-- dump date 20140619_044735 -- class Genbank::CDS -- table cds_note -- id note YP_876974.1 in Escherichia coli transcription of this gene is enhanced by polyamines YP_876975.1 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_876976.1 identified by match to protein family HMM PF01809; match to protein family HMM TIGR00278 YP_876977.1 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_876978.1 identified by match to protein family HMM PF01424 YP_876979.1 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_876980.1 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_876981.1 glucose-inhibited division protein B; SAM-dependent methyltransferase; methylates the N7 position of guanosine in position 527 of 16S rRNA YP_876982.1 identified by match to protein family HMM PF02195; match to protein family HMM TIGR00180 YP_876983.1 identified by match to protein family HMM PF01656 YP_876984.1 identified by match to protein family HMM PF02195; match to protein family HMM TIGR00180 YP_876986.1 identified by match to protein family HMM PF06866 YP_876987.1 identified by match to protein family HMM PF01810 YP_876988.1 identified by match to protein family HMM PF06107 YP_876989.1 binds cooperatively with S18 to the S15-16S complex, allowing platform assembly to continue with S11 and S21 YP_876990.1 identified by match to protein family HMM PF00436; match to protein family HMM TIGR00621 YP_876991.1 binds as a heterodimer with protein S6 to the central domain of the 16S rRNA; helps stabilize the platform of the 30S subunit YP_876994.1 identified by match to protein family HMM PF01368; match to protein family HMM PF02272 YP_876995.1 in Escherichia coli this protein is wrapped around the base of the L1 stalk YP_876996.1 identified by match to protein family HMM PF00004; match to protein family HMM PF05362 YP_876997.1 unwinds double stranded DNA YP_876998.1 identified by match to protein family HMM PF00011 YP_876999.1 identified by match to protein family HMM PF02645; match to protein family HMM TIGR00762 YP_877000.1 identified by match to protein family HMM PF02645 YP_877001.1 catalyzes the formation of L-aspartate 4-semialdehyde from L-homoserine YP_877002.1 catalyzes the formation of L-threonine from O-phospho-L-homoserine YP_877003.1 identified by match to protein family HMM PF02237; match to protein family HMM PF03099; match to protein family HMM TIGR00121 YP_877006.1 Catalyzes the phosphorylation of L-glutamate during the proline biosynthesis pathway YP_877007.1 catalyzes the formation of glutamate 5-phosphate from glutamate in proline biosynthesis YP_877008.1 catalyzes the formation of L-proline from pyrroline-5-carboxylate YP_877010.1 catalyzes the formation of N6-(1,2,-dicarboxyethyl)-AMP from L-aspartate, inosine monophosphate and GTP in AMP biosynthesis YP_877012.1 identified by match to protein family HMM PF01643 YP_877013.1 identified by match to protein family HMM PF03486; match to protein family HMM TIGR00275 YP_877014.1 acts to load the DnaB helicase onto the initiation site during DNA replication YP_877015.1 identified by match to protein family HMM PF04271; match to protein family HMM TIGR01446 YP_877017.1 identified by match to protein family HMM PF01047 YP_877018.1 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_877019.1 identified by match to protein family HMM PF00550; match to protein family HMM TIGR00517 YP_877020.1 identified by match to protein family HMM PF03060 YP_877021.1 identified by match to protein family HMM PF00698; match to protein family HMM TIGR00128 YP_877022.1 catalyzes the first of the two reduction steps in the elongation cycle of fatty acid synthesis YP_877023.1 FabF; beta-ketoacyl-ACP synthase II, KASII; catalyzes a condensation reaction in fatty acid biosynthesis: addition of an acyl acceptor of two carbons from malonyl-ACP; required for the elongation of short-chain unsaturated acyl-ACP YP_877024.1 identified by match to protein family HMM PF00364; match to protein family HMM TIGR00531 YP_877025.1 in Pseudomonas aeruginosa this enzyme is a trimer of dimers; essential for membrane formation; performs third step of type II fatty acid biosynthesis; catalyzes dehydration of (3R)-hydroxyacyl-ACP to trans-2-acyl-ACP YP_877026.1 identified by match to protein family HMM PF00289; match to protein family HMM PF02785; match to protein family HMM PF02786; match to protein family HMM TIGR00514 YP_877027.1 identified by match to protein family HMM TIGR00515 YP_877028.1 identified by match to protein family HMM PF03255; match to protein family HMM TIGR00513 YP_877029.1 identified by match to protein family HMM PF00497 YP_877030.1 identified by match to protein family HMM PF00528; match to protein family HMM TIGR01726 YP_877031.1 identified by match to protein family HMM PF00005 YP_877032.1 similar to YJCM B. subtilis YP_877033.1 identified by match to protein family HMM PF06733 YP_877034.1 identified by match to protein family HMM PF00872 YP_877039.1 identified by match to protein family HMM PF00994; match to protein family HMM PF02464; match to protein family HMM TIGR00199; match to protein family HMM TIGR00200 YP_877040.1 identified by match to protein family HMM PF00375 YP_877041.1 identified by match to protein family HMM PF00082 YP_877042.1 identified by match to protein family HMM PF04657 YP_877045.1 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_877046.1 identified by match to protein family HMM PF00753 YP_877048.1 Sec-fragment; identified by match to protein family HMM PF02810 YP_877049.1 identified by match to protein family HMM PF00072 YP_877050.1 SPOUT methyltransferase family protein; crystal structure shows homodimer; in Escherichia coli this protein methylates pseudouridine at position 1915 of the 23S ribosomal RNA YP_877052.1 ketopantoate reductase; catalyzes the NADPH reduction of ketopantoate to pantoate; functions in pantothenate (vitamin B5) biosynthesis YP_877053.1 identified by match to protein family HMM PF00376 YP_877055.1 identified by match to protein family HMM PF00132 YP_877056.1 identified by match to protein family HMM PF00892 YP_877058.1 identified by match to protein family HMM PF01381 YP_877059.1 identified by match to protein family HMM PF03831; match to protein family HMM TIGR00686 YP_877060.1 identified by match to protein family HMM PF00356; match to protein family HMM PF00532 YP_877061.1 identified by match to protein family HMM PF00005 YP_877062.1 identified by match to protein family HMM PF01547 YP_877063.1 identified by match to protein family HMM PF00528 YP_877064.1 identified by match to protein family HMM PF00528 YP_877065.1 identified by match to protein family HMM PF01055 YP_877066.1 amylomaltase; acts to release glucose from maltodextrins YP_877067.1 identified by match to protein family HMM PF00343; match to protein family HMM TIGR02093 YP_877070.1 identified by match to protein family HMM PF01386; match to protein family HMM TIGR00731 YP_877071.1 identified by match to protein family HMM PF01077; match to protein family HMM PF03460 YP_877073.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00486 YP_877074.1 identified by match to protein family HMM PF00512; match to protein family HMM PF00672; match to protein family HMM PF02518 YP_877075.1 identified by match to protein family HMM PF02517 YP_877076.1 identified by match to protein family HMM PF00882; match to protein family HMM PF01477 YP_877077.1 Involved in the metabolism of aromatic amino acids YP_877079.1 identified by match to protein family HMM PF05651 YP_877080.1 identified by match to protein family HMM PF02447 YP_877081.1 identified by match to protein family HMM PF02595; match to protein family HMM TIGR00045 YP_877082.1 identified by match to protein family HMM PF00563; match to protein family HMM PF00990; match to protein family HMM TIGR00229; match to protein family HMM TIGR00254 YP_877083.1 identified by match to protein family HMM PF05067 YP_877090.1 identified by match to protein family HMM PF01381 YP_877094.1 identified by match to protein family HMM PF00270; match to protein family HMM PF00271; match to protein family HMM PF03880 YP_877096.1 identified by match to protein family HMM PF01966; match to protein family HMM TIGR00277 YP_877097.1 identified by match to protein family HMM PF00015; match to protein family HMM PF07700 YP_877098.1 similar to PflX (pyruvate formate lyase activating protein); identified by match to protein family HMM PF04055 YP_877101.1 identified by match to protein family HMM PF04055; match to protein family HMM TIGR01212 YP_877102.1 identified by match to protein family HMM PF00702; match to protein family HMM TIGR01509 YP_877103.1 identified by match to protein family HMM PF00037; match to protein family HMM PF02906 YP_877105.1 identified by match to protein family HMM PF00005 YP_877106.1 identified by match to protein family HMM PF00950 YP_877107.1 Catalyzes the formation of UDP-N-acetylmuramoyl-L-alanine from UDP-N-acetylmuramate and L-alanine in peptidoglycan synthesis YP_877108.1 identified by match to protein family HMM PF00156; match to protein family HMM TIGR01743 YP_877109.1 stage V sporulation protein G; essential for spore formation and a negative regulator of asymmetric septation in Bacillus; involved in methicillin-resistance, biofilm formation and capsular polysaccharide synthesis in Staphylococcus YP_877110.1 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_877111.1 catalyzes the formation of 5-phospho-alpha-D-ribose 1-phosphate from D-ribose 5-phosphate and ATP YP_877112.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00486 YP_877113.1 identified by match to protein family HMM PF00512; match to protein family HMM PF00672; match to protein family HMM PF02518 YP_877114.1 identified by match to protein family HMM PF00089; match to protein family HMM PF00595 YP_877115.1 Enables the recycling of peptidyl-tRNAs produced at termination of translation YP_877116.1 identified by match to protein family HMM PF00270; match to protein family HMM PF00271; match to protein family HMM PF02559; match to protein family HMM PF03461; match to protein family HMM PF04851; match to protein family HMM TIGR00580 YP_877117.1 cis/trans isomerase of peptidylprolyl; PPIase; membrane-bound lipoprotein YP_877118.1 identified by match to protein family HMM PF04014; match to protein family HMM TIGR01439 YP_877120.1 identified by match to protein family HMM PF00590; match to protein family HMM PF03819; match to protein family HMM TIGR00444 YP_877121.1 identified by match to protein family HMM PF00216 YP_877122.1 identified by match to protein family HMM PF01479 YP_877123.1 similar to YABP B. subtilis YP_877124.1 similar to YABQ B. subtilis YP_877125.1 identified by match to protein family HMM PF04977 YP_877126.1 identified by match to protein family HMM PF00575 YP_877127.1 identified by match to protein family HMM PF07228 YP_877128.1 identified by match to protein family HMM PF01171 YP_877129.1 identified by match to protein family HMM PF00156; match to protein family HMM TIGR01203 YP_877130.1 identified by match to protein family HMM PF00004; match to protein family HMM PF01434; match to protein family HMM PF06480; match to protein family HMM TIGR01241 YP_877131.1 identified by match to protein family HMM PF03061 YP_877132.1 catalyzes the formation of 10-formyltetrahydrofolate from formate and tetrahydrofolate YP_877133.1 type III; catalyzes the formation of (R)-4'-phosphopantothenate from (R)-pantothenate in coenzyme A biosynthesis; type III pantothenate kinases are not subject to feedback inhibition from coenzyme A and have a high Km for ATP YP_877134.1 identified by match to protein family HMM PF01207; match to protein family HMM TIGR00737 YP_877135.1 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_877136.1 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_877137.1 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_877138.1 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_877140.1 EF-G; promotes GTP-dependent translocation of the ribosome during translation; many organisms have multiple copies of this gene YP_877141.1 identified by match to protein family HMM PF00301; match to protein family HMM PF02915 YP_877144.1 May allow the feedback regulation of ATP phosphoribosyltransferase activity by histidine YP_877145.1 short form of enzyme; requires HisZ for function; catalyzes the formation of N'-5'-phosphoribosyl-ATP from phosphoribosyl pyrophosphate; crucial role in histidine biosynthesis; forms heteromultimer of HisG and HisZ YP_877146.1 catalyzes the oxidation of L-histidinol to L-histidinaldehyde and then to L-histidine in histidine biosynthesis; functions as a dimer YP_877147.1 identified by match to protein family HMM PF00155; match to protein family HMM TIGR01141 YP_877148.1 identified by match to protein family HMM PF00475 YP_877149.1 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 YP_877150.1 identified by match to protein family HMM PF00977; match to protein family HMM PF01502; match to protein family HMM TIGR00735 YP_877151.1 catalyzes the formation of 1-(5-phosphoribosyl)-AMP from 1-(5-phosphoribolsyl)-ATP in histidine biosynthesis YP_877152.1 identified by match to protein family HMM PF00614 YP_877153.1 identified by match to protein family HMM PF07656 YP_877155.1 catalyzes the formation of tetrahydrofolate and 2-dehydropantoate from 5,10-methylenetetrahydrofolate and 3-methyl-2-oxobutanoate YP_877156.1 catalyzes the formation of (R)-pantothenate from pantoate and beta-alanine YP_877157.1 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_877160.1 Catalyzes the reduction of nucleoside 5'-triphosphates to 2'-deoxynucleoside 5'-triphosphates YP_877162.1 identified by match to protein family HMM PF00515 YP_877163.1 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_877164.1 identified by match to protein family HMM PF00083; match to protein family HMM PF07690 YP_877165.1 similar to YPAA B. subtilis YP_877166.1 identified by match to protein family HMM PF03576 YP_877167.1 identified by match to protein family HMM PF00301; match to protein family HMM PF02915 YP_877168.1 identified by match to protein family HMM PF05848 YP_877169.1 identified by match to protein family HMM PF02151 YP_877170.1 identified by match to protein family HMM PF00217 YP_877171.1 identified by match to protein family HMM PF00004; match to protein family HMM PF02151; match to protein family HMM PF02861 YP_877172.1 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_877173.1 non-specific DNA-binding; scans chromosomes during sporulation for DNA-damage; delays initiation of sporulation; participates in a checkpoint signaling cascade for cell-cycle progression and DNA repair YP_877175.1 contains a homolog of PilT-like; identified by match to protein family HMM PF01850; match to protein family HMM PF01938 YP_877176.1 4-diphosphocytidyl-2C-methyl-D-erythritol synthase; MEP cytidylyltransferase; MCT; catalyzes the formation of 4-diphosphocytidyl-2-C-methyl-D-erythritol from CTP and 2-C-methyl-D-erythritol 4-phosphate; involved in isoprenoid and isopentenyl-PP biosynthesis; forms homodimers YP_877177.1 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_877178.1 similar to YACZ B. subtilis homolog; identified by match to protein family HMM PF05948 YP_877179.1 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_877180.1 identified by match to protein family HMM PF00588; match to protein family HMM TIGR00186 YP_877181.1 identified by match to protein family HMM PF05991 YP_877182.1 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates YP_877183.1 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_877184.1 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_877185.1 Modulates Rho-dependent transcription termination YP_877186.1 binds directly to 23S ribosomal RNA YP_877187.1 in Escherichia coli and Methanococcus, this protein autoregulates expression; the binding site in the mRNA mimics the binding site in the 23S rRNA YP_877188.1 binds the two ribosomal protein L7/L12 dimers and anchors them to the large ribosomal subunit YP_877189.1 identified by match to protein family HMM PF00542; match to protein family HMM TIGR00855 YP_877190.1 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_877191.1 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_877193.1 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_877194.1 binds directly to 16S rRNA where it nucleates assembly of the head domain of the 30S subunit YP_877195.1 EF-G; promotes GTP-dependent translocation of the ribosome during translation; many organisms have multiple copies of this gene YP_877196.1 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_877197.1 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_877198.1 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_877199.1 L4 is important during the early stages of 50S assembly; it initially binds near the 5' end of the 23S rRNA YP_877200.1 binds third domain of 23S rRNA and protein L29; part of exit tunnel YP_877201.1 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_877202.1 protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA YP_877203.1 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_877204.1 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_877205.1 located in the peptidyl transferase center and may be involved in peptidyl transferase activity; similar to archaeal L10e YP_877206.1 one of the stabilizing components for the large ribosomal subunit YP_877207.1 primary binding protein; helps mediate assembly; involved in translation fidelity YP_877208.1 binds to the 23S rRNA between the centers for peptidyl transferase and GTPase YP_877209.1 assembly initiator protein; binds to 5' end of 23S rRNA and nucleates assembly of the 50S; surrounds polypeptide exit tunnel YP_877210.1 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_877211.1 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 appear to contain the zinc-binding motif YP_877212.1 binds directly to 16S rRNA central domain where it helps coordinate assembly of the platform of the 30S subunit YP_877213.1 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_877214.1 binds 5S rRNA along with protein L5 and L25 YP_877215.1 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_877216.1 L30 binds domain II of the 23S rRNA and the 5S rRNA; similar to eukaryotic protein L7 YP_877217.1 late assembly protein YP_877218.1 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_877219.1 essential enzyme that recycles AMP in active cells; converts ATP and AMP to two molecules of ADP YP_877220.1 identified by match to protein family HMM PF00557; match to protein family HMM TIGR00500 YP_877222.1 identified by match to protein family HMM PF00575; match to protein family HMM TIGR00008 YP_877223.1 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_877224.1 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_877225.1 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_877226.1 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_877227.1 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_877228.1 is a component of the macrolide binding site in the peptidyl transferase center YP_877229.1 with CbiNQ forms the ABC transporter for cobalt import; Mycoplasmas