit c (uvrC),bacteriophage T4 endonucleases segA, segB, segC, segD and segE; it is also found in putative endonucleases encoded by group I introns of fungi and phage; AAD42655.2| SegB homing endonuclease [Enterobacteria phage T4]).
YP_001223047.1	hypothetical protein (weak similarities to: NP_607806.1| conserved hypothetical phage protein [Streptococcus pyogenes MGAS8232]). weak similarity to: smart00470, ParB, ParB-like nuclease domain.
YP_001223050.1	putative multidrug-efflux MFS permease (NP_792949.1| multidrug resistance protein, putative [Pseudomonas syringae pv. tomato str. DC3000]; ZP_00363247.1| COG0477: Permeases of the major facilitator superfamily [Polaromonas sp. JS666]). pfam00083, Sugar_tr,Sugar (and other) transporter. InterPro: General substrate transporters.; Specificity unclear
YP_001223051.1	hypothetical membrane protein (YP_062968.1| Hypothetical protein Lxx21740 [Leifsonia xyli subsp. xyli str. CTCB07]).
YP_001223052.1	putative memebrane protein (YP_061591.1| Hypothetical protein Lxx05060 [Leifsonia xyli subsp. xyli str. CTCB07]; BAA19642.1| unnamed protein product [Actinobacillus actinomycetemcomitans]).
YP_001223053.1	putative membrane protein, probably involved in polysaccharide biosynthesis (CAE11262.1| YngA protein [Bacillus amyloliquefaciens]; AAG49410.1| dTDP-glucose-4-keto-6-deoxy-D-glucose reductase [Actinobacillus actinomycetemcomitans]; ZP_00293833.1| COG2246: Predicted membrane protein [Thermobifida fusca]). pfam04138, GtrA,GtrA-like protein. Members of this family are predicted to be integral membrane proteins with three or four transmembrane spans. They are involved in the synthesis of cell surface polysaccharides.; Conserved hypothetical protein
YP_001223054.1	conserved membrane protein (YP_061597.1| Hypothetical protein Lxx05130 [Leifsonia xyli subsp. xyli str. CTCB07]; NP_788994.1| putative integral membrane protein [Tropheryma whipplei TW08/27]).; Conserved hypothetical protein
YP_001223055.1	putative glycosyl transferase (YP_061598.1| dolichyl-phosphate mannose synthase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_787166.1| glycosyltransferase [Tropheryma whipplei str. Twist]; NP_835088.1| Glycosyltransferase involved in cell wall biogenesis [Bacillus cereus ATCC 14579]). pfam00535, Glycos_transf_2,Glycosyl transferase. Diverse family, transferring sugar from UDP-glucose, UDP-N-acetyl- galactosamine, GDP-mannose or CDP-abequose, to a range of substrates including cellulose, dolichol phosphate and teichoic acids. InterPro: Glycosyl transferase family 2. pfam00535,Glycos_transf_2, Glycosyl transferase. Diverse family,transferring sugar from UDP-glucose, UDP-N-acetyl-galactosamine, GDP-mannose or CDP-abequose, to a range of substrates including cellulose, dolichol phosphate and teichoic acids.; Function unclear
YP_001223056.1	putative molybdopterin cofactor biosynthesis protein (CAD47961.1| molybdopterin synthase (large subunit moaE) [Arthrobacter nicotinovorans]; CAF18780.1| MOLYBDOPTERIN SYNTHASE, LARGE SUBUNIT [Corynebacterium glutamicum ATCC 13032]). pfam02391, MoaE, MoaE protein. This family contains the MoaE protein that is involved in biosynthesis of molybdopterin. InterPro: Molydopterin converting factor subunit 2.; High confidence in function and specificity
YP_001223057.1	putative molybdenum cofactor biosynthesis protein (NP_335315.1| molybdopterin biosynthesis Mog protein [Mycobacterium tuberculosis CDC1551]; NP_824847.1| putative molybdopterin biosynthesis protein [Streptomyces avermitilis MA-4680]). pfam00994, MoCF_biosynth, Probable molybdopterin binding domain. This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor.; Function unclear
YP_001223058.1	putative molybdenum cofactor biosynthesis protein (CAD47960.1| molybdopterin cofactor synthesis protein moaC [Arthrobacter nicotinovorans]; NP_599464.1| molybdenum cofactor biosynthesis enzyme [Corynebacterium glutamicum ATCC 13032]). pfam01967, MoaC, MoaC family. Members of this family are involved in molybdenum cofactor biosynthesis. However their molecular function is not known. InterPro: MoaC family.; High confidence in function and specificity
YP_001223059.1	putative molybdopterin biosynthesis protein (CAD47959.1| molybdopterin cofactor synthesis protein moeA [Arthrobacter nicotinovorans]; O53725|MEA2_MYCTU Molybdopterin biosynthesis protein moeA 2). pfam03453,MoeA_N, MoeA N-terminal region (domain I and II). pfam00994, MoCF_biosynth, Probable molybdopterin binding domain. pfam03454, MoeA_C, MoeA C-terminal region (domain IV). InterPro: Molybdenum cofactor biosynthesis protein.; High confidence in function and specificity
YP_001223061.1	conserved hypothetical protein, putative carboxyphosphonoenolpyruvate phosphonomutase (AAU16741.1| conserved hypothetical protein; possible carboxyphosphonoenolpyruvate phosphonomutase [Bacillus cereus ZK]; NP_463608.1|; Function unclear
YP_001223062.1	putative methylthioadenosine phosphorylase (ZP_00059934.1| COG0005: Purine nucleoside phosphorylase [Clostridium thermocellum ATCC 27405]; NP_627402.1| putative methylthioadenosine phosphorylase [Streptomyces coelicolor A3(2)]). pfam00896, Mtap_PNP, Phosphorylase family 2.; Specificity unclear
YP_001223063.1	putative UDP-glucose 4-epimerase (NP_627930.1| putative epimerase [Streptomyces coelicolor A3(2)]; NP_334969.1| NAD-dependent epimerase/dehydratase family protein [Mycobacterium tuberculosis CDC1551]). pfam01370,Epimerase, NAD dependent epimerase/dehydratase family. InterPro: NAD dependent epimerase/dehydratase family.; Specificity unclear
YP_001223065.1	putative short chain dehydrogenase/oxidoreductase (LVR_LEIAQ Levodione reductase ((6R)-2,2,6-trimethyl-1,4-cyclohexanedione reductase) [Leifsonia aquatica]; NP_691955.1| cyclohexanol dehydrogenase [Oceanobacillus iheyensis HTE831]). pfam00106, adh_short, short chain dehydrogenase. This family contains a wide variety of dehydrogenases.; Specificity unclear
YP_001223066.1	hypothetical membrane protein, putative protease (NP_691838.1| hypothetical protein OB0917 [Oceanobacillus iheyensis HTE831]; YP_099030.1| putative metal-dependent membrane protease [Bacteroides fragilis YCH46]).
YP_001223067.1	hypothetical protein (ZP_00193445.2| hypothetical protein MBNC02003411 [Mesorhizobium sp. BNC1]; AAG02159.1| unknown [Zymomonas mobilis]).
YP_001223071.1	putative permease (NP_721165.1| conserved hypothetical protein; putative permease [Streptococcus mutans UA159]; NP_978154.1| membrane protein, putative [Bacillus cereus ATCC 10987]; NP_825745.1| hypothetical protein SAV4568 [Streptomyces avermitilis MA-4680]). pfam03773, DUF318, Predicted permease. This family of integral membrane proteins are predicted to be permeases of unknown specificity.
YP_001223072.1	conserved membrane protein (NP_681143.1| hypothetical protein tlr0353 [Thermosynechococcus elongatus BP-1]; ZP_00112177.1| COG3689: Predicted membrane protein [Nostoc punctiforme PCC 73102]). 2_A_01_02: Multidrug resistance protein; Conserved hypothetical protein
YP_001223074.1	conserved hypothetical protein (ZP_00220356.1| COG0662: Mannose-6-phosphate isomerase [Burkholderia cepacia R1808]; ZP_00135743.1| COG0662: Mannose-6-phosphate isomerase [Pseudomonas aeruginosa UCBPP-PA14]).; Function unclear
YP_001223075.1	hypothetical protein (NP_925435.1| hypothetical protein glr2489 [Gloeobacter violaceus PCC 7421]; ZP_00291340.1| COG2931: RTX toxins and related Ca2+-binding proteins).
YP_001223076.1	putative transcriptional regulator, PadR family (NP_625650.1| conserved hypothetical protein [Streptomyces coelicolor A3(2)]; NP_959288.1| hypothetical protein MAP0354c [Mycobacterium avium subsp. paratuberculosis str. k10]). pfam03551, PadR, Transcriptional regulator PadR-like family.; Specificity unclear
YP_001223078.1	putative membrane-bound oxidoreductase (NP_624868.1| putative membrane-bound oxidoreductase [Streptomyces coelicolor A3(2)]; ZP_00228326.1| COG2041: Sulfite oxidase and related enzymes [Kineococcus radiotolerans SRS30216]). pfam00174, Oxidored_molyb,Oxidoreductase molybdopterin binding domain. This domain is found in a variety of oxidoreductases. pfam03404, Mo-co_dimer, Mo-co oxidoreductase dimerisation domain. This domain is found in molybdopterin cofactor (Mo-co) oxidoreductases. It is involved in dimer formation, and has an Ig-fold structure.; Function unclear
YP_001223079.1	putative two-component system sensor kinase (NP_825594.1| putative two-component system sensor kinase [Streptomyces avermitilis MA-4680]; NP_824147.1| putative two-component system sensor kinase [Streptomyces avermitilis MA-4680]). pfam00512, HisKA, His Kinase A (phosphoacceptor) domain. Dimerisation and phosphoacceptor domain of histidine kinases. pfam02518, HATPase_c,Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase.; Specificity unclear
YP_001223080.1	putative two-component system response regulator (NP_825593.1| putative two-component system response regulator [Streptomyces avermitilis MA-4680]; ZP_00062053.1| COG0745: Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Clostridium thermocellum ATCC 27405]). pfam00072,Response_reg, Response regulator receiver domain. This domain receives the signal from the sensor partner in bacterial two-component systems. It is usually found N-terminal to a DNA binding effector domain. pfam00486,Trans_reg_C, Transcriptional regulatory protein, C terminal.; Specificity unclear
YP_001223081.1	putative glycosyl transferase (NP_627933.1| putative glycosyltransferase [Streptomyces coelicolor A3(2)]; O32851|Y539_MYCTU Putative glycosyl transferase Rv0539/MT0564/Mb0553). pfam00535, Glycos_transf_2,Glycosyl transferase. Diverse family, transferring sugar from UDP-glucose, UDP-N-acetyl- galactosamine, GDP-mannose or CDP-abequose, to a range of substrates including cellulose, dolichol phosphate and teichoic acids.; Function unclear
YP_001223082.1	conserved hypothetical protein (NP_825749.1| hypothetical protein SAV4572 [Streptomyces avermitilis MA-4680]; NP_215054.1| hypothetical protein Rv0540 [Mycobacterium tuberculosis H37Rv]). pfam05143, DUF703,Uncharacterized BCR (DUF703). Proteins in this family have no known function. They contain many conserved aspartates that might suggest this is a metalloprotein.; Function unclear
YP_001223083.1	putative SAM-dependant methyltransferase (NP_825748.1| hypothetical protein [Streptomyces avermitilis MA-4680]; AAK68925.1| putative methyltransferase [Bacteroides fragilis]). InterPro: SAM (and some other nucleotide) binding motif.; Family membership
YP_001223084.1	Hypothetical protein
YP_001223085.1	conserved membrane protein (CAB07013.1| PROBABLE CONSERVED TRANSMEMBRANE PROTEIN [Mycobacterium tuberculosis H37Rv]; NP_627937.1| putative membrane protein [Streptomyces coelicolor A3(2)]). pfam00174,Oxidored_molyb, Oxidoreductase molybdopterin binding domain. CynX: Cyanate transport system protein; Family membership
YP_001223086.1	hypothetical membrane protein (only weak similarities: NP_960846.1| hypothetical protein MAP1912 [Mycobacterium avium subsp. paratuberculosis str. k10]; YP_056579.1| conserved membrane protein [Propionibacterium acnes KPA171202]).
YP_001223087.1	putative molybdate ABC transporter, ATP-binding protein (NP_822897.1| putative ABC transporter ATP-binding protein [Streptomyces avermitilis MA-4680]; ZP_00292621.1| COG1118: ABC-type sulfate/molybdate transport systems, ATPase component [Thermobifida fusca]). pfam00005, ABC_tran, ABC transporter.; High confidence in function and specificity
YP_001223088.1	putative molybdate ABC transporter, permease component (NP_627897.1| putative ABC transporter membrane subunit [Streptomyces coelicolor A3(2)]; ZP_00292622.1| COG4149: ABC-type molybdate transport system, permease component [Thermobifida fusca]). pfam00528, BPD_transp_1,Binding-protein-dependent transport system inner membrane component.; High confidence in function and specificity
YP_001223089.1	putative molybdate ABC transporter, substrate-binding protein (NP_822895.1| putative substrate-binding periplasmic transport [Streptomyces avermitilis MA-4680]; YP_120541.1| putative transporter [Nocardia farcinica]).; High confidence in function and specificity
YP_001223090.1	putative transcriptional regulator involved in molybdate uptake (NP_960055.1| hypothetical protein MAP1121c [Mycobacterium avium subsp. paratuberculosis str. k10]; YP_055214.1| putative molybdopterin-binding protein [Propionibacterium acnes KPA171202]). COG3585, MopI,Molybdopterin-binding protein [Coenzyme metabolism].; High confidence in function and specificity
YP_001223091.1	together with moaC, is involved in the conversion of a guanosine derivative (GXP) into molybdopterin precursor Z
YP_001223092.1	putative molybdopterin converting factor, small subunit (CAD47957.1| putative molybdopterin cofactor synthesis protein moaD [Arthrobacter nicotinovorans]; NP_959740.1| MoaD2 [Mycobacterium avium subsp. paratuberculosis str. k10]).; High confidence in function and specificity
YP_001223093.1	putative siderophore-interacting protein (NP_600036.1| siderophore- interacting protein [Corynebacterium glutamicum ATCC 13032]; ZP_00139712.1| COG2375: Siderophore-interacting protein [Pseudomonas aeruginosa UCBPP-PA14]). pfam04954, SIP, Siderophore-interacting protein.; Function unclear
YP_001223094.1	putative Fe3+-siderophore ABC transporter,substrate-binding protein (NP_600037.1| ABC-type cobalamin/Fe3+-siderophore transport system, periplasmic component [Corynebacterium glutamicum ATCC 13032]; ZP_00187377.2| COG0614: ABC-type Fe3+-hydroxamate transport system, periplasmic component [Rubrobacter xylanophilus DSM 9941]). , pfam01497, Peripla_BP_2,Periplasmic binding protein. This family includes bacterial periplasmic binding proteins. Several of which are involved in iron transport.; Specificity unclear
YP_001223095.1	putative Fe3+-siderophore ABC transporter, permease component (CAF19214.1| cobalamin/ Fe3+-siderophores transport system, permease component [Corynebacterium glutamicum ATCC 13032]; AAD29085.1| FepD [Yersinia enterocolitica]). , pfam01032, FecCD, FecCD transport family. This is a sub-family of bacterial binding protein-dependent transport systems family. This Pfam entry contains the inner components of this multicomponent transport system. InterPro: FecCD transport family.; Specificity unclear
YP_001223096.1	putative Fe3+-siderophore ABC transporter, permease component (NP_535687.1| ABC transporter, membrane spanning protein [iron] [Agrobacterium tumefaciens str. C58]; CAF19213.1| cobalamin/Fe3+-siderophores transport system,permease component [Corynebacterium glutamicum ATCC 13032]). , pfam01032, FecCD, FecCD transport family. This is a sub-family of bacterial binding protein-dependent transport systems family. This Pfam entry contains the inner components of this multicomponent transport system.,InterPro: FecCD transport family; Specificity unclear
YP_001223097.1	conserved hypothetical protein (ZP_00028735.1| COG3865: Uncharacterized protein conserved in bacteria [Burkholderia fungorum]; NP_961602.1| hypothetical protein MAP2668c [Mycobacterium avium subsp. paratuberculosis str. k10]). pfam06983, 3-dmu-9_3-mt, 3-demethylubiquinone-9 3-methyltransferase.; Function unclear
YP_001223098.1	putative membrane protein (NP_628002.1| putative membrane protein [Streptomyces coelicolor A3(2)]).; Hypothetical protein
YP_001223099.1	putative transcriptional regulator, GntR family (NP_628001.1| putative putative transcriptional regulator,GntR family [Streptomyces coelicolor A3(2)]; NP_765180.1| transcription regulator GntR family [Staphylococcus epidermidis ATCC 12228]). pfam00392, GntR, Bacterial regulatory proteins, gntR family. InterPro: Bacterial regulatory proteins GntR family.; Specificity unclear
YP_001223100.1	putative transcriptional regulator, LacI family (ZP_00238821.1| ribose operon repressor RbsR [Bacillus cereus G9241]; NP_621898.1| Transcriptional regulator [Thermoanaerobacter tengcongensis]; NP_625360.1| putative lacI-family transcriptional regulator [Streptomyces coelicolor A3(2)]). pfam00356, LacI, Bacterial regulatory proteins, lacI family. pfam00532, Peripla_BP_1,Periplasmic binding proteins and sugar binding domain of the LacI family. This family includes the periplasmic binding proteins, and the LacI family transcriptional regulators. InterPro: Periplasmic binding proteins and sugar binding domain LacI family.; Specificity unclear
YP_001223101.1	putative oxidoreductase (NP_106951.1| ; NP_533647.1| oxidoreductase [Agrobacterium tumefaciens str. C58]). contains two domains: N-terminal, COG0673,MviM, Predicted dehydrogenases and related proteins; pfam01408, GFO_IDH_MocA, Oxidoreductase family, NAD-binding Rossmann fold. C-terminal, COG0667, Tas, Predicted oxidoreductases; pfam00248, Aldo_ket_red, Aldo/keto reductase family.; Function unclear
YP_001223102.1	putative transcriptional regulator,ArsR family (NP_422181.1| conserved hypothetical protein [Caulobacter crescentus CB15]; ZP_00199062.1| COG1846: Transcriptional regulators [Kineococcus radiotolerans SRS30216]). pfam01022, HTH_5, Bacterial regulatory protein, arsR family.; Specificity unclear
YP_001223103.1	Hypothetical protein
YP_001223104.1	putative transcriptional regulator, MarR family (NP_629432.1| putative MarR-family transcriptional regulator [Streptomyces coelicolor A3(2)]; ZP_00197677.1| COG1846: Transcriptional regulators [Mesorhizobium sp. BNC1]). pfam01047, MarR, MarR family. The Mar proteins are involved in the multiple antibiotic resistance, a non-specific resistance system.; Specificity unclear
YP_001223105.1	conserved membrane protein (NP_739226.1| hypothetical protein CE2616 [Corynebacterium efficiens YS-314]; YP_061908.1| Hypothetical protein Lxx09140 [Leifsonia xyli subsp. xyli str. CTCB07]). 2_A_01_02: Multidrug resistance protein; Conserved hypothetical protein
YP_001223106.1	hypothetical acetyltransferase (ZP_00210091.1| COG0454: Histone acetyltransferase HPA2 and related acetyltransferases [Magnetospirillum magnetotacticum MS-1]). pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family. This family contains proteins with N-acetyltransferase functions.; Hypothetical protein
YP_001223108.1	putative molybdenum cofactor biosynthesis protein (Molybdopterin synthase sulfurylase) (YP_120782.1| putative molybdopterin biosynthesis protein [Nocardia farcinica]; NP_301623.1| probably involved in molybdopterin biosynthesis [Mycobacterium leprae TN]). pfam00899, ThiF, ThiF family. This family contains a repeated domain in ubiquitin activating enzyme E1 and members of the bacterial ThiF/MoeB/HesA family. pfam05237,MoeZ_MoeB, MoeZ/MoeB domain. pfam00581, Rhodanese,Rhodanese-like domain.; High confidence in function and specificity
YP_001223109.1	conserved membrane protein (NP_962739.1| hypothetical protein MAP3805c [Mycobacterium avium subsp. paratuberculosis str. k10]; NP_826266.1| hypothetical protein SAV5089 [Streptomyces avermitilis MA-4680]). 2A0106: citrate-proton symport; Conserved hypothetical protein
YP_001223110.1	putative hydrolase (NP_823898.1| putative hydrolase [Streptomyces avermitilis MA-4680]; ZP_00216890.1| COG0596: Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [Burkholderia cepacia R18194]). pfam00561, Abhydrolase_1, alpha/beta hydrolase fold. This catalytic domain is found in a very wide range of enzymes.; Family membership
YP_001223111.1	conserved hypothetical protein (NP_624780.1| hypothetical protein SCF51A.38 [Streptomyces coelicolor A3(2)]; YP_120059.1| hypothetical protein nfa38470 [Nocardia farcinica]). pfam07336, DUF1470, Protein of unknown function (DUF1470). ahpD_dom: alkylhydroperoxidase AhpD famil
YP_001223112.1	catalyzes the phosphorylation of 4-diphosphocytidyl-2-C-methyl-D-erythritol in the nonmevalonate pathway of isoprenoid biosynthesis
YP_001223113.1	catalyzes the transfer of a total of four methyl groups from S-adenosyl-l-methionine (S-AdoMet) to two adjacent adenosine bases A1518 and A1519 in 16S rRNA; mutations in ksgA causes resistance to the translation initiation inhibitor kasugamycin
YP_001223114.1	putative DNase (YP_062611.1| sec-independent protein TadD [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00227356.1| COG0084: Mg-dependent DNase [Kineococcus radiotolerans SRS30216]; NP_789377.1| putative TatD-family DNase [Tropheryma whipplei TW08/27]). pfam01026,TatD_DNase, TatD related DNase. This family of proteins are related to a large superfamily of metalloenzymes. TatD, a member of this family has been shown experimentally to be a DNase enzyme.; Function unclear
YP_001223115.1	methionine--tRNA ligase; MetRS; adds methionine to tRNA(Met) with cleavage of ATP to AMP and diphosphate; some MetRS enzymes form dimers depending on a C-terminal domain that is also found in other proteins such as Trbp111 in Aquifex aeolicus and the cold-shock protein CsaA from Bacillus subtilis while others do not; four subfamilies exist based on sequence motifs and zinc content
YP_001223116.1	catalyzes the formation of citrate from acetyl-CoA and oxaloacetate
YP_001223117.1	putative dihydrolipoamide dehydrogenase (E3) component (ZP_00163991.2| COG1249: Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Synechococcus elongatus PCC 7942]; NP_713067.1| Dihydrolipoamide dehydrogenase [Leptospira interrogans serovar Lai str. 56601]). ,pfam00070, Pyr_redox, Pyridine nucleotide-disulphide oxidoreductase. This family includes both class I and class II oxidoreductases and also NADH oxidases and peroxidases. , pfam02852, Pyr_redox_dim, Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain.; Function unclear
YP_001223118.1	putative NAD(P)H oxidoreductase (NP_249916.1| probable NAD(P)H dehydrogenase [Pseudomonas aeruginosa PA01]; ZP_00270658.1| COG2249: Putative NADPH-quinone reductase (modulator of drug activity B) [Rhodospirillum rubrum])., , pfam02525, Flavodoxin_2, Flavodoxin-like fold.; Function unclear
YP_001223119.1	putative Zn-dependant alcohol dehydrogenase (NP_628443.1| putative NADP-dependent alcohol dehydrogenase [Streptomyces coelicolor A3(2)]; NP_299023.1| NADP-alcohol dehydrogenase [Xylella fastidiosa 9a5c]). pfam00107, ADH_zinc_N, Zinc-binding dehydrogenase. tdh: L-threonine 3-dehydrogenase; Function unclear
YP_001223120.1	putative transcriptional regulator, TetR family (ZP_00191751.2| COG1309: Transcriptional regulator [Kineococcus radiotolerans SRS30216]; NP_628442.1| putative transcriptional regulator [Streptomyces coelicolor A3(2)]). pfam00440, TetR_N, Bacterial regulatory proteins, tetR family. InterPro: Bacterial regulatory proteins TetR family.; Specificity unclear
YP_001223121.1	putative membrane protein (AAN58622.1| conserved hypothetical protein [Streptococcus mutans UA159]; AAF24085.1| unknown [Staphylococcus aureus]).
YP_001223122.1	putative SAM-dependent methyltransferase (NP_630088.1| hypothetical protein [Streptomyces coelicolor A3(2)]; ZP_00060190.1| COG0500: SAM-dependent methyltransferases [Clostridium thermocellum ATCC 27405]).; Function unclear
YP_001223123.1	putative phosphatase (ZP_00227056.1| COG0639: Diadenosine tetraphosphatase and related serine/threonine protein phosphatases [Kineococcus radiotolerans SRS30216]; NP_630089.1| putative phosphatase [Streptomyces coelicolor A3(2)]). pfam00149, Metallophos,Calcineurin-like phosphoesterase. InterPro: Serine/threonine specific protein phosphatase.; Function unclear
YP_001223124.1	putative methylisocitrate lyase (YP_061313.1| phosphonomutase [Leifsonia xyli subsp. xyli str. CTCB07]; Q8NSL2|PRB2_CORGL Probable methylisocitrate lyase 2 (2-methylisocitrate lyase 2)).; Specificity unclear
YP_001223125.1	putative 2-methylcitrate dehydratase (ZP_00267780.1| COG2079: Uncharacterized protein involved in propionate catabolism [Rhodospirillum rubrum]; Q8NSL3|PRD2_CORGL 2-methylcitrate dehydratase 2). pfam03972, MmgE_PrpD, MmgE/PrpD family. This family includes 2-methylcitrate dehydratase EC:4.2.1.79 that is required for propionate catabolism. It catalyses the third step of the 2-methylcitric acid cycle.; Specificity unclear
YP_001223126.1	putative acetyltransferase pfam00583,Acetyltransf_1, Acetyltransferase (GNAT) family. This family contains proteins with N-acetyltransferase functions (duplicated). similarities N-terminal: putative IAA acetyltransferase; D97569 iaa acetyltransferase [imported] - Agrobacterium tumefaciens (strain C58,Cereon); P26945|IAAT_AZOBR IAA ACETYLTRANSFERASE). C-terminal: NP_627571.1| putative acetyltransferase [Streptomyces coelicolor A3(2)]; ZP_00215080.1| COG0454: Histone acetyltransferase HPA2 and related acetyltransferases [Burkholderia cepacia R18194]. duplicated domain: pfam00583, Acetyltransf_1,Acetyltransferase (GNAT) family. This family contains proteins with N-acetyltransferase functions.; Function unclear
YP_001223127.1	hypothetical protein, putative perforin (CAE13708.1| unnamed protein product [Photorhabdus luminescens subsp. laumondii TTO1]; ZP_00328149.1| hypothetical protein Tery02000057 [Trichodesmium erythraeum IMS101]). , weak similarity to: smart00457,MACPF, membrane-attack complex/perforin
YP_001223128.1	conserved hypothetical protein (NP_642470.1| hypothetical protein XAC2153 [Xanthomonas axonopodis pv. citri str. 306]; ZP_00127398.2| COG3506: Uncharacterized conserved protein [Pseudomonas syringae pv. syringae B728a]). pfam07081, DUF1349, Protein of unknown function (DUF1349).
