-- dump date 20140619_122348 -- class Genbank::CDS -- table cds_note -- id note YP_192940.1 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_192942.1 COG2501 Uncharacterized conserved protein YP_192943.1 Required for DNA replication; binds preferentially to single-stranded, linear DNA YP_192946.1 binds cooperatively with S18 to the S15-16S complex, allowing platform assembly to continue with S11 and S21 YP_192947.1 COG0629 Single-stranded DNA-binding protein YP_192948.1 binds as a heterodimer with protein S6 to the central domain of the 16S rRNA; helps stabilize the platform of the 30S subunit YP_192950.1 in Escherichia coli this protein is wrapped around the base of the L1 stalk YP_192951.1 COG0305 Replicative DNA helicase YP_192954.1 COG1940 transcriptional regulator-sugar kinase YP_192955.1 COG3237 Uncharacterized protein conserved in bacteria YP_192958.1 CadD YP_192960.1 NAD-dependent malic enzyme (malate oxidoreductase) YP_192962.1 FtsK; hypothetical protein YP_192965.1 VrlI protein YP_192966.1 hypothetical protein Ljo_1749 YP_192967.1 COG1912 Uncharacterized conserved protein YP_192970.1 COG2746 Aminoglycoside N3'-acetyltransferase YP_192972.1 collagen-binding protein Cne precursor YP_192973.1 COG4905 Predicted membrane protein YP_192974.1 COG2096 Uncharacterized conserved protein YP_192978.1 COG0628 Predicted permease YP_192981.1 isoleucyl-tRNA synthetase YP_192986.1 GTPase YP_192989.1 Endonuclease-Exonuclease-phosphatase YP_192991.1 COG0708 Exonuclease III YP_192992.1 GadC; COG0531 Amino acid transporters YP_192994.1 PbpX YP_192995.1 cleaves off formyl group from N-terminal methionine residues of newly synthesized proteins; binds iron(2+) YP_193002.1 potential frameshift to 69 YP_193003.1 potential frameshift to 68 YP_193007.1 OSJNBa0035I04.2 YP_193011.1 VicR; COG0745 Response regulators conserved isting of a CheY-like receiver domain and a winged-helix DNA-binding domain YP_193012.1 VicK YP_193016.1 HtrA; Serine protease do-like HtrA YP_193017.1 SPOUT methyltransferase; crystal structure shows homodimer; in Escherichia coli this protein methylates pseudouridine at position 1915 of the 23S ribosomal RNA YP_193018.1 COG1396 Predicted transcriptional regulators YP_193019.1 membrane protein YP_193024.1 Proline iminopeptidase (PIP) (Prolyl aminopeptidase) (PAP) YP_193026.1 Binding; COG1122 ABC-type cobalt transport system ATPase component YP_193028.1 metalloprotease YP_193029.1 LemA; COG1704 Uncharacterized conserved protein YP_193039.1 COG3405 Endoglucanase Y YP_193041.1 COG1403 Restriction endonuclease YP_193045.1 COG2094 3-methyladenine DNA glycosylase YP_193046.1 COG3189 Uncharacterized conserved protein YP_193047.1 TerC YP_193049.1 Modulates the activities of several enzymes which are inactive in their acetylated form YP_193053.1 COG0328 Ribonuclease HI YP_193054.1 COG4086 Predicted secreted protein YP_193055.1 EpsV YP_193057.1 COG1396 Predicted transcriptional regulators YP_193058.1 membrane protein YP_193060.1 COG2865 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain YP_193063.1 COG0462 Phosphoribosylpyrophosphate synthetase YP_193064.1 COG1309 transcriptional regulator, TetR family YP_193066.1 GlnP YP_193067.1 GlnQ YP_193069.1 D-alanine--D-alanine ligase; DdlA; DdlB; cytoplasmic; catalyzes the formation of D-alanyl-D-alanine from two D-alanines in peptidoglycan synthesis; there are two forms of this enzyme in Escherichia coli YP_193071.1 COG5438 Predicted multitransmembrane protein YP_193072.1 COG5438 Predicted multitransmembrane protein YP_193073.1 COG0657 Esterase-lipase YP_193076.1 COG1820 N-acetylglucosamine-6-phosphate deacetylase YP_193079.1 COG2365 protein tyrosine-serine phosphatase YP_193090.1 COG0367 Asparagine synthase (glutamine-hydrolyzing) YP_193091.1 COG3919 Predicted ATP-grasp enzyme YP_193092.1 Catalyzes the reduction of nucleoside 5'-triphosphates to 2'-deoxynucleoside 5'-triphosphates YP_193095.1 COG2461 Uncharacterized conserved protein YP_193096.1 efflux permease YP_193097.1 PepO; COG3590 Predicted metalloendopeptidase YP_193098.1 COG3158 K+ transporter YP_193100.1 Spore germination protein GerIA YP_193101.1 SlpA; S-layer protein precursor (surface layer protein) (SA-protein) YP_193104.1 Uncharacterized conserved membrane protein YP_193105.1 SlpB; conserved protein YP_193110.1 GMP synthetase YP_193112.1 2,3-bisphosphoglycerate-dependent; catalyzes the interconversion of 2-phosphoglycerate to 3-phosphoglycerate YP_193115.1 COG1316 transcriptional regulator YP_193116.1 COG0344 Predicted membrane protein YP_193118.1 hypothetical protein CBG06205 YP_193119.1 COG0162 Tyrosyl-tRNA synthetase YP_193120.1 ENSANGP00000002842 YP_193121.1 endopeptidase E2 YP_193123.1 ABC transporter; OppA YP_193124.1 ABC transporter; OppA YP_193126.1 oligopeptide ABC transporter YP_193127.1 OppC YP_193128.1 oligopept. ABC transporter YP_193129.1 OppF YP_193130.1 Aminopeptidase E YP_193132.1 necessary for efficient RNA polymerase transcription elongation past template-encoded arresting sites; arresting sites in DNA have the property of trapping a certain fraction of elongating RNA polymerases that pass through, resulting in locked ternary complexes. Cleavage of the nascent transcript by cleavage factors such as GreA or GreB allows the resumption of elongation from the new 3'terminus YP_193134.1 COG2135 Uncharacterized conserved protein YP_193135.1 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_193136.1 COG2131 Deoxycytidylate deaminase YP_193138.1 COG0474 Cation transport ATPase YP_193139.1 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_193140.1 COG0084 Mg-dependent DNAse YP_193142.1 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_193143.1 COG4466 Uncharacterized protein conserved in bacteria YP_193144.1 PurR YP_193145.1 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_193146.1 potential frameshift to 221 YP_193147.1 potential frameshift to 220 YP_193148.1 chloroquine resistance marker protein YP_193149.1 CdpA; surface layer protein YP_193150.1 COG0462 Phosphoribosylpyrophosphate synthetase YP_193151.1 6-phospho-beta-glucosidase YP_193153.1 PTS system, IIC component YP_193156.1 COG1078 HD family phosphohydrolases YP_193158.1 participates in both the initiation and recycling phases of transcription; in the presence of the delta subunit, RNAP displays an increased specificity of transcription, a decreased affinity for nucleic acids, and an increased efficiency of RNA synthesis because of enhanced recycling YP_193159.1 CTP synthase; 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_193160.1 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_193163.1 raffinose operon transcriptional regulator protein RafR YP_193166.1 Catalyzes the transfer of the phosphoribosyl moiety from 5-phospho--D-ribosyl-1-pyrophosphate (PRib-PP) to the 6-oxo-guanine and -xanthine YP_193168.1 COG1396 Predicted transcriptional regulators YP_193169.1 contains glutamine-hydrolyzing domain and glutamine amidotransferase; GMP-binding domain; functions to produce GMP from XMP in the IMP pathway YP_193175.1 potential frameshift to 252; similar to multidrug resistance protein B YP_193176.1 potential frameshift to 251 YP_193177.1 potential frameshift to 251 YP_193178.1 similar to turkey astrovirus protein YP_193183.1 TEP3 protein YP_193185.1 catalyzes the reaction of glycine with 5,10-methylenetetrahydrofolate to form L-serine and tetrahydrofolate YP_193186.1 COG0531 Amino acid transporters YP_193188.1 COG0366 Glycosidases YP_193189.1 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_193190.1 COG0770 UDP-N-acetylmuramyl pentapeptide synthase YP_193191.1 YdbR YP_193192.1 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_193193.1 alanine racemase YP_193194.1 COG0517 FOG CBS domain YP_193196.1 Enables the recycling of peptidyl-tRNAs produced at termination of translation YP_193197.1 TrcF YP_193198.1 COG1188 Ribosome-associated heat shock protein YP_193199.1 COG2919 Septum formation initiator YP_193202.1 FtsH; COG0465 ATP-dependent Zn proteases YP_193203.1 becomes active under oxidative stress; four conserved cysteines bind a zinc atom when they are in the reduced state and the enzyme is inactive; oxidative stress results in oxidized cysteines, release of zinc, and binding of Hsp33 to aggregation-prone proteins; forms dimers and higher order oligomers YP_193204.1 COG0042 tRNA-dihydrouridine synthase YP_193205.1 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_193206.1 COG1956 GAF domain-containing protein YP_193207.1 ClpC YP_193208.1 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_193209.1 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_193210.1 type 4 