have two adjacent copies of this gene YP_877230.1 with CbiNQ forms the ABC transporter for cobalt import; Clostridia have two adjacent copies of this gene YP_877231.1 identified by match to protein family HMM PF02361 YP_877232.1 mediates pseudouridylation (positions 38, 39, 40) at the tRNA anticodon region which contributes to the structural stability YP_877233.1 in Escherichia coli this protein is one of the earliest assembly proteins in the large subunit YP_877234.1 forms a direct contact with the tRNA during translation YP_877235.1 identified by match to protein family HMM PF01520 YP_877237.1 identified by match to protein family HMM PF01895; match to protein family HMM PF02690; match to protein family HMM TIGR00704 YP_877238.1 identified by match to protein family HMM PF00391; match to protein family HMM PF02896; match to protein family HMM PF05524; match to protein family HMM TIGR01417 YP_877240.1 identified by match to protein family HMM PF00515 YP_877241.1 identified by match to protein family HMM PF00085; match to protein family HMM TIGR01068 YP_877242.1 identified by match to protein family HMM PF00070 YP_877245.1 identified by match to protein family HMM PF02457; match to protein family HMM TIGR00159 YP_877246.1 similar to YBBR Bacillus subtilis YP_877248.1 catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate YP_877249.1 Catalyzes the first step in hexosamine metabolism, converting fructose-6P into glucosamine-6P using glutamine as a nitrogen source YP_877250.1 catalyzes the formation of phosphoenolpyruvate from pyruvate YP_877251.1 identified by match to protein family HMM PF00015; match to protein family HMM PF00672 YP_877252.1 identified by match to protein family HMM PF00301 YP_877253.1 identified by match to protein family HMM PF03479 YP_877254.1 identified by match to protein family HMM PF00916; match to protein family HMM PF01740; match to protein family HMM TIGR00815 YP_877257.1 identified by match to protein family HMM PF04542 YP_877259.1 identified by match to protein family HMM PF00005 YP_877267.1 identified by match to protein family HMM PF05569 YP_877270.1 identified by match to protein family HMM PF00005 YP_877274.1 identified by match to protein family HMM PF00005 YP_877276.1 identified by match to protein family HMM PF00583 YP_877278.1 identified by match to protein family HMM PF03415 YP_877279.1 identified by match to protein family HMM PF00015; match to protein family HMM PF00672 YP_877281.1 identified by match to protein family HMM PF01022 YP_877282.1 identified by match to protein family HMM PF00122; match to protein family HMM PF00403; match to protein family HMM PF00702; match to protein family HMM TIGR01494; match to protein family HMM TIGR01512; match to protein family HMM TIGR01525 YP_877283.1 identified by match to protein family HMM PF01546; match to protein family HMM PF07687; match to protein family HMM TIGR01891 YP_877287.1 identified by match to protein family HMM PF00037; match to protein family HMM PF00766 YP_877288.1 identified by match to protein family HMM PF01012 YP_877289.1 identified by match to protein family HMM PF01565; match to protein family HMM PF02913 YP_877290.1 identified by match to protein family HMM PF00512; match to protein family HMM PF02518; match to protein family HMM TIGR00229 YP_877291.1 identified by match to protein family HMM PF00186 YP_877293.1 identified by match to protein family HMM PF01053; match to protein family HMM TIGR01326 YP_877294.1 catalyzes the formation of O-succinyl-L-homoserine from succinyl-CoA and L-homoserine in methionine biosynthesis YP_877296.1 identified by match to protein family HMM PF01047 YP_877297.1 identified by match to protein family HMM PF01554; match to protein family HMM TIGR00797 YP_877298.1 identified by match to protein family HMM PF02588 YP_877300.1 identified by match to protein family HMM PF02518; match to protein family HMM PF06580 YP_877301.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00165 YP_877302.1 identified by match to protein family HMM PF00465 YP_877303.1 identified by match to protein family HMM PF01228; match to protein family HMM PF02901; match to protein family HMM TIGR01774 YP_877304.1 identified by match to protein family HMM PF00037; match to protein family HMM PF04055 YP_877308.1 identified by match to protein family HMM PF01381 YP_877309.1 identified by match to protein family HMM PF00005; match to protein family HMM TIGR01187 YP_877310.1 identified by match to protein family HMM PF00528 YP_877311.1 identified by match to protein family HMM PF00528 YP_877312.1 identified by match to protein family HMM PF01547 YP_877313.1 identified by match to protein family HMM PF00408; match to protein family HMM PF02878; match to protein family HMM PF02879; match to protein family HMM PF02880 YP_877315.1 identified by match to protein family HMM PF01244 YP_877316.1 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_877319.1 identified by match to protein family HMM PF00580 YP_877320.1 identified by match to protein family HMM PF01966 YP_877321.1 identified by match to protein family HMM PF01758 YP_877322.1 identified by match to protein family HMM PF00465 YP_877323.1 identified by match to protein family HMM PF01432; match to protein family HMM TIGR02289 YP_877324.1 identified by match to protein family HMM PF02915 YP_877325.1 catalyzes the formation of alpha-1,4-glucan chains from ADP-glucose YP_877326.1 identified by match to protein family HMM PF00343; match to protein family HMM TIGR02093 YP_877327.1 identified by match to protein family HMM PF01476 YP_877329.1 identified by match to protein family HMM PF00037 YP_877332.1 identified by match to protein family HMM PF00158; match to protein family HMM PF02954; match to protein family HMM TIGR01199 YP_877333.1 identified by match to protein family HMM PF00149; match to protein family HMM TIGR00619 YP_877335.1 identified by match to protein family HMM PF03553 YP_877337.1 identified by match to protein family HMM PF03313; match to protein family HMM TIGR00718 YP_877338.1 identified by match to protein family HMM PF01842; match to protein family HMM PF03315; match to protein family HMM TIGR00719 YP_877340.1 identified by match to protein family HMM PF02518; match to protein family HMM PF06580; match to protein family HMM PF07694 YP_877341.1 identified by match to protein family HMM PF00072; match to protein family HMM PF04397 YP_877342.1 identified by match to protein family HMM PF02554 YP_877344.1 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_877345.1 identified by match to protein family HMM PF01256; match to protein family HMM PF03853; match to protein family HMM TIGR00196; match to protein family HMM TIGR00197 YP_877347.1 converts L-alanine to D-alanine which is used in cell wall biosynthesis; binds one pyridoxal phosphate per monomer; forms a homodimer YP_877349.1 identified by match to protein family HMM PF02452 YP_877350.1 identified by match to protein family HMM PF00456 YP_877351.1 identified by match to protein family HMM PF02779; match to protein family HMM PF02780 YP_877352.1 identified by match to protein family HMM PF02588 YP_877353.1 identified by match to protein family HMM PF00005 YP_877354.1 identified by match to protein family HMM PF02687 YP_877355.1 identified by match to protein family HMM PF00595; match to protein family HMM PF03572; match to protein family HMM TIGR00225 YP_877356.1 identified by match to protein family HMM PF00595 YP_877357.1 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_877358.1 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_877359.1 identified by match to protein family HMM PF00498 YP_877360.1 identified by match to protein family HMM PF01098 YP_877361.1 identified by match to protein family HMM PF00905 YP_877363.1 identified by match to protein family HMM PF04307 YP_877364.1 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_877365.1 identified by match to protein family HMM PF02231; match to protein family HMM PF02811 YP_877366.1 catalyzes the reduction of UDP-N-acetylglucosamine enolpyruvate to form UDP-N-acetylmuramate in peptidoglycan biosynthesis YP_877367.1 identified by match to protein family HMM PF03668 YP_877368.1 identified by match to protein family HMM PF01933; match to protein family HMM TIGR01826 YP_877369.1 identified by match to protein family HMM PF02650; match to protein family HMM TIGR00647 YP_877370.1 similar to B. subtilis ytoI; identified by match to protein family HMM PF00571; match to protein family HMM PF07085 YP_877371.1 catalyzes the formation of asparagine from aspartate and ammonia YP_877372.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00486 YP_877373.1 identified by match to protein family HMM PF00512; match to protein family HMM PF00672; match to protein family HMM PF02518 YP_877376.1 identified by match to protein family HMM PF07690; match to protein family HMM TIGR00712; match to protein family HMM TIGR00881 YP_877377.1 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_877378.1 identified by match to protein family HMM PF01752; match to protein family HMM PF04151 YP_877379.1 catalyzes DNA-template-directed extension of the 3'-end of a DNA strand by one nucleotide at a time. Proposed to be responsible for the synthesis of the lagging strand. In the low GC gram positive bacteria this enzyme is less processive and more error prone than its counterpart in other bacteria. YP_877380.1 catalyzes the formation of D-fructose 1,6-bisphosphate from D-fructose 6-phosphate in glycolysis YP_877381.1 identified by match to protein family HMM PF00224; match to protein family HMM PF02887; match to protein family HMM TIGR01064 YP_877382.1 identified by match to protein family HMM PF01938; match to protein family HMM PF05958; match to protein family HMM TIGR00479 YP_877384.1 identified by match to protein family HMM PF00176; match to protein family HMM PF00271; match to protein family HMM PF04851 YP_877385.1 identified by match to protein family HMM PF00005 YP_877389.1 identified by match to protein family HMM PF04542 YP_877391.1 identified by match to protein family HMM PF00005 YP_877393.1 identified by match to protein family HMM PF00005 YP_877394.1 identified by match to protein family HMM PF01061 YP_877395.1 identified by match to protein family HMM PF01061 YP_877396.1 identified by match to protein family HMM PF02518 YP_877397.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00196 YP_877398.1 identified by match to protein family HMM PF05525; match to protein family HMM TIGR00796 YP_877399.1 identified by match to protein family HMM PF01487; match to protein family HMM TIGR01093 YP_877400.1 identified by match to protein family HMM PF07690; match to protein family HMM TIGR00881 YP_877403.1 identified by match to protein family HMM PF00512; match to protein family HMM PF00672; match to protein family HMM PF02518 YP_877404.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00486 YP_877405.1 identified by match to protein family HMM PF03703 YP_877406.1 identified by match to protein family HMM PF03703 YP_877407.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00486 YP_877408.1 identified by match to protein family HMM PF00512; match to protein family HMM PF00672; match to protein family HMM PF02518 YP_877410.1 identified by match to protein family HMM PF00282 YP_877411.1 similar to yxkH B. subtilis; identified by match to protein family HMM PF01522 YP_877412.1 catalyzes the ATP-dependent transport of cobalt YP_877413.1 periplasmic cobalt binding component of the cobalt transport system YP_877414.1 identified by match to protein family HMM PF02361 YP_877415.1 identified by match to protein family HMM PF00005; match to protein family HMM TIGR01166 YP_877416.1 identified by match to protein family HMM PF00209 YP_877417.1 identified by match to protein family HMM PF00657 YP_877419.1 identified by match to protein family HMM PF03062 YP_877422.1 identified by match to protein family HMM PF00717; match to protein family HMM TIGR02227 YP_877423.1 identified by match to protein family HMM PF00004; match to protein family HMM PF01434; match to protein family HMM PF06480; match to protein family HMM TIGR01241 YP_877425.1 catalyzes the formation of L-tryptophan from L-serine and 1-(indol-3-yl)glycerol 3-phosphate YP_877428.1 identified by match to protein family HMM PF01545; match to protein family HMM TIGR01297 YP_877429.1 catalyzes the removal of amino acids from the N termini of peptides YP_877432.1 identified by match to protein family HMM PF00015 YP_877434.1 identified by match to protein family HMM PF00149; match to protein family HMM TIGR00040 YP_877435.1 identified by match to protein family HMM PF00278; match to protein family HMM PF02784; match to protein family HMM TIGR01048 YP_877436.1 identified by match to protein family HMM PF06165; match to protein family HMM PF06204; match to protein family HMM PF06205 YP_877438.1 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_877440.1 identified by match to protein family HMM PF00702; match to protein family HMM TIGR00099; match to protein family HMM TIGR01484 YP_877441.1 identified by match to protein family HMM PF00702; match to protein family HMM TIGR00099; match to protein family HMM TIGR01484 YP_877442.1 identified by match to protein family HMM PF00009; match to protein family HMM PF03144; match to protein family HMM TIGR00231; match to protein family HMM TIGR00503 YP_877444.1 identified by match to protein family HMM PF00990; match to protein family HMM PF01590; match to protein family HMM TIGR00254 YP_877445.1 identified by match to protein family HMM PF04326 YP_877447.1 catalyzes the formation of tyrosyl-tRNA(Tyr) from tyrosine and tRNA(Tyr) YP_877450.1 identified by match to protein family HMM PF00149 YP_877451.1 identified by match to protein family HMM PF04460 YP_877452.1 identified by match to protein family HMM PF04607 YP_877455.1 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_877456.1 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_877458.1 identified by match to protein family HMM PF00226 YP_877459.1 similar to Thermotoga maritima YP_877460.1 identified by match to protein family HMM PF01928 YP_877462.1 identified by match to protein family HMM PF01116; match to protein family HMM TIGR00167; match to protein family HMM TIGR01859 YP_877463.1 identified by match to protein family HMM PF04239 YP_877464.1 identified by match to protein family HMM PF00485 YP_877466.1 identified by match to protein family HMM PF01066; match to protein family HMM TIGR00473 YP_877467.1 identified by match to protein family HMM PF00571 YP_877468.1 similar to YegS from E. coli YP_877470.1 identified by match to protein family HMM PF04055 YP_877471.1 identified by match to protein family HMM PF00571; match to protein family HMM PF03448 YP_877472.1 identified by match to protein family HMM PF01471; match to protein family HMM PF07486 YP_877473.1 identified by match to protein family HMM PF00132; match to protein family HMM TIGR01172 YP_877474.1 identified by match to protein family HMM PF00037 YP_877475.1 identified by match to protein family HMM PF01553 YP_877476.1 identified by match to protein family HMM PF00633; match to protein family HMM PF00730; match to protein family HMM TIGR01083 YP_877477.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00512; match to protein family HMM PF02518 YP_877478.1 identified by match to protein family HMM PF05343 YP_877479.1 identified by match to protein family HMM PF04294; match to protein family HMM PF07501 YP_877480.1 identified by match to protein family HMM PF00702; match to protein family HMM TIGR00099; match to protein family HMM TIGR01484 YP_877481.1 identified by match to protein family HMM PF04055 YP_877482.1 identified by match to protein family HMM PF00588 YP_877483.1 identified by match to protein family HMM PF02645; match to protein family HMM TIGR00762 YP_877484.1 sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released; sigma 54 factor is responsible for the expression of enzymes involved in nitrogen assimilation and metabolism; the rhizobia often have 2 copies of this sigma factor; in Rhizobium etli RpoN1 shown to be involved in the assimilation of several nitrogen and carbon sources during free-living aerobic growth and RpoN2 is involved in symbiotic nitrogen fixation; in Bradyrhizobium both RpoN1 and N2 are functional in free-living and symbiotic conditions, rpoN1 gene was regulated in response to oxygen YP_877485.1 identified by match to protein family HMM PF04198 YP_877486.1 identified by match to protein family HMM PF00044; match to protein family HMM PF02800; match to protein family HMM TIGR01534 YP_877489.1 identified by match to protein family HMM PF02608 YP_877490.1 identified by match to protein family HMM PF00005 YP_877491.1 identified by match to protein family HMM PF02653 YP_877492.1 identified by match to protein family HMM PF02653 YP_877493.1 Converts 3-phospho-D-glycerate to 3-phospho-D-glyceroyl phosphate during the glycolysis pathway YP_877494.1 Reversibly isomerizes the ketone sugar dihydroxyacetone phosphate to the aldehyde sugar glyceraldehyde-3-phosphate YP_877495.1 catalyzes the interconversion of 2-phosphoglycerate and 3-phosphoglycerate YP_877496.1 enolase; catalyzes the formation of phosphoenolpyruvate from 2-phospho-D-glycerate in glycolysis YP_877497.1 identified by match to protein family HMM PF03840; match to protein family HMM TIGR00810 YP_877498.1 pyrophosphate-energized proton pump; pyrophosphate-energized inorganic pyrophosphatase; H+-PPase; can cleave pyrophosphate to two phosphates; can generate a proton motive force and drive pyrophosphate synthesis when PMF is sufficient YP_877499.1 identified by match to protein family HMM PF00575; match to protein family HMM PF00773; match to protein family HMM TIGR00358; match to protein family HMM TIGR02063 YP_877500.1 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_877504.1 identified by match to protein family HMM PF00376 YP_877508.1 identified by match to protein family HMM PF01207 YP_877510.1 identified by match to protein family HMM PF00005 YP_877513.