YP_001223129.1	putative sugar acetyltransferase (NP_631564.1| putative sugar acetyltransferase [Streptomyces coelicolor A3(2)]; ZP_00291641.1| COG0110: Acetyltransferase (isoleucine patch superfamily) [Thermobifida fusca]). cd00208, LbetaH, Left-Handed Parallel beta-Helix; Proteins containing hexapeptide repeats are often enzymes showing acyl-transferase activity, many are trimeric in their active form. InterPro: Bacterial transferase hexapeptide repeat.; Function unclear
YP_001223130.1	putative transcriptional regulator, TetR family (NP_631563.1| putative tetR-family transcriptional regulatory protein [Streptomyces coelicolor A3(2)]; NP_415367.1| putative DEOR-type transcriptional regulator; putative transcriptional regulator (TetR family) [Escherichia coli K12]). pfam00440, TetR_N, Bacterial regulatory proteins, tetR family. InterPro: Bacterial regulatory proteins TetR family.; Specificity unclear
YP_001223131.1	putative membrane-bound tyrosin-protein phosphatase (YP_014420.1| protein-tyrosine phosphatase, putative [Listeria monocytogenes str. 4b F2365]). pfam03162,Y_phosphatase2, Tyrosine phosphatase family. InterPro: Tyrosine specific protein phosphatase and dual specificity protein phosphatase family.; Family membership
YP_001223132.1	Hypothetical protein
YP_001223133.1	conserved membrane protein (NP_736677.1| hypothetical protein CE0067 [Corynebacterium efficiens YS-314]; NP_625097.1| putative integral membrane protein. [Streptomyces coelicolor A3(2)]).; Conserved hypothetical protein
YP_001223134.1	putative permease, DMT family (ZP_00294424.1| COG0697: Permeases of the drug/metabolite transporter (DMT) superfamily [Thermobifida fusca]; YP_117052.1| hypothetical protein nfa8430 [Nocardia farcinica]). pfam00892, DUF6, Integral membrane protein DUF6. This family includes many hypothetical membrane proteins of unknown function (duplicated).; Specificity unclear
YP_001223135.1	conserved hypothetical protein (NP_827985.1| hypothetical protein SAV6809 [Streptomyces avermitilis MA-4680]; NP_927352.1| hypothetical protein glr4405 [Gloeobacter violaceus PCC 7421]). pfam07336, DUF1470,Protein of unknown function (DUF1470).
YP_001223136.1	putative methyltransferase (YP_062614.1| tetrapyrrole methylase [Leifsonia xyli subsp. xyli str. CTCB07]; BAB98284.1| Predicted methyltransferases [Corynebacterium glutamicum ATCC 13032]). pfam00590,TP_methylase, Tetrapyrrole (Corrin/Porphyrin) Methylases. This family uses S-AdoMet in the methylation of diverse substrates. InterPro: Uncharacterized protein family UPF0011.; Function unclear
YP_001223138.1	conserved membrane protein (NP_939230.1| Putative membrane protein [Corynebacterium diphtheriae NCTC 13129]; NP_744462.1| hypothetical protein PP2313 [Pseudomonas putida KT2440]). pfam04173, DoxD, DoxD-like family.; Conserved hypothetical protein
YP_001223139.1	Hypothetical protein
YP_001223143.1	putative dolichyl-phosphate-mannose-protein mannosyltransferase (YP_062615.1| integral membrane protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00228125.1| COG1928: Dolichyl-phosphate-mannose-protein O-mannosyl transferase [Kineococcus radiotolerans SRS30216]; NP_627370.1| putative integral membrane protein. [Streptomyces coelicolor A3(2)]). pfam02366, PMT,Dolichyl-phosphate-mannose-protein mannosyltransferase. This is a family of Dolichyl-phosphate-mannose-protein mannosyl- transferase proteins EC:2.4.1.109. These proteins are responsible for O-linked glycosylation of proteins, they catalyse the reaction:- Dolichyl phosphate D-mannose + protein <=> dolichyl phosphate + O-D-mannosyl-protein. InterPro: Dolichyl-phosphate-mannose-protein mannosyltransferase.; Function unclear
YP_001223144.1	conserved membrane protein (CAF18580.1| HYPOTHETICAL MEMBRANE PROTEIN [Corynebacterium glutamicum ATCC 13032]; ZP_00226109.1| COG2855: Predicted membrane protein [Kineococcus radiotolerans SRS30216]). pfam03601,Cons_hypoth698, Conserved hypothetical protein 698.
YP_001223145.1	putative O-acetylhomoserine (thiol)-lyase (ZP_00352381.1| COG2873: O-acetylhomoserine sulfhydrylase [Kineococcus radiotolerans SRS30216]; ZP_00329508.1| COG2873: O-acetylhomoserine sulfhydrylase [Moorella thermoacetica ATCC 39073]). pfam01053, Cys_Met_Meta_PP,Cys/Met metabolism PLP-dependent enzyme. This family includes enzymes involved in cysteine and methionine metabolism. The following are members: Cystathionine gamma-lyase, Cystathionine gamma-synthase, Cystathionine beta-lyase, Methionine gamma-lyase, OAH/OAS sulfhydrylase, O-succinylhomoserine sulfhydrylase All of these members participate is slightly different reactions. All these enzymes use PLP (pyridoxal-5'-phosphate) as a cofactor.; High confidence in function and specificity
YP_001223146.1	conserved hypothetical protein (ZP_00225776.1| COG1832: Predicted CoA-binding protein [Kineococcus radiotolerans SRS30216]; NP_243007.1| BH2141~unknown conserved protein [Bacillus halodurans C-125]). pfam02629,CoA_binding, CoA binding domain. This domain has a Rossmann fold and is found in a number of proteins including succinyl CoA synthetases, malate and ATP-citrate ligases. InterPro: DUF184.; Family membership
YP_001223147.1	conserved hypothetical protein (NP_683235.1| hypothetical protein tll2445 [Thermosynechococcus elongatus BP-1]; ZP_00353314.1| COG2343: Uncharacterized protein conserved in bacteria [Kineococcus radiotolerans SRS30216]). pfam04248, DUF427, Domain of unknown function (DUF427). L37a: ribosomal protein L37a
YP_001223148.1	conserved membrane protein (YP_056449.1| hypothetical protein PPA1762 [Propionibacterium acnes KPA171202]; ZP_00208942.1| COG2261: Predicted membrane protein [Magnetospirillum magnetotacticum MS-1]).; Conserved hypothetical protein
YP_001223149.1	Hypothetical protein
YP_001223150.1	putative L-serine dehydratase (ZP_00278039.1| COG1760: L-serine deaminase [Burkholderia fungorum LB400]; ZP_00244926.1| COG1760: L-serine deaminase [Rubrivivax gelatinosus PM1]). pfam03313, SDH_alpha,Serine dehydratase alpha chain.L-serine dehydratase (EC:4.2.1.13) is a found as a heterodimer of alpha and beta chain or as a fusion of the two chains in a single protein. This enzyme catalyses the deamination of serine to form pyruvate. This enzyme is part of the gluconeogenesis pathway. pfam03315, SDH_beta, Serine dehydratase beta chain. InterPro: Iron-sulfur-dependent L-serine dehydratase single chain form.; High confidence in function and specificity
YP_001223151.1	hypothetical membrane protein (NP_600018.1| hypothetical membrane protein [Corynebacterium glutamicum ATCC 13032];).; Hypothetical protein
YP_001223152.1	conserved hypothetical protein (AAL17938.1| alanine-rich hypothetical protein [Mycobacterium smegmatis]; NP_626160.1| hypothetical alanine-rich protein [Streptomyces coelicolor A3(2)]).
YP_001223153.1	putative transcriptional regulator, IclR family (NP_827564.1| putative IclR-family transcriptional regulator [Streptomyces avermitilis MA-4680]; NP_626139.1| putative IclR-family transcriptional regulator [Streptomyces coelicolor A3(2)]). , pfam01614,IclR, Bacterial transcriptional regulator. , InterPro: Bacterial regulatory proteins IclR family.; Specificity unclear
YP_001223154.1	putative NDP-sugar epimerase (AAL17942.1| putative UDP glucose epimerase [Mycobacterium smegmatis]; ZP_00057790.1| COG0451: Nucleoside-diphosphate-sugar epimerases [Thermobifida fusca]). pfam01370, Epimerase,NAD dependent epimerase/dehydratase family. This family of proteins utilise NAD as a cofactor. The proteins in this family use nucleotide-sugar substrates for a variety of chemical reactions.; Function unclear
YP_001223155.1	putative sugar ABC transporter, substrate-binding protein (YP_069044.1| putative sugar binding protein, ABC transport system [Yersinia pseudotuberculosis IP 32953]; NP_826308.1| putative sugar transporter sugar-binding protein [Streptomyces avermitilis MA-4680]). pfam01547,SBP_bac_1, Bacterial extracellular solute-binding protein. InterPro: Bacterial extracellular solute-binding protein family 1.; Specificity unclear
YP_001223156.1	putative sugar ABC transporter, permease component (NP_406930.1| sugar transport system, permease protein [Yersinia pestis CO92]; NP_107401.1| ABC transporter,permease protein [Mesorhizobium loti MAFF303099]). pfam00528, BPD_transp_1, Binding-protein-dependent transport system inner membrane component.; Specificity unclear
YP_001223157.1	putative sugar ABC transporter, permease component (NP_406929.1| sugar transport system, permease protein [Yersinia pestis CO92]; YP_059565.1| N-acetylneuraminate transport system permease protein [Streptococcus pyogenes MGAS10394]). pfam00528, BPD_transp_1, Binding-protein-dependent transport system inner membrane component. InterPro: Binding-protein-dependent transport systems inner membrane component.; Specificity unclear
YP_001223158.1	putative glucarate dehydratase (EAA73209.1| conserved hypothetical protein [Gibberella zeae PH-1]; NP_826758.1| putative glucarate dehydratase [Streptomyces avermitilis MA-4680]). pfam02746, MR_MLE_N, Mandelate racemase / muconate lactonizing enzyme, N-terminal domain. pfam01188, MR_MLE, Mandelate racemase / muconate lactonizing enzyme, C-terminal domain. InterPro: Mandelate racemase/muconate lactonizing enzyme family.; Specificity unclear
YP_001223159.1	catalyzes the formation of 2,5-dioxopentanoate from 5-dehydro-4-deoxy-D-glucarate
YP_001223160.1	conserved hypothetical protein (ZP_00291796.1| COG1331: Highly conserved protein containing a thioredoxin domain [Thermobifida fusca]; NP_824472.1| hypothetical protein SAV3296 [Streptomyces avermitilis MA-4680]). pfam03190, DUF255, Protein of unknown function, DUF255.
YP_001223161.1	putative magnesium and cobalt transport protein,MIT family (NP_823212.1| putative metal-transport protein [Streptomyces avermitilis MA-4680]; ZP_00292887.1| COG0598: Mg2+ and Co2+ transporters [Thermobifida fusca]). pfam01544, CorA, CorA-like Mg2+ transporter protein. ,InterPro: CorA-like Mg2+ transporter protein.; Specificity unclear
YP_001223162.1	putative aldo/keto reductase (BAB99752.1| Aldo/keto reductases, related to diketogulonate reductase [Corynebacterium glutamicum ATCC 13032]; NP_788971.1| 2,5-diketo-D-gluconic acid reductase A [Tropheryma whipplei TW08/27]). pfam00248, Aldo_ket_red, Aldo/keto reductase family.; Function unclear
YP_001223163.1	putative long-chain-fatty-acid-CoA ligase (ZP_00294061.1| COG0318: Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Thermobifida fusca]; NP_822779.1| putative acyl-CoA synthetase, long-chain fatty acid:CoA ligase [Streptomyces avermitilis MA-4680]). pfam00501, AMP-binding, AMP-binding enzyme. InterPro: AMP-dependent synthetase and ligase.; Specificity unclear
YP_001223164.1	putative ATP-dependent helicase (CAG20164.1| putative ATP-dependent helicase HrpA [Photobacterium profundum]; ZP_00292334.1| COG1643: HrpA-like helicases [Thermobifida fusca]). pfam00270, DEAD, DEAD/DEAH box helicase. pfam04408, HA2, Helicase associated domain (HA2). This presumed domain is about 90 amino acid residues in length. It is found is a diverse set of RNA helicases. pfam00271, Helicase_C, Helicase conserved C-terminal domain.; Function unclear
YP_001223165.1	putative peptide ABC transporter, substrate-binding protein (NP_631716.1| putative secreted solute-binding protein [Streptomyces coelicolor A3(2)]; ZP_00278819.1| COG0747: ABC-type dipeptide transport system, periplasmic component [Burkholderia fungorum LB400]). pfam00496,SBP_bac_5, Bacterial extracellular solute-binding proteins, family 5. InterPro: Bacterial extracellular solute-binding protein family 5.; Specificity unclear
YP_001223166.1	putative peptide ABC transporter, permease component ( NP_631717.1| putative metal transport integral membrane protein [Streptomyces coelicolor A3(2)]; ZP_00303394.1| COG0601: ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Novosphingobium aromaticivorans DSM 12444]). pfam00528, BPD_transp_1, Binding-protein-dependent transport system inner membrane component.; Specificity unclear
YP_001223167.1	putative peptide ABC transporter, permease component (ZP_00364680.1| COG1173: ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Polaromonas sp. JS666]; NP_105840.1| ABC transporter, permease protein [Mesorhizobium loti MAFF303099]). pfam00528, BPD_transp_1, Binding-protein-dependent transport system inner membrane component.; Specificity unclear
YP_001223168.1	putative peptide ABC transporter, ATP-binding protein (NP_631719.1| putative ABC transporter ATP-binding protein [Streptomyces coelicolor A3(2)]; NP_790103.1| peptide ABC transporter, ATP-binding protein [Pseudomonas syringae pv. tomato str. DC3000]). pfam00005, ABC_tran,ABC transporter (duplicated).; Specificity unclear
YP_001223170.1	conserved membrane protein (NP_629518.1| putative membrane protein [Streptomyces coelicolor A3(2)]; YP_080528.1| hypothetical protein BL02151 [Bacillus licheniformis DSM 13]).; Conserved hypothetical protein
YP_001223171.1	putative thiosulfate sulfurtransferase (YP_117233.1| putative thiosulfate sulfurtransferase [Nocardia farcinica]; ZP_00199189.1| COG2897: Rhodanese-related sulfurtransferase [Kineococcus radiotolerans SRS30216]). pfam00581, Rhodanese, Rhodanese-like domain (twice).; Specificity unclear
YP_001223172.1	putative acetyltransferase (ZP_00057878.1| COG0454: Histone acetyltransferase HPA2 and related acetyltransferases [Thermobifida fusca]; NP_627391.1| putative acetyltransferase [Streptomyces coelicolor A3(2)]). pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family. This family contains proteins with N-acetyltransferase functions.; Function unclear
YP_001223173.1	B2 or R2 protein; type 1b enzyme; catalyzes the rate-limiting step in dNTP synthesis; converts nucleotides to deoxynucleotides; forms a homodimer and then a multimeric complex with NrdE
YP_001223174.1	Catalyzes the rate-limiting step in dNTP synthesis
YP_001223175.1	putative MFS permease (YP_062629.1| ABC transporter, permease protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_787812.1| putative efflux protein [Tropheryma whipplei str. Twist]).; Function unclear
YP_001223177.1	putative aldo/keto reductase (NP_631342.1| putative oxidoreducatse [Streptomyces coelicolor A3(2)]; ZP_00294378.1| COG0667: Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Thermobifida fusca]). pfam00248, Aldo_ket_red, Aldo/keto reductase family. This family includes a number of K+ ion channel beta chain regulatory domains - these are reported to have oxidoreductase activity. InterPro: Aldo/keto reductase family.; Function unclear
YP_001223178.1	Hypothetical protein
YP_001223179.1	putative secreted serine protease, family S1C (NP_853797.1| PROBABLE SERINE PROTEASE PEPA [Mycobacterium bovis AF2122/97]; YP_121441.1| putative protease [Nocardia farcinica]). pfam00089, Trypsin, Trypsin. pfam00595, PDZ, PDZ domain (Also known as DHR or GLGF). PDZ domains are found in diverse signaling proteins.; Function unclear
YP_001223180.1	putative alpha-L-arabinofuranosidase (Arabinosidase) (ZP_00199261.1| COG3534: Alpha-L-arabinofuranosidase [Kineococcus radiotolerans SRS30216]; NP_626674.1| alpha-L-arabinofuranosidase [Streptomyces coelicolor A3(2)]). , pfam06964, Alpha-L-AF_C, Alpha-L-arabinofuranosidase C-terminus.; Specificity unclear
YP_001223181.1	putative L-arabinose ABC transporter, permease component (NP_631551.1| putative integral membrane binding-protein-dependent transport protein [Streptomyces coelicolor A3(2)]; NP_437582.1| putative sugar uptake ABC transporter permease protein [Sinorhizobium meliloti 1021]). pfam00528, BPD_transp_1, Binding-protein-dependent transport system inner membrane component. InterPro: Binding-protein-dependent transport systems inner membrane component.; Specificity unclear
YP_001223182.1	putative L-arabinose ABC transporter, permease component (NP_631550.1| putative integral membrane binding-protein-dependent transport protein [Streptomyces coelicolor A3(2)]; NP_470102.1|; Specificity unclear
YP_001223183.1	putative L-arabinose ABC transporter, substrate binding protein (NP_631549.1| putative extracellular solute-binding protein [Streptomyces coelicolor A3(2)]; NP_437584.1| putative sugar uptake ABC transporter periplasmic solute-binding protein precursor [Sinorhizobium meliloti 1021]). pfam01547, SBP_bac_1,Bacterial extracellular solute-binding protein.; Specificity unclear
YP_001223184.1	putative transcriptional regulator, LacI family (NP_625360.1| putative lacI-family transcriptional regulator [Streptomyces coelicolor A3(2)]; ZP_00198050.1| COG1609: Transcriptional regulators [Kineococcus radiotolerans SRS30216]). pfam00356, LacI, Bacterial regulatory proteins, lacI family. pfam00532, Peripla_BP_1,Periplasmic binding proteins and sugar binding domain of the LacI family.; Specificity unclear
YP_001223185.1	hypothetical protein (YP_061780.1| hypothetical protein Lxx07550 [Leifsonia xyli subsp. xyli str. CTCB07]).
YP_001223186.1	conserved membrane protein (NP_962814.1| hypothetical protein MAP3880 [Mycobacterium avium subsp. paratuberculosis str. k10]; ZP_00291826.1| COG0477: Permeases of the major facilitator superfamily [Thermobifida fusca]).
YP_001223187.1	putative methyltransferase (NP_627743.1| putative transferase [Streptomyces coelicolor A3(2)]; ZP_00292538.1| COG2890: Methylase of polypeptide chain release factors [Thermobifida fusca]). Interpro: SAM (and some other nucleotide) binding motif.; Family membership
YP_001223188.1	putative secreted cellulase containing cellulose-binding domain (endo-1,4-beta-glucanase) (CAA44467.2| Cellulase [Clavibacter michiganensis]; YP_063040.1| cellulase [Leifsonia xyli subsp. xyli str. CTCB07]). pfam00150, Cellulase, Cellulase (glycosyl hydrolase family 5). smart00637, CBD_II, CBD_II domain. InterPro: Glycoside hydrolase family 5.; Specificity unclear
YP_001223189.1	putative membrane protein (YP_061659.1| membrane protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_789610.1| putative integral membrane protein [Tropheryma whipplei TW08/27]).; Conserved hypothetical protein
YP_001223190.1	putative acetyltransferase (YP_061658.1| ribosomal-protein-alanine N-acetyltransferase [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00059290.1| COG1670: Acetyltransferases, including N-acetylases of ribosomal proteins [Thermobifida fusca]; NP_824846.1| putative ribosomal- protein-alanine N-acetyltransferase [Streptomyces avermitilis MA-4680]). pfam00583,Acetyltransf_1, Acetyltransferase (GNAT) family. This family contains proteins with N-acetyltransferase functions.; Function unclear
YP_001223191.1	putative UTP-glucose-1-phosphate uridylyltransferase (YP_061657.1| UTP-glucose-1-phosphate uridylyltransferase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_824850.1| putative UTP-glucose-1-phosphate uridylyltransferase [Streptomyces avermitilis MA-4680]). pfam00483, NTP_transferase, Nucleotidyl transferase. This family includes a wide range of enzymes which transfer nucleotides onto phosphosugars.; High confidence in function and specificity
YP_001223192.1	putative 5-formyltetrahydrofolate cyclo-ligase (YP_061656.1| 5-formyltetrahydrofolate cyclo-ligase-related protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_600108.1| 5-formyltetrahydrofolate cyclo-ligase [Corynebacterium glutamicum ATCC 13032]). pfam01812, 5-FTHF_cyc-lig, 5-formyltetrahydrofolate cyclo-ligase family. InterPro: 5-formyltetrahydrofolate cyclo-ligase.; Function unclear
YP_001223193.1	conserved hypothetical protein (only N-terminal similarities; NP_335453.1| hypothetical protein MT1020 [Mycobacterium tuberculosis CDC1551]; NP_627401.1| conserved hypothetical protein SCE22.04 [Streptomyces coelicolor A3(2);).
YP_001223194.1	putative large-conductance mechanosensitive channel (YP_061654.1| large-conductance mechanosensitive channel [Leifsonia xyli subsp. xyli str. CTCB07]; NP_939223.1| large-conductance mechanosensitive channel [Corynebacterium diphtheriae]; NP_627404.1| putative mechanosensitive channel [Streptomyces coelicolor A3(2)]). pfam01741, MscL, Large-conductance mechanosensitive channel, MscL. InterPro: Large-conductance mechanosensitive channel mscL.; Function unclear
YP_001223195.1	conserved hypothetical protein (YP_061653.1| hypothetical protein Lxx05870 [Leifsonia xyli subsp. xyli str. CTCB07]; NP_789612.1| conserved large hypothetical protein [Tropheryma whipplei TW08/27]).; Family membership
YP_001223196.1	putative fusion protein containg a putative transcriptional regulator, Cro/CI family and a nucleotidyltransferase (ZP_00186470.1| COG1396: Predicted transcriptional regulators [Rubrobacter xylanophilus DSM 9941]; AAP86029.1| putative nucleotidyl-transferase [Ralstonia eutropha]). N-terminal: pfam01381, HTH_3, Helix-turn-helix. This large family of DNA binding helix-turn helix proteins includes Cro and CI. InterPro: Helix-turn-helix motif. C-terminal: pfam01909, NTP_transf_2,Nucleotidyltransferase domain.; Conserved hypothetical protein
YP_001223197.1	conserved hypothetical protein (ZP_00178030.1| COG2361: Uncharacterized conserved protein [Crocosphaera watsonii WH 8501]; NP_634631.1| nucleotidyltransferase [Methanosarcina mazei Go1]). pfam01934, DUF86, Protein of unknown function DUF86.
YP_001223198.1	conserved hypothetical protein, putative restriction enzyme (ZP_00128036.1| COG4748: Uncharacterized conserved protein [Pseudomonas syringae pv. syringae B728a]; NP_801082.1| hypothetical protein VPA1572 [Vibrio parahaemolyticus RIMD 2210633]; NP_601625.1| predicted type IV restriction endonuclease [Corynebacterium glutamicum ATCC 13032]). pfam04313,HSDR_N, Type I restriction enzyme R protein N terminus (HSDR_N). This family consists of a number of N terminal regions found in type I restriction enzyme R (HSDR) proteins.; Function unclear
YP_001223199.1	putative cytosine/purine permease, NCS1 family (NP_624885.1| putative cytosine permease [Streptomyces coelicolor A3(2)]; YP_049041.1| permease [Erwinia carotovora subsp. atroseptica SCRI1043]). pfam02133,Transp_cyt_pur, Permease for cytosine/purines, uracil,thiamine, allantoin.; Specificity unclear
YP_001223200.1	putative hydantoinase (NP_085687.1| hydantoinase [Mesorhizobium loti MAFF303099]; NP_242750.1| hydantoinase [Bacillus halodurans C-125]). pfam05378,Hydant_A_N, Hydantoinase/oxoprolinase N-terminal region. pfam01968, Hydantoinase_A, Hydantoinase/oxoprolinase. This family includes the enzymes hydantoinase and oxoprolinase EC:3.5.2.9. Both reactions involve the hydrolysis of 5-membered rings via hydrolysis of their internal imide bonds.; Specificity unclear
YP_001223201.1	conserved hypothetical protein (YP_013096.1| conserved hypothetical protein [Listeria monocytogenes str. 4b F2365]; ZP_00197761.1| COG3535: Uncharacterized conserved protein [Mesorhizobium sp. BNC1]). pfam06032,DUF917, Protein of unknown function (DUF917).; Function unclear
YP_001223202.1	conserved hypothetical protein (EAL09859.1| conserved hypothetical protein [Listeria monocytogenes str. 4b H7858] ; NP_085686.1| hypothetical protein mll9130 [Mesorhizobium loti MAFF303099]). pfam06032, DUF917,Protein of unknown function (DUF917).
YP_001223203.1	conserved hypothetical protein, putative regulatory protein (ZP_00059062.1| COG2508: Regulator of polyketide synthase expression [Thermobifida fusca]; NP_631097.1| putative regulatory protein [Streptomyces coelicolor A3(2)]).
YP_001223204.1	Function unclear
YP_001223205.1	conserved hypothetical protein (ZP_00063576.1| COG0009: Putative translation factor (SUA5) [Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293]; NP_781010.1| SUA5 protein [Clostridium tetani E88]). pfam01300, Sua5_yciO_yrdC, yrdC domain. This domain has been shown to preferentially bind to dsRNA.; Function unclear
YP_001223206.1	conserved hypothetical protein, putative Lsr2-like protein (YP_062335.1| hypothetical protein Lxx14130 [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00198461.1| hypothetical protein Krad06003802 [Kineococcus radiotolerans SRS30216]; YP_118525.1| putative LSR2 protein [Nocardia farcinica]).; Function unclear
YP_001223207.1	hypothetical protein (weak similarity to low GC Gram-positive surface proteins and RTX toxins).