prepilin-like protein leader peptide processing enzyme YP_193211.1 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_193212.1 binds directly to 16S rRNA where it nucleates assembly of the head domain of the 30S subunit YP_193213.1 EF-G; promotes GTP-dependent translocation of the ribosome during translation; many organisms have multiple copies of this gene YP_193214.1 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_193215.1 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_193216.1 L4 is important during the early stages of 50S assembly; it initially binds near the 5' end of the 23S rRNA YP_193217.1 binds third domain of 23S rRNA and protein L29; part of exit tunnel YP_193218.1 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_193220.1 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_193221.1 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_193222.1 located in the peptidyl transferase center and may be involved in peptidyl transferase activity; similar to archaeal L10e YP_193223.1 one of the stabilizing components for the large ribosomal subunit YP_193224.1 primary binding protein; helps mediate assembly; involved in translation fidelity YP_193225.1 binds to the 23S rRNA between the centers for peptidyl transferase and GTPase YP_193226.1 assembly initiator protein; binds to 5' end of 23S rRNA and nucleates assembly of the 50S; surrounds polypeptide exit tunnel YP_193227.1 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_193228.1 binds directly to 16S rRNA central domain where it helps coordinate assembly of the platform of the 30S subunit YP_193229.1 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_193230.1 binds 5S rRNA along with protein L5 and L25 YP_193231.1 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_193232.1 L30 binds domain II of the 23S rRNA and the 5S rRNA; similar to eukaryotic protein L7 YP_193233.1 late assembly protein YP_193234.1 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_193235.1 essential enzyme that recycles AMP in active cells; converts ATP and AMP to two molecules of ADP YP_193236.1 stimulates the activities of the other two initiation factors, IF-2 and IF-3 YP_193237.1 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_193238.1 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_193239.1 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_193240.1 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_193241.1 is a component of the macrolide binding site in the peptidyl transferase center YP_193242.1 with CbiNQ forms the ABC transporter for cobalt import; Lactobacillus has two adjacent copies of this gene YP_193243.1 with CbiNQ forms the ABC transporter for cobalt import; Lactobacillus has two adjacent copies of this gene YP_193245.1 mediates pseudouridylation (positions 38, 39, 40) at the tRNA anticodon region which contributes to the structural stability YP_193246.1 in Escherichia coli this protein is one of the earliest assembly proteins in the large subunit YP_193247.1 forms a direct contact with the tRNA during translation YP_193250.1 RepA; replication initiator protein YP_193252.1 FtsK; hypothetical protein YP_193255.1 YeeA protein YP_193256.1 major head protein YP_193259.1 COG0693 intracellular protease-amidase YP_193260.1 2-haloalkanoic acid dehalogenase YP_193261.1 transport protein YP_193262.1 COG0406 Fructose-2,6-bisphosphatase YP_193264.1 COG0588 Phosphoglycerate mutase 1 YP_193266.1 Aminopeptidase C (Bleomycin hydrolase) YP_193267.1 CG9391-PA YP_193268.1 phage related protein YP_193269.1 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_193270.1 Charges one glutamine molecule and pairs it to its corresponding RNA trinucleotide during protein translation YP_193271.1 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_193273.1 COG0566 rRNA methylases YP_193276.1 CG1644-PA YP_193278.1 predicted protein YP_193279.1 catalyzes the formation of 1-deoxy-D-xylulose 5-phosphate from pyruvate and D-glyceraldehyde 3-phosphate YP_193280.1 forms a complex with SecY and SecG; SecYEG forms a 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_193281.1 NusG; COG0250 transcriptional antiterminator YP_193282.1 binds directly to 23S ribosomal RNA YP_193283.1 in Escherichia coli and Methanococcus, this protein autoregulates expression; the binding site in the mRNA mimics the binding site in the 23S rRNA YP_193284.1 substrate binding protein; phosphate-binding protein YP_193287.1 ATP-binding protein; PstABCS is an ATP dependent phosphate uptake system which is responsible for inorganic phosphate uptake during phosphate starvation YP_193288.1 ATP-binding protein; PstABCS is an ATP dependent phosphate uptake system which is responsible for inorganic phosphate uptake during phosphate starvation YP_193289.1 PhoU YP_193290.1 COG0679 Predicted permeases YP_193292.1 binds the two ribosomal protein L7/L12 dimers and anchors them to the large ribosomal subunit YP_193293.1 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_193296.1 protein Hepatitis C virus YP_193297.1 COG0590 Cytosine-adenosine deaminases YP_193299.1 is605tnpB family YP_193301.1 involved in a recombinational process of DNA repair, independent of the recBC complex YP_193303.1 catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to thymidine monophosphate (dTMP) to form thymidine diphosphate (dTDP) YP_193304.1 conserved protein lin2840 YP_193306.1 in Bacillus subtilis this protein is involved in the negative regulation of DNA replication initiation; interacts with DnaN and DnaA YP_193307.1 COG0313 Predicted methyltransferases YP_193308.1 COG3884 Acyl-ACP thioesterase YP_193311.1 COG0456 Acetyltransferases YP_193312.1 in most organisms, only the N-terminal domain is present in a single polypeptide; in some archaea this domain is fused to a kinase domain; this gene is essential for growth in Escherichia coli and Bacillus subtilis; the secreted glycoprotease from Pasteurella haemolytica showed specificity for O-sialoglycosylated proteins; the Pyrococcus structure shows DNA-binding properties, iron-binding, ATP-binding, and AP endonuclease activity YP_193313.1 deoxyribose-phosphate aldolase YP_193317.1 catalyzes the formation of oxalyl-CoA from oxalate and Formyl-CoA YP_193318.1 catalyzes the formation of formyl-CoA from oxalyl-CoA YP_193319.1 ATP binding protein YP_193320.1 modulates transcription in response to the NADH/NAD(+) redox state YP_193321.1 sucrose operon transcriptional repressor YP_193322.1 ScrB; sucrose hydrolase YP_193323.1 sucrose PTS transporter YP_193324.1 Penicillin-binding protein YP_193327.1 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_193328.1 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_193330.1 This protein performs the mismatch recognition step during the DNA repair process YP_193331.1 This protein is involved in the repair of mismatches in DNA. It is required for dam-dependent methyl-directed DNA mismatch repair. Promotes the formation of a stable complex between two or more DNA-binding proteins in an ATP-dependent manner without itself being part of a final effector complex YP_193332.1 plays an essential role in ATP-dependent branch migration of the Holliday junction YP_193333.1 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_193335.1 catalyzes the formation of D-glucono-1,5-lactone 6-phosphate from D-glucose 6-phosphate YP_193337.1 COG0618 Exopolyphosphatase-related protein YP_193339.1 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_193340.1 COG4472 Uncharacterized protein conserved in bacteria YP_193341.1 similar to RuvC resolvase with substantial differences; NMR structural information suggests this protein is monomeric; unknown cellular function YP_193343.1 MutS YP_193345.1 forms homopentamer; channel that opens in response to pressure or hypoosmotic shock YP_193347.1 COG0796 Glutamate racemase YP_193348.1 hydrolyzes non-standard nucleotides such as xanthine and inosine YP_193350.1 COG4768 Uncharacterized protein containing a divergent version of the methyl-accepting chemotaxis-like domain YP_193352.1 Xaa-Pro dipeptidase (X-Pro dipeptidase) (Proline dipeptidase) (Prolidase) (Imidodipeptidase) YP_193353.1 pepR1 YP_193354.1 COG0584 Glycerophosphoryl diester phosphodiesterase YP_193359.1 COG4478 Predicted membrane protein YP_193360.1 DedA; COG0586 Uncharacterized membrane-associated protein YP_193361.1 COG0492 Thioredoxin reductase YP_193362.1 MutT YP_193364.1 helicase YP_193365.1 COG0438 Glycosyltransferase YP_193366.1 COG0438 Glycosyltransferase YP_193369.1 protein translocase, SecG subunit YP_193370.1 COG0557 Exoribonuclease R YP_193371.1 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_193373.1 