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00486 YP_877514.1 identified by match to protein family HMM PF00512; match to protein family HMM PF00672; match to protein family HMM PF02518 YP_877518.1 identified by match to protein family HMM PF05690 YP_877519.1 in Escherichia coli this enzyme functions in thiamine biosynthesis along with thiFSGI and iscS; with ThiFSG catalyzes the formation of thiazole phosphate from tyrosine, cysteine and 1-deoxy-D-xylulose-5-phosphate; forms a complex with ThiG; contains an iron-sulfur center YP_877520.1 identified by match to protein family HMM PF01773; match to protein family HMM PF07662; match to protein family HMM PF07670; match to protein family HMM TIGR00804 YP_877521.1 identified by match to protein family HMM PF00849; match to protein family HMM PF01479; match to protein family HMM TIGR00093 YP_877522.1 identified by match to protein family HMM TIGR02357 YP_877523.1 identified by match to protein family HMM PF00583 YP_877524.1 identified by match to protein family HMM PF00359 YP_877525.1 identified by match to protein family HMM TIGR01167 YP_877526.1 identified by match to protein family HMM PF00746; match to protein family HMM TIGR01167 YP_877527.1 identified by match to protein family HMM PF01497 YP_877528.1 identified by match to protein family HMM PF01032 YP_877529.1 identified by match to protein family HMM PF00005 YP_877530.1 identified by match to protein family HMM PF04203; match to protein family HMM TIGR01076 YP_877531.1 identified by match to protein family HMM PF00005; match to protein family HMM PF00664 YP_877532.1 identified by match to protein family HMM PF00005; match to protein family HMM PF00664 YP_877533.1 identified by match to protein family HMM PF02302 YP_877534.1 identified by match to protein family HMM PF00012 YP_877535.1 identified by match to protein family HMM PF00515 YP_877536.1 identified by match to protein family HMM PF00226; match to protein family HMM PF00515 YP_877537.1 identified by match to protein family HMM PF01037 YP_877538.1 identified by match to protein family HMM PF00155 YP_877539.1 identified by match to protein family HMM PF00560; match to protein family HMM PF00746; match to protein family HMM TIGR01167 YP_877540.1 identified by match to protein family HMM PF00560; match to protein family HMM PF05031; match to protein family HMM TIGR01167 YP_877542.1 identified by match to protein family HMM PF00455 YP_877543.1 identified by match to protein family HMM PF01041 YP_877544.1 identified by match to protein family HMM PF01041 YP_877546.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00486 YP_877547.1 identified by match to protein family HMM PF00512; match to protein family HMM PF02518 YP_877548.1 identified by match to protein family HMM PF02632 YP_877549.1 DTB synthetase; dethiobiotin synthase; involved in production of dethiobiotin from ATP and 7,8-diaminononanoate and carbon dioxide; contains magnesium YP_877550.1 identified by match to protein family HMM PF00202; match to protein family HMM TIGR00508 YP_877551.1 catalyzes the formation of biotin from dethiobiotin and sulfur 2 S-adenosyl-L-methionine YP_877552.1 identified by match to protein family HMM PF04346 YP_877553.1 identified by match to protein family HMM PF00557 YP_877554.1 identified by match to protein family HMM PF01289 YP_877555.1 identified by match to protein family HMM PF00270; match to protein family HMM PF00271 YP_877556.1 identified by match to protein family HMM PF00270; match to protein family HMM PF00271; match to protein family HMM PF03880 YP_877557.1 identified by match to protein family HMM PF01614 YP_877558.1 identified by match to protein family HMM PF01081; match to protein family HMM TIGR01182 YP_877559.1 identified by match to protein family HMM PF00294 YP_877560.1 identified by match to protein family HMM PF00392 YP_877561.1 identified by match to protein family HMM PF00920 YP_877562.1 identified by match to protein family HMM PF02447; match to protein family HMM TIGR00791 YP_877563.1 catalyzes the reversible formation of fructose 6-phosphate from glucosamine 6-phosphate YP_877564.1 similar to Thermotoga maritima YP_877565.1 catalyzes the formation of biotin from dethiobiotin and sulfur YP_877566.1 in Escherichia coli this enzyme functions in thiamine biosynthesis along with thiFSGI and IscS; with ThiFSG catalyzes the formation of thiazole phosphate from tyrosine, cysteine and 1-deoxy-D-xylulose-5-phosphate; forms a complex with ThiG; contains an iron-sulfur center; in Thermotoga this enzyme has an extra C-terminal domain YP_877567.1 identified by match to protein family HMM TIGR00231 YP_877568.1 identified by match to protein family HMM PF02579 YP_877569.1 identified by match to protein family HMM PF00037 YP_877570.1 identified by match to protein family HMM PF00037; match to protein family HMM PF01656 YP_877571.1 identified by match to protein family HMM PF02579 YP_877572.1 identified by match to protein family HMM PF02001 YP_877573.1 identified by match to protein family HMM PF01522 YP_877575.1 identified by match to protein family HMM PF01476 YP_877576.1 identified by match to protein family HMM PF00356; match to protein family HMM PF00532 YP_877577.1 catalyzes the formation of D-glyceraldehyde 3-phosphate and acetaldehyde from 2-deoxy-D-ribose-5-phosphate YP_877578.1 catalyzes the transfer of phosphate between the C1 and C5 carbons of pentose YP_877579.1 catalyzes the formation of a purine and ribose phosphate from a purine nucleoside; in E. coli this enzyme functions in xanthosine degradation YP_877580.1 identified by match to protein family HMM PF00591; match to protein family HMM PF02885 YP_877581.1 identified by match to protein family HMM PF01773; match to protein family HMM PF07662; match to protein family HMM PF07670 YP_877582.1 similar to YceG B. subtilis YP_877583.1 identified by match to protein family HMM PF02597; match to protein family HMM TIGR01683 YP_877584.1 catalyzes the adenylation of ThiS which is involved in the formation of 5-methyl-4-(beta-hydroxyethyl)thiazole phosphate YP_877585.1 identified by match to protein family HMM PF02581 YP_877586.1 identified by match to protein family HMM PF01522 YP_877588.1 identified by match to protein family HMM PF01554; match to protein family HMM TIGR00797 YP_877589.1 identified by match to protein family HMM PF04329; match to protein family HMM PF04330; match to protein family HMM PF04331 YP_877590.1 identified by match to protein family HMM PF00571; match to protein family HMM PF01595; match to protein family HMM PF03471 YP_877591.1 identified by match to protein family HMM PF00704; match to protein family HMM PF01476 YP_877593.1 identified by match to protein family HMM PF06874 YP_877594.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00486 YP_877595.1 identified by match to protein family HMM PF00512; match to protein family HMM PF00672; match to protein family HMM PF02518 YP_877596.1 identified by match to protein family HMM PF00089; match to protein family HMM PF00595 YP_877597.1 identified by match to protein family HMM PF03631; match to protein family HMM TIGR00765 YP_877600.1 identified by match to protein family HMM PF02687 YP_877601.1 identified by match to protein family HMM PF00005 YP_877603.1 identified by match to protein family HMM PF02706 YP_877604.1 identified by match to protein family HMM TIGR01007 YP_877606.1 identified by match to protein family HMM PF02397 YP_877607.1 identified by match to protein family HMM PF02350; match to protein family HMM TIGR00236 YP_877608.1 identified by match to protein family HMM PF00984; match to protein family HMM PF03720; match to protein family HMM PF03721 YP_877609.1 identified by match to protein family HMM PF00534 YP_877615.1 identified by match to protein family HMM PF01943 YP_877617.1 identified by match to protein family HMM PF01370; match to protein family HMM TIGR01179 YP_877618.1 identified by match to protein family HMM PF04892 YP_877621.1 identified by match to protein family HMM PF00483; match to protein family HMM TIGR01099 YP_877622.1 identified by match to protein family HMM PF01841 YP_877623.1 identified by match to protein family HMM PF00465 YP_877625.1 identified by match to protein family HMM PF01841 YP_877626.1 identified by match to protein family HMM PF04542 YP_877628.1 identified by match to protein family HMM PF00440 YP_877629.1 identified by match to protein family HMM TIGR01730 YP_877635.1 identified by match to protein family HMM PF03062 YP_877641.1 identified by match to protein family HMM PF02659 YP_877642.1 identified by match to protein family HMM PF00436; match to protein family HMM TIGR00621 YP_877643.1 identified by match to protein family HMM PF01475 YP_877645.1 identified by match to protein family HMM PF01432; match to protein family HMM TIGR00181 YP_877646.1 identified by match to protein family HMM PF01966; match to protein family HMM TIGR00277 YP_877647.1 identified by match to protein family HMM PF01694 YP_877649.1 identified by match to protein family HMM PF00004; match to protein family HMM PF01434; match to protein family HMM PF06480; match to protein family HMM TIGR01241 YP_877653.1 identified by match to protein family HMM PF00515 YP_877655.1 identified by match to protein family HMM PF07685 YP_877656.1 identified by match to protein family HMM PF01225 YP_877657.1 COG1434 family; identified by match to protein family HMM PF02698 YP_877659.1 YitT family COG1284 subfamily; identified by match to protein family HMM PF02588 YP_877660.1 identified by match to protein family HMM PF00037; match to protein family HMM PF01512; match to protein family HMM TIGR01945 YP_877661.1 identified by match to protein family HMM PF03116; match to protein family HMM TIGR01946 YP_877662.1 identified by match to protein family HMM PF04205; match to protein family HMM TIGR01947 YP_877663.1 in Excherichia coli RsxABCDEG reduces SoxR which turns off induction of SoxS transcription factor in the absence of oxidizing agents; similar to the rnfABCDGE operon in Rhodobacter capsulatus involved in transferring electrons to nitrogenase YP_877664.1 identified by match to protein family HMM PF02508; match to protein family HMM TIGR01943 YP_877665.1 involved in the electron transport chain; in Methanosarcina acetivorans this protein is part of a cluster involved in electron transfer during growth on acetate YP_877667.1 identified by match to protein family HMM PF00571; match to protein family HMM PF01769; match to protein family HMM PF03448; match to protein family HMM TIGR00400 YP_877668.1 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_877669.1 identified by match to protein family HMM PF01238; match to protein family HMM TIGR00218 YP_877672.1 identified by match to protein family HMM PF02421; match to protein family HMM PF07664; match to protein family HMM PF07670; match to protein family HMM TIGR00231; match to protein family HMM TIGR00437; match to protein family HMM TIGR00650 YP_877673.1 identified by match to protein family HMM PF04023 YP_877675.1 identified by match to protein family HMM PF00437; match to protein family HMM PF05157 YP_877676.1 identified by match to protein family HMM PF00482 YP_877677.1 identified by match to protein family HMM PF00114 YP_877678.1 identified by match to protein family HMM PF05137 YP_877683.1 identified by match to protein family HMM PF01478; match to protein family HMM PF06750 YP_877684.1 identified by match to protein family HMM TIGR01175 YP_877686.1 identified by match to protein family HMM PF00092 YP_877687.1 identified by match to protein family HMM PF00083; match to protein family HMM PF07690 YP_877688.1 identified by match to protein family HMM PF00440 YP_877689.1 identified by match to protein family HMM PF00392 YP_877690.1 identified by match to protein family HMM PF02652; match to protein family HMM TIGR00795 YP_877691.1 identified by match to protein family HMM PF01012 YP_877692.1 identified by match to protein family HMM PF00766 YP_877693.1 identified by match to protein family HMM PF01565; match to protein family HMM PF02913 YP_877695.1 Charges one glutamine molecule and pairs it to its corresponding RNA trinucleotide during protein translation YP_877696.1 identified by match to protein family HMM PF01569 YP_877698.1 identified by match to protein family HMM PF01471; match to protein family HMM PF03734 YP_877699.1 Zn-dependent extracellular dipeptidase; similar to succinyl-diaminopimelate desuccinylases YP_877701.1 identified by match to protein family HMM PF02073 YP_877702.1 identified by match to protein family HMM PF00768; match to protein family HMM PF00905 YP_877703.1 identified by match to protein family HMM PF00293 YP_877704.1 similar to Thermotoga YP_877707.1 catalyzes the formation of 5-phospho-alpha-D-ribose 1-diphosphate and nicotinate from nicotinate D-ribonucleotide and diphosphate YP_877708.1 identified by match to protein family HMM PF00580 YP_877711.1 identified by match to protein family HMM PF01546; match to protein family HMM PF07687; match to protein family HMM TIGR01891 YP_877712.1 identified by match to protein family HMM PF00849; match to protein family HMM PF01479; match to protein family HMM TIGR00005 YP_877713.1 identified by match to protein family HMM PF01943 YP_877714.1 identified by match to protein family HMM PF01943 YP_877717.1 identified by match to protein family HMM PF00375 YP_877721.1 identified by match to protein family HMM PF02310; match to protein family HMM PF04055 YP_877723.1 Produces ATP from ADP in the presence of a proton gradient across the membrane. Subunit I is part of the membrane proton channel. YP_877724.1 produces ATP from ADP in the presence of a proton gradient across the membrane; the K subunit is a nonenzymatic component which binds the dimeric form by interacting with the G and E subunits YP_877725.1 identified by match to protein family HMM PF01991 YP_877726.1 produces ATP from ADP in the presence of a proton gradient across the membrane; the C subunit is part of the catalytic core of the ATP synthase complex YP_877727.1 produces ATP from ADP in the presence of a proton gradient across the membrane; the F subunit is part of the catalytic core of the ATP synthase complex YP_877728.1 produces ATP from ADP in the presence of a proton gradient across the membrane; the A subunit is part of the catalytic core of the ATP synthase complex YP_877729.1 produces ATP from ADP in the presence of a proton gradient across the membrane; the B subunit is part of the catalytic core of the ATP synthase complex YP_877730.1 produces ATP from ADP in the presence of a proton gradient across the membrane; the D subunit is part of the catalytic core of the ATP synthase complex YP_877731.1 identified by match to protein family HMM PF01327; match to protein family HMM TIGR00079 YP_877735.1 identified by match to protein family HMM PF00258; match to protein family HMM PF00753 YP_877736.1 type II fructose 1,6-bisphosphatae; in Escherichia coli this protein forms a dimer and binds manganese YP_877737.1 catalyzes the phosphorylation of the phosphocarrier protein HPr of the bacterial phosphotransferase system YP_877738.1 identified by match to protein family HMM PF01812 YP_877739.1 identified by match to protein family HMM PF01544 YP_877740.1 catalyzes the removal of amino acids from the N termini of peptides YP_877742.1 similar to YciV; identified by match to protein family HMM PF02231 YP_877743.1 identified by match to protein family HMM PF00675; match to protein family HMM PF05193 YP_877745.1 identified by match to protein family HMM PF05525; match to protein family HMM TIGR00796 YP_877750.1 identified by match to protein family HMM PF00557 YP_877755.1 identified by match to protein family HMM TIGR01909 YP_877757.1 has 3'-5' exonuclease, 5'-3' exonuclease and 5'-3'polymerase activities, primarily functions to fill gaps during DNA replication and repair YP_877758.1 catalyzes the phosphorylation of the 3'-hydroxyl group of dephosphocoenzyme A to form coenzyme A; involved in coenzyme A biosynthesis YP_877759.1 identified by match to protein family HMM PF01464 YP_877760.1 identified by match to protein family HMM PF01842 YP_877762.1 identified by match to protein family HMM PF00583 YP_877765.1 Maf; overexpression in Bacillus subtilis inhibits septation in the dividing cell YP_877766.1 Involved in DNA double-strand break repair and recombination. Promotes the annealing of complementary single-stranded DNA and by simulation of RAD51 recombinase YP_877767.1 functions in MreBCD complex in some organisms YP_877768.1 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_877769.1 identified by match to protein family HMM PF04093 YP_877770.1 identified by match to protein family HMM PF00905; match to protein family HMM PF03717 YP_877771.1 blocks the formation of polar Z-ring septums YP_877772.1 identified by match to protein family HMM PF01656; match to protein family HMM TIGR01968 YP_877773.1 works in conjunction with MinC and MinD to enable cell division at the midpoint of the long axis of the cell YP_877774.1 identified by match to protein family HMM PF01098; match to protein family HMM TIGR02210 YP_877775.1 catalyzes the formation of methylglyoxal from glycerone phosphate YP_877777.1 identified by match to protein family HMM PF02040 YP_877778.1 identified by match to protein family HMM PF00037; match to protein family HMM PF02256; match to protein family HMM PF02906 YP_877780.1 COG1543; identified by match to protein family HMM PF03065 YP_877781.1 identified by match to protein family HMM PF00675; match to protein family HMM PF05193 YP_877782.1 binds RecA and inhibits RecA-mediated DNA strand exchange and ATP hydrolysis and coprotease activities YP_877783.1 identified by match to protein family HMM PF01841 YP_877784.1 identified by match to protein family HMM PF00515 YP_877785.1 identified by match to protein family HMM PF00528 YP_877786.1 identified by match to protein family HMM PF00005 YP_877787.1 identified by match to protein family HMM PF01869; match to protein family HMM TIGR00241 YP_877789.1 identified by match to protein family HMM PF00239; match to protein family HMM PF07508 YP_877795.1 identified by match to protein family HMM PF00239; match to protein family HMM PF07508 YP_877796.1 identified by match to protein family HMM PF00239 YP_877798.1 identified by match to protein family HMM PF01381 YP_877803.1 identified by match to protein family HMM PF01522 YP_877804.1 identified by match to protein family HMM PF00294 YP_877805.1 inactivated, HRDL motif absent YP_877806.1 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_877808.1 identified by match to protein family HMM PF01225; match to protein family HMM PF02875; match to protein family HMM TIGR01499 YP_877809.1 identified by match to protein family HMM PF01594 YP_877811.1 responsible for recognizing base lesions in the genome and initiating base excision DNA repair YP_877815.1 identified by match to protein family HMM PF01522 YP_877816.1 binds to single stranded DNA and may facilitate the binding and interaction of other proteins to DNA YP_877817.1 identified by match to protein family HMM PF00132 YP_877818.1 identified by match to protein family HMM PF00155 YP_877819.1 identified by match to protein family HMM PF00496 YP_877820.1 identified by match to protein family HMM PF00528 YP_877821.1 identified by match to protein family HMM PF00528 YP_877822.1 identified by match to protein family HMM PF00005; match to protein family HMM TIGR01727 YP_877823.1 identified by match to protein family HMM PF00005; match to protein family HMM TIGR01727 YP_877824.1 catalyzes the reduction of 2,3-dihydrodipicolinate to 2,3,4,5-tetrahydrodipicolinate in lysine and diaminopimelate biosynthesis YP_877825.1 catalyzes the formation of dihydrodipicolinate from L-aspartate 4-semialdehyde and pyruvate in lysine and diaminopimelate biosynthesis YP_877826.1 identified by match to protein family HMM PF01118; match to protein family HMM PF02774; match to protein family HMM TIGR01296 YP_877829.1 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_877830.1 identified by match to protein family HMM PF01844 YP_877833.1 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_877834.1 identified by match to protein family HMM PF00707; match to protein family HMM PF05198 YP_877835.1 identified by match