YP_001223208.1	putative transcriptional activator (NP_821574.1| putative transcriptional regulator [Streptomyces avermitilis MA-4680]; AAP42853.1| NanR1 [Streptomyces nanchangensis]). pfam03704, BTAD, Bacterial transcriptional activator domain. Found in the DNRI/REDD/AFSR family of regulators. This region of AFSR along with the C terminal region is capable of independently directing actinorhodin production.; Function unclear
YP_001223209.1	putative serine protease, family S9A (NP_638852.1| prolyl oligopeptidase [Xanthomonas campestris pv. campestris str. ATCC 33913]; NP_962885.1| hypothetical protein MAP3951c [Mycobacterium avium subsp. paratuberculosis str. k10]). pfam02897, Peptidase_S9_N,Prolyl oligopeptidase, N-terminal beta-propeller domain. pfam00326, Peptidase_S9, Prolyl oligopeptidase family. InterPro: Prolyl oligopeptidase N-terminal beta-propeller domain.; Specificity unclear
YP_001223210.1	putative restriction endonuclease (YP_062634.1| hypothetical protein Lxx17860 [Leifsonia xyli subsp. xyli str. CTCB07]; NP_961224.1| hypothetical protein MAP2290c [Mycobacterium avium subsp. paratuberculosis str. k10]; ZP_00058752.1| COG1403: Restriction endonuclease [Thermobifida fusca]). pfam01844, HNH, HNH endonuclease. InterPro: HNH nuclease.; Specificity unclear
YP_001223211.1	putative secreted hydrolase (NP_787417.1| NPL/P60 family secreted protein [Tropheryma whipplei str. Twist]; NP_780938.1| putative cell wall-associated hydrolase [Clostridium tetani E88]). pfam00877, NLPC_P60, NlpC/P60 family. The function of this domain is unknown. It is found in several lipoproteins.; Function unclear
YP_001223212.1	putative iron-dependent repressor (YP_062636.1| iron-dependent repressor, DxtR metalloregulatory family [Leifsonia xyli subsp. xyli str. CTCB07]; NP_628563.1| iron repressor [Streptomyces coelicolor A3(2)]; AAF36925.1| transcriptional regulatory protein DtxR [Rhodococcus erythropolis]). pfam01325, Fe_dep_repress,Iron dependent repressor, N-terminal DNA binding domain. This family includes the Diphtheria toxin repressor. DNA binding is through a helix-turn-helix motif. pfam02742,Fe_dep_repr_C, Iron dependent repressor, metal binding and dimerisation domain. This family includes the Diphtheria toxin repressor. pfam04023, FeoA, FeoA domain. This family includes FeoA a small protein, probably involved in Fe2+ transport. This presumed short domain is also found at the C-terminus of a variety of metal dependent transcriptional regulators. This suggests that this domain may be metal-binding. In most cases this is likely to be either iron or manganese.; Specificity unclear
YP_001223213.1	catalyzes the formation of 3-phosphonooxypyruvate and glutamate from O-phospho-L-serine and 2-oxoglutarate
YP_001223214.1	conserved hypothetical protein (YP_062639.1| hypothetical protein Lxx17910 [Leifsonia xyli subsp. xyli str. CTCB07]; YP_055188.1| hypothetical protein PPA0478 [Propionibacterium acnes KPA171202]).
YP_001223215.1	putative cold-shock protein (YP_062640.1| cold shock protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00059156.1| COG1278: Cold shock proteins [Thermobifida fusca]; NP_628496.1| cold shock protein B [Streptomyces coelicolor A3(2)]). pfam00313, CSD, 'Cold-shock' DNA-binding domain. smart00357, CSP, Cold shock protein domain; RNA-binding domain that functions as a RNA-chaperone in bacteria and is involved in regulating translation in eukaryotes. Contains sub-family of RNA-binding domains in the Rho transcription termination factor. InterPro: Cold-shock DNA-binding domain.; Function unclear
YP_001223216.1	hypothetical membrane protein (YP_062641.1| hypothetical protein Lxx17930 [Leifsonia xyli subsp. xyli str. CTCB07]).
YP_001223217.1	putative DNA binding protein (YP_062642.1| hypothetical protein Lxx17940 [Leifsonia xyli subsp. xyli str. CTCB07]; NP_302419.1| possible DNA-binding protein [Mycobacterium leprae]; NP_737502.1| conserved hypothetical protein [Corynebacterium efficiens YS-314]).; Function unclear
YP_001223218.1	putative ATP-dependent DNA helicase (YP_062643.1| DNA repair helicase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_825089.1| putative ATP-dependent DNA helicase [Streptomyces avermitilis MA-4680]; ZP_00226628.1| COG1061: DNA or RNA helicases of superfamily II [Kineococcus radiotolerans SRS30216]). pfam00270, DEAD,DEAD/DEAH box helicase. pfam00271, Helicase_C, Helicase conserved C-terminal domain.; Function unclear
YP_001223219.1	putative two component system response regulator (YP_062646.1| two-component system, regulatory protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_787175.1| two-component system response regulator [Tropheryma whipplei str. Twist]; ZP_00198812.1| COG0745: Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Kineococcus radiotolerans SRS30216]). pfam00072, Response_reg, Response regulator receiver domain. This domain receives the signal from the sensor partner in bacterial two-component systems. pfam00486, Trans_reg_C, Transcriptional regulatory protein, C terminal. InterPro: Response regulator receiver domain.; Specificity unclear
YP_001223220.1	putative two-component system sensor kinase (YP_062647.1| two-component system, sensor protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00226631.1| COG0642: Signal transduction histidine kinase [Kineococcus radiotolerans SRS30216]; ZP_00081281.1| COG0642: Signal transduction histidine kinase [Geobacter metallireducens]). pfam00672, HAMP, HAMP domain. pfam00512, HisKA, His Kinase A (phosphoacceptor) domain. Dimerisation and phosphoacceptor domain of histidine kinases. pfam02518, HATPase_c, Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase.; Specificity unclear
YP_001223221.1	conserved hypothetical protein, 6 kDa early secretory antigenic target (ESAT-6) homolog (ZP_00198816.2| COG4842: Uncharacterized protein conserved in bacteria [Kineococcus radiotolerans SRS30216]; NP_695234.1| hypothetical protein BL0003 [Bifidobacterium longum NCC2705]). pfam06013, DUF909, Bacterial protein of unknown function (DUF909). This family consists of several short bacterial proteins of unknown function.; Function unclear
YP_001223222.1	60 kDa chaperone family; promotes refolding of misfolded polypeptides especially under stressful conditions; forms two stacked rings of heptamers to form a barrel-shaped 14mer; ends can be capped by GroES; misfolded proteins enter the barrel where they are refolded when GroES binds; many bacteria have multiple copies of the groEL gene which are active under different environmental conditions; the B.japonicum protein in this cluster is expressed constitutively; in Rhodobacter, Corynebacterium and Rhizobium this protein is essential for growth
YP_001223223.1	putative cold shock protein (YP_062650.1| cold-shock protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_825109.1| putative cold shock protein [Streptomyces avermitilis MA-4680]; ZP_00228151.1| COG1278: Cold shock proteins [Kineococcus radiotolerans SRS30216]). pfam00313,CSD, 'Cold-shock' DNA-binding domain. InterPro: Cold-shock DNA-binding domain.; Function unclear
YP_001223224.1	hypothetical protein (YP_062651.1| hypothetical protein Lxx18030 [Leifsonia xyli subsp. xyli str. CTCB07]; NP_334855.1| tuberculin related peptide [Mycobacterium tuberculosis CDC1551]; NP_940367.1| Putative secreted protein [Corynebacterium diphtheriae NCTC 13129]). 2a75: L-lysine exporter
YP_001223225.1	conserved hypothetical protein (YP_062652.1| hypothetical protein Lxx18040 [Leifsonia xyli subsp. xyli str. CTCB07]; CAB06570.1| CONSERVED HYPOTHETICAL PROTEIN [Mycobacterium tuberculosis H37Rv]; ZP_00059146.1| hypothetical protein [Thermobifida fusca]).
YP_001223226.1	conserved hypothetical protein, putative methionine sulfoxide reductase (YP_062653.1| oxidoreductase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_630170.1| putative oxidoreductase [Streptomyces coelicolor A3(2)]; CAB02327.1| CONSERVED HYPOTHETICAL PROTEIN [Mycobacterium tuberculosis H37Rv]). pfam01641, SelR, SelR domain. Methionine sulfoxide reduction is an important process, by which cells regulate biological processes and cope with oxidative stress.; Function unclear
YP_001223227.1	conserved hypothetical protein, putative nitroreductase (YP_062654.1| nitroreductase [Leifsonia xyli subsp. xyli str. CTCB07]P24250|YDJA_ECOLI Protein ydjA; NP_460262.1| putative oxidoreductase [Salmonella typhimurium LT2]). pfam00881, Nitroreductase,Nitroreductase family. Members of this family utilise FMN as a cofactor.; Function unclear
YP_001223228.1	conserved hypothetical protein (YP_062663.1| hypothetical protein Lxx18180 [Leifsonia xyli subsp. xyli str. CTCB07]; NP_789357.1| putative secreted protein [Tropheryma whipplei TW08/27]).; Function unclear
YP_001223229.1	putative sugar ABC transporter, ATP-binding protein (YP_062664.1| glycerol-phosphate porter [Leifsonia xyli subsp. xyli str. CTCB07]; NP_628414.1| ABC transporter ATP-binding protein [Streptomyces coelicolor A3(2)]). pfam00005, ABC_tran, ABC transporter. InterPro: AAA ATPase superfamily.; Function unclear
YP_001223230.1	conserved hypothetical protein (YP_062665.1| hypothetical protein Lxx18190 [Leifsonia xyli subsp. xyli str. CTCB07]; NP_938914.1| hypothetical protein DIP0538 [Corynebacterium diphtheriae NCTC 13129]).
YP_001223231.1	putative tRNA/rRNA methyltransferase (ZP_00225978.1| COG0566: rRNA methylases [Kineococcus radiotolerans SRS30216]; NP_601840.1| rRNA methylase [Corynebacterium glutamicum ATCC 13032]). InterPro: RNA methyltransferase TrmH family group 3 pfam00588,SpoU_methylase, SpoU rRNA Methylase family. This family of proteins probably use S-AdoMet. TIGRFam: rRNA_methyl_3: RNA methyltransferase; Specificity unclear
YP_001223232.1	cysS1; catalyzes a two-step reaction; charges a cysteine by linking its carboxyl group to the alpha-phosphate of ATP then transfers the aminoacyl-adenylate to its tRNA
YP_001223233.1	putative IspDF bifunctional enzyme (N-terminally: COG1211, IspD, 4-diphosphocytidyl- 2-methyl-D-erithritol synthase, EC 2.7.7.60; C-terminally: COG0245, IspF, 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase, EC 4.6.1.12) (NP_787476.1| IspD; IspF [Tropheryma whipplei str. Twist]; NP_698125.1| 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase/ 4-diphosphocytidyl-2C-methyl-D-erythritol synthase [Brucella suis 1330]). Bifunctional enzyme that catalyzes the formation of 4-diphosphocytidyl-2C-methyl-D-erythritol from CTP and 2C-methyl-D-erythritol 4-phosphate (ispD) and converts 4-diphosphocytidyl-2C-methyl-D-erythritol 2-phosphate into 2C-methyl-D-erythritol 24- cyclodiphosphate and CMP (ispF). Also converts 4-diphosphocytidyl- 2C-methyl-D-erythritol into 2C-methyl-D-erythritol 34- cyclophosphate and CMP (ispF) (By similarity). InterPro: 4-diphosphocytidyl-2C-methyl-D-erythritol synthase ispD: 4-diphosphocytidyl-2C-methyl-D-e; High confidence in function and specificity
YP_001223234.1	putative transcriptional regulator, CarD family (ZP_00198110.2| COG1329: Transcriptional regulators, ; NP_301347.1| putative transcription factor [Mycobacterium leprae]). InterPro: Transcription factor CarD pfam02559,CarD_TRCF, CarD-like/TRCF domain. CarD is a Myxococcus xanthus protein required for the activation of light- and starvation- inducible genes. This domain is involved in binding to the stalled RNA polymerase.; Specificity unclear
YP_001223236.1	putative two-component system response regulator (CAB00952.1| TWO COMPONENT SENSORY TRANSDUCTION PROTEIN REGX3 (TRANSCRIPTIONAL REGULATORY PROTEIN) (PROBABLY LUXR-FAMILY)[Mycobacterium tuberculosis H37Rv]; NP_938772.1| Putative two component system response regulator [Corynebacterium diphtheriae]). pfam00072, Response_reg,Response regulator receiver domain. pfam00486,Trans_reg_C, Transcriptional regulatory protein, C terminal.; Specificity unclear
YP_001223237.1	two-component system sensor kinase (NP_825150.1| putative two-component system sensor kinase [Streptomyces avermitilis MA-4680]; ZP_00058811.1| COG0642: Signal transduction histidine kinase [Thermobifida fusca]). InterPro: Histidine kinase C-terminal pfam00512, HisKA,His Kinase A (phosphoacceptor) domain. Dimerisation and phosphoacceptor domain of histidine kinases. pfam02518,HATPase_c, Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase.; Specificity unclear
YP_001223238.1	putative phosphate transport system regulator (NP_825151.1| putative phosphate transport system regulatory protein [Streptomyces avermitilis MA-4680]; ZP_00225901.1| COG0704: Phosphate uptake regulator [Kineococcus radiotolerans SRS30216]). pfam01895, PhoU,PhoU family. This family contains phosphate regulatory proteins including PhoU. (twice); High confidence in function and specificity
YP_001223239.1	2,3-bisphosphoglycerate-dependent; catalyzes the interconversion of 2-phosphoglycerate to 3-phosphoglycerate
YP_001223240.1	putative methylase (ZP_00198230.1| COG2890: Methylase of polypeptide chain release factors [Kineococcus radiotolerans SRS30216]; NP_825184.1| hypothetical protein SAV4007 [Streptomyces avermitilis MA-4680]). InterPro: SAM (and some other nucleotide) binding motif surE: stationary-phase survival protein; Function unclear
YP_001223241.1	putative membrane protein (ZP_00227637.1| COG4129: Predicted membrane protein [Kineococcus radiotolerans SRS30216]; NP_739210.1| conserved hypothetical protein [Corynebacterium efficiens YS-314]).; Function unclear
YP_001223242.1	putative aminomethyltransferase (ZP_00198226.1| COG0354: Predicted aminomethyltransferase related to GcvT [Kineococcus radiotolerans SRS30216]; NP_825205.1| hypothetical protein SAV4028 [Streptomyces avermitilis MA-4680]). InterPro: Glycine cleavage T-protein (aminomethyl transferase). gcvT: glycine cleavage system T protein. pfam01571, GCV_T, Glycine cleavage T-protein (aminomethyl transferase).; Function unclear
YP_001223243.1	conserved hypothetical protein (ZP_00198224.2| hypothetical protein Krad06004263 [Kineococcus radiotolerans SRS30216]; ZP_00293141.1| COG1185: Polyribonucleotide nucleotidyltransferase (polynucleotide phosphorylase) [Thermobifida fusca]).
YP_001223244.1	hypothetical protein (ZP_01130428.1| hypothetical protein A20C1_06691 [marine actinobacterium PHSC20C1]; AAT89577.1| hypothetical protein Lxx18360 [Leifsonia xyli subsp. xyli str. CTCB07])
YP_001223245.1	Hypothetical protein
YP_001223246.1	transcriptional regulator (NP_825219.1| putative GlnR-family transcriptional regulator [Streptomyces avermitilis MA-4680]; Q05943|GLNR_STRCO Transcriptional regulatory protein glnR). InterPro: Transcriptional regulatory protein C terminal pfam00486, Trans_reg_C,Transcriptional regulatory protein, C terminal.; Specificity unclear
YP_001223247.1	putative acetyltransferase (NP_628328.1| putative acetyltransferase [Streptomyces coelicolor A3(2)]; CAA17625.1| CONSERVED HYPOTHETICAL PROTEIN [Mycobacterium tuberculosis H37Rv]). pfam00583, Acetyltransf_1,Acetyltransferase (GNAT) family. This family contains proteins with N-acetyltransferase functions (twice). InterPro: GCN5-related N-acetyltransferase.; Function unclear
YP_001223248.1	catalyzes the reversible transfer of the terminal phosphate of ATP to form a long chain polyphosphate
YP_001223249.1	putative NTP pyrophosphohydrolase (NP_961957.1| MutT1 [Mycobacterium avium subsp. paratuberculosis str. k10]; NP_600538.1| NTP pyrophosphohydrolase [Corynebacterium glutamicum ATCC 13032]). pfam00293,NUDIX, NUDIX domain. C-terminally second domain: COG2062,SixA, Phosphohistidine phosphatase.; Function unclear
YP_001223250.1	phosphate ABC transporter, substrate-binding protein (ZP_00293017.1| COG0226: ABC-type phosphate transport system, periplasmic component [Thermobifida fusca]; NP_695519.1| phosphate-binding transport protein of ABC transporter system [Bifidobacterium longum NCC2705]).; High confidence in function and specificity
YP_001223251.1	Phosphate ABC transporter, permease component (ZP_00293018.1| COG0573: ABC-type phosphate transport system, permease component [Thermobifida fusca]; NP_628318.1| phosphate ABC transport system permease protein [Streptomyces coelicolor A3(2)]). InterPro: Binding-protein-dependent transport systems inner membrane component.; High confidence in function and specificity
YP_001223252.1	phosphate ABC transporter, permease component (ZP_00293019.1| COG0581: ABC-type phosphate transport system, permease component [Thermobifida fusca]; NP_825251.1| putative phosphate ABC transporter permease protein [Streptomyces avermitilis MA-4680]). InterPro: Binding-protein-dependent transport systems inner membrane component. pfam00528, BPD_transp_1, Binding-protein-dependent transport system inner membrane component.; High confidence in function and specificity
YP_001223253.1	ATP-binding protein; PstABCS is an ATP dependent phosphate uptake system which is responsible for inorganic phosphate uptake during phosphate starvation
YP_001223254.1	conserved membrane protein (NP_827759.1| putative membrane protein [Streptomyces avermitilis MA-4680]; ZP_00228329.1| hypothetical protein Krad06001631 [Kineococcus radiotolerans SRS30216]). weak similarity to: COG5343, COG5343, Uncharacterized protein conserved in bacteria.; Function unclear
YP_001223255.1	Member of the extracytoplasmic function sigma factors which are active under specific conditions; binds with the catalytic core of RNA polymerase to produce the holoenzyme and directs bacterial core RNA polymerase to specific promoter elements to initiate transcription; in M. bovis this protein has been shown to be involved in expression of antigenic proteins
YP_001223256.1	hypothetical protein (ZP_00206537.1| hypothetical protein Blon021115 [Bifidobacterium longum DJO10A]; ZP_00226802.1| hypothetical protein Krad06002674 [Kineococcus radiotolerans).
YP_001223257.1	putative acyltransferase (NP_945889.1| Acyltransferase 3 family [Rhodopseudomonas palustris CGA009]; NP_738686.1| conserved hypothetical protein [Corynebacterium efficiens YS-314]). pfam01757,Acyl_transf_3, Acyltransferase family. This family includes a range of acyltransferase enzymes.; Function unclear
YP_001223258.1	hypothetical esterase (only weak similarities in C-terminal half to: NP_387325.1| PUTATIVE ACYL-COA THIOESTERASE I PROTEIN [Sinorhizobium meliloti 1021]; ZP_00244751.1| COG2755: Lysophospholipase L1 and related esterases [Rubrivivax gelatinosus PM1]). weak similarity to: pfam00657, Lipase_GDSL, GDSL-like Lipase/Acylhydrolase.; Hypothetical protein
YP_001223261.1	putative aldose-1-epimerase (NP_696524.1| hypothetical protein in aldose epimerase family [Bifidobacterium longum NCC2705]; ZP_00291742.1| COG2017: Galactose mutarotase and related enzymes [Thermobifida fusca]). pfam01263, Aldose_epim, Aldose 1-epimerase.; Specificity unclear
YP_001223262.1	putative transcriptional regulator, DeoT family (NP_624108.1| Transcriptional regulator of sugar metabolism [Thermoanaerobacter tengcongensis]; ZP_00180163.2| COG1349: Transcriptional regulators of sugar metabolism [Moorella thermoacetica ATCC 39073]). pfam00455, DeoR, Bacterial regulatory proteins, deoR family.; Specificity unclear
YP_001223263.1	Galactose-1-phosphate uridylyltransferase (UDP-glucose-hexose- 1-phosphate uridylyltransferase) (ZP_00226399.1| COG1085: Galactose-1-phosphate uridylyltransferase [Kineococcus radiotolerans SRS30216]; NP_939376.1| Galactose-1-phosphate uridylyltransferase [Corynebacterium diphtheriae NCTC 13129]). InterPro: Galactose-1-phosphate uridyl transferase. pfam01087,GalP_UDP_transf, Galactose-1-phosphate uridyl transferase,N-terminal domain. pfam02744, GalP_UDP_tr_C, Galactose-1-phosphate uridyl transferase, C-terminal domain.; High confidence in function and specificity
YP_001223264.1	Galactokinase (Galactose kinase) (Q9K3S8|GAL1_STRCO Galactokinase (Galactose kinase); ZP_00120571.1| COG0153: Galactokinase [Bifidobacterium longum DJO10A]). InterPro: Galactokinase. pfam00288, GHMP_kinases, GHMP kinases putative ATP-binding protein.; High confidence in function and specificity
YP_001223265.1	putative acetyltransferase (NP_828214.1| putative siderophore binding protein [Streptomyces avermitilis MA-4680]; ZP_00084142.1| COG0663: Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [Pseudomonas fluorescens PfO-1]). InterPro: Bacterial transferase hexapeptide repeat. cd00208, LbetaH,Left-Handed Parallel beta-Helix; Proteins containing hexapeptide repeats are often enzymes showing acyl-transferase activity, many are trimeric in their active form.; Function unclear
YP_001223266.1	catalyzes the formation of 5,10-methenyltetrahydrofolate from 5,10-methylenetetrahydrofolate and subsequent formation of 10-formyltetrahydrofolate from 5,10-methenyltetrahydrofolate
YP_001223267.1	catalyzes the reaction of glycine with 5,10-methylenetetrahydrofolate to form L-serine and tetrahydrofolate
YP_001223268.1	putative glycosidase, possible alpha-amylase (AAM51152.1| amylosucrase Ams [Neisseria meningitidis]; ZP_00293345.1| COG0366: Glycosidases [Thermobifida fusca]). pfam00128, Alpha-amylase, Alpha amylase,catalytic domain. Alpha amylase is classified as family 13 of the glycosyl hydrolases.; Specificity unclear
YP_001223269.1	hypothetical membrane protein
YP_001223270.1	putative transcriptional regulator, LysR family (NP_823021.1| putative LysR-family transcriptional regulator [Streptomyces avermitilis MA-4680]; ZP_00198639.2| COG0583: Transcriptional regulator [Kineococcus radiotolerans SRS30216]). pfam00126, HTH_1,Bacterial regulatory helix-turn-helix protein, lysR family. pfam03466, LysR_substrate, LysR substrate binding domain. The structure of this domain is known and is; Specificity unclear
YP_001223271.1	putative efflux MFS permease (NP_825071.1| putative integral membrane efflux protein [Streptomyces avermitilis MA-4680]; ZP_00227648.1| COG0477: permeases of the major facilitator superfamily [Kineococcus radiotolerans SRS30216]). pfam05977, DUF894, Bacterial protein of unknown function (DUF894). 2A0121: H+ Antiporter protein. COG2814, AraJ, Arabinose efflux permease.; Specificity unclear
YP_001223272.1	putative oxidoreductase (ZP_00226289.1| COG0667: Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Kineococcus radiotolerans SRS30216]; BAB79295.1| putative oxidoreductase [Streptomyces griseus]). pfam00248, Aldo_ket_red, Aldo/keto reductase family.; Specificity unclear
YP_001223273.1	putative manganese/iron-dependent repressor (C70884 probable transcription repressor sirR - Mycobacterium tuberculosis (strain H37RV); ZP_00226601.1| COG1321: Mn-dependent transcriptional regulator [Kineococcus radiotolerans SRS30216]). smart00529, HTH_DTXR, Helix-turn-helix diphteria tox regulatory element; iron dependent repressor. pfam02742, Fe_dep_repr_C, Iron dependent repressor, metal binding and dimerisation domain. This family includes the Diphtheria toxin repressor. pfam01325,Fe_dep_repress, Iron dependent repressor, N-terminal DNA binding domain. This family includes the Diphtheria toxin repressor. DNA binding is through a helix-turn-helix motif.; Specificity unclear
YP_001223274.1	putative manganese transporter, NRAMP family (AAS20095.1| H+-stimulated manganese uptake system protein [Arthrobacter aurescens]; O05916|MNTH_MYCTU Probable manganese transport protein mntH (BRAMP)). InterPro: Natural resistance-associated macrophage protein pfam01566, Nramp, Natural resistance-associated macrophage protein.; High confidence in function and specificity
YP_001223275.1	hypothetical protein (ZP_00198979.1| hypothetical protein Krad06002582 [Kineococcus radiotolerans SRS30216]).
YP_001223276.1	putative sugar MFS-permease (NP_789043.1| putative integral membrane protein [Tropheryma whipplei TW08/27]; ZP_00227340.1| COG2814: Arabinose efflux permease [Kineococcus radiotolerans SRS30216]). pfam00083,Sugar_tr, Sugar (and other) transporter.; Specificity unclear
YP_001223277.1	putative formyltetrahydrofolate deformylase (ZP_00226393.1| COG0788: Formyltetrahydrofolate hydrolase [Kineococcus radiotolerans SRS30216]; ZP_00215833.1| COG0788: Formyltetrahydrofolate hydrolase [Burkholderia cepacia R18194]). InterPro: Formyltetrahydrofolate deformylase. pfam01842, ACT, ACT domain. This family of domains generally have a regulatory role. ACT domains are linked to a wide range of metabolic enzymes that are regulated by amino acid concentration. pfam00551,Formyl_trans_N, Formyl transferase. PurU: formyltetrahydrofolate deformylase; High confidence in function and specificity
YP_001223278.1	putative ABC-transporter, permease component (ZP_00225856.1| COG0842: ABC-type multidrug transport system, permease component [Kineococcus radiotolerans SRS30216]; NP_629116.1| putative integral membrane transport protein [Streptomyces coelicolor A3(2)]). Mtu_efflux: ABC transporter efflux protein; Specificity unclear
YP_001223279.1	putative ABC transporter ATP-binding protein (NP_629115.1| putative ABC transporter ATP-binding protein [Streptomyces coelicolor A3(2)]; ZP_00198185.1| COG1131: ABC-type multidrug transport system, ATPase component [Kineococcus radiotolerans SRS30216]). pfam00005,ABC_tran, ABC transporter.; Specificity unclear
YP_001223280.1	putative serine protease, peptidase family S8A (Subtilase) (T05768 subtilisin-like proteinase (EC 3.4.21.-) - Arabidopsis thaliana; T07172 subtilisin-like proteinase (EC 3.4.21.-) 2 - tomato). , pfam05922,Subtilisin_N, Subtilisin N-terminal Region. This family is found at the N-terminus of a number of subtilisins. It is cleaved prior to activation of the enzyme. , pfam00082,Peptidase_S8, Subtilase family. , pfam02225, PA, PA domain. The PA (Protease associated) domain is found as an insert domain in diverse proteases.; Specificity unclear
YP_001223281.1	putative subtilisin-like serine protease, peptidase family S8 (T07172 subtilisin-like proteinase (EC 3.4.21.-) 2 - tomato; T05768 subtilisin-like proteinase (EC 3.4.21.-) - Arabidopsis thaliana). pfam05922, Subtilisin_N,Subtilisin N-terminal Region. This family is found at the N-terminus of a number of subtilisins. It is cleaved prior to activation of the enzyme. pfam00082, Peptidase_S8,Subtilase family. Subtilases are a family of serine proteases. pfam02225, PA, PA domain. The PA (Protease associated) domain is found as an insert domain in diverse proteases.; Specificity unclear
YP_001223282.1	Converts isocitrate to alpha ketoglutarate
YP_001223283.1	putative acetyltransferase (YP_062775.1| spermidine acetyltransferase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_628451.1| putative acetyltransferase [Streptomyces coelicolor A3(2)]). pfam00583,Acetyltransf_1, Acetyltransferase (GNAT) family. This family contains proteins with N-acetyltransferase functions.; Function unclear
YP_001223284.1	Region created by contig update
YP_001223286.1	putative ABC transporter, fused permease and ATP-binding protein (NP_629587.1| putative ABC transporter [Streptomyces coelicolor A3(2)]; NP_622488.1| ABC-type multidrug/protein/lipid transport system, ATPase component [Thermoanaerobacter tengcongensis]). pfam00664,ABC_membrane, ABC transporter transmembrane region. pfam00005, ABC_tran, ABC transporter.; Specificity unclear
YP_001223287.1	putative ABC transporter, fused permease and ATP-binding protein (NP_629588.1| putative ABC transporter [Streptomyces coelicolor A3(2)]; CAA89862.1| ABC transporter [Bacillus subtilis]). pfam00664, ABC_membrane,ABC transporter transmembrane region. pfam00005, ABC_tran,ABC transporter.; Specificity unclear
YP_001223288.1	putative NGNG-dimethylarginine dimethylaminohydrolase (Dimethylargininase) (NP_822866.1| putative dimethylarginine dimethylaminohydrolase [Streptomyces avermitilis MA-4680]; ZP_00213107.1| COG1834: N-Dimethylarginine dimethylaminohydrolase [Burkholderia cepacia R18194]). pfam02274, Amidinotransf,Amidinotransferase.; High confidence in function and specificity
YP_001223289.1	involved in de novo purine biosynthesis
YP_001223290.1	glycinamide ribonucleotide transformylase; GAR Tfase; catalyzes the synthesis of 5'-phosphoribosylformylglycinamide from 5'-phosphoribosylglycinamide and 10-formyltetrahydrofolate; PurN requires formyl folate for the reaction unlike PurT which uses formate
YP_001223291.1	conserved membrane protein (NP_789039.1| putative integral membrane protein [Tropheryma whipplei TW08/27]; ZP_00293807.1| hypothetical protein Tfus02000005 [Thermobifida fusca]).