COG3715 Phosphotransferase system, mannose-fructose -N-acetylgalactosamine-specific YP_193374.1 COG3716 Phosphotransferase system, mannose-fructose -N-acetylgalactosamine-specific YP_193377.1 similar to acetyltransferase YP_193379.1 COG1012 NAD-dependent aldehyde dehydrogenases YP_193380.1 Catalyzes the first step in hexosamine metabolism, converting fructose-6P into glucosamine-6P using glutamine as a nitrogen source YP_193381.1 COG0282 Acetate kinase YP_193383.1 MutT YP_193387.1 COG1201 Lhr-like helicases YP_193388.1 Cytochrome P450 71C1 YP_193389.1 ammonium transport protein YP_193390.1 nitroreductase YP_193392.1 prophage Lp2 protein 4 YP_193393.1 prophage Lp2 protein 3 YP_193397.1 FtsK; hypothetical protein YP_193404.1 protein kinase YP_193407.1 cellobiose PTS, EIIC YP_193409.1 aggregation promoting factor YP_193415.1 transcriptional repressor MsmR YP_193416.1 MsmE YP_193417.1 MsmF YP_193418.1 MsmG YP_193419.1 BfrA YP_193420.1 MsmK YP_193421.1 GtfA YP_193424.1 PfoR YP_193430.1 COG0615 Cytidylyltransferase YP_193432.1 COG0438 Glycosyltransferase YP_193433.1 catalyzes the formation of 5-phospho-alpha-D-ribose 1-diphosphate and nicotinate from nicotinate D-ribonucleotide and diphosphate YP_193434.1 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_193435.1 COG0474 Cation transport ATPase YP_193436.1 COG1887 glycosyl-glycerophosphate transferases involved in teichoic acid biosynthesis TagF-TagB-EpsJ-RodC YP_193438.1 CpsIVN YP_193439.1 COG1705 Muramidase (flagellum-specific) YP_193444.1 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_193445.1 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_193446.1 similar to YegS from E. coli YP_193449.1 serpin (40.6 kD) (srp-3) YP_193450.1 Na(+)-H(+) antiporter YP_193453.1 potential frameshift to 542; CadA; COG2217 Cation transport ATPase YP_193454.1 potential frameshift to 541; COG2608 Copper chaperone YP_193456.1 COG0664 cAMP-binding protein -catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases YP_193457.1 COG1573 Uracil-DNA glycosylase YP_193459.1 potential frameshift to 548 YP_193460.1 potential frameshift to 547 YP_193461.1 potential frameshift to 548 YP_193462.1 COG4695 Phage-related protein YP_193463.1 conserved hypothetical protein YP_193465.1 PlnI YP_193466.1 COG1309 transcriptional regulator YP_193467.1 in group A Streptococci this protein was found to cross react with anti myosin antibodies and may play a role in rheumatic fever YP_193468.1 potential frameshift to 557; hypothetical protein YP_193471.1 potential frameshift to 560 YP_193472.1 potential frameshift to 559 YP_193474.1 COG2233 Xanthine-uracil permeases YP_193475.1 regulates pyrimidine biosynthesis by binding to the mRNA of the pyr genes, also has been shown to have uracil phosphoribosyltransferase activity YP_193476.1 potential frameshift to 565 YP_193477.1 potential frameshift to 564; COG0561 Predicted hydrolases of the HAD superfamily YP_193480.1 COG0679 Predicted permeases YP_193481.1 peptidase, M42 family YP_193483.1 Type II restriction enzyme HgiEI (Endonuclease HgiEI) (R.HgiEI) YP_193484.1 glutaminebinding protein YP_193489.1 functions in pyrimidine salvage; pyrimidine ribonucleoside kinase; phosphorylates nucleosides or dinucleosides to make UMP or CMP using ATP or GTP as the donor YP_193490.1 GlnQ YP_193491.1 GlnH YP_193492.1 GlnM YP_193493.1 GlnP YP_193494.1 similar to lmo2804 YP_193495.1 COG2966 Uncharacterized conserved protein YP_193497.1 COG1085 Galactose-1-phosphate uridylyltransferase YP_193498.1 RbsK YP_193499.1 Catalyzes D-ribose 5-phosphate --> D-ribulose 5-phosphate in the nonoxidative branch of the pentose phosphate pathway YP_193500.1 COG3158 K+ transporter YP_193501.1 COG1957 Inosine-uridine nucleoside N-ribohydrolase YP_193503.1 COG1396 Predicted transcriptional regulators YP_193506.1 COG1846 transcriptional regulators YP_193513.1 AbpR YP_193514.1 PlnI YP_193517.1 similar to hypothetical protein YP_193518.1 transporter accessory protein YP_193521.1 COG0778 Nitroreductase YP_193523.1 COG0634 Hypoxanthine-guanine phosphoribosyltransferase YP_193525.1 COG0531 Amino acid transporters YP_193526.1 COG3757 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) YP_193530.1 potential frameshift to 619 YP_193531.1 GtcA YP_193532.1 COG0716 Flavodoxins YP_193533.1 AmpM; COG0024 Methionine aminopeptidase YP_193534.1 COG1295 Predicted membrane protein YP_193535.1 COG1210 UDP-glucose pyrophosphorylase YP_193536.1 COG0183 Acetyl-CoA acetyltransferase YP_193537.1 HmdH; COG1257 Hydroxymethylglutaryl-CoA reductase YP_193538.1 HmcS; COG3425 3-hydroxy-3-methylglutaryl CoA synthase YP_193539.1 GcpE protein YP_193542.1 TrmA YP_193543.1 binds RecA and inhibits RecA-mediated DNA strand exchange and ATP hydrolysis and coprotease activities YP_193546.1 stimulates the release of release factors 1 and 2 from the ribosome after hydrolysis of the ester bond in peptidyl-tRNA has occurred; GDP/GTP-binding protein YP_193548.1 ClpE YP_193549.1 PthP; COG1925 Phosphotransferase system, HPr-related protein YP_193551.1 ArsC YP_193552.1 enables recognition and targeting of proteins for proteolysis, involved in negative regulation of competence YP_193553.1 CoiA; COG4469 Competence protein YP_193557.1 catalyzes the phosphorylation of NAD to NADP YP_193558.1 RluD YP_193559.1 in group A Streptococci this protein was found to cross react with anti myosin antibodies and may play a role in rheumatic fever YP_193560.1 COG0398 Uncharacterized conserved protein YP_193561.1 COG2706 3-carboxymuconate cyclase YP_193562.1 PacL; COG0474 Cation transport ATPase YP_193563.1 PthA YP_193564.1 COG0628 Predicted permease YP_193567.1 SpoIIIe YP_193568.1 COG0612 Predicted Zn-dependent peptidases YP_193569.1 COG0612 Predicted Zn-dependent peptidases YP_193570.1 FabG YP_193572.1 PgsA YP_193573.1 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_193574.1 protein from Staphylococcus aureus has phosphodiesterase activity against 2'-3'-cAMP and 2'-3'-cGMP YP_193575.1 RgpG YP_193576.1 YvyE YP_193577.1 ComFA; ComF1 YP_193578.1 ComFC; COG1040 Predicted amidophosphoribosyltransferases YP_193579.1 YvyD YP_193580.1 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; in some organisms, there are paralogous proteins that have been found to be nonessential but do function in secretion of a subset of exported proteins YP_193581.1 RF2 YP_193582.1 MP1 YP_193583.1 catalyzes the phosphorylation of the phosphocarrier protein HPr of the bacterial phosphotransferase system YP_193584.1 transfers the N-acyl diglyceride moiety to the prospective N-terminal cysteine in prolipoprotein YP_193585.1 catalyzes the NAD(P)H-dependent reduction of glycerol 3-phosphate to glycerone phosphate YP_193586.1 TrxB; COG0492 Thioredoxin reductase YP_193587.1 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_193588.1 catalyzes the formation of ADP-glucose and diphosphate from ATP and alpha-D-glucose 1-phosphate YP_193589.1 GlgD; Required for glycogen biosynthesis YP_193590.1 catalyzes the formation of alpha-1,4-glucan chains from ADP-glucose YP_193593.1 COG1109 Phosphomannomutase YP_193594.1 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_193595.1 UvrA YP_193596.1 COG3247 Uncharacterized conserved protein YP_193597.1 COG1660 Predicted P-loop-containing kinase YP_193598.1 COG0391 Uncharacterized conserved protein YP_193600.1 hydrolyzes proteins to small peptides; with the ATPase subunits ClpA or ClpX, ClpP degrades specific substrates YP_193602.1 amino acid transport protein YP_193604.1 COG0057 Glyceraldehyde-3-phosphate dehydrogenase-erythrose-4-phosphate dehydrogenase YP_193605.1 Converts 3-phospho-D-glycerate to 3-phospho-D-glyceroyl phosphate during the glycolysis pathway YP_193606.1 Reversibly isomerizes the ketone sugar dihydroxyacetone phosphate to the aldehyde sugar glyceraldehyde-3-phosphate YP_193609.1 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_193610.1 in Salmonella this enzyme is required for ethanolamine catabolism; has higher affinity for CoA than Pta YP_193613.1 catalyzes the reduction of UDP-N-acetylglucosamine enolpyruvate to form UDP-N-acetylmuramate in peptidoglycan biosynthesis YP_193614.1 PotA YP_193615.1 PotB YP_193616.1 PotC YP_193617.1 PotD YP_193618.1 COG1624 Uncharacterized conserved protein YP_193620.1 catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate YP_193624.1 phosphotyrosinase phosphatase YP_193626.1 LicT; COG3711 transcriptional antiterminator YP_193627.1 COG1263 Phosphotransferase system IIC components, glucose-maltose-N-acetylglucosamine-specific YP_193628.1 COG2723 Beta-glucosidase-6-phospho-beta-glucosidase -beta-galactosidase YP_193630.1 COG0531 Amino acid