to protein family HMM PF01632; match to protein family HMM TIGR00001 YP_877836.1 binds directly to 23S ribosomal RNA prior to in vitro assembly of the 50S ribosomal subunit YP_877837.1 identified by match to protein family HMM PF02386; match to protein family HMM TIGR00933 YP_877838.1 identified by match to protein family HMM PF02080; match to protein family HMM PF02254 YP_877839.1 similar to YSGA B. subtilis; identified by match to protein family HMM PF00588 YP_877840.1 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_877841.1 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_877842.1 identified by match to protein family HMM PF05164 YP_877844.1 identified by match to protein family HMM PF00080 YP_877845.1 identified by match to protein family HMM PF01136 YP_877846.1 MutS2; MutS-II; involved in blocking homologous and homeologous recombination; has ATPase activity stimulated by recombination intermediates; inhibits DNA strand exchange YP_877847.1 identified by match to protein family HMM PF04463 YP_877848.1 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_877849.1 identified by match to protein family HMM PF02878; match to protein family HMM PF02879; match to protein family HMM PF02880 YP_877850.1 identified by match to protein family HMM PF00515 YP_877851.1 identified by match to protein family HMM PF00483; match to protein family HMM TIGR01099 YP_877852.1 identified by match to protein family HMM PF02719 YP_877853.1 identified by match to protein family HMM PF00984; match to protein family HMM PF03720; match to protein family HMM PF03721 YP_877854.1 identified by match to protein family HMM PF01408; match to protein family HMM PF02894 YP_877855.1 identified by match to protein family HMM PF00132 YP_877857.1 identified by match to protein family HMM PF01354; match to protein family HMM PF03102 YP_877858.1 identified by match to protein family HMM PF02350 YP_877859.1 identified by match to protein family HMM PF00132 YP_877860.1 identified by match to protein family HMM PF00483; match to protein family HMM PF00571 YP_877861.1 identified by match to protein family HMM PF01370 YP_877862.1 identified by match to protein family HMM PF01041 YP_877863.1 identified by match to protein family HMM PF03023; match to protein family HMM TIGR01695 YP_877866.1 identified by match to protein family HMM PF00534 YP_877868.1 identified by match to protein family HMM PF00535 YP_877869.1 identified by match to protein family HMM PF04932 YP_877870.1 identified by match to protein family HMM PF02397 YP_877871.1 identified by match to protein family HMM PF03808; match to protein family HMM TIGR00696 YP_877872.1 identified by match to protein family HMM PF01943 YP_877873.1 identified by match to protein family HMM PF00534 YP_877874.1 identified by match to protein family HMM PF00881 YP_877875.1 identified by match to protein family HMM PF04961 YP_877877.1 identified by match to protein family HMM PF01740; match to protein family HMM TIGR00377 YP_877878.1 binds to sigma F preventing its association with RNA polymerase during sporulation YP_877879.1 sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released; this sigma factor is responsible for the expression of sporulation specific genes and is expressed in the prespore at the onset of sporulation. Interaction with spoIIAB inhibits sigma F activity throughout the cell before the formation of the asymmetric septum; after septation the interaction is confined to the mother cell, and sigma F activity is released in the prespore. YP_877880.1 identified by match to protein family HMM PF03862 YP_877881.1 identified by match to protein family HMM PF07451 YP_877882.1 identified by match to protein family HMM PF03862 YP_877883.1 identified by match to protein family HMM PF00905; match to protein family HMM PF00912 YP_877884.1 identified by match to protein family HMM PF00156; match to protein family HMM TIGR01203 YP_877886.1 identified by match to protein family HMM TIGR00231 YP_877887.1 identified by match to protein family HMM PF01979 YP_877888.1 identified by match to protein family HMM PF01909 YP_877889.1 identified by match to protein family HMM PF00392 YP_877890.1 identified by match to protein family HMM PF03130 YP_877891.1 identified by match to protein family HMM PF01205 YP_877892.1 identified by match to protein family HMM PF01709; match to protein family HMM TIGR01033 YP_877896.1 identified by match to protein family HMM PF02447 YP_877897.1 identified by match to protein family HMM PF00005; match to protein family HMM PF00664 YP_877898.1 identified by match to protein family HMM PF00005; match to protein family HMM PF00664 YP_877899.1 similar to YTFJ B. subtilis YP_877901.1 identified by match to protein family HMM PF07670 YP_877905.1 plays an essential role in ATP-dependent branch migration of the Holliday junction YP_877906.1 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_877907.1 Synthesizes oQ from preQ1 in a single S-adenosylmethionine-requiring step YP_877908.1 Exchanges the guanine residue with 7-aminomethyl-7-deazaguanine in tRNAs with GU(N) anticodons (tRNA-Asp, -Asn, -His and -Tyr) YP_877909.1 member of preprotein translocase; forms a heterotrimer with SecD and SecF; links the SecD/SecF/YajC/YidC complex with the SecY/SecE/SecG complex YP_877912.1 identified by match to protein family HMM PF04055 YP_877913.1 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_877914.1 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_877915.1 identified by match to protein family HMM PF01368 YP_877916.1 catalyzes a salvage reaction resulting in the formation of AMP which is metabolically less costly than a de novo synthesis YP_877917.1 identified by match to protein family HMM PF01842; match to protein family HMM PF01966; match to protein family HMM PF02824; match to protein family HMM PF04607; match to protein family HMM TIGR00691 YP_877918.1 hydrolyzes D-tyrosyl-tRNA(Tyr) into D-tyrosine and free tRNA(Tyr); possible defense mechanism against a harmful effect of D-tyrosine YP_877919.1 identified by match to protein family HMM PF00753 YP_877920.1 catalyzes the oxygen-independent formation of protoporphyrinogen-IX from coproporphyrinogen-III YP_877921.1 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_877922.1 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_877923.1 COG1937 family; identified by match to protein family HMM PF02583 YP_877925.1 identified by match to protein family HMM PF06738 YP_877926.1 catalyzes the reaction of glycine with 5,10-methylenetetrahydrofolate to form L-serine and tetrahydrofolate YP_877927.1 identified by match to protein family HMM PF00037; match to protein family HMM PF01558; match to protein family HMM PF01855; match to protein family HMM PF02775; match to protein family HMM TIGR02176 YP_877929.1 identified by match to protein family HMM TIGR01488; match to protein family HMM TIGR01490 YP_877930.1 identified by match to protein family HMM PF01063 YP_877931.1 identified by match to protein family HMM PF00358; match to protein family HMM PF00367; match to protein family HMM PF02378; match to protein family HMM TIGR00826; match to protein family HMM TIGR00830 YP_877932.1 identified by match to protein family HMM PF03961 YP_877933.1 identified by match to protein family HMM PF01584 YP_877934.1 catalyzes the conversion of glutamine residues to glutamate on methyl-accepting chemotaxis receptors YP_877935.1 identified by match to protein family HMM PF00072; match to protein family HMM PF01339 YP_877936.1 identified by match to protein family HMM PF01739; match to protein family HMM PF03705 YP_877937.1 identified by match to protein family HMM PF01584; match to protein family HMM PF01627; match to protein family HMM PF02518; match to protein family HMM PF02895; match to protein family HMM PF07194 YP_877938.1 identified by match to protein family HMM PF04509 YP_877939.1 identified by match to protein family HMM PF00072 YP_877940.1 identified by match to protein family HMM PF01584 YP_877941.1 identified by match to protein family HMM PF01052; match to protein family HMM PF02154; match to protein family HMM TIGR01397 YP_877942.1 One of three proteins involved in switching the direction of the flagellar rotation YP_877943.1 identified by match to protein family HMM PF04316 YP_877945.1 identified by match to protein family HMM PF00460; match to protein family HMM PF06429 YP_877946.1 identified by match to protein family HMM PF00669 YP_877947.1 binds to flagellin and appears to stabilize flagellin during flagella assembly YP_877948.1 identified by match to protein family HMM TIGR00202 YP_877949.1 similar to YVYC B. subtilis; identified by match to protein family HMM PF03646 YP_877951.1 identified by match to protein family HMM PF02561; match to protein family HMM TIGR00208 YP_877952.1 identified by match to protein family HMM PF02465; match to protein family HMM PF07195 YP_877954.1 identified by match to protein family HMM PF00669; match to protein family HMM PF00700 YP_877955.1 identified by match to protein family HMM PF00669; match to protein family HMM PF00700 YP_877956.1 identified by match to protein family HMM PF01973 YP_877957.1 identified by match to protein family HMM PF01973 YP_877959.1 identified by match to protein family HMM PF02719 YP_877961.1 identified by match to protein family HMM PF02348 YP_877964.1 identified by match to protein family HMM PF01354; match to protein family HMM PF03102 YP_877965.1 identified by match to protein family HMM PF01370 YP_877966.1 identified by match to protein family HMM PF00483 YP_877968.1 identified by match to protein family HMM PF00884 YP_877969.1 identified by match to protein family HMM PF00892 YP_877970.1 identified by match to protein family HMM PF00669; match to protein family HMM PF00700 YP_877971.1 identified by match to protein family HMM PF00700 YP_877972.1 with FlgF and C makes up the proximal portion of the flagellar basal body rod YP_877973.1 with FlgF and B makes up the proximal portion of the flagellar basal body rod YP_877974.1 forms a junction between the M-ring and FlgB during flagella biosynthesis YP_877975.1 the MS-ring anchors the flagellum to the cytoplasmic membrane; part of the flagellar basal body which consists of four rings L, P, S, and M mounted on a central rod YP_877976.1 One of three proteins involved in switching the direction of the flagellar rotation YP_877978.1 identified by match to protein family HMM PF00006; match to protein family HMM PF02874; match to protein family HMM TIGR01026 YP_877980.1 identified by match to protein family HMM PF02120 YP_877981.1 identified by match to protein family HMM PF03963 YP_877983.1 identified by match to protein family HMM PF00460; match to protein family HMM PF06429 YP_877984.1 identified by match to protein family HMM PF06289 YP_877985.1 identified by match to protein family HMM PF01618 YP_877986.1 identified by match to protein family HMM PF00691 YP_877987.1 identified by match to protein family HMM PF03748 YP_877989.1 FliP, with proteins FliQ and FliR, forms the core of the central channel in the flagella export apparatus YP_877990.1 identified by match to protein family HMM PF01313; match to protein family HMM TIGR01402 YP_877991.2 FlhB is a membrane protein responsible for substrate specificity in switching from rod/hook-type export to filament-type export; FliR is required for export of flagellar proteins, although a specific role has not yet been determined YP_877992.1 membrane protein involved in the flagellar export apparatus YP_877993.1 positive regulator of class III flagellar genes YP_877994.1 similar to YLXH B. subtilis; identified by match to protein family HMM PF01656 YP_877996.1 identified by match to protein family HMM PF04542; match to protein family HMM PF04545 YP_877999.1 makes up the distal portion of the flagellar basal body rod; the Clostridia have two adjacent copies of the FlgG gene YP_878000.1 makes up the distal portion of the flagellar basal body rod; the Clostridia have 2 adjacent copies of the FlgG gene YP_878001.1 catalyzes the hydrolysis of pyrophosphate to phosphate YP_878002.1 identified by match to protein family HMM PF00122; match to protein family HMM PF00689; match to protein family HMM PF00690; match to protein family HMM PF00702; match to protein family HMM TIGR01494; match to protein family HMM TIGR01517 YP_878005.1 identified by match to protein family HMM PF05362 YP_878006.1 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_878007.1 identified by match to protein family HMM PF01795; match to protein family HMM TIGR00006 YP_878009.1 identified by match to protein family HMM PF00905; match to protein family HMM PF03717; match to protein family HMM PF03793; match to protein family HMM TIGR02214 YP_878010.1 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_878011.1 identified by match to protein family HMM PF01225; match to protein family HMM PF02875; match to protein family HMM TIGR01143 YP_878012.1 First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan YP_878013.1 identified by match to protein family HMM PF01098 YP_878014.1 identified by match to protein family HMM PF03799 YP_878015.1 identified by match to protein family HMM PF05949 YP_878016.1 identified by match to protein family HMM PF06947 YP_878017.1 identified by match to protein family HMM PF05949 YP_878018.1 identified by match to protein family HMM PF01168; match to protein family HMM TIGR00044 YP_878019.1 identified by match to protein family HMM PF04472 YP_878020.1 identified by match to protein family HMM PF01479 YP_878021.1 identified by match to protein family HMM PF05103 YP_878022.1 enables the cleavage of the glycosidic bond in both 5'-methylthioadenosine and S-adenosylhomocysteine YP_878023.1 similar to YTEA B. subtilis YP_878024.1 lipoprotein signal peptidase; integral membrane protein that removes signal peptides from prolipoproteins during lipoprotein biosynthesis YP_878025.1 identified by match to protein family HMM PF00849; match to protein family HMM PF01479; match to protein family HMM TIGR00005 YP_878026.1 regulates pyrimidine biosynthesis by binding to the mRNA of the pyr genes, also has been shown to have uracil phosphoribosyltransferase activity YP_878027.1 identified by match to protein family HMM PF05670; match to protein family HMM PF05833 YP_878028.1 involved in lysine biosynthesis; DAP epimerase; produces DL-diaminopimelate from LL-diaminopimelate YP_878029.1 identified by match to protein family HMM PF00437; match to protein family HMM PF05157 YP_878030.1 identified by match to protein family HMM PF00482 YP_878039.1 Involved in peptide bond synthesis; alters the affinity of the ribosome for aminoacyl-tRNA YP_878043.1 necessary for complete engulfment of forespore YP_878044.1 identified by match to protein family HMM PF06686 YP_878050.1 identified by match to protein family HMM PF03780 YP_878051.1 Regulates rRNA biosynthesis by transcriptional antitermination YP_878052.1 catalyzes the formation of 5,10-methenyltetrahydrofolate from 5,10-methylenetetrahydrofolate and subsequent formation of 10-formyltetrahydrofolate from 5,10-methenyltetrahydrofolate YP_878053.1 bidirectionally degrades single-stranded DNA into large acid-insoluble oligonucleotides YP_878054.1 catalyzes the bidirectional exonucleolytic cleavage of DNA YP_878055.1 identified by match to protein family HMM PF00348 YP_878056.1 catalyzes the formation of 1-deoxy-D-xylulose 5-phosphate from pyruvate and D-glyceraldehyde 3-phosphate YP_878057.1 identified by match to protein family HMM PF01479; match to protein family HMM PF01728; match to protein family HMM TIGR00478 YP_878058.1 identified by match to protein family HMM PF01513 YP_878059.1 regulates arginine biosynthesis when complexed with arginine by binding at site that overlap the promotors of the arginine biosynthesis genes YP_878060.1 identified by match to protein family HMM PF02463; match to protein family HMM TIGR00634 YP_878061.1 identified by match to protein family HMM PF00595; match to protein family HMM PF05580 YP_878062.1 identified by match to protein family HMM PF00072 YP_878066.1 identified by match to protein family HMM PF00081; match to protein family HMM PF02777 YP_878069.1 identified by match to protein family HMM PF00005 YP_878083.1 identified by match to protein family HMM PF00583 YP_878084.1 identified by match to protein family HMM PF00270; match to protein family HMM PF00271; match to protein family HMM PF04851 YP_878086.1 identified by match to protein family HMM PF00005 YP_878089.1 identified by match to protein family HMM PF00293 YP_878094.1 identified by match to protein family HMM PF02645; match to protein family HMM TIGR00762 YP_878096.1 identified by match to protein family HMM PF00293 YP_878098.1 identified by match to protein family HMM PF00589; match to protein family HMM PF02899; match to protein family HMM TIGR02225 YP_878099.1 identified by match to protein family HMM PF00768 YP_878100.1 catalyzes the dehydration of 2,3-dihydroxy-3-methylbutanoate to 3-methyl-2-oxobutanoate in valine and isoleucine biosynthesis YP_878101.1 catalyzes the formation of (R)-2,3-dihydroxy-3-methylbutanoate from (S)-2-hydroxy-2-methyl-3-oxobutanoate in valine and isoleucine biosynthesis YP_878102.1 identified by match to protein family HMM PF00205; match to protein family HMM PF02776; match to protein family HMM TIGR00118 YP_878103.1 identified by match to protein family HMM PF01063; match to protein family HMM TIGR01122 YP_878104.1 identified by match to protein family HMM PF01743 YP_878105.1 functions during chromosome segregation; may form a condensin-like structure with SMC and ScpB YP_878106.1 functions during chromosome segregation; may form a condensin-like structure with SMC and ScpA; forms a homodimer YP_878109.1 identified by match to protein family HMM PF00768 YP_878112.1 identified by match to protein family HMM PF00480 YP_878115.1 identified by match to protein family HMM PF01134 YP_878122.1 identified by match to protein family HMM PF00583 YP_878124.1 identified by match to protein family HMM PF00390; match to protein family HMM PF03949 YP_878125.1 Catalyzes the reversible hydration of fumaric acid to yield I-malic acid YP_878126.1 identified by match to protein family HMM PF05683; match to protein family HMM TIGR00723 YP_878127.1 identified by match to protein family HMM PF00496 YP_878133.1 identified by match to protein family HMM PF04647 YP_878136.1 identified by match to protein family HMM PF04397 YP_878138.1 identified by match to protein family HMM PF00860 YP_878139.1 identified by match to protein family HMM PF01047 YP_878143.1 identified by match to protein family HMM PF00005 YP_878144.1 tryptophan indole-lyase; catalyzes the formation of indole and pyruvate from tryptophan YP_878145.1 identified by match to protein family HMM PF00209 YP_878146.1 identified by match to protein family HMM PF00375 YP_878147.1 identified by match to protein family HMM PF00291; match to protein family HMM TIGR01127 YP_878149.1 identified by match to protein family HMM PF00300 YP_878150.1 catalyzes the synthesis of alpha-ribazole-5'-phosphate from nicotinate mononucleotide and 5,6-dimethylbenzimidazole YP_878151.1 identified by match to protein family HMM