YP_001223292.1	Catalyzes the only substrate-level phosphorylation in the TCA cycle
YP_001223293.1	catalyzes the interconversion of succinyl-CoA and succinate
YP_001223294.1	conserved hypothetical protein (EAA63080.1| hypothetical protein AN2678.2 [Aspergillus nidulans FGSC A4]; ZP_00293575.1| COG3662: Uncharacterized protein conserved in bacteria [Thermobifida fusca]).
YP_001223296.1	putative ATP-dependent DNA helicase (ZP_00227575.1| COG0210: Superfamily I DNA and RNA helicases [Kineococcus radiotolerans SRS30216]; NP_628954.1| putative ATP-dependent DNA helicase II [Streptomyces coelicolor A3(2)]). pfam00580, UvrD-helicase, UvrD/REP helicase. The Rep family helicases are composed of four structural domains. The Rep family function as dimers. REP helicases catalyse ATP dependent unwinding of double stranded DNA to single stranded DNA.; Specificity unclear
YP_001223297.1	putative glycerophosphoryl diester phosphodiesterase (ZP_00108394.1| COG0584: Glycerophosphoryl diester phosphodiesterase [Nostoc punctiforme]; ZP_00292545.1| COG0584: Glycerophosphoryl diester phosphodiesterase [Thermobifida fusca]). GLYCEROPHOSPHORYL DIESTER PHOSPHODIESTERASE HYDROLYZES DEACYLATED PHOSPHOLIPIDS TO G3P AND THE CORRESPONDING ALCOHOLS. pfam03009, GDPD, Glycerophosphoryl diester phosphodiesterase family.; High confidence in function and specificity
YP_001223298.1	conserved membrane protein (ZP_00227380.1| COG4760: Predicted membrane protein [Kineococcus radiotolerans SRS30216]; NP_627303.1| putative integral membrane protein [Streptomyces coelicolor A3(2)]). pfam06539,DUF1112, Protein of unknown function (DUF1112).; Function unclear
YP_001223299.1	contains glutamine-hydrolyzing domain and glutamine amidotransferase; GMP-binding domain; functions to produce GMP from XMP in the IMP pathway
YP_001223300.1	conserved membrane protein (NP_789036.1| putative membrane protein [Tropheryma whipplei TW08/27]; NP_601701.1| hypothetical membrane protein [Corynebacterium glutamicum ATCC 13032]).; Conserved hypothetical protein
YP_001223301.1	conserved membrane protein (NP_789035.1| putative membrane protein [Tropheryma whipplei TW08/27]; ZP_00057673.1| COG3346: Uncharacterized conserved protein [Thermobifida fusca]).; Conserved hypothetical protein
YP_001223302.1	putative Na+/H+ exchange transport protein, Cpa2 family (NP_631436.1| putative transmembrane transport protein. [Streptomyces coelicolor A3(2)]; G69819 Na+/H+ antiporter homolog yhaU - Bacillus subtilis). , InterPro: Na+/H+ exchanger pfam00999, Na_H_Exchanger,Sodium/hydrogen exchanger family. Na/H antiporters are key transporters in maintaining the pH of actively metabolising cells.; High confidence in function and specificity
YP_001223303.1	conserved hypothetical protein (ZP_00225982.1| COG0490: Putative regulatory, ligand-binding protein related to C-terminal domains of K+ channels [Kineococcus radiotolerans SRS30216]; CAB08338.1| CONSERVED HYPOTHETICAL PROTEIN [Mycobacterium tuberculosis H37Rv]). pfam02080, TrkA_C, TrkA-C domain. This domain is often found next to the pfam02254 domain.; Function unclear
YP_001223304.1	catalyzes the synthesis of xanthosine monophosphate by the NAD+ dependent oxidation of inosine monophosphate
YP_001223306.1	Inosine-5-monophosphate dehydrogenase (IMP dehydrogenase) (ZP_00227592.1| COG0516: IMP dehydrogenase/GMP reductase [Kineococcus radiotolerans SRS30216]; NP_826177.1| putative inosine-5'-monophosphate dehydrogenase [Streptomyces avermitilis MA-4680]). pfam00478, IMPDH, IMP dehydrogenase / GMP reductase domain.; High confidence in function and specificity
YP_001223307.1	putative branched-chain amino acid ABC transporter,permease component (ZP_00291531.1| COG0559: Branched-chain amino acid ABC-type transport system, permease components [Thermobifida fusca]; NP_682382.1| branched-chain amino acid ABC transporter permease protein [Thermosynechococcus elongatus BP-1]). InterPro: Binding-system dependent bacterial transporters (araH livH/limM families). pfam02653, BPD_transp_2, Branched-chain amino acid transport system / permease component.; High confidence in function and specificity
YP_001223308.1	putative branched-chain amino acid ABC transporter,permease component (ZP_00291530.1| COG4177: ABC-type branched-chain amino acid transport system, permease component [Thermobifida fusca]; ZP_00202257.1| COG4177: ABC-type branched-chain amino acid transport system,permease component [Synechococcus elongatus PCC 7942]). pfam02653, BPD_transp_2, Branched-chain amino acid transport system / permease component.; High confidence in function and specificity
YP_001223309.1	putatice branched-chain amino acid ABC transporter,ATPase component (ZP_00291529.1| COG0411: ABC-type branched-chain amino acid transport systems, ATPase component [Thermobifida fusca]; ZP_00202256.1| COG0411: ABC-type branched-chain amino acid transport systems,ATPase component [Synechococcus elongatus PCC 7942]). pfam00005, ABC_tran, ABC transporter.; High confidence in function and specificity
YP_001223310.1	putative branched-chain amino acid ABC transporter,ATPase component (ZP_00291528.1| COG0410: ABC-type branched-chain amino acid transport systems, ATPase component [Thermobifida fusca]; NP_680844.1| branched-chain amino acid ABC transporter ATP-binding protein [Thermosynechococcus elongatus BP-1]). pfam00005,ABC_tran, ABC transporter.; High confidence in function and specificity
YP_001223311.1	putative branched-chain amino acid ABC transporter,substrate-binding protein (ZP_00291710.1| COG0683: ABC-type branched-chain amino acid transport systems,periplasmic component [Thermobifida fusca]; ZP_00164894.2| COG0683: ABC-type branched-chain amino acid transport systems, periplasmic component [Synechococcus elongatus PCC 7942]). pfam01094, ANF_receptor, Receptor family ligand binding region. This family includes extracellular ligand binding domains of a wide range of receptors. This family also includes the bacterial amino acid binding proteins of known structure.; High confidence in function and specificity
YP_001223312.1	putative permease, DMT family (NP_826050.1| hypothetical protein SAV4873 [Streptomyces avermitilis MA-4680]; AAQ73536.1| RarD [Streptomyces exfoliatus]). InterPro: RarD protein; Specificity unclear
YP_001223313.1	10 kDa chaperonin; Cpn10; GroES; forms homoheptameric ring; binds to one or both ends of the GroEL double barrel in the presence of adenine nucleotides capping it; folding of unfolded substrates initiates in a GroEL-substrate bound and capped by GroES; release of the folded substrate is dependent on ATP binding and hydrolysis in the trans ring
YP_001223314.1	putative SAM-dependant methyltransferase (ZP_00190966.2| COG0500: SAM-dependent methyltransferases [Kineococcus radiotolerans SRS30216]; NP_628916.1| conserved hypothetical protein [Streptomyces coelicolor A3(2)]; ZP_00058035.1| COG0500: SAM-dependent methyltransferases [Thermobifida fusca]).; Function unclear
YP_001223315.1	conserved membrane protein (YP_062810.1| integral membrane protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_629794.1| putative integral membrane protein [Streptomyces coelicolor A3(2)]; NP_390387.1| yqfX [Bacillus subtilis]).; Function unclear
YP_001223316.1	putative acetyltransferase/glycoprotease fusion protein (NP_826151.1| putative glycoprotease [Streptomyces avermitilis MA-4680]; NP_628910.1| putative O-sialoglycoprotein endopeptidase [Streptomyces coelicolor A3(2)]). apparently a fusion protein with a C-terminal peptidase domain: InterPro: Glycoprotease (M22) metallo-protease family pfam00814, Peptidase_M22, Glycoprotease family. and a N-terminal acetyltransferase domain: COG0456, RimI, Acetyltransferases [General function prediction only] pfam00583, Acetyltransf_1,Acetyltransferase (GNAT) family. This family contains proteins with N-acetyltransferase functions.; Function unclear
YP_001223317.1	conserved hypothetical protein (YP_062813.1| hypothetical protein Lxx19930 [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00058039.1| COG1214: Inactive homolog of metal-dependent proteases, putative molecular chaperone [Thermobifida fusca]; NP_628908.1| conserved hypothetical protein [Streptomyces coelicolor A3(2)]). pfam00814,Peptidase_M22, Glycoprotease family.
YP_001223318.1	putative alanine racemase (YP_062001.1| alanine racemase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_826144.1| putative alanine racemase [Streptomyces avermitilis MA-4680]; ZP_00058041.1| COG0787: Alanine racemase [Thermobifida fusca]). fusion protein; N-terminal alanine racemase domain: pfam01168, Ala_racemase_N,Alanine racemase, N-terminal domain + pfam00842,Ala_racemase_C, Alanine racemase, C-terminal domain. and C-terminal ATPase domain: COG0802, COG0802, Predicted ATPase or kinase [General function prediction only], pfam02367,UPF0079, Uncharacterised P-loop hydrolase UPF0079. This uncharacterised family contains a P-loop.; Specificity unclear
YP_001223319.1	putative alanine racemase (YP_062815.1| alanine racemase [Leifsonia xyli subsp. xyli str. CTCB07]; CAB01033.1| ALANINE RACEMASE ALR [Mycobacterium tuberculosis H37Rv]; ZP_00058041.1| COG0787: Alanine racemase [Thermobifida fusca]). pfam01168, Ala_racemase_N,Alanine racemase, N-terminal domain. pfam00842,Ala_racemase_C, Alanine racemase, C-terminal domain. InterPro: Alanine racemase.; High confidence in function and specificity
YP_001223320.1	Catalyzes the formation of holo-ACP, which mediates the essential transfer of acyl fatty acid intermediates during the biosynthesis of fatty acids and lipids
YP_001223321.1	Catalyzes the first step in hexosamine metabolism, converting fructose-6P into glucosamine-6P using glutamine as a nitrogen source
YP_001223322.1	catalyzes the formation of (R)-4'-phosphopantothenate in coenzyme A biosynthesis
YP_001223323.1	catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
YP_001223324.1	forms a direct contact with the tRNA during translation
YP_001223325.1	in Escherichia coli this protein is one of the earliest assembly proteins in the large subunit
YP_001223326.1	mediates pseudouridylation (positions 38, 39, 40) at the tRNA anticodon region which contributes to the structural stability
YP_001223327.1	conserved hypothetical protein, putative acetyltransferase (CAF21237.1| GCN5-related N-acetyltransferase [Corynebacterium glutamicum ATCC 13032]; NP_628328.1| putative acetyltransferase [Streptomyces coelicolor A3(2)]). pfam00583,Acetyltransf_1, Acetyltransferase (GNAT) family. This family contains proteins with N-acetyltransferase functions.; Function unclear
YP_001223328.1	is a component of the macrolide binding site in the peptidyl transferase center
YP_001223329.1	catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Dimerization of the alpha subunit is the first step in the sequential assembly of subunits to form the holoenzyme
YP_001223330.1	located on the platform of the 30S subunit, it bridges several disparate RNA helices of the 16S rRNA; forms part of the Shine-Dalgarno cleft in the 70S ribosome; interacts with S7 and S18 and IF-3
YP_001223331.1	located at the top of the head of the 30S subunit, it contacts several helices of the 16S rRNA; makes contact with the large subunit via RNA-protein interactions and via protein-protein interactions with L5; contacts P-site tRNA
YP_001223332.1	smallest protein in the large subunit; similar to what is found with protein L31 and L33 several bacterial genomes contain paralogs which may be regulated by zinc; the protein from Thermus thermophilus has a zinc-binding motif and contains a bound zinc ion; the proteins in this group have the motif
YP_001223333.1	stimulates the activities of the other two initiation factors, IF-2 and IF-3
YP_001223334.1	putative mannitol-1-phosphate 5-dehydrogenase (YP_061273.1| mannitol-1-phosphate 5-dehydrogenase [Leifsonia xyli subsp. xyli str. CTCB07]; AAL89587.1| mannitol-1-phosphate dehydrogenase [Aspergillus niger]). pfam01232, Mannitol_dh, Mannitol dehydrogenase.; High confidence in function and specificity
YP_001223335.1	putative PTS system mannitol-specific IIA component (Mannitol- permease IIA component) (YP_061274.1| PTS system, mannitol-specific enzyme II, A component [Leifsonia xyli subsp. xyli str. CTCB07]; NP_244719.1| PTS system, mannitol-specific enzyme II, A component [Bacillus halodurans C-125]). pfam00359, PTS_EIIA_2,Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2. InterPro: phosphoenolpyruvate-dependent sugar phosphotransferase system EIIA 2.; Specificity unclear
YP_001223336.1	putative PTS system mannitol-specific IIBC component (Mannitol- permease IIBC component) (YP_061275.1| PTS system, mannitol-specific IIBC component [Leifsonia xyli subsp. xyli str. CTCB07]; YP_090154.1| MtlA [Bacillus licheniformis DSM 13]). pfam02378,PTS_EIIC, Phosphotransferase system, EIIC. pfam02302,PTS_IIB, PTS system, Lactose/Cellobiose specific IIB subunit.; Specificity unclear
YP_001223337.1	phosphoenolpyruvate-protein phosphotransferase, PTS enzyme I (YP_061276.1| PTS system, enzyme I [Leifsonia xyli subsp. xyli str. CTCB07]; NP_828150.1| putative phosphoenolpyruvate-protein phosphotransferase [Streptomyces avermitilis MA-4680]). pfam05524, PEP-utilisers_N, PEP-utilising enzyme, N-terminal. pfam02896,PEP-utilizers_C, PEP-utilising enzyme, TIM barrel domain. pfam00391, PEP-utilizers, PEP-utilising enzyme, mobile domain. InterPro: PEP-utilizing enzyme.; Specificity unclear
YP_001223338.1	phosphotransferase system, HPr-related protein (YP_061277.1| phosphocarrier protein HPr [Leifsonia xyli subsp. xyli str. CTCB07]; NP_623408.1| Phosphotransferase system, HPr-related proteins [Thermoanaerobacter tengcongensis]). pfam00381, PTS-HPr, PTS HPr component phosphorylation site.; Specificity unclear
YP_001223339.1	putative PTS system cellobiose-specific IIB component (Cellobiose- permease IIB component) (ZP_00322547.1| COG1440: Phosphotransferase system cellobiose-specific component IIB [Pediococcus pentosaceus ATCC 25745]; YP_061278.1| PTS system, IIB component [Leifsonia xyli subsp. xyli str. CTCB07]). pfam02302,PTS_IIB, PTS system, Lactose/Cellobiose specific IIB subunit.; Specificity unclear
YP_001223340.1	putative transcription antiterminator containing a PTS domain (YP_061280.1| transcription antiterminator,BglG family [Leifsonia xyli subsp. xyli str. CTCB07]; YP_074779.1| transcription antiterminator BglG family [Symbiobacterium thermophilum IAM 14863]). pfam00874, PRD,PRD domain. The PRD domain (for PTS Regulation Domain), is the phosphorylatable regulatory domain found in bacterial transcriptional antiterminator of the BglG family as well as in activators such as MtlR and LevR. pfam00359,PTS_EIIA_2, Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2. InterPro: phosphoenolpyruvate-dependent sugar phosphotransferase system EIIA 2.; Specificity unclear
YP_001223341.1	putative methionine aminopeptidase, family M24A (Peptidase M) (YP_062833.1| methionine aminopeptidase [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00227085.1| COG0024: Methionine aminopeptidase [Kineococcus radiotolerans SRS30216]; NP_826125.1| putative methionine aminopeptidase [Streptomyces avermitilis MA-4680]). pfam00557, Peptidase_M24, metallopeptidase family M24. InterPro: Methionine aminopeptidase subfamily 1.; High confidence in function and specificity
YP_001223342.1	essential enzyme that recycles AMP in active cells; converts ATP and AMP to two molecules of ADP
YP_001223343.1	forms heterotrimeric complex in the membrane; in bacteria the complex consists of SecY which forms the channel pore and SecE and SecG; the SecG subunit is not essential; in bacteria translocation is driven via the SecA ATPase
YP_001223344.1	late assembly protein
YP_001223345.1	L30 binds domain II of the 23S rRNA and the 5S rRNA; similar to eukaryotic protein L7
YP_001223346.1	located at the back of the 30S subunit body where it stabilizes the conformation of the head with respect to the body; contacts S4 and S8; with S4 and S12 plays a role in translational accuracy; mutations in this gene result in spectinomycin resistance
YP_001223347.1	binds 5S rRNA along with protein L5 and L25
YP_001223348.1	ribosomal protein L6 appears to have arisen as a result of an ancient gene duplication as based on structural comparison of the Bacillus stearothermophilus protein; RNA-binding appears to be in the C-terminal domain; mutations in the L6 gene confer resistance to aminoglycoside antibiotics such as gentamicin and these occur in truncations of the C-terminal domain; it has been localized to a region between the base of the L7/L12 stalk and the central protuberance
YP_001223349.1	binds directly to 16S rRNA central domain where it helps coordinate assembly of the platform of the 30S subunit
YP_001223350.1	part of 50S and 5S/L5/L18/L25 subcomplex; contacts 5S rRNA and P site tRNA; forms a bridge to the 30S subunit in the ribosome by binding to S13
YP_001223351.1	assembly initiator protein; binds to 5' end of 23S rRNA and nucleates assembly of the 50S; surrounds polypeptide exit tunnel
YP_001223352.1	binds to the 23S rRNA between the centers for peptidyl transferase and GTPase
YP_001223353.1	primary binding protein; helps mediate assembly; involved in translation fidelity
YP_001223354.1	50S ribosomal protein L29 (YP_062846.1| 50S ribosomal protein L29 [Leifsonia xyli subsp. xyli str. CTCB07]; NP_789155.1| 50s ribosomal protein L29 [Tropheryma whipplei TW08/27]). pfam00831, Ribosomal_L29,Ribosomal L29 protein. InterPro: Ribosomal protein L29.; High confidence in function and specificity
YP_001223355.1	located in the peptidyl transferase center and may be involved in peptidyl transferase activity; similar to archaeal L10e
YP_001223356.1	forms a complex with S10 and S14; binds the lower part of the 30S subunit head and the mRNA in the complete ribosome to position it for translation
YP_001223357.1	binds specifically to 23S rRNA during the early stages of 50S assembly; makes contact with all 6 domains of the 23S rRNA in the assembled 50S subunit and ribosome; mutations in this gene result in erythromycin resistance; located near peptidyl-transferase center
YP_001223358.1	protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA
YP_001223359.1	one of the primary rRNA-binding proteins; required for association of the 30S and 50S subunits to form the 70S ribosome, for tRNA binding and peptide bond formation
YP_001223360.1	binds third domain of 23S rRNA and protein L29; part of exit tunnel
YP_001223361.1	L4 is important during the early stages of 50S assembly; it initially binds near the 5' end of the 23S rRNA
YP_001223362.1	binds directly near the 3' end of the 23S rRNA, where it nucleates assembly of the 50S subunit; essential for peptidyltransferase activity; mutations in this gene confer resistance to tiamulin
YP_001223363.1	NusE; involved in assembly of the 30S subunit; in the ribosome, this protein is involved in the binding of tRNA; in Escherichia coli this protein was also found to be involved in transcription antitermination; NusB/S10 heterodimers bind boxA sequences in the leader RNA of rrn operons which is required for antitermination; binding of NusB/S10 to boxA nucleates assembly of the antitermination complex
YP_001223364.1	putative topoisomerase IB (NP_962178.1| hypothetical protein MAP3244 [Mycobacterium avium subsp. paratuberculosis str. k10]; YP_119639.1| hypothetical protein nfa34270 [Nocardia farcinica IFM 10152]; ZP_00195032.2| COG3569: Topoisomerase IB [Mesorhizobium sp. BNC1]). pfam01028, Topoisom_I, Eukaryotic DNA topoisomerase I, catalytic core. Topoisomerase I promotes the relaxation of DNA superhelical tension by introducing a transient single-stranded break in duplex DNA and are vital for the processes of replication, transcription, and recombination.; Function unclear
YP_001223365.1	EF-Tu; promotes GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis; when the tRNA anticodon matches the mRNA codon, GTP hydrolysis results; the inactive EF-Tu-GDP leaves the ribosome and release of GDP is promoted by elongation factor Ts; many prokaryotes have two copies of the gene encoding EF-Tu
YP_001223366.1	EF-G; promotes GTP-dependent translocation of the ribosome during translation; many organisms have multiple copies of this gene
YP_001223367.1	binds directly to 16S rRNA where it nucleates assembly of the head domain of the 30S subunit
YP_001223368.1	interacts with and stabilizes bases of the 16S rRNA that are involved in tRNA selection in the A site and with the mRNA backbone; located at the interface of the 30S and 50S subunits, it traverses the body of the 30S subunit contacting proteins on the other side; mutations in the S12 gene confer streptomycin resistance
YP_001223369.1	hypothetical membrane protein (YP_062863.1| hypothetical protein Lxx20430 [Leifsonia xyli subsp. xyli str. CTCB07]).
YP_001223370.1	hypothetical membrane protein (YP_062864.1| hypothetical protein Lxx20440 [Leifsonia xyli subsp. xyli str. CTCB07]).
YP_001223371.1	putative polar amino acid ABC transporter, ATP-binding protein (P39456|YCKI_BACSU Probable amino-acid ABC transporter ATP-binding protein yckI; YP_088467.1| GlnQ protein [Mannheimia succiniciproducens MBEL55E]).; Specificity unclear
YP_001223372.1	putative polar amino acid ABC transporter, permease component (ZP_00235846.1| amino acid ABC transporter,permease protein [Bacillus cereus G9241]; NP_283777.1| putative amino acid permease integral membrane protein [Neisseria meningitidis Z2491]). pfam00528, BPD_transp_1,Binding-protein-dependent transport system inner membrane component.; Specificity unclear
YP_001223373.1	putative polar amino acid ABC transporter,substrate-binding protein (ZP_00332407.1| COG0834: ABC-type amino acid transport/signal transduction systems,periplasmic component/domain [Streptococcus suis 89/1591]; NP_349917.1| Periplasmic amino acid binding protein [Clostridium acetobutylicum ATCC 824]). pfam00497,SBP_bac_3, Bacterial extracellular solute-binding proteins, family 3. InterPro: Bacterial extracellular solute-binding proteins family 3.; Specificity unclear
YP_001223375.1	DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Subunit beta' binds to sigma factor allowing it to bind to the -10 region of the promoter
YP_001223376.1	DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates; beta subunit is part of the catalytic core which binds with a sigma factor to produce the holoenzyme
YP_001223377.1	putative Zn-dependant hydrolase (ZP_00291971.1| COG0491: Zn-dependent hydrolases, including glyoxylases [Thermobifida fusca]; NP_626224.1| putative hydrolase [Streptomyces coelicolor A3(2)]). pfam00753, Lactamase_B,Metallo-beta-lactamase superfamily. InterPro: Metallo-beta-lactamase superfamily.; Hypothetical protein
YP_001223378.1	conserved hypothetical protein (YP_062875.1| hypothetical protein Lxx20650 [Leifsonia xyli subsp. xyli str. CTCB07]; NP_625605.1| hypothetical protein SCO1320 [Streptomyces coelicolor A3(2)]). only weak similarity to: pfam01564, Spermine_synth, Spermine/spermidine synthase.
YP_001223379.1	conserved hypothetical protein (ZP_00293383.1| COG2133: Glucose/sorbosone dehydrogenases [Thermobifida fusca]; NP_823913.1| putative oxidoreductase [Streptomyces avermitilis MA-4680]).; Function unclear
YP_001223380.1	hypothetical protein (YP_062878.1| hypothetical protein Lxx20680 [Leifsonia xyli subsp. xyli str. CTCB07]; D83991 hypothetical protein BH2732 [imported] -Bacillus halodurans (strain C-125)).
YP_001223381.1	conserved hypothetical protein (YP_062877.1| phage-related protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00228460.2| COG3091: Uncharacterized protein conserved in bacteria [Kineococcus radiotolerans SRS30216]). weak similarity to: pfam03926, DUF335, Putative metallopeptidase (SprT family). This family of uncharacterised proteins may be zinc metallopeptidases.
YP_001223382.1	conserved hypothetical protein (YP_062876.1| hypothetical protein Lxx20660 [Leifsonia xyli subsp. xyli str. CTCB07]; NP_628753.1| hypothetical protein SCO4591 [Streptomyces coelicolor A3(2)]). pfam07336, DUF1470,Protein of unknown function (DUF1470). This family consists of several hypothetical bacterial proteins of around 180 residues in length.
YP_001223383.1	conserved hypothetical protein (ZP_00358905.1| COG2343: Uncharacterized protein conserved in bacteria [Chloroflexus aurantiacus]; NP_924913.1| hypothetical protein gsl1967 [Gloeobacter violaceus PCC 7421]). pfam04248, DUF427, Domain of unknown function (DUF427).