transporters YP_193633.1 COG0217 Uncharacterized conserved protein YP_193634.1 CglA YP_193635.1 ComGB YP_193636.1 ComGC; COG4537 Competence protein ComGC YP_193639.1 COG0827 Adenine-specific DNA methylase YP_193640.1 AckB YP_193642.1 potential frameshift to 744 YP_193643.1 potential frameshift to 743 YP_193644.1 COG1482 Phosphomannose isomerase YP_193645.1 COG0745 Response regulators conserved isting of a CheY-like receiver domain and a winged-helix DNA-binding domain YP_193647.1 potential frameshift to 749 YP_193648.1 potential frameshift to 748 YP_193650.1 VanZ YP_193651.1 functions in sugar metabolism in glycolysis and the Embden-Meyerhof pathways (EMP) and in gluconeogenesis; catalyzes reversible isomerization of glucose-6-phosphate to fructose-6-phosphate; member of PGI family YP_193653.1 b-lactamase YP_193654.1 COG3459 Cellobiose phosphorylase YP_193656.1 conserved domain protein YP_193658.1 CGI-01 protein YP_193660.1 prophage Lp3 protein 4 YP_193661.1 similar to Orf32 Bacteriophage bIL309 YP_193663.1 COG0769 UDP-N-acetylmuramyl tripeptide synthase YP_193664.1 catalyzes the formation of thymidine 5'-phosphate from thymidine YP_193665.1 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_193666.1 HemK YP_193668.1 Catalyzes the formation of uracil and 5-phospho-alpha-D-ribosy 1-diphosphate from UMP and diphosphate YP_193669.1 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_193670.1 Produces ATP from ADP in the presence of a proton gradient across the membrane. Subunit C is part of the membrane proton channel F0 YP_193671.1 Produces ATP from ADP in the presence of a proton gradient across the membrane. Subunit B is part of the membrane proton channel. YP_193672.1 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_193673.1 produces ATP from ADP in the presence of a proton gradient across the membrane; the alpha chain is a catalytic subunit YP_193674.1 Produces ATP from ADP in the presence of a proton gradient across the membrane. The gamma chain is a regulatory subunit YP_193675.1 Produces ATP from ADP in the presence of a proton gradient across the membrane. The beta chain is a regulatory subunit YP_193676.1 part of catalytic core of ATP synthase; alpha(3)beta(3)gamma(1)delta(1)epsilon(1); involved in producing ATP from ADP in the presence of the proton motive force across the membrane YP_193677.1 MreB YP_193679.1 RodA YP_193683.1 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_193684.1 acts to negatively regulates ftsZ ring formation by modulating the frequency and position of the ftsZ ring formation YP_193685.1 family; NifS YP_193686.1 Required for the synthesis of the thiazole moiety YP_193690.1 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_193691.1 FolC; COG0285 Folylpolyglutamate synthase YP_193692.1 COG0637 Predicted phosphatase-phosphohexomutase YP_193693.1 RadC; DNA repair protein RadC YP_193694.1 functions in MreBCD complex in some organisms YP_193695.1 in some organisms this protein is a transmembrane protein while in others it is periplasmic; involved in some organisms with other components of the MreBCD complex and with penicillin binding proteins in the periplasm or cell wall YP_193696.1 MreD; COG2891 Cell shape-determining protein YP_193698.1 MraW YP_193699.1 FtsL YP_193700.1 PBP2B YP_193701.1 First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan YP_193702.1 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_193703.1 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_193704.1 FtsQ YP_193705.1 FtsA YP_193706.1 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_193707.1 YlmF YP_193708.1 YlmH YP_193709.1 DivIVA YP_193710.1 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 type 1 subfamily; some organisms carry two different copies of this enzyme YP_193711.1 COG1278 Cold shock protein YP_193712.1 MutT YP_193713.1 COG0775 Nucleoside phosphorylase YP_193715.1 catalyzes a sulfuration reaction to synthesize 2-thiouridine at the U34 position of tRNAs YP_193716.1 COG0406 Fructose-2,6-bisphosphatase YP_193717.1 COG0457 FOG TPR repeat YP_193723.1 cleaves off formyl group from N-terminal methionine residues of newly synthesized proteins; binds iron(2+) YP_193724.1 TypA YP_193725.1 FtsW YP_193727.1 COG0742 N6-adenine-specific methylase YP_193728.1 Catalyzes the conversion of ATP and pantetheine 4'-phosphate to diphosphate and 3'-dephospho-coA YP_193730.1 ComEA YP_193731.1 ComEC YP_193733.1 binds directly to the 16S rRNA and is involved in post-translational inhibition of arginine and ornithine decarboxylase YP_193734.1 RpsO YP_193737.1 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_193738.1 Tig; RopA; peptidyl-prolyl cis/trans isomerase; promotes folding of newly synthesized proteins; binds ribosomal 50S subunit; forms a homodimer YP_193739.1 binds and unfolds substrates as part of the ClpXP protease YP_193740.1 binds guanine nucleotides; in Escherichia coli depletion results in defective cell division and filamentation; in Bacillus subtilis this gene is essential YP_193741.1 involved in lysine biosynthesis; DAP epimerase; produces DL-diaminopimelate from LL-diaminopimelate YP_193742.1 catalyzes the formation of 4-phospho-L-aspartate from L-aspartate and ATP; lysine and threonine sensitive YP_193744.1 2,3,4,5-tetrahydropyridine-2-carboxylate N-succinyltransferase YP_193746.1 catalyzes the formation of dihydrodipicolinate from L-aspartate 4-semialdehyde and pyruvate in lysine and diaminopimelate biosynthesis YP_193747.1 catalyzes the reduction of 2,3-dihydrodipicolinate to 2,3,4,5-tetrahydrodipicolinate in lysine and diaminopimelate biosynthesis YP_193748.1 COG0436 Aspartate-tyrosine-aromatic aminotransferase YP_193749.1 COG0136 Aspartate-semialdehyde dehydrogenase YP_193752.1 Polyferredoxin YP_193755.1 COG1957 Inosine-uridine nucleoside N-ribohydrolase YP_193756.1 aryl-alcohol dehydrogenase YP_193757.1 COG1396 Predicted transcriptional regulators YP_193762.1 COG2261 Predicted membrane protein YP_193763.1 COG3237 Uncharacterized protein conserved in bacteria YP_193767.1 cellobiose PTS, EIIA YP_193771.1 COG2723 Beta-glucosidase-6-phospho-beta-glucosidase-beta- galactosidase YP_193773.1 reverse transcriptase homolog YP_193775.1 COG2723 Beta-glucosidase-6-phospho-beta-glucosidase -beta-galactosidase YP_193776.1 COG1940 transcriptional regulator-sugar kinase YP_193779.1 enolase; catalyzes the formation of phosphoenolpyruvate from 2-phospho-D-glycerate in glycolysis YP_193781.1 COG0671 Membrane-associated phospholipid phosphatase YP_193783.1 phage related protein YP_193785.1 potential frameshift to 894 YP_193786.1 repressor YP_193789.1 ThyA; catalyzes formation of dTMP and 7,8-dihydrofolate from 5,10-methylenetetrahydrofolate and dUMP; involved in deoxyribonucleotide biosynthesis; there are 2 copies in some Bacilli, one of which appears to be phage-derived YP_193790.1 COG0262 Dihydrofolate reductase YP_193791.1 COG0474 Cation transport ATPase YP_193795.1 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_193798.1 Converts (S)-lactate and NAD(+) to pyruvate and NADH YP_193799.1 COG3579 Aminopeptidase C YP_193800.1 cation transport protein YP_193801.1 halo peroxidase YP_193802.1 citrate (pro-3S)-lyase ligase YP_193803.1 acyl carrier protein; with CitE and CitF catalyzes the formation of oxaloacetate from citrate YP_193805.1 citrate lyase, alpha chain YP_193807.1 integral membrane protein YP_193810.1 COG4720 Predicted membrane protein YP_193812.1 copper-transporting P-type ATPase YP_193813.1 citrate lyase regulator YP_193814.1 COG2966 Uncharacterized conserved protein YP_193816.1 COG2606 Uncharacterized conserved protein YP_193817.1 methylates ribosomal protein L11 at multiple amino acid positions; mutations of these genes in Escherichia coli or Thermus thermophilus has no apparent phenotype YP_193818.1 RelA; COG0317 Guanosine polyphosphate pyrophosphohydrolases-synthetases YP_193819.1 hydrolyzes D-tyrosyl-tRNA(Tyr) into D-tyrosine and free tRNA(Tyr); possible defense mechanism against a harmful effect of D-tyrosine YP_193820.1 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_193821.1 catalyzes a two-step reaction, first charging an aspartate molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; contains discriminating and non-discriminating subtypes YP_193822.1 PLP-dependent aminotransferase YP_193823.1 COG0452 Phosphopantothenoylcysteine synthetase-decarboxylase YP_193824.1 oxidoreductase, aldo-keto reductase YP_193827.1 COG0531 Amino acid transporters YP_193828.1 COG0586 Uncharacterized membrane-associated protein YP_193829.1 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_193830.1 essential GTPase; exhibits high exchange