PF02283 YP_878152.1 identified by match to protein family HMM PF02654; match to protein family HMM TIGR00317 YP_878153.1 identified by match to protein family HMM PF00300 YP_878154.1 catalyzes amidations at positions B, D, E, and G on adenosylcobyrinic A,C-diamide. NH(2) groups are provided by glutamine, and one molecule of ATP is hydrogenolyzed for each amidation YP_878155.1 identified by match to protein family HMM PF03186; match to protein family HMM TIGR00380 YP_878156.1 identified by match to protein family HMM PF00155; match to protein family HMM TIGR01140 YP_878157.1 identified by match to protein family HMM PF01497 YP_878158.1 identified by match to protein family HMM PF01032 YP_878159.1 identified by match to protein family HMM PF00005 YP_878160.1 identified by match to protein family HMM PF00015 YP_878161.1 identified by match to protein family HMM PF00753 YP_878164.1 identified by match to protein family HMM PF01170 YP_878165.1 identified by match to protein family HMM PF00849; match to protein family HMM PF01479; match to protein family HMM TIGR00093 YP_878166.1 identified by match to protein family HMM PF01380; match to protein family HMM PF01418 YP_878167.1 identified by match to protein family HMM PF03486 YP_878168.1 Catalyzes the formation of (d)CDP from ATP and (d)CMP YP_878169.1 these proteins appear to have resulted from a fusion of lytB and rpsA; 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_878170.1 identified by match to protein family HMM PF00583 YP_878172.1 identified by match to protein family HMM PF01183; match to protein family HMM PF01471 YP_878174.1 identified by match to protein family HMM PF01289 YP_878176.1 identified by match to protein family HMM PF03616; match to protein family HMM TIGR00210 YP_878177.1 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_878178.1 This protein performs the mismatch recognition step during the DNA repair process YP_878179.1 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_878180.1 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_878181.1 identified by match to protein family HMM PF01423; match to protein family HMM TIGR02383 YP_878182.1 identified by match to protein family HMM PF00809; match to protein family HMM PF02310; match to protein family HMM PF02574; match to protein family HMM PF02607 YP_878183.1 identified by match to protein family HMM PF06838 YP_878184.1 Represses a number of genes involved in the response to DNA damage YP_878186.1 identified by match to protein family HMM PF00589; match to protein family HMM PF02899 YP_878187.1 identified by match to protein family HMM PF01168 YP_878188.1 identified by match to protein family HMM PF00324 YP_878189.1 identified by match to protein family HMM PF00278; match to protein family HMM PF02784 YP_878190.1 identified by match to protein family HMM PF00015 YP_878191.1 Catalyzes two discrete reactions in the de novo synthesis of purines: the cleavage of adenylosuccinate and succinylaminoimidazole carboxamide ribotide YP_878192.1 identified by match to protein family HMM PF00381; match to protein family HMM TIGR01003 YP_878193.1 identified by match to protein family HMM PF00155 YP_878195.1 protein from Staphylococcus aureus has phosphodiesterase activity against 2'-3'-cAMP and 2'-3'-cGMP YP_878196.1 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_878197.1 identified by match to protein family HMM PF01066; match to protein family HMM TIGR00560 YP_878198.1 identified by match to protein family HMM PF00919; match to protein family HMM PF01938; match to protein family HMM PF04055; match to protein family HMM TIGR00089; match to protein family HMM TIGR01125 YP_878199.1 identified by match to protein family HMM PF01580 YP_878200.1 identified by match to protein family HMM PF00574 YP_878201.1 catalyzes the formation of 4-phospho-L-aspartate from L-aspartate and ATP; diaminopimelate sensitive YP_878202.1 similar to YLMC B. subtilis; identified by match to protein family HMM PF05239 YP_878203.1 identified by match to protein family HMM PF00013; match to protein family HMM PF00575; match to protein family HMM PF01138; match to protein family HMM PF03725; match to protein family HMM PF03726; match to protein family HMM PF07650 YP_878204.1 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_878205.1 catalyzes the formation of FMN from riboflavin and the formation of FAD from FMN; in Bacillus the ribC gene has both flavokinase and FAD synthetase activities YP_878206.1 catalyzes isomerization of specific uridines in RNA to pseudouridine; responsible for residues in T loops of many tRNAs YP_878207.1 identified by match to protein family HMM PF01368; match to protein family HMM PF02272 YP_878208.1 associates with free 30S ribosomal subunits; essential for efficient processing of 16S rRNA; in Escherichia coli rbfA is induced by cold shock YP_878209.1 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_878210.1 identified by match to protein family HMM PF04296 YP_878211.1 modifies transcription through interactions with RNA polymerase affecting elongation, readthrough, termination, and antitermination YP_878212.1 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_878213.1 catalyzes DNA-template-directed extension of the 3'- end of a DNA strand by one nucleotide at a time; required for leading strand synthesis; PolC exhibits 3' to 5' exonuclease activity YP_878214.1 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_878215.1 identified by match to protein family HMM PF00595; match to protein family HMM PF02163; match to protein family HMM TIGR00054 YP_878216.1 catalyzes the NADP-dependent rearrangement and reduction of 1-deoxy-D-xylulose-5-phosphate (DXP) to 2-C-methyl-D-erythritol 4-phosphate YP_878217.1 identified by match to protein family HMM PF01148 YP_878218.1 identified by match to protein family HMM PF01255; match to protein family HMM TIGR00055 YP_878219.1 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_878220.1 Catalyzes the phosphorylation of UMP to UDP YP_878221.1 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_878222.1 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_878223.1 CodY; DNA-binding protein that represses the expression of many genes that are induced as cells make the transition from rapid exponential growth to stationary phase (By similarity). It is a GTP-binding protein that senses the intracellular GTP concentration as an indicator of nutritional limitations. At low GTP concentration it no longer binds GTP and stop to act as a transcriptional repressor YP_878224.1 catalyzes the ATP-dependent breakage of single-stranded DNA followed by passage and rejoining, maintains net negative superhelicity YP_878225.1 identified by match to protein family HMM PF02481; match to protein family HMM TIGR00732 YP_878229.1 identified by match to protein family HMM PF00004 YP_878230.1 identified by match to protein family HMM PF01471; match to protein family HMM PF01510; match to protein family HMM PF01832 YP_878232.1 identified by match to protein family HMM TIGR01665 YP_878236.1 identified by match to protein family HMM TIGR01633 YP_878237.1 identified by match to protein family HMM PF05017; match to protein family HMM TIGR01760 YP_878244.1 identified by match to protein family HMM TIGR01563 YP_878250.1 identified by match to protein family HMM PF04233; match to protein family HMM TIGR01641 YP_878251.1 identified by match to protein family HMM PF05133 YP_878252.1 identified by match to protein family HMM PF04466; match to protein family HMM TIGR01547 YP_878253.1 identified by match to protein family HMM PF03592 YP_878255.1 identified by match to protein family HMM PF02810 YP_878265.1 identified by match to protein family HMM PF04404 YP_878272.1 identified by match to protein family HMM PF03374 YP_878273.1 identified by match to protein family HMM PF01381 YP_878274.1 identified by match to protein family HMM PF01381 YP_878276.1 identified by match to protein family HMM PF00239; match to protein family HMM PF07508 YP_878277.1 identified by match to protein family HMM PF01078; match to protein family HMM TIGR00368 YP_878278.1 identified by match to protein family HMM PF02021 YP_878279.1 RNH2; RNase HII; binds manganese; endonuclease which specifically degrades the RNA of RNA-DNA hybrids YP_878280.1 essential GTPase; functions in ribosome assembly; binds a unique part of the 23S rRNA; interacts with ribosomal protein L25(Ctc) YP_878281.1 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_878282.1 methylates guanosine-37 in various tRNAs; uses S-adenosyl-L-methionine to transfer methyl group to tRNA YP_878283.1 Essential for efficient processing of 16S rRNA YP_878285.1 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_878286.1 identified by match to protein family HMM PF00448; match to protein family HMM PF02881; match to protein family HMM PF02978; match to protein family HMM TIGR00959 YP_878287.1 identified by match to protein family HMM PF04297 YP_878288.1 identified by match to protein family HMM PF00448; match to protein family HMM PF02881; match to protein family HMM TIGR00064 YP_878289.1 identified by match to protein family HMM PF02463; match to protein family HMM PF02483; match to protein family HMM PF06470; match to protein family HMM TIGR00650; match to protein family HMM TIGR02168 YP_878290.1 identified by match to protein family HMM PF04232 YP_878291.1 identified by match to protein family HMM PF04055 YP_878292.1 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_878293.1 identified by match to protein family HMM PF00550; match to protein family HMM TIGR00517 YP_878294.1 involved in acylation of glycerol-3-phosphate to form 1-acyl-glycerol-3 phosphate for use in phospholipid biosynthesis; functions with PlsY YP_878295.1 some L32 proteins have zinc finger motifs consisting of CXXC while others do not YP_878296.1 COG1399; identified by match to protein family HMM PF02620 YP_878297.1 identified by match to protein family HMM PF00871; match to protein family HMM TIGR00016 YP_878298.1 in Salmonella this enzyme is required for ethanolamine catabolism; has higher affinity for CoA than Pta YP_878299.1 identified by match to protein family HMM PF05636 YP_878301.1 identified by match to protein family HMM PF07670 YP_878303.1 Catalyzes the conversion of ATP and pantetheine 4'-phosphate to diphosphate and 3'-dephospho-coA YP_878304.1 identified by match to protein family HMM PF03602; match to protein family HMM TIGR00095 YP_878305.1 identified by match to protein family HMM PF00270; match to protein family HMM PF00271; match to protein family HMM TIGR00643 YP_878306.1 identified by match to protein family HMM PF02734 YP_878307.1 identified by match to protein family HMM PF03780 YP_878308.1 required for 70S ribosome assembly YP_878309.1 identified by match to protein family HMM PF04263; match to protein family HMM TIGR01378 YP_878310.1 catalyzes the interconversion of D-ribulose 5-phosphate to xylulose 5-phosphate YP_878311.1 EngC; RsgA; CpgA; circularly permuted GTPase; ribosome small subunit-dependent GTPase A; has the pattern G4-G1-G3 as opposed to other GTPases; interacts strongly with 30S ribosome which stimulates GTPase activity YP_878312.1 identified by match to protein family HMM PF00069; match to protein family HMM PF03793 YP_878313.1 identified by match to protein family HMM PF00481 YP_878314.1 23S rRNA m2A2503 methyltransferase; methylates the C2 position of the A2530 nucleotide in 23S rRNA; may be involved in antibiotic resistance YP_878315.1 identified by match to protein family HMM PF01029; match to protein family HMM PF01189; match to protein family HMM TIGR00563 YP_878316.1 identified by match to protein family HMM PF04298 YP_878317.1 modifies the free amino group of the aminoacyl moiety of methionyl-tRNA(fMet) which is important in translation initiation; inactivation of this gene in Escherichia coli severely impairs growth YP_878318.1 cleaves off formyl group from N-terminal methionine residues of newly synthesized proteins; binds iron(2+) YP_878319.1 binding of PriA to forked DNA starts the assembly of the primosome, also possesses 3'-5' helicase activity YP_878320.1 catalyzes the conjugation of cysteine to 4'-phosphopantothenate to form 4-phosphopantothenoylcysteine, which is then decarboxylated to form 4'-phosphopantotheine YP_878321.1 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_878322.1 Essential for recycling GMP and indirectly, cGMP YP_878323.1 identified by match to protein family HMM PF04025 YP_878324.1 identified by match to protein family HMM PF03755; match to protein family HMM TIGR00255 YP_878325.1 identified by match to protein family HMM PF00860 YP_878327.1 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_878328.1 identified by match to protein family HMM PF04459 YP_878329.1 identified by match to protein family HMM PF02578; match to protein family HMM TIGR00726 YP_878330.1 identified by match to protein family HMM PF03477; match to protein family HMM TIGR00244 YP_878331.1 identified by match to protein family HMM PF05239 YP_878332.1 identified by match to protein family HMM PF00037; match to protein family HMM PF00111; match to protein family HMM PF02256; match to protein family HMM PF02906 YP_878333.1 identified by match to protein family HMM PF00375 YP_878334.1 sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released; this sigma factor is responsible for the expression of sporulation specific genes and is expressed after engulfment; this factor is involved in the transcription of small acid-soluble proteins involved in protecting the forespore chromatin YP_878335.2 sigma-29; sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released; this sigma factor is responsible for the expression of sporulation specific genes and is expressed in the mother cell at the onset of sporulation YP_878336.1 identified by match to protein family HMM PF03419 YP_878337.1 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_878338.1 identified by match to protein family HMM PF02491; match to protein family HMM TIGR01174 YP_878339.1 identified by match to protein family HMM PF00437; match to protein family HMM TIGR01420 YP_878340.1 sigma-28; sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released; this sigma factor is responsible for the expression of sporulation specific genes and is expressed in the mother cell after engulfment YP_878341.1 identified by match to protein family HMM PF00905 YP_878342.1 functions in pyrimidine salvage; pyrimidine ribonucleoside kinase; phosphorylates nucleosides or dinucleosides to make UMP or CMP using ATP or GTP as the donor YP_878343.1 identified by match to protein family HMM PF01136 YP_878344.1 identified by match to protein family HMM PF01596 YP_878345.1 identified by match to protein family HMM PF02618; match to protein family HMM TIGR00247 YP_878346.1 identified by match to protein family HMM PF00009; match to protein family HMM PF00679; match to protein family HMM PF03144; match to protein family HMM TIGR00231; match to protein family HMM TIGR01394 YP_878347.1 identified by match to protein family HMM PF06133 YP_878348.1 identified by match to protein family HMM PF00753; match to protein family HMM PF07521; match to protein family HMM TIGR00649 YP_878349.1 identified by match to protein family HMM PF01475 YP_878350.1 identified by match to protein family HMM PF06949 YP_878351.1 similar to RuvC resolvase with substantial differences; NMR structural information suggests this protein is monomeric; unknown cellular function YP_878353.1 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_878354.1 identified by match to protein family HMM PF03054; match to protein family HMM TIGR00420 YP_878355.1 identified by match to protein family HMM PF01592 YP_878356.1 identified by match to protein family HMM PF00266 YP_878357.1 identified by match to protein family HMM PF02082; match to protein family HMM TIGR00738 YP_878358.1 identified by match to protein family HMM PF00004 YP_878359.1 identified by match to protein family HMM PF00563 YP_878360.1 identified by match to protein family HMM PF00753 YP_878361.1 identified by match to protein family HMM PF00005 YP_878362.1 identified by match to protein family HMM PF01131; match to protein family HMM PF01751 YP_878363.1 mediates pseudouridylation (positions 38, 39, 40) at the tRNA anticodon region which contributes to the structural stability YP_878364.1 identified by match to protein family HMM PF00015 YP_878366.1 identified by match to protein family HMM PF01541 YP_878367.1 identified by match to protein family HMM PF00293 YP_878368.1 identified by match to protein family HMM PF01381 YP_878371.1 identified by match to protein family HMM PF03960 YP_878372.1 identified by match to protein family HMM PF00892 YP_878373.1 identified by match to protein family HMM PF01741; match to protein family HMM TIGR00220 YP_878374.1 identified by match to protein family HMM PF00004; match to protein family HMM PF02861 YP_878375.1 identified by match to protein family HMM PF00270; match to protein family HMM PF00271; match to protein family HMM PF00570; match to protein family HMM TIGR00614; match to protein family HMM TIGR01389 YP_878376.1 identified by match to protein family HMM PF00520 YP_878378.1 identified by match to protein family HMM PF03006; match to protein family HMM TIGR01065 YP_878380.1 identified by match to protein family HMM PF02421; match to protein family HMM PF07670 YP_878381.1 identified by match to protein family HMM PF04023 YP_878382.1 identified by match to protein family HMM PF01325; match to protein family HMM PF02742 YP_878383.1 identified by match to protein family HMM PF00753; match to protein family HMM PF07521 YP_878384.1 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_878385.1 identified by match to protein family HMM PF00269 YP_878386.1 identified by match to protein family HMM PF01554; match to protein family HMM TIGR00797 YP_878387.1 identified by match to protein family HMM PF00269 YP_878388.1 identified by match to protein family HMM PF00512; match to protein family HMM PF02518; match to protein family HMM TIGR00229 YP_878389.1 identified by match to protein family HMM PF01368; match to protein family HMM PF02272; match to protein family HMM TIGR00644 YP_878390.1 identified by match to protein family HMM PF01261 YP_878391.1 identified by match to protein family HMM PF01613 YP_878392.1 identified by match to protein family HMM PF00403 YP_878393.1 identified by match to protein family HMM PF00122; match to protein family HMM PF00403; match to protein family HMM PF00702; match to protein family HMM TIGR00003; match to protein family HMM TIGR01494; match to protein family HMM TIGR01511; match to protein family HMM TIGR01512; match to protein family HMM TIGR01525 YP_878394.1 identified by match to protein family HMM PF00675; match to protein family HMM PF05193 YP_878395.1 identified by match to protein family HMM PF00766 YP_878396.1 identified by match to protein family HMM PF01012 YP_878397.1 identified by match to protein family HMM PF00441; match to protein family HMM PF02770; match to protein family HMM PF02771 YP_878398.1 decatenates newly replicated chromosomal DNA and relaxes positive and negative DNA supercoiling YP_878399.1 