YP_001223384.1	hypothetical protein (YP_062880.1| hypothetical protein Lxx20740 [Leifsonia xyli subsp. xyli str. CTCB07]).
YP_001223385.1	conserved hypothetical protein (Q98GR7|YW06_RHILO Hypothetical UPF0310 protein msl3206; BAA06500.1| hypothetical protein [Bacillus licheniformis]). pfam01878,DUF55, Protein of unknown function DUF55. This family of proteins have no known function.
YP_001223388.1	conserved hypothetical protein (YP_062881.1| hypothetical protein Lxx20760 [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00227854.1| COG3358: Uncharacterized conserved protein [Kineococcus radiotolerans SRS30216]; ZP_00117067.1| COG3358: Uncharacterized conserved protein [Cytophaga hutchinsonii]).
YP_001223389.1	putative ATP-dependent helicase (NP_960415.1| hypothetical protein MAP1481c [Mycobacterium avium subsp. paratuberculosis str. k10]; YP_062883.1| ATP-dependent RNA helicase [Leifsonia xyli subsp. xyli str. CTCB07]). pfam00270, DEAD, DEAD/DEAH box helicase. pfam00271,Helicase_C, Helicase conserved C-terminal domain.; Family membership
YP_001223390.1	putative transcriptional regulator, TetR family (ZP_00192174.3| COG1309: Transcriptional regulator [Kineococcus radiotolerans SRS30216]; NP_792961.1| transcriptional regulator, TetR family [Pseudomonas syringae pv. tomato str. DC3000]). pfam00440, TetR_N,Bacterial regulatory proteins, tetR family.; Specificity unclear
YP_001223391.1	conserved hypothetical protein (YP_062885.1| hypothetical protein Lxx20800 [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00049868.1| COG1051: ADP-ribose pyrophosphatase [Magnetospirillum magnetotacticum MS-1]). pfam00293, NUDIX, NUDIX domain.; Family membership
YP_001223392.1	conserved hypothetical protein, putative phospholipase/carboxylesterase (YP_062886.1| hypothetical protein Lxx20810 [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00121273.2| COG0400: Predicted esterase [Bifidobacterium longum DJO10A]). pfam02230,Abhydrolase_2, Phospholipase/Carboxylesterase. This family consists of both phospholipases and carboxylesterases with broad substrate specificity. InterPro: Phospholipase/Carboxylesterase.; Family membership
YP_001223393.1	putative ATP-dependent helicase (NP_856969.1| PROBABLE ATP-DEPENDENT HELICASE LHR (LARGE HELICASE-RELATED PROTEIN) [Mycobacterium bovis AF2122/97]; NP_600075.2| Lhr-like helicase [Corynebacterium glutamicum ATCC 13032]). pfam00270, DEAD, DEAD/DEAH box helicase. pfam00271, Helicase_C, Helicase conserved C-terminal domain.; Function unclear
YP_001223394.1	putative endonuclease VIII/DNA glycosylase (YP_062887.1| DNA glycosylase [Leifsonia xyli subsp. xyli str. CTCB07]; YP_117186.1| putative endonuclease VIII [Nocardia farcinica IFM 10152]). pfam01149,Fapy_DNA_glyco, Formamidopyrimidine-DNA glycosylase N-terminal domain. pfam06831, H2TH, Formamidopyrimidine-DNA glycosylase H2TH domain. Formamidopyrimidine-DNA glycosylase (Fpg) is a DNA repair enzyme that excises oxidised purines from damaged DNA.; Function unclear
YP_001223395.1	putative cationic amino acid permease, APC family (YP_121066.1| putative transporter permease [Nocardia farcinica IFM 10152]; NP_696717.1| possible cationic amino acid transporter [Bifidobacterium longum NCC2705]). pfam00324, AA_permease, Amino acid permease.; Specificity unclear
YP_001223396.1	putative RNA polymerase sigma factor, SigF-homolog (stress response/stationary phase sigma factor) (YP_116363.1| putative sigma factor [Nocardia farcinica IFM 10152]; BAC55891.1| RNA polymerase sigma factor [Streptomyces griseus subsp. griseus]). pfam04542,Sigma70_r2, Sigma-70 region 2. Region 2 of sigma-70 is the most conserved region of the entire protein. pfam04539,Sigma70_r3, Sigma-70 region 3. pfam04545, Sigma70_r4,Sigma-70, region 4. Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif. InterPro: Sigma-70 factor family.; Specificity unclear
YP_001223397.1	putative two-component system, sensor kinase/response regulator hybrid protein (NP_631472.1| conserved hypothetical protein SC6D11.19c. [Streptomyces coelicolor A3(2)]; ZP_00226918.1| COG2203: FOG: GAF domain [Kineococcus radiotolerans SRS30216]). pfam03861,ANTAR, ANTAR domain. ANTAR (AmiR and NasR transcription antitermination regulators) is an RNA-binding domain found in bacterial transcription antitermination regulatory proteins.; Family membership
YP_001223399.1	hypothetical protein (NP_894767.1| possible GRAM domain [Prochlorococcus marinus str. MIT 9313]; NP_638722.1| hypothetical protein XCC3376 [Xanthomonas campestris pv. campestris str. ATCC 33913]).
YP_001223400.1	putative transcriptional regulator (NP_824532.1| hypothetical protein SAV3356 [Streptomyces avermitilis MA-4680]; ZP_00226779.1| COG1983: Putative stress-responsive transcriptional regulator [Kineococcus radiotolerans SRS30216]). pfam04024, PspC, PspC domain. This family includes Phage shock protein C (PspC) that is thought to be a transcriptional regulator.; Function unclear
YP_001223401.1	putative amidase (NP_831822.1| Glutamyl-tRNA(Gln) amidotransferase subunit A [Bacillus cereus ATCC 14579]; NP_630436.1| putative secreted amidase [Streptomyces coelicolor A3(2)]). pfam01425, Amidase, Amidase.; Family membership
YP_001223402.1	conserved hypothetical protein, putative phosphatase (NP_695256.1| hypothetical secreted protein with probable acid phosphatase domain [Bifidobacterium longum NCC2705]; YP_050157.1| putative phosphatase [Erwinia carotovora subsp. atroseptica SCRI1043]).; Family membership
YP_001223403.1	putative penicillin-binding protein (ZP_00244789.1| COG1680: Beta-lactamase class C and other penicillin binding proteins [Rubrivivax gelatinosus PM1]; ZP_00109292.1| COG1680: Beta-lactamase class C and other penicillin binding proteins [Nostoc punctiforme PCC 73102]). pfam00144, Beta-lactamase, Beta-lactamase. This family appears to be distantly related to pfam00905 and pfam00768 D-alanyl-D-alanine carboxypeptidase.; Specificity unclear
YP_001223404.1	putative transcriptional regulator, MarR-family (ZP_00188603.2| COG1846: Transcriptional regulators [Rubrobacter xylanophilus DSM 9941]; YP_118181.1| putative transcriptional regulator [Nocardia farcinica IFM 10152]). pfam01047, MarR, MarR family.; Specificity unclear
YP_001223405.1	putative monooxygenase (NP_641998.1| oxidoreductase [Xanthomonas axonopodis pv. citri str. 306]; NP_052574.1| oxidoreductase protein homolog Oxi [Corynebacterium glutamicum]). pfam01494, FAD_binding_3, FAD binding domain. pfam01360, Monooxygenase, Monooxygenase. This family includes diverse enzymes that utilise FAD. InterPro: Aromatic-ring hydroxylase (flavoprotein monooxygenase); Function unclear
YP_001223406.1	Hypothetical protein
YP_001223407.1	conserved hypothetical protein, putative nitroreductase (YP_104321.1| nitroreductase family protein [Burkholderia mallei ATCC 23344]; ZP_00310829.1| COG0778: Nitroreductase [Cytophaga hutchinsonii]). pfam00881,Nitroreductase, Nitroreductase family. Members of this family utilise FMN as a cofactor. InterPro: Nitroreductase family.; Function unclear
YP_001223408.1	putative oxidoreductase (P55609|Y4OX_RHISN HYPOTHETICAL 39.9 KD PROTEIN Y4OX; NP_437577.1| putative exported oxidoreductase protein [Sinorhizobium meliloti 1021]). pfam01408, GFO_IDH_MocA, Oxidoreductase family,NAD-binding Rossmann fold. pfam02894, GFO_IDH_MocA_C,Oxidoreductase family, C-terminal alpha/beta domain. InterPro: Oxidoreductase N-terminal.; Function unclear
YP_001223409.1	conserved hypothetical protein (YP_061429.1| ThuA protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00354380.1| COG4813: Trehalose utilization protein [Kineococcus radiotolerans SRS30216]). pfam06283, DUF1037,Protein of unknown function (DUF1037).; Function unclear
YP_001223410.1	conserved hypothetical protein (NP_870739.1| hypothetical protein RB12844 [Rhodopirellula baltica SH 1]; ZP_00316033.1| hypothetical protein Mdeg02002771 [Microbulbifer degradans 2-40]).
YP_001223411.1	putative multidrug ABC transporter, fused permease and ATP-binding protein (NP_828394.1| putative ABC-transport protein [Streptomyces avermitilis MA-4680]; ZP_00294356.1| COG1132: ABC-type multidrug transport system, ATPase and permease components [Thermobifida fusca]). pfam00664, ABC_membrane, ABC transporter transmembrane region. pfam00005, ABC_tran, ABC transporter. InterPro: ABC transporter transmembrane region.; Specificity unclear
YP_001223412.1	conserved hypothetical protein (NP_627919.1| putative membrane protein [Streptomyces coelicolor A3(2)]; ZP_00310497.1| hypothetical protein Chut02000054 [Cytophaga hutchinsonii]). cd01045, Ferritin_like_AB,Ferritin-like domain found in Archaea and Bacteria (Ferritin_like_AB) is a member of a broad superfamily of ferritin-like diiron-carboxylate proteins.
YP_001223413.1	conserved membrane protein (YP_056449.1| hypothetical protein PPA1762 [Propionibacterium acnes KPA171202]; NP_879781.1| putative membrane protein [Bordetella pertussis Tohama I]).; Conserved hypothetical protein
YP_001223414.1	putative two-component system response regulator (YP_004956.1| transcriptional regulatory protein [Thermus thermophilus HB27]; NP_835072.1| Two-component response regulator yhcZ [Bacillus cereus ATCC 14579]). pfam00072,Response_reg, Response regulator receiver domain. This domain receives the signal from the sensor partner in bacterial two-component systems. pfam00196, GerE,Bacterial regulatory proteins, luxR family. InterPro: Response regulator receiver domain.; Specificity unclear
YP_001223415.1	conserved hypothetical protein, putative cell filamentation protein (NP_298946.1| cell filamentation protein [Xylella fastidiosa 9a5c]; ZP_00133651.2| COG2184: Protein involved in cell division [Haemophilus somnus 2336]). pfam02661, Fic, Fic protein family. This family consists of the Fic (filamentation induced by cAMP) protein and its relatives.; Function unclear
YP_001223417.1	putative antibiotic immunity protein, peptidase family S66 (NP_827455.1| hypothetical protein SAV6279 [Streptomyces avermitilis MA-4680]; NP_694083.1| microcin immunity protein [Oceanobacillus iheyensis HTE831]).; Specificity unclear
YP_001223418.1	conserved hypothetical protein (NP_931545.1| hypothetical protein [Photorhabdus luminescens subsp. laumondii TTO1]; NP_416276.2| hypothetical protein b1762 [Escherichia coli K12]).
YP_001223419.1	putative glycosyl transferase (YP_119472.1| putative glycosyltransferase [Nocardia farcinica IFM 10152]; ZP_00058346.1| COG0859: ADP-heptose:LPS heptosyltransferase [Thermobifida fusca]). pfam01075,Glyco_transf_9, Glycosyltransferase family 9 (heptosyltransferase).; Function unclear
YP_001223420.1	conserved membrane protein (NP_626607.1| putative membrane protein [Streptomyces coelicolor A3(2)]; NP_600078.1| hypothetical membrane-associated protein [Corynebacterium glutamicum ATCC 13032]). pfam00597, DedA,DedA family. Members of this family are not functionally characterised. These proteins contain multiple predicted transmembrane regions.; Function unclear
YP_001223421.1	putative beta-lactamase type I precursor (S03167 beta-lactamase (EC 3.5.2.6) precursor - Bacillus cereus; BAD05863.1| beta-lactamase [Streptomyces albulus]). pfam00144, Beta-lactamase, Beta-lactamase. InterPro: Beta-lactamase family.; High confidence in function and specificity
YP_001223422.1	putative transcriptional regulator, TetR-family (YP_076084.1| TetR family transcriptional regulator [Symbiobacterium thermophilum IAM 14863]; CAA17330.1| POSSIBLE TRANSCRIPTIONAL REGULATORY PROTEIN (PROBABLY TETR-FAMILY) [Mycobacterium tuberculosis H37Rv]; NP_827280.1| putative TetR-family transcriptional regulator [Streptomyces avermitilis MA-4680]). pfam00440, TetR_N,Bacterial regulatory proteins, tetR family.; Specificity unclear
YP_001223423.1	putative acetyltransferase (NP_600742.1| histone acetyltransferase HPA2 and related acetyltransferases [Corynebacterium glutamicum ATCC 13032]; CAB07039.1| PROBABLE ACETYLTRANSFERASE [Mycobacterium tuberculosis H37Rv]). pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family. This family contains proteins with N-acetyltransferase functions.; Function unclear
YP_001223425.1	putative transcriptional regulator, MarR family (ZP_00227991.1| COG1846: Transcriptional regulators [Kineococcus radiotolerans SRS30216]; ZP_00058332.1| COG1846: Transcriptional regulators [Thermobifida fusca]). pfam01047, MarR, MarR family. The Mar proteins are involved in the multiple antibiotic resistance, a non-specific resistance system.; Specificity unclear
YP_001223426.1	conserved hypothetical protein, putative hydrolase (NP_737707.1| hypothetical protein CE1097 [Corynebacterium efficiens YS-314]; NP_822654.1| hypothetical protein SAV1479 [Streptomyces avermitilis MA-4680]). pfam03372,Exo_endo_phos, Endonuclease/Exonuclease/phosphatase family. This large family of proteins includes magnesium dependent endonucleases and a large number of phosphatases involved in intracellular signalling.
YP_001223427.1	hypothetical membrane protein (NP_737708.1| hypothetical protein CE1098 [Corynebacterium efficiens YS-314]; ZP_00198909.1| hypothetical protein Krad07002970 [Kineococcus radiotolerans SRS30216]).
YP_001223428.1	putative bifunctional phosphatase/glycosyl transferase (N-terminal: COG0241, HisB, Histidinol phosphatase and related phosphatases; pfam00702,Hydrolase, haloacid dehalogenase-like hydrolase.; ZP_00056621.1| COG0241: Histidinol phosphatase and related phosphatases [Magnetospirillum magnetotacticum] C-terminal: COG0859, RfaF, ADP-heptose:LPS heptosyltransferase, pfam01075, Glyco_transf_9,Glycosyltransferase family 9 (heptosyltransferase); NP_630286.1| putative transferase [Streptomyces coelicolor A3(2)]; ZP_00058348.1| COG0859: ADP-heptose:LPS heptosyltransferase [Thermobifida fusca]). two domain protein. N-terminal: COG0241, HisB, Histidinol phosphatase and related phosphatases; pfam00702, Hydrolase, haloacid dehalogenase-like hydrolase. C-terminal: InterPro: Glycosyltransferase family 9; pfam01075, Glyco_transf_9,Glycosyltransferase family 9 (heptosyltransferase). Members of this family belong to glycosyltransferase family 9. Lipopolysaccharide is a major component of the outer leaflet of the outer membrane in Gram-negative bacteria. It is composed of three domains; lipid A, Core oligosaccharide and the O-antigen. All of these enzymes transfer heptose to the lipopolysaccharide core.; Function unclear
YP_001223429.1	putative glycosyl transferase (YP_118607.1| hypothetical protein nfa23960 [Nocardia farcinica IFM 10152]; NP_962179.1| hypothetical protein MAP3245 [Mycobacterium avium subsp. paratuberculosis str. k10]; NP_630287.1| putative transferase [Streptomyces coelicolor A3(2)]). pfam00534, Glycos_transf_1, Glycosyl transferases group 1. Members of this family transfer activated sugars to a variety of substrates, including glycogen, Fructose-6-phosphate and lipopolysaccharides. Members of this family transfer UDP, ADP, GDP or CMP linked sugars. InterPro: Glycosyl transferases group 1.; Function unclear
YP_001223431.1	putative bifunctional ADP-heptose synthase/transferase (NP_630290.1| putative bifunctional synthase/transferase [Streptomyces coelicolor A3(2)]; NP_962186.1| hypothetical protein MAP3252 [Mycobacterium avium subsp. paratuberculosis str. k10]). pfam00294, PfkB,pfkB family carbohydrate kinase. This family includes a variety of carbohydrate and pyrimidine kinases. pfam01467,CTP_transf_2, Cytidylyltransferase. InterPro: PfkB family of carbohydrate kinases.; Specificity unclear
YP_001223432.1	putative short-chain dehydrogenase/oxidoreductase (NP_962187.1| hypothetical protein MAP3253 [Mycobacterium avium subsp. paratuberculosis str. k10]; YP_118608.1| putative short chain dehydrogenase [Nocardia farcinica IFM 10152]). pfam00106, adh_short, short chain dehydrogenase. This family contains a wide variety of dehydrogenases. InterPro: Short-chain dehydrogenase/reductase (SDR) superfamily.; Function unclear
YP_001223433.1	putative acetyl xylan esterase (XP_330314.1| hypothetical protein [Neurospora crassa]; AAC39371.1| acetyl xylan esterase II precursor [Penicillium purpurogenum]). , pfam01083, Cutinase, Cutinase.; Conserved hypothetical protein
YP_001223434.1	Hypothetical protein
YP_001223435.1	hypothetical protein (NP_103310.1| hypothetical protein mll1813 [Mesorhizobium loti MAFF303099]).
YP_001223436.1	putative endoglucanase (NP_436984.1| putative cellulase H precursor protein [Sinorhizobium meliloti 1021]; P16218|GUNH_CLOTM Endoglucanase H precursor (EGH) (Endo-1,4-beta-glucanase)(Cellulase H)). weak similarity to: pfam02156, Glyco_hydro_26, Glycosyl hydrolase family 26.; Specificity unclear
YP_001223437.1	putative endoglucanase (P16218|GUNH_CLOTM Endoglucanase H precursor (EGH) (Endo-1,4-beta-glucanase)(Cellulase H); ZP_00329205.1| COG4124: Beta-mannanase [Moorella thermoacetica ATCC 39073]). , weak similarity to: pfam02156, Glyco_hydro_26, Glycosyl hydrolase family 26.; Specificity unclear
YP_001223438.1	conserved hypothetical protein (YP_062996.1| hypothetical protein Lxx22070 [Leifsonia xyli subsp. xyli str. CTCB07]; NP_627950.1| putative secreted protein [Streptomyces coelicolor A3(2)]).
YP_001223439.1	conserved hypothetical protein (NP_948299.1| putative DNA-binding protein [Rhodopseudomonas palustris CGA009]; YP_081386.1| Hypothetical Virulence protein RhuM [Bacillus licheniformis DSM 13]).; Family membership
YP_001223440.1	putative heptosyltransferase (YP_118610.1| putative glycosyltransferase [Nocardia farcinica IFM 10152]; ZP_00333863.1| COG0859: ADP-heptose:LPS heptosyltransferase [Thiobacillus denitrificans ATCC 25259]). pfam01075, Glyco_transf_9, Glycosyltransferase family 9 (heptosyltransferase).; Function unclear
YP_001223441.1	putative transcriptional regulator, LacI family (NP_631460.1| putative LacI-family transcriptional regulator [Streptomyces coelicolor A3(2)]; NP_696340.1| probable LacI-type transcriptional regulator [Bifidobacterium longum NCC2705]). pfam00356, LacI,Bacterial regulatory proteins, lacI family. pfam00532,Peripla_BP_1, Periplasmic binding proteins and sugar binding domain of the LacI family.; Specificity unclear
YP_001223442.1	putative sugar ABC transporter, permease component (NP_822205.1| putative binding-protein dependent transport protein [Streptomyces avermitilis MA-4680]; ZP_00121010.2| COG1175: ABC-type sugar transport systems,permease components [Bifidobacterium longum DJO10A]). pfam00528, BPD_transp_1, Binding-protein-dependent transport system inner membrane component.; Specificity unclear
YP_001223443.1	putative sugar ABC transporter, permease component (NP_631458.1| putative binding-protein dependent transport protein. [Streptomyces coelicolor A3(2)]; NP_696338.1| probable permease of ABC transporter system for sugars [Bifidobacterium longum NCC2705]). pfam00528,BPD_transp_1, Binding-protein-dependent transport system inner membrane component. InterPro: Binding-protein-dependent transport systems inner membrane component.; Specificity unclear
YP_001223444.1	putative sugar ABC transporter, substrate-binding protein (NP_631457.1| probable solute-binding lipoprotein. [Streptomyces coelicolor A3(2)]; ZP_00121005.2| COG1653: ABC-type sugar transport system, periplasmic component [Bifidobacterium longum DJO10A]). pfam01547, SBP_bac_1,Bacterial extracellular solute-binding protein. InterPro: Bacterial extracellular solute-binding protein family 1; Specificity unclear
YP_001223445.1	putative beta-galactosidase (BAA21669.1| beta-galactosidase [Bacillus circulans]; AAC45218.1| beta-galactosidase [Arthrobacter sp.]). pfam01301,Glyco_hydro_35, Glycosyl hydrolases family 35.; Specificity unclear
YP_001223446.1	putative aldehyde dehydrogenase (YP_120727.1| putative aldehyde dehydrogenase [Nocardia farcinica IFM 10152]; NP_828335.1| putative succinate-semialdehyde dehydrogenase [Streptomyces avermitilis MA-4680]). pfam00171, Aldedh, Aldehyde dehydrogenase family.; Function unclear
YP_001223447.1	putative bifunctional sugar kinase/nucleotidyltransferase (P_118622.1| hypothetical protein nfa24110 [Nocardia farcinica IFM 10152]; ZP_00299509.1| COG2870: ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Geobacter metallireducens GS-15]). pfam00294, PfkB, pfkB family carbohydrate kinase. pfam01467, CTP_transf_2,Cytidylyltransferase. InterPro: PfkB family of carbohydrate kinases.; Specificity unclear
YP_001223448.1	hypothetical protein (YP_118623.1| hypothetical protein nfa24120 [Nocardia farcinica IFM 10152]; NP_487423.1| unknown protein [Nostoc sp. PCC 7120]).
YP_001223450.1	conserved hypothetical protein (ZP_00332567.1| COG3860: Uncharacterized protein conserved in bacteria [Streptococcus suis 89/1591]; NP_972365.1| hypothetical protein TDE1761 [Treponema denticola ATCC 35405]; NP_626931.1| putative secreted protein [Streptomyces coelicolor A3(2)]).
YP_001223451.1	conserved hypothetical protein (only weak similarities: AAP74077.1| hypothetical protein PBD2.192 [Rhodococcus erythropolis]; NP_960710.1| hypothetical protein MAP1776c [Mycobacterium avium subsp. paratuberculosis str. k10]).
YP_001223453.1	hypothetical protein, putative excisionase (NP_938638.1| Putative excisionase [Corynebacterium diphtheriae NCTC 13129]; AAF76245.1| putative excisionase [Arthrobacter sp. TM1]).
YP_001223454.1	putative metallopeptidase, family M23 (AAS20161.1| hypothetical protein [Arthrobacter aurescens]; CAD47991.1| hypothetical protein [Arthrobacter nicotinovorans]). pfam01551, Peptidase_M37, Peptidase family M23/M37. Members of this family are zinc metallopeptidases with a range of specificities. InterPro: Peptidase family M23/M37.; Function unclear
YP_001223455.1	hypothetical protein (CAD47990.1| hypothetical protein [Arthrobacter nicotinovorans]; CAD47990.1| hypothetical protein [Arthrobacter nicotinovorans]).
YP_001223456.1	hypothetical protein (CAD47989.1| hypothetical protein [Arthrobacter nicotinovorans]; YP_117040.1| hypothetical protein nfa8310 [Nocardia farcinica IFM 10152]; ZP_00058679.1| COG0455: ATPases involved in chromosome partitioning [Thermobifida fusca]).; Family membership
YP_001223457.1	hypothetical protein (CAD47988.1| hypothetical protein [Arthrobacter nicotinovorans]; NP_862425.1| MC47 [Micrococcus sp. 28]; NP_826047.1| hypothetical protein SAV4870 [Streptomyces avermitilis MA-4680]).
YP_001223458.1	Hypothetical protein
YP_001223459.1	conserved hypothetical protein (CAD47986.1| hypothetical protein [Arthrobacter nicotinovorans]; NP_954834.1| hypothetical protein [Gordonia westfalica]).
YP_001223460.1	conserved hypothetical protein, weak similarities to congugal transfer proteins like TrbL (CAD47985.1| putative transfer gene complex protein-like protein [Arthrobacter nicotinovorans]; NP_066793.1| transfer gene complex protein-like protein [Rhodococcus equi]). weak similarity to:pfam04610, TrbL, TrbL/VirB6 plasmid conjugal transfer protein, and COG3846, TrbL, Type IV secretory pathway, TrbL components [Intracellular trafficking and secretion]
YP_001223461.1	conserved membrane protein (CAD47984.1| putative integral membrane protein [Arthrobacter nicotinovorans]; NP_696643.1| narrowly conserved hypothetical protein [Bifidobacterium longum NCC2705]).
YP_001223462.1	putative ATP-binding protein (CAD47983.1| putative ATP-binding protein [Arthrobacter nicotinovorans]; NP_862419.1| putative ATP-binding protein [Micrococcus sp. 28]).
YP_001223463.1	putative congujal transfer protein, coupling protein (traG/VirB4) homolog (CAD47982.1| putative conjugative transfer gene complex protein-like protein [Arthrobacter nicotinovorans]; NP_825686.1| putative traG-family protein [Streptomyces avermitilis MA-4680]). InterPro: TraG protein pfam02534, TRAG, TraG/TraD family. The TraG/TraD family are bacterial conjugation proteins.; Specificity unclear
YP_001223464.1	hypothetical protein (CAD47981.1| hypothetical protein [Arthrobacter nicotinovorans]; ZP_00058175.1| hypothetical protein [Thermobifida fusca]).