rate for GTP/GDP; associates with 50S ribosomal subunit; involved in regulation of chromosomal replication YP_193831.1 COG1835 Predicted acyltransferases YP_193835.1 some L32 proteins have zinc finger motifs consisting of CXXC while others do not YP_193837.1 integral membrane protein YP_193839.1 catalyzes the formation of D-fructose 1,6-bisphosphate from D-fructose 6-phosphate in glycolysis YP_193840.1 COG3848 Phosphohistidine swiveling domain YP_193842.1 XerD; COG4974 Site-specific recombinase XerD YP_193843.1 RibT; hypothetical protein YP_193844.1 COG1354 Uncharacterized conserved protein YP_193847.1 COG3601 Predicted membrane protein YP_193849.1 COG0283 Cytidylate kinase YP_193850.1 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_193851.1 EngA; essential Neisserial GTPase; 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_193853.1 GlcNAc; hypothetical protein YP_193854.1 COG1284 Uncharacterized conserved protein YP_193855.1 catalyzes the addition and repair of the 3'-terminal CCA sequence in tRNA; these proteins belong to the CCA-adding enzyme subfamily 2 which does not have phosphohydrolase activity YP_193857.1 DegV YP_193858.1 COG4479 Uncharacterized protein conserved in bacteria YP_193859.1 Na(+)-H(+) antiporter YP_193860.1 COG1161 Predicted GTPases YP_193861.1 RNH2; RNase HII; binds manganese; endonuclease which specifically degrades the RNA of RNA-DNA hybrids YP_193862.1 SMF family YP_193863.1 catalyzes the ATP-dependent breakage of single-stranded DNA followed by passage and rejoining, maintains net negative superhelicity YP_193864.1 TrmFO; Gid; glucose-inhibited division protein; similar to GidA; the gene from Bacillus subtilis encodes a tRNA-methyltransferase that utilizes folate as the carbon donor and bound flavin as reductant; modifies tRNA at position 54 (uridine) of the T-psi loop to form a C5-methyluridine YP_193865.1 XerC; COG4974 Site-specific recombinase XerD YP_193866.1 heat shock protein involved in degradation of misfolded proteins YP_193867.1 heat shock protein involved in degradation of misfolded proteins YP_193872.1 XerD; hypothetical protein YP_193873.1 CrcB YP_193874.1 may be involved in chromosome condensation; overexpression in Escherichia coli protects against decondensation by camphor; overexpressing the protein results in an increase in supercoiling YP_193875.1 divalent metal ion-dependent extracellular dipeptidase; able to hydrolyze a broad range of dipeptides but no tri-, tetra-, or larger oligopeptides; differences in the amino acid specificity of the cleavage site varies between species; similar to succinyl-diaminopimelate desuccinylases YP_193876.1 COG0531 Amino acid transporters YP_193877.1 COG1982 Arginine-lysine-ornithine decarboxylases YP_193881.1 RecQ YP_193882.1 conserved hypothetical protein YP_193884.1 converts homocysteine and S-adenosyl-methionine to methionine and S-adenosyl-homocysteine or S-methyl-methionine and homocysteine to two methionines YP_193885.1 COG0671 Membrane-associated phospholipid phosphatase YP_193886.1 protein acetyltransferase YP_193888.1 COG2240 Pyridoxal-pyridoxine-pyridoxamine kinase YP_193892.1 COG1263 Phosphotransferase system IIC components, glucose-maltose-N-acetylglucosamine-specific YP_193893.1 COG2188 transcriptional regulators YP_193896.1 potential frameshift to 1019 YP_193897.1 potential frameshift to 1019 YP_193898.1 potential frameshift to 1019; hypothetical protein YP_193899.1 potential frameshift to 1016 YP_193901.1 transcriptional regulator of multidrug-efflux transporter genes YP_193903.1 COG0702 Predicted nucleoside-diphosphate-sugar epimerases YP_193909.1 acetyl transferase YP_193912.1 conserved domain protein YP_193913.1 COG1959 Predicted transcriptional regulator YP_193914.1 transcriptional regulator YP_193916.1 aldo-keto reductase YP_193917.1 cell surface protein precursor YP_193923.1 ATP-binding cassette transport system similar to substrate binding protein and to components of ABC transporter ORF J YP_193924.1 COG2077 Peroxiredoxin YP_193928.1 unknown hydrophobic protein YP_193930.1 antibiotic resistance protein YP_193932.1 MutT YP_193933.1 cation efflux system (zinc-cadmium) YP_193941.1 COG2820 Uridine phosphorylase YP_193942.1 Phosphoglycerate mutase YP_193943.1 COG2820 Uridine phosphorylase YP_193944.1 COG2820 Uridine phosphorylase YP_008992038.1 malate transporter YP_193951.1 malic enzyme; oxaloacetate-decarboxylating; NAD-dependent; catalyzes the formation of pyruvate form malate YP_193952.1 COG4292 Predicted membrane protein YP_193956.1 MetE YP_193957.1 catalyzes the hydrolysis of S-ribosylhomocysteine to homocysteine and autoinducer-2 YP_193960.1 COG2910 NADH-flavin reductase YP_193961.1 amino acid transport protein YP_193962.1 potential frameshift to 1088 YP_193963.1 potential frameshift to 1087; COG0031 Cysteine synthase YP_193964.1 potential frameshift to 1090 YP_193965.1 potential frameshift to 1089; MetC YP_193966.1 catalyzes the hydrolysis of S-ribosylhomocysteine to homocysteine and autoinducer-2 YP_193967.1 catalyzes the formation of oxaloacetate from phosphoenolpyruvate YP_193968.1 conserved hypothetical protein YP_193971.1 COG2378 Predicted transcriptional regulator YP_193973.1 Converts glucose to D-glucono-1,5 lactone YP_193975.1 potential frameshift to 1101 YP_193976.1 potential frameshift to 1100 YP_193978.1 potential frameshift to 1105; Flavodoxin YP_193980.1 potential frameshift to 1103; COG0716 Flavodoxins YP_193981.1 COG3693 Beta-1,4-xylanase YP_193982.1 COG1249 Pyruvate-2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component YP_193984.1 flavodoxin YP_193986.1 potential frameshift to 1112; COG0716 Flavodoxins YP_193987.1 potential frameshift to 1111 YP_193988.1 potential frameshift to 1114 YP_193989.1 potential frameshift to 1113; alcohol dehydrogenase, zinc-containing YP_193990.1 COG0531 Amino acid transporters YP_193991.1 potential frameshift to 1117 YP_193992.1 potential frameshift to 1116 YP_193994.1 COG2855 Predicted membrane protein YP_193995.1 UDP-glycosyltransferase 37b1 CG9481-PA YP_193996.1 COG0344 Predicted membrane protein YP_193997.1 decatenates newly replicated chromosomal DNA and relaxes positive and negative DNA supercoiling YP_193998.1 decatenates newly replicated chromosomal DNA and relaxes positive and negative DNA supercoiling YP_194000.1 catalyzes the hydrolysis of pyrophosphate to phosphate YP_194003.1 COG3619 Predicted membrane protein YP_194007.1 Macrolide-efflux protein YP_194010.1 acyl carrier protein phosphodiesterase YP_194011.1 COG3757 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) YP_194012.1 membrane protein YP_194013.1 FlaR YP_194014.1 harderin YP_194015.1 site-specific tyrosine recombinase which cuts and rejoins DNA molecules; binds cooperatively to specific DNA consensus sites; essential to convert chromosome dimers to monomers during cell division and functions during plasmid segregation; cell division protein FtsK may regulate the XerS YP_194016.1 DegV YP_194019.1 four CarB-CarA dimers form the carbamoyl phosphate synthetase holoenzyme that catalyzes the production of carbamoyl phosphate; CarB is responsible for the amidotransferase activity YP_194020.1 catalyzes production of carbamoyl phosphate from bicarbonate and glutamine in pyrimidine and arginine biosynthesis pathways; forms an octamer composed of four CarAB dimers YP_194022.1 lipoprotein signal peptidase; integral membrane protein that removes signal peptides from prolipoproteins during lipoprotein biosynthesis YP_194023.1 catalyzes the formation of 10-formyltetrahydrofolate from formate and tetrahydrofolate YP_194024.1 CpdA; COG1409 Predicted phosphohydrolases YP_194028.1 functions in homologous recombination, DNA repair, and chromosome segregation; binds preferentially to three- and four-stranded DNA intermediates; introduces specific nick sites in four-stranded DNA substrates; functions similarly to Escherichia coli RuvC YP_194029.1 Pbp1 YP_194030.1 End3; COG0177 Predicted EndoIII-related endonuclease YP_194031.1 DnaD YP_194032.1 catalyzes a two-step reaction, first charging an asparagine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA YP_194034.1 DinG YP_194035.1 AddA; COG1074 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) YP_194036.1 AddB YP_194040.1 catalyzes the isomerization of isopentenyl pyrophosphate to dimethylallyl diphosphate YP_194041.1 COG1737 transcriptional regulators YP_194044.1 potential frameshift to 1176 YP_194045.1 potential frameshift to 1175 YP_194046.1 YrvO; cysteine desulfurase YP_194050.1 COG0681 Signal peptidase I YP_194056.1 GntR YP_194057.1 catalyzes the release of the N-terminal amino acid from a tripeptide