decatenates newly replicated chromosomal DNA and relaxes positive and negative DNA supercoiling YP_878401.1 identified by match to protein family HMM PF00515 YP_878402.1 identified by match to protein family HMM PF01048; match to protein family HMM TIGR00107 YP_878403.1 identified by match to protein family HMM PF00015; match to protein family HMM PF00672 YP_878406.1 identified by match to protein family HMM PF02353 YP_878407.1 identified by match to protein family HMM PF00005 YP_878408.1 identified by match to protein family HMM PF00528 YP_878410.1 An electron-transfer protein; flavodoxin binds one FMN molecule, which serves as a redox-active prosthetic group YP_878411.1 identified by match to protein family HMM PF00072; match to protein family HMM PF01584 YP_878412.1 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_878413.1 identified by match to protein family HMM PF00015; match to protein family HMM PF00672 YP_878414.1 identified by match to protein family HMM PF00857 YP_878416.1 identified by match to protein family HMM PF00122; match to protein family HMM PF00702; match to protein family HMM TIGR01494 YP_878417.1 identified by match to protein family HMM PF00126; match to protein family HMM PF03466 YP_878418.1 identified by match to protein family HMM PF03601 YP_878419.1 identified by match to protein family HMM PF01554; match to protein family HMM TIGR00797 YP_878420.1 identified by match to protein family HMM PF00563; match to protein family HMM PF00990; match to protein family HMM TIGR00229; match to protein family HMM TIGR00254 YP_878421.1 identified by match to protein family HMM PF00563; match to protein family HMM PF00785; match to protein family HMM PF00990; match to protein family HMM TIGR00229; match to protein family HMM TIGR00254 YP_878422.1 identified by match to protein family HMM PF00209 YP_878423.1 identified by match to protein family HMM PF00015 YP_878424.1 identified by match to protein family HMM PF06207 YP_878425.1 identified by match to protein family HMM PF03358 YP_878427.1 identified by match to protein family HMM PF00324 YP_878428.1 identified by match to protein family HMM PF00270; match to protein family HMM PF00271 YP_878429.1 identified by match to protein family HMM PF00313 YP_878430.1 identified by match to protein family HMM PF04892 YP_878432.1 identified by match to protein family HMM PF01025 YP_878433.1 member of metallo-beta-lactamase family; the purified enzyme from Escherichia coli forms dimeric zinc phosphodiesterase; in Bacillus subtilis this protein is a 3'-tRNA processing endoribonuclease and is essential while in Escherichia coli it is not; associates with two zinc ions YP_878438.1 identified by match to protein family HMM PF00268 YP_878439.1 Catalyzes the rate-limiting step in dNTP synthesis YP_878441.1 identified by match to protein family HMM PF06050 YP_878442.1 identified by match to protein family HMM PF06050 YP_878443.1 identified by match to protein family HMM PF01869; match to protein family HMM TIGR00241 YP_878444.1 identified by match to protein family HMM PF00903 YP_878445.1 identified by match to protein family HMM PF01144 YP_878447.1 identified by match to protein family HMM PF00070 YP_878448.1 identified by match to protein family HMM PF00462; match to protein family HMM TIGR02196 YP_878449.1 identified by match to protein family HMM PF00255 YP_878451.1 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_878452.1 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_878453.1 identified by match to protein family HMM PF00696; match to protein family HMM TIGR00761 YP_878454.1 catalyzes the formation of N-acetyl-l-glutamate 5-semialdehyde from 2-oxoglutarate and N(2)-acetyl-L-ornithine YP_878455.1 identified by match to protein family HMM PF06050 YP_878456.1 identified by match to protein family HMM PF01869; match to protein family HMM TIGR00241 YP_878457.1 identified by match to protein family HMM PF01242 YP_878458.1 identified by match to protein family HMM PF04055 YP_878459.1 identified by match to protein family HMM PF06508; match to protein family HMM TIGR00364 YP_878460.1 identified by match to protein family HMM PF00702; match to protein family HMM TIGR00099; match to protein family HMM TIGR01484 YP_878462.1 identified by match to protein family HMM PF03773 YP_878464.1 identified by match to protein family HMM PF02492 YP_878465.1 identified by match to protein family HMM PF00990; match to protein family HMM TIGR00254 YP_878469.1 identified by match to protein family HMM PF03190 YP_878470.1 identified by match to protein family HMM PF01554; match to protein family HMM TIGR00797 YP_878471.1 identified by match to protein family HMM PF01676; match to protein family HMM TIGR00306 YP_878473.1 identified by match to protein family HMM PF00939 YP_878474.1 identified by match to protein family HMM PF00126; match to protein family HMM PF03466 YP_878475.1 identified by match to protein family HMM PF01546; match to protein family HMM PF07687; match to protein family HMM TIGR01891 YP_878476.1 identified by match to protein family HMM PF01863 YP_878479.1 identified by match to protein family HMM PF04313; match to protein family HMM PF04851; match to protein family HMM TIGR00348 YP_878480.1 identified by match to protein family HMM PF01420 YP_878481.1 identified by match to protein family HMM PF02384; match to protein family HMM PF02506 YP_878485.1 identified by match to protein family HMM PF05958; match to protein family HMM TIGR00479 YP_878487.1 identified by match to protein family HMM PF00753 YP_878489.1 identified by match to protein family HMM PF00149; match to protein family HMM TIGR00040 YP_878490.1 identified by match to protein family HMM PF00860 YP_878491.1 identified by match to protein family HMM PF01071; match to protein family HMM PF02769; match to protein family HMM PF02842; match to protein family HMM PF02843; match to protein family HMM PF02844; match to protein family HMM TIGR00877; match to protein family HMM TIGR01857 YP_878492.1 involved in de novo purine biosynthesis YP_878493.1 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_878494.1 catalyzes the formation of 1-(5-phosphoribosyl)-5-aminoimidazole from 2-(formamido)-N1-(5-phosphoribosyl)acetamidine and ATP in purine biosynthesis YP_878495.1 Catalyzes first step of the de novo purine nucleotide biosynthetic pathway YP_878496.1 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_878497.1 identified by match to protein family HMM PF00731; match to protein family HMM TIGR01162 YP_878498.1 identified by match to protein family HMM PF01235; match to protein family HMM TIGR00835 YP_878500.1 similar to YPAA B. subtilis YP_878501.1 identified by match to protein family HMM PF05525; match to protein family HMM TIGR00796 YP_878502.1 identified by match to protein family HMM PF02421; match to protein family HMM PF07664; match to protein family HMM PF07670; match to protein family HMM TIGR00231; match to protein family HMM TIGR00437 YP_878503.1 identified by match to protein family HMM PF04023 YP_878504.1 identified by match to protein family HMM PF04023 YP_878507.1 identified by match to protein family HMM PF00005 YP_878508.1 identified by match to protein family HMM PF00392 YP_878510.1 identified by match to protein family HMM PF02811; match to protein family HMM TIGR01856 YP_878512.1 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_878513.1 identified by match to protein family HMM PF00892 YP_878514.1 identified by match to protein family HMM PF01381 YP_878515.1 identified by match to protein family HMM PF03929 YP_878519.1 identified by match to protein family HMM PF00583 YP_878521.1 identified by match to protein family HMM PF00583 YP_878522.1 identified by match to protein family HMM PF01554 YP_878523.1 identified by match to protein family HMM PF00817 YP_878524.1 identified by match to protein family HMM PF01228; match to protein family HMM PF02901; match to protein family HMM TIGR01255 YP_878525.1 identified by match to protein family HMM PF04055 YP_878528.1 identified by match to protein family HMM PF02632 YP_878529.1 identified by match to protein family HMM PF00999 YP_878530.1 identified by match to protein family HMM PF00082; match to protein family HMM PF02225; match to protein family HMM PF06280 YP_878533.1 identified by match to protein family HMM PF00015; match to protein family HMM PF00672; match to protein family HMM PF02743 YP_878534.1 identified by match to protein family HMM PF00440 YP_878535.1 identified by match to protein family HMM PF00070; match to protein family HMM PF00724 YP_878537.1 catalyzes the formation of dUMP from dUTP YP_878542.1 identified by match to protein family HMM PF01784; match to protein family HMM TIGR00486 YP_878543.1 identified by match to protein family HMM PF04816 YP_878546.1 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_878547.1 synthesizes RNA primers at the replication forks YP_878549.1 identified by match to protein family HMM PF00571 YP_878550.1 identified by match to protein family HMM PF00627 YP_878551.1 involved in DNA repair and RecFOR pathway recombination; RecFOR proteins displace ssDNA-binding protein and facilitate the production of RecA-coated ssDNA YP_878552.1 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_878553.1 Reclaims exogenous and endogenous cytidine and 2'-deoxycytidine molecules for UMP synthesis YP_878554.1 identified by match to protein family HMM PF01219; match to protein family HMM PF01569 YP_878555.1 identified by match to protein family HMM PF02130; match to protein family HMM TIGR00043 YP_878556.1 identified by match to protein family HMM PF01966; match to protein family HMM PF07698; match to protein family HMM TIGR00277 YP_878557.1 identified by match to protein family HMM PF06898 YP_878559.1 identified by match to protein family HMM PF02637 YP_878560.1 identified by match to protein family HMM PF01165; match to protein family HMM TIGR00030 YP_878561.1 identified by match to protein family HMM PF01230 YP_878562.1 identified by match to protein family HMM PF00919; match to protein family HMM PF04055; match to protein family HMM TIGR00089; match to protein family HMM TIGR01579 YP_878563.1 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_878564.1 methylates ribosomal protein L11 at multiple amino acid positions; mutations of these genes in Escherichia coli or Thermus thermophilus has no apparent phenotype YP_878565.1 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_878566.1 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_878567.1 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_878568.1 Negative regulator of class I heat shock genes (grpE-dnaK-dnaJ and groELS operons). Prevents heat-shock induction of these operons YP_878569.1 catalyzes the oxygen-independent formation of protoporphyrinogen-IX from coproporphyrinogen-III YP_878570.1 binds to the ribosome on the universally-conserved alpha-sarcin loop YP_878572.1 identified by match to protein family HMM PF07454 YP_878573.1 Initiates the rapid degradation of small, acid-soluble proteins during spore germination YP_878574.1 binds directly to the 16S rRNA and is involved in post-translational inhibition of arginine and ornithine decarboxylase YP_878575.1 required for the assembly and function of the DNAX complex which is required for the assembly of the beta subunit onto primed DNA YP_878576.1 identified by match to protein family HMM PF03772; match to protein family HMM TIGR00360 YP_878577.1 identified by match to protein family HMM PF00122 YP_878579.1 identified by match to protein family HMM PF00633; match to protein family HMM TIGR00426 YP_878580.1 identified by match to protein family HMM PF00768 YP_878581.1 identified by match to protein family HMM PF00849; match to protein family HMM PF01479; match to protein family HMM TIGR00005 YP_878582.1 identified by match to protein family HMM PF03816; match to protein family HMM TIGR00350 YP_878583.1 identified by match to protein family HMM PF01966; match to protein family HMM TIGR00277; match to protein family HMM TIGR00488 YP_878584.1 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_878585.1 identified by match to protein family HMM PF01985; match to protein family HMM TIGR00253 YP_878586.1 essential GTPase; exhibits high exchange rate for GTP/GDP; associates with 50S ribosomal subunit; involved in regulation of chromosomal replication YP_878588.1 involved in the peptidyltransferase reaction during translation YP_878589.1 identified by match to protein family HMM PF04327 YP_878590.1 identified by match to protein family HMM PF00829; match to protein family HMM TIGR00061 YP_878592.1 identified by match to protein family HMM PF00929 YP_878594.1 identified by match to protein family HMM PF04055 YP_878595.1 identified by match to protein family HMM PF00571; match to protein family HMM PF02163 YP_878596.1 identified by match to protein family HMM PF01551 YP_878597.1 identified by match to protein family HMM PF01729; match to protein family HMM PF02749; match to protein family HMM TIGR00078 YP_878598.1 catalyzes the formation of oxaloacetate from L-aspartate YP_878599.1 3 different subfamilies; catalyzes the formation of quinolinate from iminoaspartate and dihydroxyacetone phosphate YP_878601.1 required for the synthesis of the hydromethylpyrimidine moiety of thiamine YP_878602.1 identified by match to protein family HMM PF00488 YP_878603.1 identified by match to protein family HMM PF01458 YP_878604.1 identified by match to protein family HMM PF00005 YP_878605.1 identified by match to protein family HMM PF04246 YP_878606.1 converts 2-oxoglutarate to glutamate; in Escherichia coli this enzyme plays a role in glutamate synthesis when the cell is under energy restriction; uses NADPH; forms a homohexamer YP_878608.1 identified by match to protein family HMM PF00132; match to protein family HMM PF00483; match to protein family HMM PF02878 YP_878609.1 identified by match to protein family HMM PF00534 YP_878610.1 identified by match to protein family HMM PF01145 YP_878612.1 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_878614.1 identified by match to protein family HMM PF00122; match to protein family HMM PF00689; match to protein family HMM PF00690; match to protein family HMM PF00702; match to protein family HMM TIGR01494 YP_878635.1 identified by match to protein family HMM PF01966; match to protein family HMM TIGR00277 YP_878637.1 identified by match to protein family HMM PF02231; match to protein family HMM TIGR01856 YP_878639.1 identified by match to protein family HMM PF01037 YP_878640.1 identified by match to protein family HMM PF04070 YP_878642.1 identified by match to protein family HMM PF03553 YP_878643.1 catalyzes the formation of arginine from (N-L-arginino)succinate YP_878644.1 catalyzes the formation of 2-N(omega)-(L-arginino)succinate from L-citrulline and L-aspartate in arginine biosynthesis, AMP-forming YP_878645.1 identified by match to protein family HMM PF00005 YP_878646.1 identified by match to protein family HMM PF00528; match to protein family HMM TIGR01726 YP_878647.1 identified by match to protein family HMM PF00497 YP_878648.1 identified by match to protein family HMM PF00180; match to protein family HMM TIGR00175 YP_878649.1 Catalyzes the conversion of citrate to isocitrate YP_878650.1 identified by match to protein family HMM PF01553; match to protein family HMM TIGR00530 YP_878651.1 identified by match to protein family HMM PF00753 YP_878652.1 transfers the N-acyl diglyceride moiety to the prospective N-terminal cysteine in prolipoprotein YP_878653.1 identified by match to protein family HMM PF02775 YP_878654.1 identified by match to protein family HMM PF01855 YP_878655.1 identified by match to protein family HMM PF00037; match to protein family HMM TIGR02179 YP_878656.1 identified by match to protein family HMM PF01558; match to protein family HMM TIGR02175 YP_878657.1 identified by match to protein family HMM PF03553 YP_878658.1 catalyzes the formation of methanethiol and 2-ocobutanoate from L-methionine YP_878659.1 identified by match to protein family HMM PF00158; match to protein family HMM PF01842; match to protein family HMM PF02954; match to protein family HMM TIGR00229; match to protein family HMM TIGR01199 YP_878662.1 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_878664.1 identified by match to protein family HMM PF01545; match to protein family HMM TIGR01297 YP_878665.1 identified by match to protein family HMM PF00356; match to protein family HMM PF00532 YP_878666.1 identified by match to protein family HMM PF00532 YP_878667.1 identified by match to protein family HMM PF02653 YP_878668.1 identified by match to protein family HMM PF00005 YP_878669.1 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_878670.1 identified by match to protein family HMM PF00294; match to protein family HMM TIGR02152 YP_878672.1 identified by match to protein family HMM PF01979 YP_878674.1 identified by match to protein family HMM PF01906 YP_878676.1 identified by match to protein family HMM PF04055 YP_878678.1 ACT domain-containing protein YP_878679.1 identified by match to protein family HMM PF05167 YP_878680.1 identified by match to protein family HMM PF00015; match to protein family HMM PF00672 YP_878682.1 inactivated, HRDL motif absent YP_878683.1 inactivated, HRDL motif absent YP_878684.1 identified by match to protein family HMM PF00575 YP_878685.1 identified by match to protein family HMM PF00702; match to protein family HMM TIGR01488; match to protein family HMM TIGR01490 YP_878686.1 identified by match to protein family HMM PF00126; match to protein family HMM PF03466 YP_878687.1 identified by match to protein family HMM PF01063; match to protein family HMM TIGR01122 YP_878688.1 identified by match to protein family HMM PF03180; match to protein family HMM TIGR00363 YP_878689.1 identified by match to protein family HMM PF00528 YP_878690.1 identified by match to protein family HMM PF00005 YP_878691.1 catalyzes the formation of 4-phospho-L-aspartate from L-aspartate and ATP; lysine and threonine sensitive YP_878692.1 identified by match to protein family HMM PF00557; match to protein family HMM PF02810; match to protein family HMM TIGR00500 YP_878693.1 identified by match to protein family HMM PF05504 YP_878694.1 identified by match to protein family HMM PF03845; match to protein family HMM TIGR00912 YP_878695.1 similar to Bacillus/Clostridium; identified by match to protein family HMM PF03323 YP_878696.1 identified by match to protein family HMM PF00860; match to protein family HMM TIGR00801 YP_878698.1 identified by match to protein family HMM PF00081; match to protein family HMM PF02777 YP_878699.1 identified by match to protein family HMM PF00654; match to protein family HMM PF02080 YP_878700.1 identified by match to protein family HMM PF03009 YP_878701.1 identified by match to protein family HMM PF01235; match to protein family HMM TIGR00835 YP_878702.1 identified by match to protein family HMM PF00753 YP_878703.1 identified by match to protein family HMM PF02647; match to protein family HMM TIGR01573 YP_878704.1 identified by match to protein family HMM PF01867; match to protein family HMM TIGR00287 YP_878705.1 identified by match to protein