YP_001223465.1	Hypothetical protein
YP_001223466.1	Region start changed from 3055087 to 3055030 (-57 bases)
YP_001223467.1	putative serine phosphatase, possible regulator of sigma factor activity (ZP_00175659.2| COG2208: Serine phosphatase RsbU, regulator of sigma subunit [Crocosphaera watsonii WH 8501]; NP_874405.1| Serine phosphatase RsbU [Prochlorococcus marinus subsp. marinus str. CCMP1375]). InterPro: Protein phosphatase 2C domain smart00331,PP2C_SIG, Sigma factor PP2C-like phosphatases; Function unclear
YP_001223468.1	conserved hypothetical protein, putative anti-sigma regulatory factor (NP_737815.1| hypothetical protein [Corynebacterium efficiens YS-314]; NP_681341.1| sigma-B activity negative regulator [Thermosynechococcus elongatus BP-1]).; Function unclear
YP_001223469.1	putative anti-sigma factor antagonist (NP_737814.1| putative anti-sigma factor antagonist [Corynebacterium efficiens YS-314]; ZP_00357937.1| COG1366: Anti-anti-sigma regulatory factor (antagonist of anti-sigma factor) [Chloroflexus aurantiacus]). pfam01740, STAS, STAS domain.; Function unclear
YP_001223471.1	putative phosphoglycerate mutase (NP_822948.1| putative mutase [Streptomyces avermitilis MA-4680]; NP_349622.1| Possible phosphoglycerate mutase [Clostridium acetobutylicum ATCC 824]). pfam00300, PGAM,Phosphoglycerate mutase family.; High confidence in function and specificity
YP_001223472.1	Hypothetical protein
YP_001223473.1	putative acetyltransferase (ZP_00036563.1| COG0454: Histone acetyltransferase HPA2 and related acetyltransferases [Enterococcus faecium]; NP_344795.1| acetyltransferase, GNAT family [Streptococcus pneumoniae TIGR4]). pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family. This family contains proteins with N-acetyltransferase functions. InterPro: GCN5-related N-acetyltransferase.; Function unclear
YP_001223474.1	conserved hypothetical protein (NP_825341.1| hypothetical protein SAV4164 [Streptomyces avermitilis MA-4680]; ZP_00119088.1| COG2931: RTX toxins and related Ca2+-binding proteins [Cytophaga hutchinsonii]).
YP_001223475.1	putative sugar ABC transporter, permease component (NP_827989.1| putative transport system inner membrane protein [Streptomyces avermitilis MA-4680]; ZP_00228707.1| COG1175: ABC-type sugar transport systems,permease components [Kineococcus radiotolerans SRS30216]). pfam00528, BPD_transp_1, Binding-protein-dependent transport system inner membrane component. InterPro: Binding-protein-dependent transport systems inner membrane component.; Specificity unclear
YP_001223476.1	putative sugar ABC transporter, permease component (ZP_00206070.1| COG0395: ABC-type sugar transport system,permease component [Enterococcus faecium]; NP_242732.1| sugar transport system (permease) (binding protein dependent transporter) [Bacillus halodurans C-125]). pfam00528, BPD_transp_1, Binding-protein-dependent transport system inner membrane component.; Specificity unclear
YP_001223477.1	conserved membrane protein, putative exporter, DMT family (AAR04620.1| SugE [Rhodococcus equi]; ZP_00291640.1| COG2076: Membrane transporters of cations and cationic drugs [Thermobifida fusca]). pfam00893,Multi_Drug_Res, Small Multidrug Resistance protein. This family is the Small Multidrug Resistance (SMR) family. InterPro: Integral membrane protein DUF7.; Function unclear
YP_001223478.1	putative sugar ABC transporter, substrate binding protein (BAB18102.1| cyclomaltodextrin binding protein [Thermococcus sp. B1001]; ZP_00110980.2| COG1653: ABC-type sugar transport system, periplasmic component [Nostoc punctiforme PCC 73102]). pfam01547, SBP_bac_1, Bacterial extracellular solute-binding protein. InterPro: Bacterial extracellular solute-binding protein family 1.; Specificity unclear
YP_001223479.1	conserved hypothetical protein, putative esterase (NP_102879.1| esterase [Mesorhizobium loti MAFF303099]; NP_765650.1| hypothetical protein SE2095 [Staphylococcus epidermidis ATCC 12228]).; Function unclear
YP_001223480.1	type II fructose 1,6-bisphosphatae; in Escherichia coli this protein forms a dimer and binds manganese
YP_001223481.1	conserved membrane protein, AI-E2 family (YP_062564.1| integral membrane protein [Leifsonia xyli subsp. xyli str. CTCB07]; YP_121709.1| hypothetical protein nfa54930 [Nocardia farcinica IFM 10152]). ,pfam01594, UPF0118, Domain of unknown function DUF20. This transmembrane region is found in putative permeases and predicted transmembrane proteins it has no known function. InterPro: Domain of unknown function DUF20.; Conserved hypothetical protein
YP_001223482.1	putative peptide ABC transporter, ATP-binding protein (NP_625651.1| putative ABC transport system ATP-binding protein [Streptomyces coelicolor A3(2)]; NP_601218.1| ABC-type transporter, ATPase component [Corynebacterium glutamicum ATCC 13032]). pfam00005,ABC_tran, ABC transporter. InterPro: AAA ATPase superfamily.; Specificity unclear
YP_001223483.1	putative peptide ABC transporter, permease component (NP_625652.1| putative ABC transport system transmembrane protein [Streptomyces coelicolor A3(2)]; NP_940625.1| Putative ABC transport system integral membrane protein [Corynebacterium diphtheriae NCTC 13129]). InterPro: DUF214.; Specificity unclear
YP_001223484.1	putative two component system, sensor kinase (YP_061777.1| two-component system, sensor protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_625653.1| putative two component system histidine kinase [Streptomyces coelicolor A3(2)]). pfam02518, HATPase_c,Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase. InterPro: Histidine kinase C-terminal.; Specificity unclear
YP_001223485.1	putative two-component system, response regulator (CAF20959.1| putative two component response regulator [Corynebacterium glutamicum ATCC 13032]; YP_061776.1| two-component system, regulatory protein [Leifsonia xyli subsp. xyli str. CTCB07]). pfam00072, Response_reg,Response regulator receiver domain. pfam00196, GerE,Bacterial regulatory proteins, luxR family. InterPro: Response regulator receiver domain.; Specificity unclear
YP_001223487.1	putative hydrolase (ZP_00291963.1| COG1011: Predicted hydrolase (HAD superfamily) [Thermobifida fusca]; NP_231282.1| hypothetical protein VC1645 [Vibrio cholerae O1 biovar eltor str. N16961]). pfam00702,Hydrolase, haloacid dehalogenase-like hydrolase.; Function unclear
YP_001223488.1	conserved hypothetical protein (NP_825805.1| hypothetical protein SAV4628 [Streptomyces avermitilis MA-4680]; YP_120347.1| hypothetical protein nfa41340 [Nocardia farcinica IFM 10152]). pfam01590, GAF, GAF domain. pfam03861, ANTAR, ANTAR domain. ANTAR (AmiR and NasR transcription antitermination regulators) is an RNA-binding domain found in bacterial transcription antitermination regulatory proteins. InterPro: GAF domain.; Function unclear
YP_001223489.1	conserved hypothetical protein (NP_825806.1| hypothetical protein SAV4629 [Streptomyces avermitilis MA-4680]; AAD43816.1| unknown [Rhodococcus rhodochrous]). pfam03861, ANTAR, ANTAR domain. ANTAR (AmiR and NasR transcription antitermination regulators) is an RNA-binding domain found in bacterial transcription antitermination regulatory proteins.
YP_001223490.1	conserved hypothetical protein, putative F420-dependent NADP reductase (NP_785408.1| hypothetical protein lp_1859 [Lactobacillus plantarum WCFS1]; CAF20864.1| putative secreted protein [Corynebacterium glutamicum ATCC 13032]; ZP_00030268.1| COG2085: Predicted dinucleotide-binding enzymes [Burkholderia fungorum]). pfam03807, F420_oxidored, NADP oxidoreductase coenzyme F420-dependent.; Function unclear
YP_001223491.1	conserved membrane protein, putative permease (ZP_00226048.1| COG0730: Predicted permeases [Kineococcus radiotolerans SRS30216]; NP_746063.1| conserved hypothetical protein [Pseudomonas putida KT2440]). pfam01925, DUF81, Domain of unknown function DUF81. This integral membrane protein family has no known function. InterPro: Domain of unknown function DUF81.; Family membership
YP_001223492.1	putative transcriptional regulator, Cro/CI family (NP_640544.1| transcriptional regulator [Xanthomonas axonopodis pv. citri str. 306]; ZP_00193904.3| COG1396: Predicted transcriptional regulators [Mesorhizobium sp. BNC1]). pfam01381, HTH_3, Helix-turn-helix. This large family of DNA binding helix-turn helix proteins includes Cro and CI. InterPro: Helix-turn-helix motif.; Specificity unclear
YP_001223493.1	conserved hypothetical protein, putatively involved in polysaccharide synthesis (P55564|Y4ME_RHISN HYPOTHETICAL 45.7 KD PROTEIN Y4ME; NP_768625.1| HipA protein [Bradyrhizobium japonicum]; ZP_00016645.1| COG3550: Uncharacterized protein related to capsule biosynthesis enzymes [Rhodospirillum rubrum]).; Family membership
YP_001223495.1	hypothetical protein (YP_118843.1| hypothetical protein nfa26320 [Nocardia farcinica IFM 10152]).
YP_001223496.1	catalyzes the hydrolysis of ATP coupled with the exchange of hydrogen and potassium ions
YP_001223497.1	putative potassium-transporting ATPase B chain, P-type ATPase (Potassium- translocating ATPase B chain) (YP_054834.1| potassium-transporting ATPase B chain [Propionibacterium acnes KPA171202]; Q9X8Z9|ATKB_STRCO Potassium- transporting ATPase B chain (Potassium-translocating ATPase B chain)). pfam00122, E1-E2_ATPase,E1-E2 ATPase.; High confidence in function and specificity
YP_001223498.1	putative potassium-transporting ATPase C chain, P-type ATPase (Potassium- translocating ATPase C chain) (YP_054835.1| potassium-transporting ATPase C chain [Propionibacterium acnes KPA171202]; P65212|ATKC_MYCBO Potassium- transporting ATPase C chain (Potassium-translocating ATPase C chain) ). pfam02669, KdpC, K+-transporting ATPase, c chain.; High confidence in function and specificity
YP_001223499.1	putative two-component system, sensor kinase (YP_054836.1| two-component sensor, KdpD [Propionibacterium acnes KPA171202]; O34971|KDPD_RATRA Sensor protein kdpD; T34823 probable turgor pressure sensor kdpD - Streptomyces coelicolor). MEMBER OF THE TWO-COMPONENT REGULATORY SYSTEM KDPD/KDPE INVOLVED IN THE REGULATION OF THE KDP OPERON. KDPD MAY FUNCTION AS A MEMBRANE-ASSOCIATED PROTEIN KINASE THAT PHOSPHORYLATES KDPE IN RESPONSE TO ENVIRONMENTAL SIGNALS (BY SIMILARITY). pfam02702, KdpD, Osmosensitive K+ channel His kinase sensor domain. pfam00582, Usp, Universal stress protein family. pfam02518, HATPase_c, Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase. InterPro: Osmosensitive K+ channel His kinase sensor domain.; High confidence in function and specificity
YP_001223500.1	putative two-component system, response regulator (YP_054837.1| two-component response regulator, KdpE [Propionibacterium acnes KPA171202]; CAB06852.1| PROBABLE TRANSCRIPTIONAL REGULATORY PROTEIN KDPE [Mycobacterium tuberculosis H37Rv]; T34824 probable turgor pressure regulator kdpE - Streptomyces coelicolor). pfam00072,Response_reg, Response regulator receiver domain. pfam00486, Trans_reg_C, Transcriptional regulatory protein, C terminal. InterPro: Response regulator receiver domain.; High confidence in function and specificity
YP_001223501.1	putative esterase/lipase (YP_062928.1| hypothetical protein Lxx21280 [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00239215.1| lipase/acylhydrolase, putative [Bacillus cereus G9241]). pfam00657, Lipase_GDSL, GDSL-like Lipase/Acylhydrolase.; Function unclear
YP_001223502.1	Hypothetical protein
YP_001223503.1	hypothetical protein (AC1282 hypothetical protein lmo1659 [imported] - Listeria monocytogenes (strain EGD-e)).
YP_001223504.1	Sms; stabilizes the strand-invasion intermediate during the DNA repair; involved in recombination of donor DNA and plays an important role in DNA damage repair after exposure to mutagenic agents
YP_001223505.1	putative transcriptional regulator, ArsR family (NP_789021.1| putative regulator [Tropheryma whipplei TW08/27]; NP_301626.1| putative ArsR-family transcriptional regulator [Mycobacterium leprae TN]). pfam01022, HTH_5, Bacterial regulatory protein, arsR family. InterPro: Bacterial regulatory proteins ArsR family.; Specificity unclear
YP_001223507.1	conserved hypothetical protein (YP_062932.1| hypothetical protein Lxx21320 [Leifsonia xyli subsp. xyli str. CTCB07]; NP_789027.1| putative secreted protein [Tropheryma whipplei TW08/27]).
YP_001223508.1	catalyzes the conversion of l-glutamate to a-N-acetyl-l-glutamate in arginine biosynthesis
YP_001223509.1	Hypothetical protein
YP_001223510.1	putative two-component system, sensor kinase (YP_061437.1| two-component system, sensor protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_338421.1| sensor histidine kinase [Mycobacterium tuberculosis CDC1551]). pfam00512, HisKA, His Kinase A (phosphoacceptor) domain. Dimerisation and phosphoacceptor domain of histidine kinases. pfam02518, HATPase_c,Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase. InterPro: Histidine kinase C-terminal.; Specificity unclear
YP_001223511.1	putative two-component system, response regulator (YP_061436.1| two-component system, regulatory protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00225501.1| COG0745: Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Kineococcus radiotolerans SRS30216]). pfam00072,Response_reg, Response regulator receiver domain. pfam00486, Trans_reg_C, Transcriptional regulatory protein, C terminal.; Specificity unclear
YP_001223512.1	Hypothetical protein
YP_001223513.1	conserved membrane protein, putative exporter (YP_120073.1| putative transporter membrane protein [Nocardia farcinica IFM 10152]; NP_738469.1| putative integral membrane export protein [Corynebacterium efficiens YS-314]). pfam03741, TerC, Integral membrane protein TerC family.; Family membership
YP_001223514.1	conserved hypothetical protein (ZP_00309143.1| COG0823: Periplasmic component of the Tol biopolymer transport system [Cytophaga hutchinsonii]; Q8UEU8|YG56_AGRT5 Hypothetical protein ATU1656/AGR_C_3050).; Family membership
YP_001223515.1	conserved hypothetical protein (NP_630651.1| putative DNA-binding protein [Streptomyces coelicolor A3(2)]; ZP_00186827.1| COG1082: Sugar phosphate isomerases/epimerases [Rubrobacter xylanophilus DSM 9941]). pfam01261, AP_endonuc_2, AP endonuclease family 2.
YP_001223516.1	putative multidrug ABC transporter, permease component (NP_981776.1| ABC transporter, permease protein,putative [Bacillus cereus ATCC 10987]; AAF12290.1| conserved hypothetical protein [Deinococcus radiodurans]). pfam03699, UPF0182, Uncharacterised protein family (UPF0182). This family contains uncharacterised integral membrane proteins.; Specificity unclear
YP_001223517.1	putative ABC transporter, ATP-binding protein (NP_629278.1| putative ABC transporter ATP-binding protein [Streptomyces coelicolor A3(2)]; NP_285331.1| ABC transporter, ATP-binding protein, putative [Deinococcus radiodurans R1]). pfam00005, ABC_tran, ABC transporter. InterPro: AAA ATPase superfamily.; Specificity unclear
YP_001223518.1	conserved hypothetical protein, putative nitroreductase (NP_578479.1| putative NADH oxidase [Pyrococcus furiosus DSM 3638]; ZP_00294650.1| COG0778: Nitroreductase [Methanosarcina barkeri str. fusaro]).; Family membership
YP_001223519.1	conserved hypothetical protein (YP_055575.1| conserved protein DUF181 [Propionibacterium acnes KPA171202]; Q58494|YA94_METJA Hypothetical UPF0142 protein MJ1094). pfam02624, DUF181, Uncharacterized ACR,COG1944.
YP_001223522.1	conserved hypothetical protein (YP_061428.1| hypothetical protein Lxx02960 [Leifsonia xyli subsp. xyli str. CTCB07]; NP_950795.1| hypothetical protein [Onion yellows phytoplasma OY-M]; ZP_00040545.1| COG5377: Phage-related protein, predicted endonuclease [Xylella fastidiosa Ann-1]).
YP_001223523.1	putative zinc-dependant oxidoreductase (YP_061427.1| zinc-binding oxidoreductase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_629556.1| putative zinc-binding oxidoreductase [Streptomyces coelicolor A3(2)]; ZP_00297421.1| COG0604: NADPH:quinone reductase and related Zn-dependent oxidoreductases [Methanosarcina barkeri str. fusaro]). pfam00107, ADH_zinc_N, Zinc-binding dehydrogenase. InterPro: Zinc-containing alcohol dehydrogenase superfamily.; Function unclear
YP_001223524.1	putative carboxylesterase, putative penicillin-binding protein (ZP_00126504.2| COG1680: Beta-lactamase class C and other penicillin binding proteins [Pseudomonas syringae pv. syringae B728a]; NP_824788.1| putative esterase [Streptomyces avermitilis MA-4680]). pfam00144,Beta-lactamase, Beta-lactamase.; Function unclear
YP_001223525.1	putative sugar hydrolase (CAD47861.1| putative sucrose hydrolase [Arthrobacter nicotinovorans]).; Function unclear
YP_001223526.1	putative sugar ABC transporter, permease component (ZP_00206541.1| COG0395: ABC-type sugar transport system,permease component [Bifidobacterium longum DJO10A]; NP_107402.1| ABC transporter, permease protein [Mesorhizobium loti MAFF303099]). pfam00528, BPD_transp_1,Binding-protein-dependent transport system inner membrane component. InterPro: Binding-protein-dependent transport systems inner membrane component.; Specificity unclear
YP_001223527.1	putative sugar ABC transporter, permease component (ZP_00206542.1| COG1175: ABC-type sugar transport systems,permease components [Bifidobacterium longum DJO10A]; ZP_00183308.1| COG1175: ABC-type sugar transport systems,permease components [Exiguobacterium sp. 255-15]).; Specificity unclear
YP_001223528.1	putative sugar ABC transporter, substrate binding protein (ZP_00121121.2| COG1653: ABC-type sugar transport system, periplasmic component [Bifidobacterium longum DJO10A]; NP_107400.1| ABC transporter, periplasmic binding-protein [Mesorhizobium loti MAFF303099]). pfam01547, SBP_bac_1, Bacterial extracellular solute-binding protein.; Specificity unclear
YP_001223529.1	putative transcriptional regulator, LacI-family (ZP_00033618.1| COG1609: Transcriptional regulators [Burkholderia fungorum]; NP_231357.1| transcriptional regulator, LacI family [Vibrio cholerae O1 biovar eltor str. N16961]). pfam00356, LacI, Bacterial regulatory proteins, lacI family. pfam00532, Peripla_BP_1,Periplasmic binding proteins and sugar binding domain of the LacI family.; Specificity unclear
YP_001223530.1	putative acetyltransferase (YP_119942.1| putative acetyltransferase [Nocardia farcinica IFM 10152]; NP_961723.1| hypothetical protein MAP2789 [Mycobacterium avium subsp. paratuberculosis str. k10]). pfam00583,Acetyltransf_1, Acetyltransferase (GNAT) family. This family contains proteins with N-acetyltransferase functions. InterPro: GCN5-related N-acetyltransferase.; Function unclear
YP_001223531.1	in Escherichia coli and Methanococcus, this protein autoregulates expression; the binding site in the mRNA mimics the binding site in the 23S rRNA
YP_001223532.1	binds directly to 23S ribosomal RNA
YP_001223533.1	putative transcription antitermination protein (YP_061423.1| transcription antitermination factor [Leifsonia xyli subsp. xyli str. CTCB07]; NP_787843.1| transcription antitermination protein [Tropheryma whipplei str. Twist]). pfam02357, NusG, Transcription termination factor nusG. pfam00467, KOW, KOW motif. The KOW (Kyprides,Ouzounis, Woese) motif is found in a variety of ribosomal proteins and NusG. InterPro: Bacterial transcription antitermination protein nusG.; High confidence in function and specificity
YP_001223534.1	forms a complex with SecY and SecG; SecYEG forms a putative protein-conducting channel to which secA binds and translocates targeted polypeptides across the cytoplasmic membrane, a process driven by ATP and a proton-motive force
YP_001223535.1	catalyzes the formation of oxalozcetate and L-glutamate from L-aspartate and 2-oxoglutarate
YP_001223536.1	catalyzes the reduction of UDP-N-acetylglucosamine enolpyruvate to form UDP-N-acetylmuramate in peptidoglycan biosynthesis
YP_001223537.1	conserved hypothetical protein, putative dehydratase (YP_061419.1| hypothetical protein Lxx02820 [Leifsonia xyli subsp. xyli str.CTCB07]; NP_826079.1| hypothetical protein SAV4902 [Streptomyces avermitilis MA-4680]). , pfam01575, MaoC_dehydratas, MaoC like domain. ,InterPro: MaoC-like dehydratase domain.; Family membership
YP_001223538.1	conserved hypothetical protein, putative dehydratase (YP_061418.1| hypothetical protein Lxx02810 [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00292077.1| COG2030: Acyl dehydratase [Thermobifida fusca]). pfam05921, DUF875, Actinomycete protein of unknown function (DUF875). arcC: carbamate kinase; Family membership
YP_001223541.1	putative oxidoreductase (NP_733626.1| putative oxidoreductase [Streptomyces coelicolor A3(2)]; ZP_00106480.1| COG0667: Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Nostoc punctiforme PCC 73102]). pfam00248, Aldo_ket_red, Aldo/keto reductase family. InterPro: Aldo/keto reductase family.; Function unclear
YP_001223542.1	putative alpha-glucosidase, glycosyl hydrolase family 13 (NP_626479.1| alpha-glucosidase [Streptomyces coelicolor A3(2)]; ZP_00089179.1| COG0366: Glycosidases [Azotobacter vinelandii]). pfam00128, Alpha-amylase, Alpha amylase, catalytic domain. Alpha amylase is classified as family 13 of the glycosyl hydrolases. InterPro: Glycoside hydrolase family 13.; Specificity unclear
YP_001223543.1	putative membrane bound metalloendopeptidase,family M23 (NP_354816.1| AGR_C_3364p [Agrobacterium tumefaciens]; ZP_00193020.1| COG0739: Membrane proteins related to metalloendopeptidases [Mesorhizobium sp. BNC1]). pfam01551, Peptidase_M37, Peptidase family M23/M37. Members of this family are zinc metallopeptidases with a range of specificities. InterPro: Peptidase family M23/M37.; Family membership
YP_001223544.1	putative inositol-1-monophosphatase (Q92M71|SUHB_RHIME Inositol-1-monophosphatase (IMPase) (Inositol-1-phosphatase); AAF63339.1| myo-inositol-1-monophosphotase [Streptomyces spectabilis]). pfam00459,Inositol_P, Inositol monophosphatase family.; Specificity unclear
YP_001223545.1	conserved membrane protein (NP_962548.1| hypothetical protein MAP3614 [Mycobacterium avium subsp. paratuberculosis str. k10]; NP_827020.1| hypothetical protein SAV5843 [Streptomyces avermitilis MA-4680]). pfam06912, DUF1275, Protein of unknown function (DUF1275).; Conserved hypothetical protein
YP_001223546.1	putative oxidoreductase (NP_733626.1| putative oxidoreductase [Streptomyces coelicolor A3(2)]; ZP_00106480.1| COG0667: Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Nostoc punctiforme PCC 73102]). pfam00248, Aldo_ket_red, Aldo/keto reductase family.; Function unclear
YP_001223547.1	conserved hypothetical protein (NP_826073.1| hypothetical protein SAV4896 [Streptomyces avermitilis MA-4680]; YP_061355.1| hypothetical protein Lxx01880 [Leifsonia xyli subsp. xyli str. CTCB07]). pfam04461,DUF520, Protein of unknown function (DUF520). Family of uncharacterised proteins.
YP_001223548.1	putative phospholipase, cardiolipin synthetase (YP_062936.1| cardiolipin synthase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_787192.1| cardiolipin synthetase [Tropheryma whipplei str. Twist]). pfam00614, PLDc,Phospholipase D. Active site motif (twice). InterPro: Phospholipase D/Transphosphatidylase.; High confidence in function and specificity
YP_001223549.1	putative transcriptional regulator, MarR family (ZP_00058332.1| COG1846: Transcriptional regulators [Thermobifida fusca]; ZP_00227991.1| COG1846: Transcriptional regulators [Kineococcus radiotolerans SRS30216]). pfam01047, MarR, MarR family. The Mar proteins are involved in the multiple antibiotic resistance, a non-specific resistance system. InterPro: Bacterial regulatory protein MarR family.; Specificity unclear
YP_001223550.1	putative signalpeptidase (NP_628711.1| putative type IV peptidase [Streptomyces coelicolor A3(2)]; ZP_00171774.1| COG1989: Type II secretory pathway,prepilin signal peptidase PulO and related peptidases [Methylobacillus flagellatus KT]; AAG18589.1| pilin biogenesis protein PilD [Pseudomonas fluorescens]).; Conserved hypothetical protein
YP_001223551.1	putative ferredoxin/ferredoxin-NADP reductase (YP_061354.1| ferredoxin/ferredoxin-NADP reductase [Leifsonia xyli subsp. xyli str. CTCB07]; YP_121578.1| putative ferredoxin reductase [Nocardia farcinica IFM 10152]). possibly involved in menaquinone biosynthesis. pfam00070, Pyr_redox, Pyridine nucleotide-disulphide oxidoreductase.; Specificity unclear
YP_001223552.1	putative polyprenyl diphosphate synthase, involved in menaquinone biosynthesis (YP_061353.1| trans-hexaprenyltranstransferase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_826041.1| putative polyprenyl diphosphate synthase [Streptomyces avermitilis MA-4680]). pfam00348, polyprenyl_synt, Polyprenyl synthetase. InterPro: Polyprenyl synthetase.; Specificity unclear
YP_001223553.1	putative menaquinone biosynthesis methyltransferase (YP_061352.1| ubiquinone/menaquinone biosynthesis methyltransferase [Leifsonia xyli subsp. xyli str. CTCB07]; YP_121345.1| putative ubiquinone/ menaquinone methyltransferase [Nocardia farcinica IFM 10152]). pfam01209, Ubie_methyltran, ubiE/COQ5 methyltransferase family. InterPro: ubiE/COQ5 methyltransferase.; Specificity unclear
YP_001223554.1	putative sugar MFS permease (NP_629540.1| probable integral membrane protein [Streptomyces coelicolor A3(2)]; ZP_00209176.1| COG0477: Permeases of the major facilitator superfamily [Magnetospirillum magnetotacticum MS-1]). pfam05977, DUF894, Bacterial protein of unknown function (DUF894).; Function unclear
YP_001223555.1	putative isochorismate synthase (YP_061351.1| isochorismate mutase [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00292873.1| COG1169: Isochorismate synthase [Thermobifida fusca]). pfam00425, Chorismate_bind,chorismate binding enzyme. InterPro: Isochorismate synthase.; High confidence in function and specificity
YP_001223556.1	putative transcriptional regulator, ArsR family (NP_826320.1| hypothetical protein SAV5143 [Streptomyces avermitilis MA-4680]; NP_579519.1| transcriptional regulatory protein arsR family [Pyrococcus furiosus DSM 3638])., , pfam01022, HTH_5, Bacterial regulatory protein,arsR family.; Function unclear
YP_001223557.1	menaquinone biosynthesis bifunctional protein menD contains two activities: 2-succinyl-6-hydroxy-24-cyclohexadiene- 1-carboxylate synthase (EC 4.1.3.-) and 2-oxoglutarate decarboxylase (EC 4.1.1.71) (Alpha-ketoglutarate decarboxylase)] (YP_061328.1| 2-oxoglutarate decarboxylase; 2-succinyl-6-hydroxy- 2,4-cyclohexadiene-1-carboxylate synthase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_789026.1| putative menaquinone biosynthesis protein MenD [Tropheryma whipplei TW08/27]. pfam02776,TPP_enzyme_N, Thiamine pyrophosphate enzyme, N-terminal TPP binding domain. InterPro: Menaquinone biosynthesis protein.; High confidence in function and specificity
YP_001223558.1	hypothetical membrane protein (YP_061327.1| membrane protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_628654.1| putative membrane protein [Streptomyces coelicolor A3(2)]).; Hypothetical protein
YP_001223559.1	hypothetical membrane protein (ZP_00292109.1| hypothetical protein Tfus02002535 [Thermobifida fusca]).