YP_194059.1 COG2384 Predicted SAM-dependent methyltransferase YP_194060.1 MutT YP_194061.1 potential frameshift to 1195 YP_194062.1 potential frameshift to 1194; hypothetical protein YP_194063.1 sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released; primary sigma factor of bacterium YP_194065.1 glycine--tRNA ligase beta chain; glyS; class II aminoacyl tRNA synthetase; tetramer of alpha(2)beta(2); catalyzes a two-step reaction; first charging a glycine molecule by linking the carboxyl group to the alpha-phosphate of ATP; second by transfer of the aminoacyl-adenylate to its tRNA YP_194066.1 glycine--tRNA ligase alpha chain; GlyRS; class II aminoacyl tRNA synthetase; tetramer of alpha(2)beta(2); catalyzes a two-step reaction; first charging a glycine molecule by linking its carboxyl group to the alpha-phosphate of ATP; second by transfer of the aminoacyl-adenylate to its tRNA YP_194067.1 RecO YP_194068.1 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_194069.1 COG0319 Predicted metal-dependent hydrolase YP_194070.1 PhoH YP_194072.1 a small basic protein that is one of the last in the subunit assembly; omission does not prevent assembly but the subunit is inactive; binds central domain of 16S rRNA YP_194075.1 MsrA YP_194076.1 COG1284 Uncharacterized conserved protein YP_194077.1 RepA; metalloprotease, insulinase YP_194078.1 catalyzes the formation of O-phospho-L-homoserine from L-homoserine in threonine biosynthesis from asparate YP_194080.1 catalyzes the formation of L-threonine from O-phospho-L-homoserine YP_194081.1 catalyzes the formation of 4-phospho-L-aspartate from L-aspartate and ATP; lysine and threonine sensitive YP_194086.1 COG1249 Pyruvate-2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component YP_194091.1 hypothetical Cytosolic protein YP_194092.1 similar to complement component C7 precursor YP_194093.1 transcriptional regulator YP_194099.1 cell envelope-associated protein PrtH YP_194101.1 MetA YP_194104.1 catalyzes the reversible formation of 2'-(5''-triphosphoribosyl)-3'dephospho-CoA from 3-dephospho-CoA YP_194106.1 catalyzes a salvage reaction resulting in the formation of AMP which is metabolically less costly than a de novo synthesis YP_194107.1 RecJ; COG0608 Single-stranded DNA-specific exonuclease YP_194108.1 SrtA YP_194109.1 binds to the ribosome on the universally-conserved alpha-sarcin loop YP_194110.1 chaperone Hsp40; co-chaperone with DnaK; Participates actively in the response to hyperosmotic and heat shock by preventing the aggregation of stress-denatured proteins and by disaggregating proteins, also in an autonomous, dnaK-independent fashion YP_194111.1 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_194112.1 with DnaK and DnaJ acts in response to hyperosmotic and heat shock by preventing the aggregation of stress-denatured proteins; may act as a thermosensor YP_194113.1 Negative regulator of class I heat shock genes (grpE-dnaK-dnaJ and groELS operons). Prevents heat-shock induction of these operons YP_194116.1 COG0196 FAD synthase YP_194117.1 catalyzes isomerization of specific uridines in RNA to pseudouridine; responsible for residues in T loops of many tRNAs YP_194118.1 associates with free 30S ribosomal subunits; essential for efficient processing of 16S rRNA; in Escherichia coli rbfA is induced by cold shock YP_194119.1 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_194121.1 COG2740 Predicted nucleic-acid-binding protein YP_194122.1 modifies transcription through interactions with RNA polymerase affecting elongation, readthrough, termination, and antitermination YP_194123.1 in Streptococcus pneumoniae this gene was found to be essential; structure determination of the Streptococcus protein shows that it is similar to a number of other proteins YP_194125.1 catalyzes the formation of prolyl-tRNA(Pro) from proline and tRNA(Pro) YP_194127.1 CdsA; COG0575 CDP-diglyceride synthetase YP_194128.1 catalyzes the formation of undecaprenyl pyrophosphate from isopentenyl pyrophosphate YP_194129.1 COG0233 Ribosome recycling factor YP_194130.1 Catalyzes the phosphorylation of UMP to UDP YP_194131.1 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_194132.1 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_194133.1 COG4123 Predicted O-methyltransferase YP_194134.1 COG0204 1-acyl-sn-glycerol-3-phosphate acyltransferase YP_194136.1 PepO; Neutral endopeptidase (PepO) YP_194140.1 COG4224 Uncharacterized protein conserved in bacteria YP_194141.1 Represses a number of genes involved in the response to DNA damage YP_194143.1 phage related; COG1573 Uracil-DNA glycosylase YP_194147.1 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_194148.1 methylates guanosine-37 in various tRNAs; uses S-adenosyl-L-methionine to transfer methyl group to tRNA YP_194149.1 Essential for efficient processing of 16S rRNA YP_194150.1 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_194155.1 COG4690 Dipeptidase YP_194156.1 FtsY YP_194157.1 COG1196 Chromosome segregation ATPases YP_194158.1 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_194161.1 OppA YP_194162.1 OppA YP_194163.1 OppC YP_194164.1 OppB YP_194165.1 OppF YP_194166.1 OppD YP_194167.1 carries the fatty acid chain in fatty acid biosynthesis YP_194168.1 involved in acylation of glycerol-3-phosphate to form 1-acyl-glycerol-3 phosphate for use in phospholipid biosynthesis; functions with PlsY YP_194169.1 catalyzes branch migration in Holliday junction intermediates YP_194171.1 conserved hypothetical protein YP_194172.1 required for 70S ribosome assembly YP_194173.1 ATP-dependent Lon protease YP_194174.1 COG1564 Thiamine pyrophosphokinase YP_194175.1 ribulose-5-phosphate 3-epimerase YP_194176.1 COG1162 Predicted GTPases YP_194178.1 COG0631 Serine-threonine protein phosphatase YP_194180.1 COG0223 Methionyl-tRNA formyltransferase YP_194181.1 PriA YP_194182.1 RpoZ; COG1758 DNA-directed RNA polymerase, subunit K-omega YP_194183.1 Essential for recycling GMP and indirectly, cGMP YP_194185.1 RecN YP_194186.1 COG1189 Predicted rRNA methylase YP_194187.1 COG0142 Geranylgeranyl pyrophosphate synthase YP_194188.1 catalyzes the bidirectional exonucleolytic cleavage of DNA YP_194189.1 bidirectionally degrades single-stranded DNA into large acid-insoluble oligonucleotides YP_194190.1 catalyzes the formation of 5,10-methenyltetrahydrofolate from 5,10-methylenetetrahydrofolate and subsequent formation of 10-formyltetrahydrofolate from 5,10-methenyltetrahydrofolate YP_194191.1 NusB; COG0781 transcriptional termination factor YP_194193.1 Involved in peptide bond synthesis; alters the affinity of the ribosome for aminoacyl-tRNA YP_194194.1 COG0006 Xaa-Pro aminopeptidase YP_194195.1 involved in the peptidyltransferase reaction during translation YP_194197.1 COG1284 Uncharacterized conserved protein YP_194199.1 catalyzes the transamination of the branched-chain amino acids to their respective alpha-keto acids YP_194200.1 4-OT; member of subfamily 5; forms a dimer; the function in the Escherichia coli cell is unknown YP_194201.1 potential frameshift to 1344 YP_194202.1 potential frameshift to 1343; hypothetical protein YP_194203.1 potential frameshift to 1346; OppA YP_194204.1 potential frameshift to 1345; OppA YP_194205.1 potential frameshift to 1345; OppA YP_194206.1 COG3231 Aminoglycoside phosphotransferase YP_194207.1 COG4907 Predicted membrane protein YP_194208.1 CinII YP_194211.1 COG2364 Predicted membrane protein YP_194213.1 COG0657 Esterase-lipase YP_194214.1 Arsenate reductase YP_194221.1 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_194222.1 Beta-glucosidase YP_194224.1 xylose operon regulator YP_194226.1 phage-related hypothetical protein YP_194227.1 prophage ps3 protein 01 YP_194228.1 similar to Orf20 Bacteriophage bIL311 YP_194229.1 catalyzes the removal of N-terminal dipeptides when proline is the penultimate residue YP_194230.1 this stereospecific enzymes reduces the R isomer of methionine sulfoxide while MsrA reduces the S form; provides protection against oxidative stress YP_194235.1 four CarB-CarA dimers form the carbamoyl phosphate synthetase holoenzyme that catalyzes the production of carbamoyl phosphate; CarB is responsible for the amidotransferase activity YP_194236.1 catalyzes production of carbamoyl phosphate from bicarbonate and glutamine in pyrimidine and arginine biosynthesis pathways; forms an octamer composed of four CarAB dimers YP_194237.1 catalyzes the formation of N-carbamoyl-L-aspartate from (S)-dihydroorotate in pyrimidine biosynthesis YP_194238.1 catalyzes the transfer of the carbamoyl moiety from carbamoyl phosphate to L- aspartate in pyrimidine biosynthesis