family HMM PF01930; match to protein family HMM TIGR00372 YP_878706.1 identified by match to protein family HMM PF00270; match to protein family HMM PF00271; match to protein family HMM PF04851; match to protein family HMM TIGR01587 YP_878710.1 identified by match to protein family HMM TIGR01877 YP_878713.1 identified by match to protein family HMM PF01841 YP_878714.1 identified by match to protein family HMM PF04203; match to protein family HMM TIGR01076 YP_878715.1 identified by match to protein family HMM PF00746; match to protein family HMM PF05737; match to protein family HMM PF05738; match to protein family HMM TIGR01167 YP_878717.1 identified by match to protein family HMM PF00149; match to protein family HMM PF01476; match to protein family HMM PF02872 YP_878719.1 identified by match to protein family HMM PF06792 YP_878720.1 identified by match to protein family HMM PF00165 YP_878723.1 identified by match to protein family HMM PF00106 YP_878724.1 identified by match to protein family HMM PF00004 YP_878725.1 identified by match to protein family HMM PF00266 YP_878728.1 identified by match to protein family HMM PF00512; match to protein family HMM PF01590; match to protein family HMM PF02518 YP_878729.1 identified by match to protein family HMM PF01734 YP_878733.1 identified by match to protein family HMM PF01554; match to protein family HMM TIGR00797 YP_878734.1 identified by match to protein family HMM PF00596 YP_878735.1 identified by match to protein family HMM PF00924 YP_878736.1 identified by match to protein family HMM PF03851; match to protein family HMM TIGR00629 YP_878737.1 identified by match to protein family HMM PF00892 YP_878738.1 catalyzes the formation of citrate from acetyl-CoA and oxaloacetate YP_878739.1 identified by match to protein family HMM PF02080 YP_878740.1 Converts (S)-lactate and NAD(+) to pyruvate and NADH YP_878741.1 identified by match to protein family HMM PF00515; match to protein family HMM PF00990; match to protein family HMM TIGR00254 YP_878742.1 identified by match to protein family HMM PF00334 YP_878743.1 identified by match to protein family HMM PF00293 YP_878745.1 identified by match to protein family HMM PF00005 YP_878747.1 identified by match to protein family HMM PF00005 YP_878748.1 identified by match to protein family HMM PF00392 YP_878749.1 identified by match to protein family HMM PF01734 YP_878750.1 identified by match to protein family HMM TIGR00097 YP_878751.1 identified by match to protein family HMM PF02110; match to protein family HMM TIGR00694 YP_878752.1 Condenses 4-methyl-5-(beta-hydroxyethyl)-thiazole monophosphate and 4-amino-5-hydroxymethyl pyrimidine pyrophosphate to form thiamine monophosphate YP_878756.1 identified by match to protein family HMM PF00037; match to protein family HMM PF01077; match to protein family HMM PF03460 YP_878757.1 with AsrAC catalyzes the reduction of sulfite to hydrogen sulfide YP_878758.1 identified by match to protein family HMM PF00037 YP_878759.1 identified by match to protein family HMM PF00027; match to protein family HMM PF00325 YP_878760.1 identified by match to protein family HMM PF00202; match to protein family HMM TIGR00713 YP_878761.1 catalyzes the formation of porphobilinogen from 5-aminolevulinate YP_878762.1 identified by match to protein family HMM PF00590; match to protein family HMM PF02602; match to protein family HMM TIGR01469 YP_878763.1 transformation of porphobilinogen to hydroxymethylbilane in porphyrin biosynthesis YP_878764.1 identified by match to protein family HMM TIGR01470 YP_878765.1 identified by match to protein family HMM PF00745; match to protein family HMM PF05200; match to protein family HMM PF05201; match to protein family HMM TIGR01035 YP_878766.1 identified by match to protein family HMM PF00037; match to protein family HMM PF01077; match to protein family HMM PF03460 YP_878767.1 identified by match to protein family HMM PF03553 YP_878771.1 identified by match to protein family HMM PF01842 YP_878773.1 catalyzes a two-step reaction, first charging a glutamine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA YP_878775.1 identified by match to protein family HMM PF01144 YP_878776.1 identified by match to protein family HMM PF01144 YP_878777.1 identified by match to protein family HMM PF00892 YP_878778.1 identified by match to protein family HMM PF01663 YP_878779.1 identified by match to protein family HMM PF00005 YP_878780.1 identified by match to protein family HMM PF00009; match to protein family HMM PF00679; match to protein family HMM PF03144; match to protein family HMM PF03764; match to protein family HMM TIGR00231 YP_878781.1 identified by match to protein family HMM PF05193 YP_878782.1 catalyzes the formation of oxalozcetate and L-glutamate from L-aspartate and 2-oxoglutarate YP_878783.1 identified by match to protein family HMM PF01554; match to protein family HMM TIGR00797 YP_878785.1 forms dimers and octamers; involved in conversion of glycerol to dihydroxy-acetone YP_878786.1 identified by match to protein family HMM PF01263 YP_878787.1 identified by match to protein family HMM PF00294 YP_878788.1 identified by match to protein family HMM PF01116; match to protein family HMM TIGR00167; match to protein family HMM TIGR01858 YP_878789.1 identified by match to protein family HMM PF01979; match to protein family HMM TIGR00221 YP_878790.1 identified by match to protein family HMM PF01380 YP_878791.1 identified by match to protein family HMM PF00392; match to protein family HMM PF07702 YP_878793.1 anSME; radical SAM enzyme; oxidizes both cysteine and serine residues to C-alpha-formylglycine in sulfatase enzyme protein substrates YP_878794.1 identified by match to protein family HMM PF01869 YP_878795.1 identified by match to protein family HMM PF00884 YP_878797.1 identified by match to protein family HMM PF00474 YP_878798.1 identified by match to protein family HMM PF00884 YP_878799.1 uncharacterized member of the SSS superfamily of sodium-dependent solute transporters; unknown function YP_878800.1 identified by match to protein family HMM PF00392; match to protein family HMM PF07702 YP_878802.1 identified by match to protein family HMM TIGR01909 YP_878803.1 identified by match to protein family HMM PF02028; match to protein family HMM TIGR00842 YP_878804.1 identified by match to protein family HMM PF02080 YP_878805.1 identified by match to protein family HMM PF04143 YP_878806.1 identified by match to protein family HMM PF00070; match to protein family HMM PF00581; match to protein family HMM PF02852 YP_878807.1 identified by match to protein family HMM PF01235 YP_878808.1 identified by match to protein family HMM PF00126; match to protein family HMM PF03466 YP_878809.1 identified by match to protein family HMM PF04143 YP_878810.1 identified by match to protein family HMM PF01206 YP_878811.1 identified by match to protein family HMM PF04143 YP_878814.1 identified by match to protein family HMM PF00015; match to protein family HMM PF00672 YP_878819.1 identified by match to protein family HMM PF00270; match to protein family HMM PF00271; match to protein family HMM PF04851 YP_878824.1 identified by match to protein family HMM TIGR01730 YP_878825.1 identified by match to protein family HMM PF00005 YP_878826.1 identified by match to protein family HMM PF02687 YP_878829.1 identified by match to protein family HMM PF00874; match to protein family HMM PF03123 YP_878830.1 identified by match to protein family HMM PF00358; match to protein family HMM PF00367; match to protein family HMM PF02378; match to protein family HMM TIGR00826; match to protein family HMM TIGR00830 YP_878831.1 identified by match to protein family HMM PF00381; match to protein family HMM TIGR01003 YP_878832.1 identified by match to protein family HMM PF00391; match to protein family HMM PF02896; match to protein family HMM PF05524; match to protein family HMM TIGR01417 YP_878833.1 decatenates replicating daughter chromosomes YP_878834.1 identified by match to protein family HMM PF01966; match to protein family HMM TIGR01353 YP_878835.1 catalyzes the formation of prolyl-tRNA(Pro) from proline and tRNA(Pro) YP_878836.1 identified by match to protein family HMM PF06177 YP_878837.1 identified by match to protein family HMM PF06962 YP_878839.1 identified by match to protein family HMM PF00107 YP_878840.1 identified by match to protein family HMM PF00158; match to protein family HMM PF01590; match to protein family HMM PF02954; match to protein family HMM TIGR01199 YP_878841.1 identified by match to protein family HMM PF01661 YP_878842.1 identified by match to protein family HMM PF01464 YP_878846.1 identified by match to protein family HMM PF00753 YP_878847.1 Catalyzes the first of the two reduction steps in the elongation cycle of fatty acid synthesis YP_878848.1 catalyzes the formation of adenosylcob(III)yrinic acid a,c-diamide from cob(I)yrinic acid a,c-diamide YP_878849.1 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_878850.1 identified by match to protein family HMM PF02163 YP_878853.1 identified by match to protein family HMM PF03816; match to protein family HMM TIGR00350 YP_878854.1 identified by match to protein family HMM PF02562 YP_878855.1 identified by match to protein family HMM PF01475 YP_878859.1 binds guanine nucleotides; in Escherichia coli depletion results in defective cell division and filamentation; in Bacillus subtilis this gene is essential YP_878860.1 identified by match to protein family HMM PF00004; match to protein family HMM PF02190; match to protein family HMM PF05362; match to protein family HMM TIGR00763 YP_878861.1 identified by match to protein family HMM PF00004; match to protein family HMM PF05362 YP_878862.1 binds and unfolds substrates as part of the ClpXP protease YP_878863.1 hydrolyzes proteins to small peptides; with the ATPase subunits ClpA or ClpX, ClpP degrades specific substrates YP_878864.1 Tig; RopA; peptidyl-prolyl cis/trans isomerase; promotes folding of newly synthesized proteins; binds ribosomal 50S subunit; forms a homodimer YP_878865.1 identified by match to protein family HMM PF01261 YP_878866.1 Includes: Dihydroneopterinaldolase (DHNA); 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinase identified by match to protein family HMM PF01288; match to protein family HMM PF02152; match to protein family HMM TIGR00525; match to protein family HMM TIGR00526; match to protein family HMM TIGR01498 YP_878867.1 identified by match to protein family HMM PF00809; match to protein family HMM TIGR01496 YP_878868.1 identified by match to protein family HMM PF01966; match to protein family HMM TIGR00277 YP_878869.1 involved in the first step of tetrahydrofolate biosynthesis; catalyzes the formation of formate and 2-amino-4-hydroxy-6-(erythro-1,2, 3-trihydroxypropyl)dihydropteridine triphosphate from GTP and water; forms a homopolymer YP_878870.1 identified by match to protein family HMM PF01063 YP_878871.1 identified by match to protein family HMM PF00425; match to protein family HMM PF04715; match to protein family HMM TIGR00553 YP_878872.1 identified by match to protein family HMM PF00117; match to protein family HMM TIGR00566 YP_878874.1 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_878875.1 catalyzes production of carbamoyl phosphate from bicarbonate and glutamine in pyrimidine and arginine biosynthesis pathways; forms an octamer composed of four CarAB dimers YP_878876.1 identified by match to protein family HMM PF00037; match to protein family HMM PF04055 YP_878877.1 identified by match to protein family HMM PF01228; match to protein family HMM PF02901; match to protein family HMM TIGR01774 YP_878878.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00165 YP_878879.1 identified by match to protein family HMM PF02518 YP_878880.1 identified by match to protein family HMM PF00717; match to protein family HMM TIGR02227 YP_878882.1 involved in fifth step of pyrimidine biosynthesis; converts orotidine 5'-phosphate and diphosphate to orotate and 5-phospho-alpha-D-ribose 1-diphosphate YP_878883.1 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_878884.1 responsible for channeling the electrons from the oxidation of dihydroorotate from the FMN redox center in the pyrD subunit to the ultimate electron acceptor NAD(+) YP_878885.1 type 2 subfamily; involved in last step of pyrimidine biosynthesis; converts orotidine 5'-phosphate to UMP and carbon dioxide; OMP decarboxylase; OMPDCase; OMPdecase YP_878886.1 identified by match to protein family HMM PF01979; match to protein family HMM TIGR00857 YP_878887.1 catalyzes the transfer of the carbamoyl moiety from carbamoyl phosphate to L- aspartate in pyrimidine biosynthesis YP_878889.1 identified by match to protein family HMM PF00158; match to protein family HMM PF00989 YP_878890.1 identified by match to protein family HMM PF02653 YP_878891.1 identified by match to protein family HMM PF02653 YP_878892.1 identified by match to protein family HMM PF00005 YP_878893.1 identified by match to protein family HMM PF02608 YP_878894.1 Catalyzes the transfer of the phosphoribosyl moiety from 5-phospho--D-ribosyl-1-pyrophosphate (PRib-PP) to the 6-oxo-guanine and -xanthine YP_878895.1 identified by match to protein family HMM PF00375 YP_878896.1 HAM1-like protein; Rec-dependent growth; RgdB; yggV; it is suspected that this protein functions to remove misincorporated bases such as xanthine or hypoxanthine YP_878897.1 identified by match to protein family HMM PF02769 YP_878901.1 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_878902.1 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_878903.1 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; some Mycoplasma proteins contain an N-terminal fusion to an unknown domain YP_878904.1 identified by match to protein family HMM TIGR01921 YP_878905.1 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_878906.1 identified by match to protein family HMM PF00580 YP_878907.1 identified by match to protein family HMM PF01371 YP_878908.1 identified by match to protein family HMM PF00849; match to protein family HMM PF01479; match to protein family HMM TIGR00093 YP_878909.1 identified by match to protein family HMM PF07495 YP_878910.1 identified by match to protein family HMM PF00128; match to protein family HMM PF02922; match to protein family HMM TIGR02104 YP_878911.1 identified by match to protein family HMM PF02639 YP_878912.1 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_878914.1 similar to yxkH B. subtilis; identified by match to protein family HMM PF01522 YP_878915.1 identified by match to protein family HMM PF00515 YP_878916.1 identified by match to protein family HMM PF03572 YP_878917.1 identified by match to protein family HMM PF01126 YP_878920.1 identified by match to protein family HMM TIGR00099; match to protein family HMM TIGR01484 YP_878922.1 identified by match to protein family HMM PF01381 YP_878930.1 contains glutamine-hydrolyzing domain and glutamine amidotransferase; GMP-binding domain; functions to produce GMP from XMP in the IMP pathway YP_878931.1 catalyzes the synthesis of xanthosine monophosphate by the NAD+ dependent oxidation of inosine monophosphate YP_878932.1 identified by match to protein family HMM PF01171 YP_878933.1 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_878934.1 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_878935.1 identified by match to protein family HMM PF00037; match to protein family HMM PF02906 YP_878936.1 identified by match to protein family HMM PF00633; match to protein family HMM PF00730 YP_878937.1 function undetermined; similar to glutamate synthase beta subunit and related oxidoreductases which transfer electrons from NADPH to an acceptor protein or protein domain YP_878938.1 identified by match to protein family HMM PF00175 YP_878939.1 identified by match to protein family HMM PF00465 YP_878940.1 identified by match to protein family HMM PF00158; match to protein family HMM PF01590; match to protein family HMM PF02954; match to protein family HMM TIGR01199 YP_878941.1 converts (S)-3-hydroxybutanoyl-CoA to 3-acetoacetyl-CoA YP_878942.1 identified by match to protein family HMM PF00766 YP_878943.1 identified by match to protein family HMM PF01012 YP_878944.1 identified by match to protein family HMM PF00441; match to protein family HMM PF02770; match to protein family HMM PF02771 YP_878945.1 catalyzes the formation of crotonoyl-CoA from (3R)-3-hydroxybutanoyl-CoA YP_878946.1 modulates transcription in response to the NADH/NAD(+) redox state YP_878947.1 identified by match to protein family HMM PF00005 YP_878948.1 identified by match to protein family HMM PF00496 YP_878949.1 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_878950.1 identified by match to protein family HMM PF05866 YP_878951.1 identified by match to protein family HMM PF00070 YP_878953.1 identified by match to protein family HMM PF01297 YP_878954.1 identified by match to protein family HMM PF02417 YP_878955.1 identified by match to protein family HMM PF02417 YP_878956.1 identified by match to protein family HMM PF00015; match to protein family HMM PF00672 YP_878957.1 identified by match to protein family HMM PF00465 YP_878958.1 identified by match to protein family HMM PF03319 YP_878962.1 identified by match to protein family HMM PF06130 YP_878963.1 similar to Salmonella typhimurium PduA protein; identified by match to protein family HMM PF00936 YP_878964.1 similar to Salmonella typhimurium PduB protein; identified by match to protein family HMM PF06000 YP_878965.1 identified by match to protein family HMM PF00936 YP_878966.1 identified by match to protein family HMM PF02518; match to protein family HMM PF06580 YP_878967.