YP_001223561.1	catalyzes the formation of dimethylmenaquinone from 1,4-dihydroxy-2-naphthoate and octaprenyl diphosphate
YP_001223562.1	putative mutase (NP_822948.1| putative mutase [Streptomyces avermitilis MA-4680]; NP_896839.1| putative phosphoglycerate mutase family protein [Synechococcus sp. WH 8102]; NP_962249.1| EntD [Mycobacterium avium subsp. paratuberculosis str. k10]). pfam00300, PGAM,Phosphoglycerate mutase family.; Family membership
YP_001223563.1	conserved hypothetical protein (YP_061292.1| beta-lactamase related protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00106502.1| COG2367: Beta-lactamase class A [Nostoc punctiforme PCC 73102]).
YP_001223564.1	putative metallopeptidase, family M13 (YP_061291.1| metallopeptidase [Leifsonia xyli subsp. xyli str. CTCB07]; YP_121856.1| putative peptidase [Nocardia farcinica IFM 10152]). pfam05649, Peptidase_M13_N,Peptidase family M13. pfam01431, Peptidase_M13, Peptidase family M13.; Function unclear
YP_001223565.1	putative transcriptional regulator, Cro/CI family (NP_639310.1| transcriptional regulator [Xanthomonas campestris pv. campestris str. ATCC 33913]; ZP_00225863.1| COG1476: Predicted transcriptional regulators [Kineococcus radiotolerans SRS30216]). pfam01381, HTH_3, Helix-turn-helix. This large family of DNA binding helix-turn helix proteins includes Cro and CI.; Specificity unclear
YP_001223566.1	Hypothetical protein
YP_001223567.1	putative xanthine/uracil family permease, NCS2 family (YP_104807.1| xanthine/uracil permease family protein [Burkholderia mallei ATCC 23344]; ZP_00275416.1| COG2233: Xanthine/uracil permeases [Ralstonia metallidurans CH34]). pfam00860, Xan_ur_permease, Permease family.; Specificity unclear
YP_001223568.1	conserved membrane protein (YP_062737.1| integral membrane protein [Leifsonia xyli subsp. xyli str. CTCB07]; YP_055965.1| hypothetical protein PPA1260 [Propionibacterium acnes KPA171202]).; Conserved hypothetical protein
YP_001223569.1	catalyzes the hydrolysis of allophanate
YP_001223570.1	conserved hypothetical protein, isochorismatase family (NP_772791.1| hypothetical isochorismatase family protein [Bradyrhizobium japonicum]; ZP_00125671.2| COG1335: Amidases related to nicotinamidase [Pseudomonas syringae pv. syringae B728a]). pfam00857, Isochorismatase,Isochorismatase family. This family are hydrolase enzymes.
YP_001223571.1	putative cytosine permease, NCS1 family (NP_937310.1| purine-cytosine permease [Vibrio vulnificus YJ016]; NP_462243.1| putative purine-cytosine permease [Salmonella typhimurium LT2]). pfam02133, Transp_cyt_pur,Permease for cytosine/purines, uracil, thiamine,allantoin. InterPro: Permeases for cytosine/purines uracil thiamine allantoin; Specificity unclear
YP_001223572.1	putative transcriptional regulator, GntR-family (NP_715986.1| transcriptional regulator. GntR family [Shewanella oneidensis MR-1]; NP_823595.1| putative GntR-family transcriptional regulator [Streptomyces avermitilis MA-4680]). pfam00392, GntR, Bacterial regulatory proteins,gntR family.; Specificity unclear
YP_001223573.1	putative phosphatase (NP_662590.1| hydrolase,haloacid dehalogenase- like family [Chlorobium tepidum TLS]; ZP_00306861.1| COG0546: Predicted phosphatases [Ferroplasma acidarmanus]; ZP_00057308.1| COG0546: Predicted phosphatases [Thermobifida fusca]). pfam00702,Hydrolase, haloacid dehalogenase-like hydrolase. This family includes L-2-haloacid dehalogenase, epoxide hydrolases and phosphatases.; Function unclear
YP_001223574.1	putative transcriptional regulator, MarR family (YP_062606.1| transcriptional regulator, MarR family [Leifsonia xyli subsp. xyli str. CTCB07]; NP_824748.1| putative MarR-family transcriptional regulator [Streptomyces avermitilis MA-4680]). pfam01047, MarR, MarR family. The Mar proteins are involved in the multiple antibiotic resistance, a non-specific resistance system.; Specificity unclear
YP_001223575.1	converts homocysteine and S-adenosyl-methionine to methionine and S-adenosyl-homocysteine or S-methyl-methionine and homocysteine to two methionines
YP_001223576.1	putative nucleoside-diphosphate-sugar epimerase (YP_062550.1| hypothetical protein Lxx16700 [Leifsonia xyli subsp. xyli str. CTCB07]; NP_600590.1| predicted nucleoside-diphosphate-sugar epimerase [Corynebacterium glutamicum ATCC 13032]). only weak similarity to: pfam02716, Isoflavone_redu, Isoflavone reductase.; Function unclear
YP_001223577.1	putative transcriptional regulator (NP_629709.1| conserved hypothetical protein SC7A1.18c [Streptomyces coelicolor A3(2)]; NP_695657.1| narrowly conserved hypothetical protein with duf24 [Bifidobacterium longum NCC2705]). pfam01638, DUF24, Transcriptional regulator.; Function unclear
YP_001223578.1	putative MFS permease (NP_631565.1| putative integral membrane protein [Streptomyces coelicolor A3(2)]; ZP_00294170.1| COG0477: Permeases of the major facilitator superfamily [Thermobifida fusca]). pfam00083,Sugar_tr, Sugar (and other) transporter.; Function unclear
YP_001223579.1	putative aldo/keto reductase (YP_119166.1| putative oxidoreductase [Nocardia farcinica IFM 10152]; NP_624627.1| putative oxidoreductase [Streptomyces coelicolor A3(2)]). pfam00248, Aldo_ket_red, Aldo/keto reductase family. InterPro: Aldo/keto reductase family.; Function unclear
YP_001223580.1	putative transcriptional regulator, LysR-family (ZP_00226031.1| COG0583: Transcriptional regulator [Kineococcus radiotolerans SRS30216]; ZP_00057998.1| COG0583: Transcriptional regulator [Thermobifida fusca]). pfam00126, HTH_1, Bacterial regulatory helix-turn-helix protein, lysR family. pfam03466, LysR_substrate, LysR substrate binding domain.; Specificity unclear
YP_001223581.1	putative permease, DMT family (NP_823168.1| hypothetical protein SAV1992 [Streptomyces avermitilis MA-4680]; ZP_00279369.1| COG0697: Permeases of the drug/metabolite transporter (DMT) superfamily [Burkholderia fungorum LB400]). pfam00892, DUF6, Integral membrane protein DUF6. This family includes many hypothetical membrane proteins of unknown function (twice).; Specificity unclear
YP_001223582.1	putative membrane protein (ZP_00199035.1| hypothetical protein Krad07002569 [Kineococcus radiotolerans SRS30216]; NP_599355.1| predicted membrane protein [Corynebacterium glutamicum ATCC 13032]). pfam02656, DUF202, Domain of unknown function DUF. InterPro: DUF202.
YP_001223583.1	putative membrane protein (ZP_00292261.1| hypothetical protein Tfus02002381 [Thermobifida fusca]; NP_418131.1| hypothetical protein b3675 [Escherichia coli K12]).
YP_001223584.1	conserved hypothetical protein, putative nucleoside-diphosphate-sugar epimerase (NP_792815.1| conserved hypothetical protein [Pseudomonas syringae pv. tomato str. DC3000]; NP_969467.1| conserved hypothetical protein [Bdellovibrio bacteriovorus HD100]).; Family membership
YP_001223585.1	putative sugar kinase (ZP_00293678.1| COG0524: Sugar kinases, ribokinase family [Thermobifida fusca]; ZP_00337675.1| COG0524: Sugar kinases, ribokinase family [Silicibacter sp. TM1040]). pfam00294, PfkB, pfkB family carbohydrate kinase. This family includes a variety of carbohydrate and pyrimidine kinases.; Specificity unclear
YP_001223586.1	putative ranscriptional regulator, LacI-family (NP_625372.1| putative lacI-family transcriptional regulator [Streptomyces coelicolor A3(2)]; ZP_00186316.1| COG1609: Transcriptional regulators [Rubrobacter xylanophilus DSM 9941]). pfam00356, LacI, Bacterial regulatory proteins, lacI family. pfam00532, Peripla_BP_1,Periplasmic binding proteins and sugar binding domain of the LacI family. InterPro: Periplasmic binding proteins and sugar binding domain LacI family.; Specificity unclear
YP_001223587.1	putative sugar ABC transporter, substrate binding protein (NP_530772.1| ABC transporter, substrate binding protein [sugar] [Agrobacterium tumefaciens str. C58]; NP_107869.1| sugar ABC transporter, periplasmic sugar-binding protein [Mesorhizobium loti MAFF303099]). pfam00532, Peripla_BP_1, Periplasmic binding proteins and sugar binding domain of the LacI family.; Specificity unclear
YP_001223588.1	putative sugar ABC transporter, permease component (ZP_00338367.1| COG1172: Ribose/xylose/arabinose/galactoside ABC-type transport systems, permease components [Silicibacter sp. TM1040]; AAC16210.1| ribose transport system permease protein RbsC [Rhodobacter capsulatus]). pfam02653, BPD_transp_2,Branched-chain amino acid transport system / permease component.; Specificity unclear
YP_001223589.1	putative sugar ABC transporter, ATP-binding protein (NP_530774.1| ABC transporter, nucleotide binding/ATPase protein [sugar] [Agrobacterium tumefaciens str. C58]; NP_107871.1| sugar ABC transporter, ATP binding protein [Mesorhizobium loti MAFF303099]). pfam00005, ABC_tran, ABC transporter. InterPro: AAA ATPase superfamily.; Specificity unclear
YP_001223590.1	conserved hypothetical protein (NP_826883.1| hypothetical protein SAV5706 [Streptomyces avermitilis MA-4680]; ZP_00274581.1| COG1359: Uncharacterized conserved protein [Ralstonia metallidurans CH34]). pfam03992, ABM,Antibiotic biosynthesis monooxygenase. This domain is found in monooxygenases involved in the biosynthesis of several antibiotics by Streptomyces species. InterPro: DUF176.; Function unclear
YP_001223591.1	putative plasmid maintenance system, antidote protein (ZP_00271057.1| COG3093: Plasmid maintenance system antidote protein [Rhodospirillum rubrum]; YP_112809.1| DNA-binding protein [Methylococcus capsulatus str. Bath]). pfam01381, HTH_3, Helix-turn-helix. This large family of DNA binding helix-turn helix proteins includes Cro and CI. pfam06114, DUF955, Domain of unknown function (DUF955). Family of bacterial and viral proteins with undetermined function.; Conserved hypothetical protein
YP_001223593.1	putative short chain dehydrogenase/oxidoreductase (ZP_00194667.1| COG1028: Dehydrogenases with different specificities (related to short- chain alcohol dehydrogenases) [Mesorhizobium sp. BNC1]; NP_631416.1| putative oxidoreductase. [Streptomyces coelicolor A3(2)]). pfam00106, adh_short, short chain dehydrogenase. This family contains a wide variety of dehydrogenases. InterPro: Short-chain dehydrogenase/reductase (SDR) superfamily.; Specificity unclear
YP_001223594.1	conserved hypothetical protein, putative phosphatase (NP_825582.1| hypothetical protein SAV4405 [Streptomyces avermitilis MA-4680]; ZP_00188457.2| COG3211: Predicted phosphatase [Rubrobacter xylanophilus DSM 9941]). pfam05787, DUF839, Bacterial protein of unknown function (DUF839). This family consists of several bacterial proteins of unknown function.; Family membership
YP_001223595.1	hypothetical protein (NP_870934.1| hypothetical protein RB13228 [Rhodopirellula baltica SH 1]; AAO55387.1| conserved hypothetical protein [Pseudomonas syringae pv. tomato str. DC3000]).
YP_001223596.1	putative membrane protein (NP_959547.1| hypothetical protein MAP0613c [Mycobacterium avium subsp. paratuberculosis str. k10]; ZP_00293703.1| hypothetical protein Tfus02001064 [Thermobifida fusca]).
YP_001223597.1	putative zinc transporter, ZIP family (ZP_00110916.1| COG0428: Predicted divalent heavy-metal cations transporter [Nostoc punctiforme PCC 73102]; ZP_00293877.1| COG0428: Predicted divalent heavy-metal cations transporter [Thermobifida fusca]). pfam02535, Zip,ZIP Zinc transporter. The ZIP family consists of zinc transport proteins and many putative metal transporters.; Specificity unclear
YP_001223598.1	putative transcriptional regulator, MarR family (NP_824140.1| putative MarR-family transcriptional regulator [Streptomyces avermitilis MA-4680]; NP_629113.1| putative marR-family transcriptional regulator [Streptomyces coelicolor A3(2)]). pfam01047,MarR, MarR family. The Mar proteins are involved in the multiple antibiotic resistance, a non-specific resistance system.; Specificity unclear
YP_001223599.1	putative ATPase involved in chromosome partitioning (NP_301161.1| conserved hypothetical protein [Mycobacterium leprae TN]; ZP_00056814.1| COG0455: ATPases involved in chromosome partitioning [Thermobifida fusca]; AAP73957.1| putative septum site-determining protein (MinD) [Rhodococcus erythropolis]).; Family membership
YP_001223600.1	conserved membrane protein, putative multidrug exporter MOP(MATE) family (NP_628096.1| putative membrane protein [Streptomyces coelicolor A3(2)]; ZP_00291615.1| COG0534: Na+-driven multidrug efflux pump [Thermobifida fusca])., , pfam01554, MatE, MatE. The MatE domain (twice).; Specificity unclear
YP_001223601.1	putative aldo/keto reductase (YP_074487.1| oxidoreductase [Symbiobacterium thermophilum IAM 14863]; ZP_00281237.1| COG0656: Aldo/keto reductases, related to diketogulonate reductase [Burkholderia fungorum LB400]). pfam00248, Aldo_ket_red, Aldo/keto reductase family. InterPro: Aldo/keto reductase family. holB: DNA polymerase III delta prime s; Function unclear
YP_001223603.1	conserved hypothetical protein, putative protein-S-isoprenylcysteine methyltransferase (Isoprenylcysteine carboxylmethyltransferase) (NP_869869.1| ; ZP_00191379.2| COG2020: Putative protein-S-isoprenylcysteine methyltransferase [Kineococcus radiotolerans SRS30216]).; Function unclear
YP_001223604.1	conserved hypothetical protein (EAL05363.1| conserved hypothetical protein [Listeria monocytogenes str. 1/2a F6854]; NP_347636.1| Uncharacterized protein,homolog of yhfF B.subtilis [Clostridium acetobutylicum ATCC 824]). pfam06171, DUF984, Protein of unknown function (DUF984).
YP_001223605.1	Hypothetical protein
YP_001223606.1	putative acetyltransferase (NP_644579.1| acetyltransferase [Xanthomonas axonopodis pv. citri str. 306]; NP_925980.1| probable acetyltransferase [Gloeobacter violaceus PCC 7421]). pfam00583,Acetyltransf_1, Acetyltransferase (GNAT) family. This family contains proteins with N-acetyltransferase functions. InterPro: GCN5-related N-acetyltransferase.; Function unclear
YP_001223607.1	putative acetyltransferase (NP_626478.1| putative acetyltransferase [Streptomyces coelicolor A3(2)]; NP_925980.1| probable acetyltransferase [Gloeobacter violaceus PCC 7421]). pfam00583, Acetyltransf_1,Acetyltransferase (GNAT) family. This family contains proteins with N-acetyltransferase functions. InterPro: GCN5-related N-acetyltransferase.; Family membership
YP_001223608.1	conserved membrane protein (NP_294914.1| hypothetical protein [Deinococcus radiodurans R1]; ZP_00185697.1| COG3548: Predicted integral membrane protein [Rubrobacter xylanophilus DSM 9941]). pfam06736,DUF1211, Protein of unknown function (DUF1211).; Conserved hypothetical protein
YP_001223609.1	conserved membrane protein, putative DMT transporter (YP_063076.1| integral membrane protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_733531.1| putative integral membrane protein [Streptomyces coelicolor A3(2)]). pfam00892, DUF6, Integral membrane protein DUF6. This family includes many hypothetical membrane proteins of unknown function (twice). InterPro: Integral membrane protein DUF6.; Family membership
YP_001223610.1	conserved hypothetical protein (YP_061283.1| hypothetical protein Lxx00930 [Leifsonia xyli subsp. xyli str. CTCB07]; YP_117280.1| hypothetical protein nfa10710 [Nocardia farcinica IFM 10152]). pfam01939, DUF91, Protein of unknown function DUF91.
YP_001223611.1	conserved hypothetical protein, putative hydrolase (YP_061281.1| hydrolase, haloacid dehalogenase-like family [Leifsonia xyli subsp. xyli str. CTCB07]; NP_816534.1| hydrolase, haloacid dehalogenase-like family [Enterococcus faecalis V583]). pfam00702, Hydrolase, haloacid dehalogenase-like hydrolase. This family includes L-2-haloacid dehalogenase, epoxide hydrolases and phosphatases. InterPro: Haloacid dehalogenase/epoxide hydrolase family. hstdl_phs_rel: histidinol phosphatase-r
YP_001223612.1	putative transcriptional regulator, MarR family (ZP_00227991.1| COG1846: Transcriptional regulators [Kineococcus radiotolerans SRS30216]; ZP_00058332.1| COG1846: Transcriptional regulators [Thermobifida fusca]). pfam01047, MarR, MarR family. InterPro: Bacterial regulatory protein MarR family.; Specificity unclear
YP_001223613.1	putative membrane-bound Zn-dependent protease (YP_118728.1| hypothetical protein nfa25170 [Nocardia farcinica IFM 10152]; NP_736926.1| hypothetical protein CE0316 [Corynebacterium efficiens YS-314]).; Function unclear
YP_001223614.1	conserved membrane protein (YP_061832.1| hypothetical protein Lxx08200 [Leifsonia xyli subsp. xyli str. CTCB07]; NP_738791.1| hypothetical protein CE2181 [Corynebacterium efficiens YS-314]). contains two domains: N-terminal: COG1633, Uncharacterized conserved protein [Function unknown]; cd01044, Ferritin_like_CCC1, Ferritin-like domain present at the N-terminus of the iron transport protein CCC1 of some eubacteria and archaebacteria, and member of a broad superfamily of ferritin-like diiron-carboxylate proteins. This uncharacterized domain has the conserved residues of a diiron center. C-terminal: pfam01988, DUF125, Integral membrane protein DUF125. This family of predicted integral membrane proteins has no known function.
YP_001223616.1	putative polygalacturonase (Pectinase) (YP_061794.1| endopolygalacturonase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_638805.1| endopolygalacturonase [Xanthomonas campestris pv. campestris str. ATCC 33913]). , pfam00295, Glyco_hydro_28, Glycosyl hydrolases family 28. , InterPro: Glycoside hydrolase family 28.; High confidence in function and specificity
YP_001223617.1	putative hydrolase/acyltransferase (NP_421198.1| acetoin dehydrogenase E2 component, putative [Caulobacter crescentus CB15]; BAC75995.1| meta cleavage compound hydrolase [Terrabacter sp. DBF63]). pfam00561,Abhydrolase_1, alpha/beta hydrolase fold. This catalytic domain is found in a very wide range of enzymes.; Family membership
YP_001223618.1	catalyzes the reversible formation of diaminobutyrate and 2-oxoglutarate from glutamate and L-aspartic beta-semialdehyde
YP_001223619.1	conserved hypothetical protein (NP_142428.2| hypothetical protein PH0448 [Pyrococcus horikoshii OT3]; NP_614860.1| hypothetical protein MK1577 [Methanopyrus kandleri AV19]). pfam04266, DUF437, Protein of unknown function (DUF437).
YP_001223620.1	conserved hypothetical protein (YP_061264.1| hypothetical protein Lxx00670 [Leifsonia xyli subsp. xyli str. CTCB07]; NP_824697.1| hypothetical protein SAV3520 [Streptomyces avermitilis MA-4680]). weak similarity to: COG4319, Ketosteroid isomerase homolog [Function unknown].
YP_001223621.1	putative two-component system, response regulator (NP_599321.1| two-component system response regulator [Corynebacterium glutamicum ATCC 13032]; YP_062659.1| two-component system, regulatory protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_823607.1| putative two-component system response regulator [Streptomyces avermitilis MA-4680]). pfam00072, Response_reg, Response regulator receiver domain. InterPro: Response regulator receiver domain.; Specificity unclear
YP_001223622.1	putative two-component system, sensor kinase (YP_062660.1| two-component system, sensor protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_599320.1| two-component system sensory transduction histidine kinase [Corynebacterium glutamicum ATCC 13032]; NP_629952.1| putative two-component sensor [Streptomyces coelicolor A3(2)]). pfam00989, PAS, PAS domain. pfam02518, HATPase_c,Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase. InterPro: Histidine kinase C-terminal.; Specificity unclear
YP_001223623.1	putative citrate transporter, CitMHS family (YP_062661.1| Mg++/citrate complex transporter [Leifsonia xyli subsp. xyli str. CTCB07]; NP_599319.2| H+/citrate symporter [Corynebacterium glutamicum ATCC 13032]). pfam03600, CitMHS, Citrate transporter. InterPro: Citrate transporter.; High confidence in function and specificity
YP_001223624.1	conserved membrane protein (NP_821248.1| hypothetical protein SAV74 [Streptomyces avermitilis MA-4680]; ZP_00175585.2| COG3463: Predicted membrane protein [Crocosphaera watsonii WH 8501]).; Conserved hypothetical protein
YP_001223625.1	conserved hypothetical protein (YP_061782.1| hypothetical protein Lxx07570 [Leifsonia xyli subsp. xyli str. CTCB07]; NP_822361.1| hypothetical protein SAV1186 [Streptomyces avermitilis MA-4680]).
YP_001223626.1	putative transcriptional regulator, LysR family (YP_120335.1| putative transcriptional regulator [Nocardia farcinica IFM 10152]; NP_625268.1| putative lysR-family trancsriptional regulator [Streptomyces coelicolor A3(2)]). pfam00126, HTH_1, Bacterial regulatory helix-turn-helix protein, lysR family. pfam03466, LysR_substrate,LysR substrate binding domain. InterPro: Bacterial regulatory protein LysR family.; Specificity unclear
YP_001223627.1	hypothetical protein (NP_104793.1| hypothetical protein mlr3756 [Mesorhizobium loti MAFF303099]; YP_133572.1| hypothetical protein PBPRB1925 [Photobacterium profundum SS9]).
YP_001223629.1	crtEb; UbiA prenyltransferase family catalyzes the transfer of a prenyl group to various acceptors with hydrophobic ring structures in the biosynthesis of respiratory quinones, hemes, chlorophylls, vitamin E, and shikonin
YP_001223630.1	putative C50 carotenoid epsilon cyclase/lycopene e-cyclase isoprenoid transferase B (NP_737248.1| C50 carotenoid epsilon cyclase [Corynebacterium efficiens YS-314]; lycopene e-cyclase isoprenoid transferase B [Agromyces mediolanus]).; High confidence in function and specificity
YP_001223631.1	putative C50 carotenoid epsilon cyclase (NP_599857.1| C50 carotenoid epsilon cyclase [Corynebacterium glutamicum ATCC 13032]; AAM94365.1| lycopene e-cyclase isoprenoid transferase A [Agromyces mediolanus]).; High confidence in function and specificity
YP_001223632.1	putative bifunctional phytoene synthase/phytoene dehydrogenase ( N-terminal, COG1562, ERG9,Phytoene/squalene synthetase; pfam00494, SQS_PSY,Squalene/phytoene synthase. (AAM94363.1| phytoene synthase [Agromyces mediolanus]; AAK64298.1| phytoene synthase [Corynebacterium glutamicum]). C-terminal, COG1233,COG1233, Phytoene dehydrogenase and related proteins (Phytoene dehydrogenase (Phytoene desaturase). (AAM94364.1| phytoene desaturase [Agromyces mediolanus]; AAK64299.1| phytoene desaturase [Corynebacterium glutamicum]). CAROTENOID BIOSYNTHESIS; High confidence in function and specificity
YP_001223633.1	putative geranylgeranyl pyrophosphate synthase [Includes: Dimethylallyltransferase (EC 2.5.1.1); Geranyltranstransferase (EC 2.5.1.10); Farnesyltranstransferase (EC 2.5.1.29)] (AAF65590.1| GGPP synthase [Brevibacterium linens]; YP_062473.1| geranylgeranyl pyrophosphate synthase [Leifsonia xyli subsp. xyli str. CTCB07]; AAM94362.1| geranylgeranyl pyrophosphate synthase [Agromyces mediolanus]). pfam00348,polyprenyl_synt, Polyprenyl synthetase. InterPro: Polyprenyl synthetase.; High confidence in function and specificity
YP_001223634.1	catalyzes the rearrangement of isopentenyl diphosphate to dimethylallyl phosphate
YP_001223635.1	conserved hypothetical protein, putative phospholipase (NP_629464.1| hypothetical protein SCO5322 [Streptomyces coelicolor A3(2)]; NP_335532.1| hypothetical protein MT1092 [Mycobacterium tuberculosis CDC1551]). pfam01734, Patatin, Patatin-like phospholipase. This family consists of various patatin glycoproteins from plants. hydrog_prot: hydrogenase maturation prot; Function unclear
YP_001223636.1	putative transcription regulator, MarR family (YP_062474.1| transcriptional regulator, MarR family [Leifsonia xyli subsp. xyli str. CTCB07]; CAF19334.1| transcriptional regulator, MarR family [Corynebacterium glutamicum ATCC 13032]; NP_625140.1| putative marR-family transcriptional regulator [Streptomyces coelicolor A3(2)). pfam01047, MarR, MarR family.; Specificity unclear
YP_001223637.1	putative RND family transporter (Q53902|MMLA_STRCO Putative membrane protein actII-3; YP_118784.1| putative membrane protein [Nocardia farcinica IFM 10152]). pfam03176, MMPL, MMPL family. Members of this family are putative integral membrane proteins from bacteria. Several of the members are mycobacterial proteins. Many of the proteins contain two copies of this aligned region. The function of these proteins is not known, although it has been suggested that they may be involved in lipid transport. InterPro: HMGCR/Patched 5TM box.; Conserved hypothetical protein
YP_001223638.1	putative short chain dehydrogenase/oxidoreductase (NP_465699.1| ; ZP_00103824.1| COG1028: Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Desulfitobacterium hafniense]). pfam00106, adh_short, short chain dehydrogenase. This family contains a wide variety of dehydrogenases.; Function unclear
YP_001223639.1	putative transcriptional regulator, TetR family (ZP_00189647.3| COG1309: Transcriptional regulator [Kineococcus radiotolerans SRS30216]; NP_963085.1| hypothetical protein MAP4151c [Mycobacterium avium subsp. paratuberculosis str. k10]). pfam00440, TetR_N, Bacterial regulatory proteins, tetR family. InterPro: Bacterial regulatory proteins TetR family.; Specificity unclear
YP_001223640.1	conserved hypothetical protein (NP_245758.1| unknown [Pasteurella multocida]; NP_758064.1| conserved hypothetical protein [Mycoplasma penetrans HF-2]).