YP_194239.1 regulates pyrimidine biosynthesis by binding to the mRNA of the pyr genes, also has been shown to have uracil phosphoribosyltransferase activity YP_194240.1 catalyzes the conversion of dihydroorotate to orotate in the pyrimidine biosynthesis pathway, using a flavin nucleotide as an essential cofactor; subclass 1B is a heterotetramer consisting of two PyrDB subunits, similar to the PyrDA subunits and two PyrK subunits YP_194242.1 type 1 subfamily; involved in last step of pyrimidine biosynthesis; converts orotidine 5'-phosphate to UMP and carbon dioxide; OMP decarboxylase; OMPDCase; OMPdecase YP_194243.1 involved in fifth step of pyrimidine biosynthesis; converts orotidine 5'-phosphate and diphosphate to orotate and 5-phospho-alpha-D-ribose 1-diphosphate YP_194244.1 COG0702 Predicted nucleoside-diphosphate-sugar epimerases YP_194245.1 COG0474 Cation transport ATPase YP_194250.1 GLP_703_9564_7504 YP_194252.1 conserved domain protein YP_194256.1 OppA YP_194257.1 Nadh; COG0446 Uncharacterized NAD(FAD)-dependent dehydrogenases YP_194260.1 COG0702 Predicted nucleoside-diphosphate-sugar epimerases YP_194261.1 ChpA YP_194264.1 COG4832 Uncharacterized conserved protein YP_194269.1 COG2199 FOG GGDEF domain YP_194270.1 COG2200 FOG EAL domain YP_194277.1 COG1902 NADHflavin oxidoreductases, Old Yellow Enzyme family YP_194280.1 COG0531 Amino acid transporters YP_194281.1 cell surface hydrolase YP_194287.1 COG0745 Response regulators conserved isting of a CheY-like receiver domain and a winged-helix DNA-binding domain YP_194289.1 with DhaL and DhaM forms dihydroxyacetone kinase, which is responsible for phosphorylating dihydroxyacetone; DhaK is the dihydroxyacetone binding subunit of the dihydroxyacetone kinase YP_194292.1 GlpF YP_194295.1 MsmKII YP_194296.1 MsmGII YP_194297.1 MsmFII YP_194298.1 MsmEII YP_194299.1 MsmRII YP_194300.1 MerR YP_194303.1 alpha-galactosidase 1 (melibiase) YP_194306.1 phage D3 terminase-like protein YP_194308.1 N-acetylgalactosamine-4-sulfatase precursor YP_194309.1 mutarotase YP_194310.1 catalyzes the formation of alpha-D-glucose 1-phosphate and UDP-galactose from UDP-glucose and alpha-D-galactose 1-phosphate in galactose metabolism YP_194311.1 catalyzes the formation of alpha-D-galactose 1-phosphate from D-galactose in galactose metabolism YP_194312.1 cell surface protein precursor YP_194314.1 beta-D-galactosidase YP_194316.1 is605tnpb family YP_194317.1 lactose transcriptional regulator YP_194320.1 UDP-galactose 4-epimerase YP_194323.1 Ribose operon repressor YP_194324.1 alfa-L-rhamnosidase YP_194330.1 transcriptional antiterminator LicT YP_194332.1 RbsB YP_194333.1 RbsC YP_194334.1 RbsA YP_194335.1 cytoplasmic mutarotase that catalyzes the conversion between beta-pyran and beta-furan forms of D-ribose; RbsD is required for efficient ribose utilization in E. coli; rbsD-mutant E. coli strains are unable to use ribose as a sole carbon source YP_194336.1 RbsK YP_194337.1 similar to hypothetical protein YP_194339.1 RbsR YP_194340.1 similar to transketolase YP_194341.1 similar to transketolase YP_194342.1 GlpK YP_194343.1 AckB YP_194344.1 LmrB; drug-export protein YP_194345.1 bone protein protein YP_194346.1 cell surface protein precursor YP_194349.1 potential frameshift to 1500 YP_194350.1 potential frameshift to 1499 YP_194351.1 GlnA; COG0174 Glutamine synthetase YP_194353.1 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_194354.1 COG0607 Rhodanese-related sulfurtransferase YP_194357.1 COG0212 5-formyltetrahydrofolate cyclo-ligase YP_194358.1 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_194361.1 COG2971 Predicted N-acetylglucosamine kinase YP_194362.1 cell envelope-associated protein PrtR YP_194363.1 potential frameshift to 1514; COG4292 Predicted membrane protein YP_194364.1 potential frameshift to 1513; COG4292 Predicted membrane protein YP_194365.1 catalyzes the release of the N-terminal amino acid from a tripeptide YP_194366.1 COG0039 Malate-lactate dehydrogenases YP_194367.1 GreA YP_194368.1 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_194369.1 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_194370.1 COG1733 Predicted transcriptional regulators YP_194371.1 COG0566 rRNA methylases YP_194372.1 AcyP; COG1254 Acylphosphatases YP_194373.1 SpoIIIJ YP_194375.1 COG0745 Response regulators conserved isting of a CheY-like receiver domain and a winged-helix DNA-binding domain YP_194377.1 COG1323 Predicted nucleotidyltransferase YP_194380.1 NadD YP_194381.1 in Bacillus subtilis this enzyme appears to be involved in 30S ribosomal RNA subunit biogenesis YP_194385.1 catalyzes the formation of inosine from adenosine YP_194386.1 binds directly to 23S ribosomal RNA prior to in vitro assembly of the 50S ribosomal subunit YP_194388.1 translation initiation factor IF-3 YP_194392.1 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_194393.1 Primosomal protein that may act to load helicase DnaC during DNA replication YP_194394.1 DnaB YP_194396.1 catalyzes the phosphorylation of the 3'-hydroxyl group of dephosphocoenzyme A to form coenzyme A; involved in coenzyme A biosynthesis YP_194397.1 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_194398.1 DpoI YP_194399.1 PurD YP_194400.1 involved in de novo purine biosynthesis YP_194401.1 PurN YP_194402.1 catalyzes the formation of 1-(5-phosphoribosyl)-5-aminoimidazole from 2-(formamido)-N1-(5-phosphoribosyl)acetamidine and ATP in purine biosynthesis YP_194403.1 Catalyzes first step of the de novo purine nucleotide biosynthetic pathway YP_194404.1 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_194405.1 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_194406.1 PurS; hypothetical protein YP_194407.1 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_194408.1 With PurE catalyzes the conversion of aminoimidazole ribonucleotide to carboxyaminoimidazole ribonucleotide in the de novo purine nucleotide biosynthetic pathway YP_194409.1 PurE; phosphoribosylaminoimidazole carboxylase I YP_194410.1 catalyzes the formation of 10-formyltetrahydrofolate from formate and tetrahydrofolate YP_194411.1 COG0716 Flavodoxins YP_194413.1 COG3077 DNA-damage-inducible protein J YP_194415.1 Aminopeptidase N YP_194419.1 cation efflux protein YP_194421.1 COG2364 Predicted membrane protein YP_194422.1 BglH; similar to phospho-beta-glucosidase YP_194423.1 potential frameshift to 1576 YP_194424.1 potential frameshift to 1575; phosphotransferase system (PTS) beta-glucoside-specific enzyme YP_194426.1 integral membrane protein YP_194427.1 Catalyzes the formation of UDP-N-acetylmuramoyl-L-alanine from UDP-N-acetylmuramate and L-alanine in peptidoglycan synthesis YP_194428.1 PheT; COG0073 EMAP domain YP_194430.1 tRNA (guanine-N(7)-)-methyltransferase; catalyzes the formation of N(7)-methylguanine at position 46 (m7G46) in tRNA by transferring the methyl residue from S-adenosyl-L-methionine YP_194434.1 hypothetical protein FLJ25124 YP_194435.1 cis/trans isomerase of peptidylprolyl; PPIase; membrane-bound lipoprotein YP_194436.1 COG3481 Predicted family hydrolase YP_194437.1 COG4717 Uncharacterized conserved protein YP_194438.1 COG0420 DNA repair exonuclease YP_194439.1 COG3679 Uncharacterized conserved protein YP_194442.1 GlpF YP_194444.1 L-lactate dehydrogenase, cytochrome-type (lldD) YP_194445.1 COG0191 Fructose-tagatose bisphosphate aldolase YP_194446.1 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_194448.1 COG0063 Predicted sugar kinase YP_194449.1 serine-type D-Ala-D-Ala carboxypeptidase YP_194452.1 integral membrane protein YP_194456.1 4-carboxymuconolactone decarboxylase YP_194457.1 FmtB; FmtB protein YP_194462.1 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_194463.1 COG0671 Membrane-associated phospholipid phosphatase YP_194464.1 potential frameshift to 1620; oxidoreductase, pyridine nucleotide-disulfide family YP_194465.1 potential frameshift to 1619 YP_194467.1 methionine adenosyltransferase; catalyzes the formation of S-adenosylmethionine from methionine and ATP; methionine adenosyltransferase YP_194468.1 potential frameshift to 1624 YP_194469.1 potential frameshift to 1623 YP_194470.1 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_194472.1 COG0398 Uncharacterized conserved protein YP_194473.1 COG0657 Esterase-lipase YP_194474.1 PlcR; hypothetical protein YP_194475.1 purine trans deoxyribosylase YP_194476.1 SsdH; COG1012 NAD-dependent aldehyde dehydrogenases YP_194478.1 Rlp YP_194481.1 COG1309 transcriptional regulator, TetR family YP_194482.1 COG2367 Beta-lactamase class A YP_194489.1 COG4690 Dipeptidase YP_194493.1 COG2323 Predicted membrane protein YP_194495.1 cell surface protein precursor