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00165 YP_878968.1 identified by match to protein family HMM PF00037; match to protein family HMM PF04055 YP_878969.1 identified by match to protein family HMM PF01228; match to protein family HMM PF02901; match to protein family HMM TIGR01774 YP_878971.1 identified by match to protein family HMM PF01966; match to protein family HMM TIGR00277 YP_878972.1 identified by match to protein family HMM PF02367; match to protein family HMM TIGR00150 YP_878973.1 identified by match to protein family HMM PF00814 YP_878974.1 identified by match to protein family HMM PF00583; match to protein family HMM TIGR01575 YP_878976.1 identified by match to protein family HMM PF00575 YP_878978.1 catalyzes the release of newly synthesized polypeptide chains at the stop codons UAA and UGA YP_878979.1 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_878982.1 identified by match to protein family HMM PF02482; match to protein family HMM TIGR00741 YP_878985.1 identified by match to protein family HMM TIGR01448 YP_878986.1 catalyzes the formation of S-adenosylmethionine from methionine and ATP; methionine adenosyltransferase YP_878987.1 identified by match to protein family HMM PF01171 YP_878988.1 identified by match to protein family HMM PF06866 YP_878989.1 identified by match to protein family HMM PF06723; match to protein family HMM TIGR00904 YP_878991.1 identified by match to protein family HMM PF01551 YP_878993.1 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_878995.1 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_878996.1 Produces ATP from ADP in the presence of a proton gradient across the membrane. The beta chain is a regulatory subunit YP_878997.1 Produces ATP from ADP in the presence of a proton gradient across the membrane. The gamma chain is a regulatory subunit YP_878998.1 produces ATP from ADP in the presence of a proton gradient across the membrane; the alpha chain is a catalytic subunit YP_878999.1 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_879000.1 produces ATP from ADP in the presence of a proton gradient across the membrane; subunit B is part of the membrane proton channel YP_879001.1 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_879002.1 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_879004.1 Catalyzes the synthesis of acetoacetyl coenzyme A from two molecules of acetyl coenzyme A. It can also act as a thiolase, catalyzing the reverse reaction and generating two-carbon units from the four-carbon product of fatty acid oxidation; in Rhizobia and Ralstonia is involved in PHB biosynthesis YP_879005.1 identified by match to protein family HMM PF02350; match to protein family HMM TIGR00236 YP_879006.1 identified by match to protein family HMM PF00953 YP_879007.1 identified by match to protein family HMM PF00383 YP_879008.1 Catalyzes the formation of uracil and 5-phospho-alpha-D-ribosy 1-diphosphate from UMP and diphosphate YP_879009.1 catalyzes the interconversion of ribose 5-phosphate to ribulose 5-phosphate; enzyme from E. coli shows allose 6-phosphate isomerase activity YP_879010.1 identified by match to protein family HMM PF01451 YP_879011.1 identified by match to protein family HMM PF01300; match to protein family HMM PF03481; match to protein family HMM TIGR00057 YP_879012.1 identified by match to protein family HMM PF02535 YP_879014.1 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_879015.1 identified by match to protein family HMM TIGR00536 YP_879016.1 identified by match to protein family HMM PF07136 YP_879017.1 catalyzes the formation of thymidine 5'-phosphate from thymidine YP_879018.1 RpmE; 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 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_879019.1 An RNA-DNA helicase that actively releases nascent mRNAs from paused transcription complexes YP_879021.1 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_879025.1 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_879026.1 identified by match to protein family HMM PF03413 YP_879028.1 identified by match to protein family HMM PF05504 YP_879029.1 identified by match to protein family HMM PF03845; match to protein family HMM TIGR00912 YP_879030.1 similar to Bacillus/Clostridium; identified by match to protein family HMM PF03323 YP_879032.1 An essential enzyme in the nonmevalonate pathway of isopentenyl diphosphate and dimethylallyl diphosphate biosynthesis YP_879033.1 identified by match to protein family HMM PF01476 YP_879034.1 identified by match to protein family HMM PF06257 YP_879035.1 identified by match to protein family HMM PF05582 YP_879037.1 identified by match to protein family HMM PF00534 YP_879038.1 identified by match to protein family HMM PF00291; match to protein family HMM TIGR01136; match to protein family HMM TIGR01139 YP_879039.1 identified by match to protein family HMM PF06180 YP_879040.1 CobK/CbiJ; there are 2 pathways for cobalamin (vitamin B12) production, one aerobic (ex. P. denitrificans), the other anaerobic (ex. S. typhimurium); the CobK/CbiJ perform similar reactions in both; the anaerobic pathway includes the use of a chelated cobalt ion in order for ring contraction to occur; CobK thus converts precorrin 6 into dihydro-precorrin 6 while CbiJ converts cobalt-precorrin 6 into cobalt-deihydro-precorrin 6 YP_879041.1 identified by match to protein family HMM PF00590; match to protein family HMM TIGR01466 YP_879042.1 catalyzes the formation of cobalt-precorrin 4 from cobalt-precorrin 3 YP_879043.1 identified by match to protein family HMM PF00590; match to protein family HMM TIGR01465 YP_879044.1 catalyzes the formation of precorrin-3A from precorrin-2 YP_879046.1 identified by match to protein family HMM PF00590 YP_879047.1 Catalyzes the methylation of C-1 in cobalt-precorrin-5 and the subsequent extrusion of acetic acid from the resulting intermediate to form cobalt-precorrin-6A YP_879048.1 catalyzes the interconversion of precorrin-8X and cobyrinic acid YP_879049.1 responsible for the amidation of carboxylic groups at position A and C of cobyrinic acid or hydrogenobrynic acid YP_879053.1 identified by match to protein family HMM PF00534 YP_879054.1 identified by match to protein family HMM PF00015 YP_879055.1 identified by match to protein family HMM PF00037 YP_879056.1 identified by match to protein family HMM PF00027 YP_879057.1 catalyzes the reduction of hydroxylamine to ammonia and water YP_879058.1 identified by match to protein family HMM PF00015 YP_879059.1 identified by match to protein family HMM PF00122; match to protein family HMM PF00689; match to protein family HMM PF00690; match to protein family HMM PF00702; match to protein family HMM TIGR01494; match to protein family HMM TIGR01517 YP_879060.1 identified by match to protein family HMM PF01476; match to protein family HMM PF03767; match to protein family HMM TIGR01533 YP_879063.1 identified by match to protein family HMM PF00483 YP_879064.1 identified by match to protein family HMM PF00239; match to protein family HMM PF07508 YP_879066.1 identified by match to protein family HMM PF00881 YP_879067.1 identified by match to protein family HMM PF00389; match to protein family HMM PF02826 YP_879069.1 Catalyzes the synthesis of acetoacetyl coenzyme A from two molecules of acetyl coenzyme A. It can also act as a thiolase, catalyzing the reverse reaction and generating two-carbon units from the four-carbon product of fatty acid oxidation; in Rhizobia and Ralstonia is involved in PHB biosynthesis YP_879070.1 converts (S)-3-hydroxybutanoyl-CoA to 3-acetoacetyl-CoA YP_879071.1 identified by match to protein family HMM PF00370; match to protein family HMM PF02782; match to protein family HMM TIGR01311 YP_879072.1 identified by match to protein family HMM PF00230; match to protein family HMM TIGR00861 YP_879073.1 identified by match to protein family HMM PF00015; match to protein family HMM TIGR01098 YP_879074.1 identified by match to protein family HMM PF00370; match to protein family HMM PF02782; match to protein family HMM TIGR01311 YP_879075.1 identified by match to protein family HMM PF00230; match to protein family HMM TIGR00861 YP_879077.1 identified by match to protein family HMM PF00070 YP_879078.1 identified by match to protein family HMM PF01266; match to protein family HMM PF04324 YP_879079.1 identified by match to protein family HMM PF04309 YP_879081.1 identified by match to protein family HMM PF00557; match to protein family HMM PF05195 YP_879082.1 catalyzes the formation of (2R)-3-sulfolactate from (2R)-2-phospho-3-sulfolactate YP_879083.1 identified by match to protein family HMM PF00313 YP_879086.1 identified by match to protein family HMM PF01202 YP_879087.1 identified by match to protein family HMM PF01488; match to protein family HMM TIGR00507 YP_879088.1 identified by match to protein family HMM PF01817; match to protein family HMM TIGR01805 YP_879089.1 catalyzes the formation of chorismate from 5-O-(1-carboxyvinyl)-3-phosphoshikimate in aromatic amino acid biosynthesis YP_879090.1 catalyzes the formation of 5-O-(1-carboxyvinyl)-3-phosphoshikimate from phosphoenolpyruvate and 3-phosphoshikimate in tryptophan biosynthesis YP_879091.1 catalyzes the formation of 3-dehydroquinate from 3-deoxy-arabino-heptulonate 7-phosphate; functions in aromatic amino acid biosynthesis YP_879092.1 identified by match to protein family HMM PF02153 YP_879093.1 catalyzes the formation of 3-deoxy-D-arabino-hept-2-ulosonate 7-phosphate from phosphoenolpyruvate and D-erythrose 4-phosphate YP_879094.1 identified by match to protein family HMM PF00528; match to protein family HMM PF04069 YP_879095.1 identified by match to protein family HMM PF00005; match to protein family HMM PF00571; match to protein family HMM TIGR01186 YP_879097.1 identified by match to protein family HMM PF01869; match to protein family HMM TIGR00241 YP_879100.1 identified by match to protein family HMM PF02447; match to protein family HMM TIGR00791 YP_879101.1 catalyzes oxidation of 4-(phosphohydroxy)-L-threonine into 2-amino-3-oxo-4-(phosphohydroxy)butyric acid which decarboxylates to form 1-amino-3-(phosphohydroxy)propan-2-one (3-amino-2-oxopropyl phosphate) YP_879103.1 identified by match to protein family HMM PF00455 YP_879104.1 identified by match to protein family HMM PF00892 YP_879105.1 identified by match to protein family HMM PF00037 YP_879106.1 identified by match to protein family HMM PF00005; match to protein family HMM PF00664 YP_879109.1 identified by match to protein family HMM PF00356; match to protein family HMM PF00532 YP_879110.1 similar to yetF/ydfS/ykjA/yrbG/ydfR B. subtilis; identified by match to protein family HMM PF04239 YP_879112.1 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_879113.1 identified by match to protein family HMM PF02452 YP_879114.1 identified by match to protein family HMM PF02517 YP_879115.1 identified by match to protein family HMM PF01520; match to protein family HMM PF07532 YP_879117.1 identified by match to protein family HMM PF00717; match to protein family HMM PF01381 YP_879119.1 identified by match to protein family HMM PF00160 YP_879120.1 converts L-glutamate to D-glutamate, a component of peptidoglycan YP_879121.1 identified by match to protein family HMM PF00120 YP_879122.1 identified by match to protein family HMM PF01042; match to protein family HMM TIGR00004 YP_879123.1 identified by match to protein family HMM PF00571 YP_879125.1 biotin-containing enzyme that catalyzes a two step carboxylation of pyruvate to oxaloacetate YP_879126.1 identified by match to protein family HMM PF01546; match to protein family HMM PF07687; match to protein family HMM TIGR01893 YP_879131.1 identified by match to protein family HMM PF02342 YP_879132.1 identified by match to protein family HMM PF02342 YP_879133.1 identified by match to protein family HMM PF02342 YP_879134.1 identified by match to protein family HMM PF02082; match to protein family HMM TIGR00738 YP_879135.1 identified by match to protein family HMM PF03063; match to protein family HMM TIGR01702 YP_879136.1 identified by match to protein family HMM PF00860 YP_879137.1 identified by match to protein family HMM PF02342 YP_879138.1 identified by match to protein family HMM PF01987 YP_879141.1 similar to YCEG B. subtilis YP_879142.1 identified by match to protein family HMM PF05816 YP_879144.1 identified by match to protein family HMM PF02308 YP_879149.1 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_879150.1 identified by match to protein family HMM PF01751; match to protein family HMM TIGR00334 YP_879151.1 similar to YABE B. subtilis; identified by match to protein family HMM PF03990; match to protein family HMM PF06725; match to protein family HMM PF07501 YP_879152.1 identified by match to protein family HMM PF01026; match to protein family HMM TIGR00010 YP_879153.1 identified by match to protein family HMM PF03610; match to protein family HMM TIGR02364 YP_879154.1 identified by match to protein family HMM PF02734; match to protein family HMM TIGR02365 YP_879155.1 with DhaL and DhaM forms dihydroxyacetone kinase, which is responsible for phosphorylating dihydroxyacetone; DhaK is the dihydroxyacetone binding subunit of the dihydroxyacetone kinase YP_879159.1 identified by match to protein family HMM PF04542 YP_879161.1 identified by match to protein family HMM PF04286 YP_879163.1 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_879164.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00486 YP_879165.1 identified by match to protein family HMM PF00512; match to protein family HMM PF00672; match to protein family HMM PF02518 YP_879167.1 identified by match to protein family HMM PF01522 YP_879168.1 identified by match to protein family HMM PF03167; match to protein family HMM TIGR00758 YP_879172.1 identified by match to protein family HMM PF01554; match to protein family HMM TIGR00797 YP_879173.1 catalyzes the formation of O-phospho-L-homoserine from L-homoserine in threonine biosynthesis from asparate YP_879176.1 identified by match to protein family HMM PF07670 YP_879177.1 identified by match to protein family HMM PF07670 YP_879178.1 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_879179.1 Includes: GTP cyclohydrolase II; 3,4-dihydroxy-2-butanone 4-phosphate synthase (DHBPsynthase); identified by match to protein family HMM PF00925; match to protein family HMM PF00926; match to protein family HMM TIGR00505; match to protein family HMM TIGR00506 YP_879180.1 catalyzes the formation of riboflavin from 6,7-dimethyl-8-(1-D-ribityl)lumazine YP_879181.1 identified by match to protein family HMM PF00383; match to protein family HMM PF01872; match to protein family HMM TIGR00227; match to protein family HMM TIGR00326 YP_879183.1 catalyzes the release of the N-terminal amino acid from a tripeptide YP_879185.1 identified by match to protein family HMM PF00512; match to protein family HMM PF02518; match to protein family HMM TIGR00229 YP_879188.1 identified by match to protein family HMM PF02424 YP_879189.1 catalyzes the formation of ADP-glucose and diphosphate from ATP and alpha-D-glucose 1-phosphate YP_879190.1 identified by match to protein family HMM PF00483; match to protein family HMM TIGR02092 YP_879192.1 identified by match to protein family HMM PF01832 YP_879193.1 identified by match to protein family HMM PF01261 YP_879194.1 catalyzes the formation of 3-phosphonooxypyruvate from 3-phospho-D-glycerate in serine biosynthesis; can also reduce alpha ketoglutarate to form 2-hydroxyglutarate YP_879195.1 identified by match to protein family HMM PF00266 YP_879196.1 identified by match to protein family HMM PF01554; match to protein family HMM TIGR00797 YP_879202.1 catalyzes the conversion of 4-diphosphocytidyl-2-C-methyl-D-erythritol 2-phosphate into 2-C-methyl-D-erythritol 2,4-cyclodiphosphate YP_879205.1 identified by match to protein family HMM PF01638 YP_879208.1 identified by match to protein family HMM PF01235; match to protein family HMM TIGR00835 YP_879210.1 identified by match to protein family HMM PF03169; match to protein family HMM TIGR00728; match to protein family HMM TIGR00733 YP_879211.1 identified by match to protein family HMM PF00185; match to protein family HMM PF02729; match to protein family HMM TIGR00658 YP_879213.1 similar to YKRK B. subtilis YP_879214.1 similar to novel fructose-6-phosphate aldolase from Escherichia coli; enzyme from Methanocaldococcus janaschii shows transaldolase activity YP_879215.1 identified by match to protein family HMM PF01743 YP_879216.1 identified by match to protein family HMM PF04014; match to protein family HMM TIGR01439 YP_879217.1 identified by match to protein family HMM PF00877 YP_879218.1 identified by match to protein family HMM PF00590; match to protein family HMM TIGR00096 YP_879220.1 identified by match to protein family HMM PF03788 YP_879221.1 identified by match to protein family HMM PF04172 YP_879222.1 identified by match to protein family HMM PF00037 YP_879223.1 identified by match to protein family HMM PF00403 YP_879224.1 identified by match to protein family HMM PF04468 YP_879225.1 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_879226.1 similar to YAAQ B. subtilis; identified by match to protein family HMM PF06153 YP_879227.1 identified by match to protein family HMM PF02223; match to protein family HMM TIGR00041 YP_879228.1 identified by match to protein family HMM PF01276 YP_879230.1 identified by match to protein family HMM PF03734 YP_879233.1 identified by match to protein family HMM PF01544 YP_879234.1 identified by match to protein family HMM PF02016 YP_879236.1 identified by match to protein family HMM PF00209 YP_879237.1 Modulates the activities of several enzymes which are inactive in their acetylated form YP_879238.1 identified by match to protein family HMM PF01839 YP_879240.1 identified by match to protein family HMM PF00639 YP_879242.1 identified by match to protein family HMM PF02517 YP_879244.1 identified by match to protein family HMM PF00005 YP_879245.1 identified by match to protein family HMM PF00392 YP_879246.1 identified by match to protein family HMM PF03061; match to protein family HMM TIGR00369 YP_879247.1 identified by match to protein family HMM PF03167 YP_879248.1 identified by match to protein family HMM PF05343 YP_879250.1 identified by match to protein family HMM PF05343 YP_879251.1 identified by match to protein family HMM PF05343 YP_879252.1 identified by match to protein family HMM PF01520 YP_879253.1 identified by match to protein family HMM PF00924 YP_879255.1 identified by match to protein family HMM PF00583 YP_879256.1 identified by match to protein family HMM PF07690 YP_879257.1 identified by match to protein family HMM PF00899 YP_879260.1 identified by match to protein family HMM PF00293 YP_879261.1 Regulatory factor involved in maltose metabolism YP_879264.1 identified by match to protein family HMM PF07441 YP_879265.1 involved in a recombinational process of DNA repair, independent of the recBC complex YP_879266.1 identified by match to protein family HMM PF02575; match to protein family HMM TIGR00103 YP_879267.1 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_879269.1 identified by match to protein family HMM PF00383 YP_879270.1 identified by match to protein family HMM TIGR02206 YP_879271.1 catalyzes the decarboxylaton of phospatidyl-L-sering to phosphatidylethanolamine YP_879272.1 identified by match to protein family HMM PF00753 YP_879273.1 identified by match to protein family HMM PF03009 YP_879274.1 identified by match to protein family HMM PF04466; match to protein family HMM TIGR01547 YP_879275.1 identified by match to protein family HMM PF03592 YP_879276.1 identified by match to protein family HMM PF05065 YP_879280.1 identified by match to protein family HMM PF03288; match to protein family HMM TIGR01613 YP_879281.1 identified by match to protein family HMM PF01381 YP_879283.1 identified by match to protein family HMM PF00589 YP_879284.1 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_879286.1 identified by match to protein family HMM PF04324 YP_879287.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00512; match to protein family HMM PF02518 YP_879288.1 identified by match to protein family HMM PF03699 YP_879289.1 identified by match to protein family HMM PF02829 YP_879290.1 identified by match to protein family HMM TIGR00277 YP_879292.1 negatively supercoils closed circular double-stranded DNA YP_879293.1 negatively supercoils closed circular double-stranded DNA YP_879295.1 Required for DNA replication; binds preferentially to single-stranded, linear DNA YP_879296.1 identified by match to protein family HMM PF01479 YP_879297.1 binds the polymerase to DNA and acts as a sliding clamp YP_879298.1 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.