YP_001223641.1	hypothetical membrane protein (NP_821188.1| putative membrane protein [Streptomyces avermitilis MA-4680]; ZP_00120603.2| hypothetical protein Blon03000461 [Bifidobacterium longum DJO10A]).
YP_001223642.1	hypothetical membrane protein (NP_821188.1| putative membrane protein [Streptomyces avermitilis MA-4680]; ZP_00120603.2| hypothetical protein Blon03000461 [Bifidobacterium longum DJO10A]).
YP_001223643.1	putative L-alanine dehydrogenase (NP_827683.1| putative L-alanine dehydrogenase [Streptomyces avermitilis MA-4680]; AAM44187.1| L-alanine dehydrogenase [Mycobacterium smegmatis]). pfam05222, AlaDh_PNT_N,Alanine dehydrogenase/PNT, N-terminal domain. pfam01262,AlaDh_PNT_C, Alanine dehydrogenase/PNT, C-terminal domain. InterPro: Alanine dehydrogenase and pyridine nucleotide transhydrogenase.; High confidence in function and specificity
YP_001223644.1	putative leucine-responsive regulatory protein,AsnC family (NP_337354.1| transcriptional regulator, AsnC family [Mycobacterium tuberculosis CDC1551]; ZP_00226252.1| COG1522: Transcriptional regulators [Kineococcus radiotolerans SRS30216]). pfam01037,AsnC_trans_reg, AsnC family. The AsnC family is a family of similar bacterial transcription regulatory proteins. InterPro: Bacterial regulatory proteins AsnC family.; Specificity unclear
YP_001223645.1	Catalyzes the formation of dUTP from dCTP in thymidylate biosynthesis
YP_001223648.1	putative ABC transporter, ATP-binding protein (NP_821704.1| putative ABC transporter ATP-binding protein [Streptomyces avermitilis MA-4680]; NP_763672.1| ABC transporter (ATP-binding protein) [Staphylococcus epidermidis ATCC 12228]). pfam00005, ABC_tran, ABC transporter. InterPro: AAA ATPase superfamily.; Specificity unclear
YP_001223649.1	hypothetical membrane protein (NP_939325.1| Putative membrane protein [Corynebacterium diphtheriae NCTC 13129]; YP_054886.1| hypothetical protein PPA0171 [Propionibacterium acnes KPA171202]).
YP_001223650.1	Hypothetical protein
YP_001223651.1	putative transcriptional regulator, GntR family (ZP_00051637.1| COG2186: Transcriptional regulators [Magnetospirillum magnetotacticum]; NP_739032.1| putative transcription factor [Corynebacterium efficiens YS-314]). pfam00392, GntR, Bacterial regulatory proteins, gntR family. InterPro: Bacterial regulatory proteins GntR family.; Specificity unclear
YP_001223652.1	putative gluconokinase (Gluconate kinase 2)(NP_625954.1| putative gluconokinase [Streptomyces coelicolor A3(2)]; ZP_00291960.1| COG3265: Gluconate kinase [Thermobifida fusca]).; Specificity unclear
YP_001223653.1	putative gluconate permease, GntP family (NP_602098.1| putative gluconate permease [Corynebacterium glutamicum ATCC 13032]; NP_283240.1| putative gluconate permease [Neisseria meningitidis Z2491]). , pfam02447,GntP_permease, GntP family permease. This is a family of integral membrane permeases that are involved in gluconate uptake.; High confidence in function and specificity
YP_001223654.1	putative pyridoxamine 5-phosphate oxidase (NP_681121.1| pyridoxamine 5'-phosphate oxidase [Thermosynechococcus elongatus BP-1]; NP_825001.1| putative oxidase [Streptomyces avermitilis MA-4680]). pfam01243, Pyridox_oxidase, Pyridoxamine 5'-phosphate oxidase. InterPro: Pyridoxamine 5-phosphate oxidase.; Specificity unclear
YP_001223655.1	putative DNA glycosylase/endonuclease VIII (NP_939193.1| Putative endonuclease [Corynebacterium diphtheriae NCTC 13129]; YP_062887.1| DNA glycosylase [Leifsonia xyli subsp. xyli str. CTCB07]). pfam01149,Fapy_DNA_glyco, Formamidopyrimidine-DNA glycosylase N-terminal domain. Formamidopyrimidine-DNA glycosylase (Fpg) is a DNA repair enzyme that excises oxidised purines from damaged DNA. pfam06831, H2TH, Formamidopyrimidine-DNA glycosylase H2TH domain.; Specificity unclear
YP_001223656.1	Hypothetical protein
YP_001223657.1	putative short-chain dehydrogenase (NP_793827.1| oxidoreductase, short-chain dehydrogenase/reductase family [Pseudomonas syringae pv. tomato str. DC3000]; NP_631846.1| putative oxidoreductase. [Streptomyces coelicolor A3(2)]). pfam00106, adh_short, short chain dehydrogenase. This family contains a wide variety of dehydrogenases. InterPro: Short-chain dehydrogenase/reductase (SDR) superfamily.; Function unclear
YP_001223658.1	putative oxidoreductase (NP_626533.1| putative oxidoreductase [Streptomyces coelicolor A3(2)]; ZP_00294380.1| COG0673: Predicted dehydrogenases and related proteins [Thermobifida fusca]). pfam01408,GFO_IDH_MocA, Oxidoreductase family, NAD-binding Rossmann fold. pfam02894, GFO_IDH_MocA_C, Oxidoreductase family, C-terminal alpha/beta domain.; Function unclear
YP_001223659.1	conserved hypothetical protein, putative reductase (NP_625187.1| putative secreted protein [Streptomyces coelicolor A3(2)]; NP_217570.1| hypothetical protein Rv3054c [Mycobacterium tuberculosis H37Rv]). pfam03358,FMN_red, NADPH-dependent FMN reductase. thiE: thiamine-phosphate pyrophosphorylas; Function unclear
YP_001223660.1	putative Zn-dependant dehydrogenase (NP_737735.1| putative glutathione-dependent aldehyde dehydrogenase [Corynebacterium efficiens YS-314]; NP_962197.1| hypothetical protein MAP3263c [Mycobacterium avium subsp. paratuberculosis str. k10]). pfam00107, ADH_zinc_N, Zinc-binding dehydrogenase.; Function unclear
YP_001223662.1	hypothetical protein (YP_062476.1| hypothetical protein Lxx15660 [Leifsonia xyli subsp. xyli str. CTCB07]).
YP_001223664.1	catalyzes the formation of D-glyceraldehyde 3-phosphate and acetaldehyde from 2-deoxy-D-ribose-5-phosphate
YP_001223665.1	catalyzes the removal of amino acids from the N termini of peptides
YP_001223666.1	conserved hypothetical protein (NP_825954.1| hypothetical protein SAV4777 [Streptomyces avermitilis MA-4680]; AAS20121.1| hypothetical protein [Arthrobacter aurescens]). pfam03713, DUF305, Domain of unknown function (DUF305). Domain found in small family of bacterial secreted proteins with no known function.
YP_001223667.1	conserved hypothetical protein, putative dienelactone hydrolase (P46209|USF_AQUPY USF PROTEIN [Aquifex pyrophilus]; ZP_00211570.1| COG0412: Dienelactone hydrolase and related enzymes [Burkholderia cepacia R18194]). pfam01738, DLH, Dienelactone hydrolase family.; Family membership
YP_001223668.1	hypothetical membrane protein (YP_063203.1| hypothetical protein Lxx24840 [Leifsonia xyli subsp. xyli str. CTCB07]; YP_120716.1| hypothetical protein nfa45010 [Nocardia farcinica IFM 10152]).
YP_001223669.1	Hypothetical protein
YP_001223670.1	conserved hypothetical protein, putative helicase (NP_813041.1| putative helicase [Bacteroides thetaiotaomicron VPI-5482]; NP_904413.1| TPR domain protein [Porphyromonas gingivalis W83]). cd00009, AAA, AAA-superfamily of ATPases associated with a wide variety of cellular activities, including membrane fusion,proteolysis, and DNA replication.; Family membership
YP_001223671.1	hypothetical protein (YP_063208.1| hypothetical protein Lxx24950 [Leifsonia xyli subsp. xyli str. CTCB07]).
YP_001223672.1	conserved hypothetical protein (YP_119319.1| hypothetical protein nfa31080 [Nocardia farcinica IFM 10152]; NP_631048.1| conserved hypothetical protein SC8F11.09. [Streptomyces coelicolor A3(2)]). pfam00903,Glyoxalase, Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily.
YP_001223673.1	putative iron-siderophore ABC transporter, ATP-binding protein (NP_827669.1| putative iron(III) dicitrate transport system ATP-binding protein [Streptomyces avermitilis MA-4680]; ZP_00292631.1| COG1120: ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Thermobifida fusca]). pfam00005, ABC_tran, ABC transporter. InterPro: AAA ATPase superfamily.; Specificity unclear
YP_001223674.1	putative iron-siderophore ABC transporter, permease component (NP_396248.1| AGR_pAT_451p [Agrobacterium tumefaciens str. C58]; CAF19213.1| cobalamin/Fe3+-siderophores transport system, permease component [Corynebacterium glutamicum ATCC 13032]). , pfam01032,FecCD, FecCD transport family. This is a sub-family of bacterial binding protein-dependent transport systems family. This Pfam entry contains the inner components of this multicomponent transport system.; Specificity unclear
YP_001223675.1	putative iron-siderophore ABC transporter, permease component (NP_535686.1| ABC transporter, membrane spanning protein [iron] [Agrobacterium tumefaciens str. C58]; CAF19214.1| cobalamin/ Fe3+-siderophores transport system,permease component [Corynebacterium glutamicum ATCC 13032]). , pfam01032, FecCD, FecCD transport family. This is a sub-family of bacterial binding protein-dependent transport systems family. This Pfam entry contains the inner components of this multicomponent transport system.; Specificity unclear
YP_001223676.1	putative iron-siderophore ABC transporter,substrate-binding protein (CAF19960.1| ABC-type cobalamin/Fe3+-siderophores transport system secreted component [Corynebacterium glutamicum ATCC 13032]; NP_789016.1| putative iron-siderophore binding lipoprotein [Tropheryma whipplei TW08/27]). , pfam01497, Peripla_BP_2,Periplasmic binding protein. This family includes bacterial periplasmic binding proteins. Several of which are involved in iron transport. InterPro: Periplasmic binding protein.; Specificity unclear
YP_001223677.1	conserved membrane protein (ZP_00135206.2| COG0477: Permeases of the major facilitator superfamily [Actinobacillus pleuropneumoniae serovar 1 str. 4074]; AAO81566.1| conserved hypothetical protein [Enterococcus faecalis V583]).
YP_001223678.1	conserved membrane protein, putative copper export protein (YP_063209.1| hypothetical protein Lxx24960 [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00226005.1| COG3336: Predicted membrane protein [Kineococcus radiotolerans SRS30216]; ZP_00293713.1| COG3336: Predicted membrane protein [Thermobifida fusca]). two different domains. N-terminal: pfam05425, CopD, Copper resistance protein D; COG1276, PcoD, Putative copper export protein. C-terminal: COG3336 Predicted membrane protein.; Function unclear
YP_001223679.1	putative DNA-binding protein HU (DNA-binding protein II) (YP_063210.1| DNA-binding HU protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_787244.1| DNA-binding protein HU [Tropheryma whipplei str. Twist]; NP_826304.1| putative DNA-binding protein Hu 1 [Streptomyces avermitilis MA-4680]). pfam00216,Bac_DNA_binding, Bacterial DNA-binding protein.; Function unclear
YP_001223680.1	located in the peptidyl transferase center and involved in assembly of 30S ribosome subunit; similar to what is observed with proteins L31 and L33, some proteins in this family contain CXXC motifs that are involved in zinc binding; if two copies are present in a genome, then the duplicated copy appears to have lost the zinc-binding motif and is instead regulated by zinc; the proteins in this group do not appear to have the zinc-binding motif
YP_001223681.1	in Escherichia coli BM108, a mutation that results in lack of L33 synthesis had no effect on ribosome synthesis or function; there are paralogous genes in several bacterial genomes, and a CXXC motif for zinc binding and an upstream regulation region of the paralog lacking this motif that are regulated by zinc similar to other ribosomal proteins like L31; the proteins in this group lack the CXXC motif
YP_001223682.1	required for 70S ribosome assembly
YP_001223683.1	putative ferric uptake regulator, Fur family (YP_063214.1| ferric uptake regulator, Fur family [Leifsonia xyli subsp. xyli str. CTCB07]; NP_696299.1| probable metal uptake regulator; Specificity unclear
YP_001223684.1	putative metal ABC transporter, permease component (YP_063215.1| ABC transporter, permease protein [Leifsonia xyli subsp. xyli str. CTCB07]; YP_055329.1| ABC-type transporter, permease components [Propionibacterium acnes KPA171202]). pfam00950, ABC-3, ABC 3 transport family.; Specificity unclear
YP_001223685.1	putative metal ABC transporter, ATP-binding protein (YP_063216.1| ABC transporter, ATP-binding protein [Leifsonia xyli subsp. xyli str. CTCB07]; YP_116650.1| putative ABC transporter ATP-binding protein [Nocardia farcinica IFM 10152]). pfam00005, ABC_tran, ABC transporter.; Specificity unclear
YP_001223686.1	putative metal ABC transporter, substrate-binding protein (YP_063217.1| ABC transporter, solute binding protein [Leifsonia xyli subsp. xyli str. CTCB07]; YP_055331.1| solute binding protein [Propionibacterium acnes KPA171202]). pfam01297, SBP_bac_9, Periplasmic solute binding protein family.; Specificity unclear
YP_001223687.1	putative 2-keto-acid dehydrogenase,dihydrolipoamide acetyltransferase E2 component (YP_063218.1| dihydrolipoamide acyltransferase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_825555.1| putative dihydrolipoamide acyltransferase component [Streptomyces avermitilis MA-4680]). pfam00364, Biotin_lipoyl, Biotin-requiring enzyme. pfam02817, E3_binding, e3 binding domain. This family represents a small domain of the E2 subunit of 2-oxo-acid dehydrogenases responsible for the binding of the E3 subunit. pfam00198, 2-oxoacid_dh, 2-oxoacid dehydrogenases acyltransferase (catalytic domain). These proteins contain one to three copies of a lipoyl binding domain followed by the catalytic domain.; Specificity unclear
YP_001223688.1	putative 2-keto acid dehydrogenase, dehydrogenase E1 beta component (YP_063219.1| pyruvate dehydrogenase E1 component, beta subunit [Leifsonia xyli subsp. xyli str. CTCB07]; NP_628005.1| putative branched-chain alpha keto acid dehydrogenase E1 beta subunit [Streptomyces coelicolor A3(2)]). pfam02779, Transket_pyr,Transketolase, pyridine binding domain. pfam02780,Transketolase_C, Transketolase, C-terminal domain. The C-terminal domain of transketolase has been proposed as a regulatory molecule binding site. InterPro: Transketolase.; Specificity unclear
YP_001223689.1	putative 2-keto acid dehydrogenase, dehydrogenase E1 beta component (YP_063220.1| pyruvate dehydrogenase E1 component, alpha subunit [Leifsonia xyli subsp. xyli str. CTCB07]; NP_628006.1| putative branched-chain alpha keto acid dehydrogenase E1 alpha subunit [Streptomyces coelicolor A3(2)]). , pfam00676, E1_dh, Dehydrogenase E1 component. This family uses thiamine pyrophosphate as a cofactor.; Specificity unclear
YP_001223690.1	putative histidinol-phosphate aminotransferase 2 (YP_063221.1| histidinol-phosphate aminotransferase 2 [Leifsonia xyli subsp. xyli str. CTCB07]; Q82FJ1|PATR_STRAW Putative phenylalanine aminotransferase). pfam00155, Aminotran_1_2,Aminotransferase class I and II.; Specificity unclear
YP_001223691.1	conserved membrane protein (YP_063222.1| hypothetical protein Lxx25090 [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00293541.1| COG1950: Predicted membrane protein [Thermobifida fusca]). pfam04020, DUF360, Membrane protein of unknown function.; Conserved hypothetical protein
YP_001223692.1	hypothetical protein gidA: glucose-inhibited division protein
YP_001223694.1	putative protein-tyrosine-phosphatase (Small acidic phosphotyrosine protein phosphatase) (P53433|PTPA_STRCO Low molecular weight protein-tyrosine-phosphatase (PTPase) (Small, acidic phosphotyrosine protein phosphatase); ZP_00292310.1| COG0394: Protein-tyrosine- phosphatase [Thermobifida fusca]). pfam01451, LMWPc, Low molecular weight phosphotyrosine protein phosphatase.; Function unclear
YP_001223695.1	Catalyzes two discrete reactions in the de novo synthesis of purines: the cleavage of adenylosuccinate and succinylaminoimidazole carboxamide ribotide
YP_001223696.1	hypothetical membrane protein (YP_063224.1| hypothetical protein Lxx25110 [Leifsonia xyli subsp. xyli str. CTCB07]; NP_787867.1| hypothetical protein TWT739 [Tropheryma whipplei str. Twist]).
YP_001223697.1	conserved membrane protein (ZP_00347695.1| COG3247: Uncharacterized conserved protein [Pseudomonas aeruginosa UCBPP-PA14]; NP_879989.1| putative membrane protein [Bordetella pertussis Tohama I]).; Conserved hypothetical protein
YP_001223698.1	putative polyphosphate glucokinase (Polyphosphate-glucose phosphotransferase) (YP_061973.1| glucokinase [Leifsonia xyli subsp. xyli str. CTCB07]; BAC84981.1| polyphosphate-dependent glucokinase [Microlunatus phosphovorus]). , pfam00480, ROK, ROK family.; High confidence in function and specificity
YP_001223699.1	putative glycerate kinase (YP_061712.1| glycerate kinase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_931292.1| Glycerate kinase 2 [Photorhabdus luminescens subsp. laumondii TTO1]). pfam02595, Gly_kinase, Glycerate kinase family.; High confidence in function and specificity
YP_001223700.1	putative glycosyl transferase (NP_789728.1| putative glycosyltransferase [Tropheryma whipplei TW08/27]; ZP_00058815.1| COG0438: Glycosyltransferase [Thermobifida fusca]). , pfam00534, Glycos_transf_1,Glycosyl transferases group 1. Members of this family transfer activated sugars to a variety of substrates,including glycogen, Fructose-6-phosphate and lipopolysaccharides. Members of this family transfer UDP,ADP, GDP or CMP linked sugars. InterPro: Glycosyl transferases group 1.; Function unclear
YP_001223701.1	putative transcriptional regulator, MerR family (ZP_00225271.3| COG0789: Predicted transcriptional regulators [Kineococcus radiotolerans SRS30216]; NP_627487.1| putative merR-family transcriptional regulator [Streptomyces coelicolor A3(2)]). pfam00376,MerR, MerR family regulatory protein.; Hypothetical protein
YP_001223702.1	putative peptide chain release factor 3 (RF-3)(YP_121111.1| putative peptide chain release factor [Nocardia farcinica IFM 10152]; ZP_00292654.1| COG4108: Peptide chain release factor RF-3 [Thermobifida fusca]). pfam00009, GTP_EFTU, Elongation factor Tu GTP binding domain. pfam03144, GTP_EFTU_D2, Elongation factor Tu domain 2.; High confidence in function and specificity
YP_001223703.1	conserved hypothetical protein (YP_062896.1| hypothetical protein Lxx20930 [Leifsonia xyli subsp. xyli str. CTCB07]; NP_691705.1| hypothetical protein OB0784 [Oceanobacillus iheyensis HTE831]; NP_738809.1| conserved hypothetical protein [Corynebacterium efficiens YS-314]). pfam05495, zf-CHY, CHY zinc finger. This family of domains are likely to bind to zinc ions. They contain many conserved cysteine and histidine residues. We have named this domain after the N-terminal motif CXHY.; Function unclear
YP_001223704.1	putative replicative DNA helicase (YP_063226.1| replicative DNA helicase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_628097.1| putative replicative DNA helicase [Streptomyces coelicolor A3(2)]). pfam00772, DnaB, DnaB-like helicase N terminal domain. pfam03796, DnaB_C, DnaB-like helicase C terminal domain. InterPro: DnaB helicase.; High confidence in function and specificity
YP_001223705.1	in Escherichia coli this protein is wrapped around the base of the L1 stalk
YP_001223706.1	binds as a heterodimer with protein S6 to the central domain of the 16S rRNA; helps stabilize the platform of the 30S subunit
YP_001223707.1	binds to single stranded DNA and may facilitate the binding and interaction of other proteins to DNA
YP_001223708.1	binds cooperatively with S18 to the S15-16S complex, allowing platform assembly to continue with S11 and S21
YP_001223709.1	putative tRNA nucleotidyltransferase/ poly(A)nucleotidyltransferase (YP_063231.1| poly(A) polymerase; tRNA nucleotidyltransferase [Leifsonia xyli subsp. xyli str. CTCB07]; NP_825476.1| putative RNA nucleotidyltransferase [Streptomyces avermitilis MA-4680]; NP_787928.1| poly(A) polymerase [Tropheryma whipplei str. Twist]). pfam01743, PolyA_pol, Poly A polymerase family. This family includes nucleic acid independent RNA polymerases, such as Poly(A) polymerase,which adds the poly (A) tail to mRNA EC:2.7.7.19. This family also includes the tRNA nucleotidyltransferase that adds the CCA to the 3' of the tRNA EC:2.7.7.25. pfam01966,HD, HD domain. HD domains are metal dependent phosphohydrolases.; Specificity unclear
YP_001223710.1	conserved hypothetical protein (YP_063232.1| membrane protein [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00291602.1| hypothetical protein Tfus02002926 [Thermobifida fusca])
YP_001223711.1	conserved membrane protein, MOP family (YP_063233.1| hypothetical protein Lxx25210 [Leifsonia xyli subsp. xyli str. CTCB07]; NP_789730.1| conserved integral membrane protein (possible virulence factor)[Tropheryma whipplei TW08/27]). pfam03023, MVIN,MviN-like protein.; Function unclear
YP_001223712.1	putative thioredoxin reductase (YP_063234.1| thioredoxin-disulfide reductase [Leifsonia xyli subsp. xyli str. CTCB07]; Q05741|TRXB_STRCL Thioredoxin reductase (TRXR)). , pfam00070, Pyr_redox, Pyridine nucleotide-disulphide oxidoreductase.; High confidence in function and specificity
YP_001223713.1	putative thioredoxin (YP_063235.1| thioredoxin [Leifsonia xyli subsp. xyli str. CTCB07]; Q05739|THIO_STRCL Thioredoxin (TRX)). pfam00085,Thioredoxin, Thioredoxin. Thioredoxins are small enzymes that participate in redox reactions, via the reversible oxidation of an active centre disulfide bond.; High confidence in function and specificity
YP_001223714.1	putative transcriptional regulator containing an aminotransferase domain (YP_063236.1| valine-pyruvate aminotransferase [Leifsonia xyli subsp. xyli str. CTCB07]; ZP_00294408.1| COG1167: Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Thermobifida fusca]). pfam00155, Aminotran_1_2,Aminotransferase class I and II.; Function unclear
YP_001223715.1	putative D-alanine-D-alanine ligase (D-alanylalanine synthetase) (ZP_00057905.1| COG1181: D-alanine-D-alanine ligase and related ATP-grasp enzymes [Thermobifida fusca]; O66806|DDL_AQUAE D-alanine--D-alanine ligase (D-alanylalanine synthetase)(D-Ala-D-Ala ligase)). pfam01820, Dala_Dala_ligas, D-ala D-ala ligase. This family contains D-alanine--D-alanine ligase enzymes EC:6.3.2.4. InterPro: D-alanine--D-alanine ligase.; High confidence in function and specificity
YP_001223716.1	putative chromosome partitioning protein (YP_063237.1| chromosome partitioning protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_302727.1| putative cell division protein [Mycobacterium leprae TN]). pfam02195,ParBc, ParB-like nuclease domain. , InterPro: ParB-like partition protein.; High confidence in function and specificity
YP_001223717.1	putative chromosome partitioning protein (YP_063238.1| chromosome partitioning protein [Leifsonia xyli subsp. xyli str. CTCB07]; NP_825486.1| putative partitioning or sporulation protein [Streptomyces avermitilis MA-4680]). pfam00991, ParA, ParA family ATPase. InterPro: ParA family ATPase.; High confidence in function and specificity
YP_001223718.1	glucose-inhibited division protein B; SAM-dependent methyltransferase; methylates the N7 position of guanosine in position 527 of 16S rRNA
YP_001223719.1	putative DNA/RNA binding protein (YP_063240.1| hypothetical protein Lxx25260 [Leifsonia xyli subsp. xyli str. CTCB07]; AAK48405.1| R3H domain-containing protein [Mycobacterium tuberculosis CDC1551]). pfam01424, R3H, R3H domain. The function of the domain is predicted to be binding ssDNA. InterPro: R3H domain.; Function unclear
YP_001223720.1	functions to insert inner membrane proteins into the IM in Escherichia coli; interacts with transmembrane segments; functions in both Sec-dependent and -independent membrane insertion; similar to Oxa1p in mitochondria
YP_001223721.1	conserved hypothetical protein (YP_063242.1| alpha-hemolysin [Leifsonia xyli subsp. xyli str. CTCB07]; NP_825490.1| hypothetical protein SAV4313 [Streptomyces avermitilis MA-4680]). pfam01809, DUF37, Domain of unknown function DUF37. This domain is found in short (70 amino acid) hypothetical proteins from various bacteria.
YP_001223722.1	putative RNAse P, protein component (Q50789|RNPA_MYCTU Ribonuclease P protein component (RNaseP protein) (RNase P protein)(Protein C5); NP_602290.1| RNase P protein component [Corynebacterium glutamicum ATCC 13032]). pfam00825, Ribonuclease_P,Ribonuclease P.; High confidence in function and specificity
YP_001223723.1	in Escherichia coli transcription of this gene is enhanced by polyamines