YP_194496.1 COG3201 Nicotinamide mononucleotide transporter YP_194497.1 surface protein PspC YP_194498.1 RecA protein (Recombinase A) YP_194499.1 COG2461 Uncharacterized conserved protein YP_194501.1 prolinase YP_194504.1 COG3212 Predicted membrane protein YP_194505.1 COG3212 Predicted membrane protein YP_194508.1 OppA YP_194509.1 COG3759 Predicted membrane protein YP_194511.1 Involved in peptide bond synthesis; alters the affinity of the ribosome for aminoacyl-tRNA YP_194512.1 catalyzes the formation of (R)-4'-phosphopantothenate in coenzyme A biosynthesis YP_194516.1 GlnQ YP_194521.1 COG0406 Fructose-2,6-bisphosphatase YP_194525.1 similar to ORF1 TT-virus YP_194526.1 Calcium-transporting ATPase YP_194527.1 COG2893 Phosphotransferase system, mannose-fructose-specific component IIA YP_194531.1 family; RpiR; similar to hypothetical protein YP_194532.1 Maltose-6'-phosphate glucosidase (6-phospho-alpha-D-glucosidase) YP_194533.1 surface exclusion protein YP_194535.1 GNAT family YP_194538.1 catalyzes the formation of oxalozcetate and L-glutamate from L-aspartate and 2-oxoglutarate YP_194541.1 protein YP_194542.1 COG0708 Exonuclease III YP_194543.1 AraC YP_194544.1 transcriptional regulator, AraC family YP_194545.1 family; RpiR YP_194547.1 catalyzes the cleavage of the lactyl ether moiety of N-acetylmuramic acid-6-phosphate (MurNAc-6-P) to form N-acetylglucosamine-6-phosphate (GlcNAc-6-P) and lactate; involved in MurNAc dissimilation pathway YP_194548.1 sucrose PTS, EIIBC YP_194549.1 COG2723 Beta-glucosidase-6-phospho-beta-glucosidase -beta-galactosidase YP_194551.1 COG3711 transcriptional antiterminator YP_194553.1 pullulanase YP_194554.1 sulfotransferase YP_194555.1 pneumococcal surface protein A YP_194559.1 GLP_178_26121_9007 YP_194562.1 COG1210 UDP-glucose pyrophosphorylase YP_194563.1 COG0381 UDP-N-acetylglucosamine 2-epimerase YP_194564.1 potential frameshift to 1722 YP_194565.1 potential frameshift to 1721 YP_194568.1 COG0562 UDP-galactopyranose mutase YP_194569.1 potential frameshift to 1725; UDP-galactopyranose mutase YP_194573.1 COG0058 Glucan phosphorylase YP_194574.1 COG1216 Predicted glycosyltransferases YP_194575.1 glycosyltransferase YP_194576.1 EpsE YP_194577.1 EpsD YP_194578.1 EpsC YP_194579.1 EpsB YP_194580.1 EpsA YP_194581.1 HflX; COG2262 GTPases YP_194585.1 COG3942 Surface antigen YP_194586.1 COG3942 Surface antigen YP_194587.1 COG0194 Guanylate kinase YP_194591.1 in Salmonella NrdI has a stimulatory effect on the ribonucleotide reductase activity of NrdH with NrdEF YP_194592.1 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_194599.1 COG3610 Uncharacterized conserved protein YP_194600.1 COG2966 Uncharacterized conserved protein YP_194604.1 LytR; COG1316 transcriptional regulator YP_194605.1 endopeptidase F YP_194607.1 LctP; COG1620 L-lactate permease YP_194608.1 COG3576 Predicted flavin-nucleotide-binding protein structurally related to pyridoxine 5'-phosphate oxidase YP_194611.1 PsaA YP_194612.1 COG0640 Predicted transcriptional regulators YP_194616.1 FruK YP_194617.1 FruR YP_194622.1 chloride channel protein YP_194625.1 vasotocin VT1 receptor YP_194626.1 vacuolar sorting receptor protein homolog PV72 -cucur bit YP_194628.1 assimilatory nitrate reductase (electron transfer subunit) YP_194631.1 PlnG YP_194633.1 AbpR YP_194634.1 AbpK YP_194640.1 bHLH transcriptional factor YP_194650.1 COG1794 Aspartate racemase YP_194651.1 involved in cell wall formation; peptidoglycan synthesis; cytoplasmic enzyme; catalyzes the addition of meso-diaminopimelic acid to the nucleotide precursor UDP-N-aceylmuramoyl-l-alanyl-d-glutamate YP_194652.1 VanS YP_194653.1 COG0745 Response regulators conserved isting of a CheY-like receiver domain and a winged-helix DNA-binding domain YP_194657.1 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_194659.1 COG1475 Predicted transcriptional regulators YP_194661.1 COG1475 Predicted transcriptional regulators YP_194662.1 glucose-inhibited division protein B; SAM-dependent methyltransferase; methylates the N7 position of guanosine in position 527 of 16S rRNA YP_194664.1 ApbE YP_194665.1 COG2365 protein tyrosine-serine phosphatase YP_194666.1 COG0431 Predicted protein YP_194667.1 COG0431 Predicted protein YP_194670.1 COG4690 Dipeptidase YP_194673.1 family; TetRAcrR YP_194674.1 COG0406 Fructose-2,6-bisphosphatase YP_194678.1 COG1085 Galactose-1-phosphate uridylyltransferase YP_194680.1 CG7497-PA YP_194681.1 di-tripeptide transport protein YP_194683.1 LysM; extracellular protein YP_194688.1 integral membrane protein YP_194691.1 UTP-glucose-1-phosphate uridyltransferase YP_194693.1 COG1396 Predicted transcriptional regulators YP_194694.1 COG1396 Predicted transcriptional regulators YP_194698.1 MsmK YP_194700.1 COG0637 Predicted phosphatase-phosphohexomutase YP_194702.1 COG0366 Glycosidases YP_194703.1 COG0366 Glycosidases YP_194704.1 COG0282 Acetate kinase YP_194705.1 LacI; COG1609 transcriptional regulators YP_194706.1 COG2365 protein tyrosine-serine phosphatase YP_194708.1 COG1396 Predicted transcriptional regulators YP_194709.1 Converts glycerol and ADP to glycerol-3-phosphate and ADP YP_194713.1 CobQ; COG3442 Predicted glutamine amidotransferase YP_194714.1 conserved hypothetical protein YP_194717.1 transport protein YP_194719.1 COG0845 Membrane-fusion protein YP_194720.1 Catalyzes two discrete reactions in the de novo synthesis of purines: the cleavage of adenylosuccinate and succinylaminoimidazole carboxamide ribotide YP_194721.1 catalyzes the formation of N6-(1,2,-dicarboxyethyl)-AMP from L-aspartate, inosine monophosphate and GTP in AMP biosynthesis YP_194722.1 COG0516 IMP dehydrogenase-GMP reductase YP_194725.1 catalyzes the formation of asparagine from aspartate and ammonia YP_194726.1 FrnE YP_194728.1 family; ArsR; COG0607 Rhodanese-related sulfurtransferase YP_194730.1 thioredoxin 2 YP_194731.1 COG0531 Amino acid transporters YP_194732.1 COG2071 Predicted glutamine amidotransferases YP_194733.1 YifK YP_194734.1 AapA YP_194738.1 COG0681 Signal peptidase I YP_194739.1 ClpE YP_194745.1 polysaccharide biosynthesis family protein YP_194746.1 LysA; lysin YP_194749.1 COG3247 Uncharacterized conserved protein YP_194751.1 DltD; COG3966 protein involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid YP_194752.1 D-alanyl carrier protein subunit; involved in the incorporation of D-alanine into membrane-associated D-alanyl-lipoteichoic acid; D-alanyl carrier protein is the acceptor of activated D-alanine which it donates to a membrane acceptor(D-alanyl transferase) for incorporation into membrane lipoteichoic acid YP_194753.1 DltB YP_194754.1 transfers D-alanine to the D-alanyl carrier protein during the incorporation of D-alanine into lipoteichoic acid YP_194756.1 COG0517 FOG CBS domain YP_194757.1 COG2217 Cation transport ATPase YP_194759.1 COG3595 Uncharacterized conserved protein YP_194760.1 MutT YP_194761.1 MutR; hypothetical protein YP_194763.1 COG1396 Predicted transcriptional regulators YP_194765.1 COG1434 Uncharacterized conserved protein YP_194767.1 COG4684 Predicted membrane protein YP_194775.1 COG1428 Deoxynucleoside kinases YP_194776.1 COG1428 Deoxynucleoside kinases YP_194778.1 xanthine-uracil permeases family protein YP_194780.1 MerR; transcriptional activator YP_194781.1 COG2252 Permeases YP_194783.1 OppA YP_194789.1 COG4633 Uncharacterized protein conserved in bacteria YP_194790.1 COG2217 Cation transport ATPase YP_194791.1 COG1434 Uncharacterized conserved protein YP_194793.1 FlpA; COG0664 cAMP-binding protein -catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases YP_194795.1 COG0498 Threonine synthase YP_194797.1 catalyzes the formation of D-ribulose 5-phosphate from 6-phospho-D-gluconate YP_194798.1 COG0028 Thiamine pyrophosphate-requiring enzymes acetolactate synthase, pyruvate dehydrogenase (cytochrome) YP_194799.1 GidA; glucose-inhibited cell division protein A; involved in the 5-carboxymethylaminomethyl modification (mnm(5)s(2)U) of the wobble uridine base in some tRNAs YP_194800.1 in Escherichia coli this protein is involved in the biosynthesis of the hypermodified nucleoside 5-methylaminomethyl-2-thiouridine, which is found in the wobble position of some tRNAs and affects ribosomal frameshifting; shows potassium-dependent dimerization and GTP hydrolysis; also involved in regulation of glutamate-dependent acid resistance and activation of gadE YP_194802.1 protein component of RNaseP which catalyzes the removal of the 5'-leader sequence from pre-tRNA to produce the mature 5'terminus; this enzyme also cleaves other RNA substrates YP_194803.1 in Escherichia coli transcription of this gene is enhanced by polyamines