-- dump date 20140619_021405 -- class Genbank::CDS -- table cds_note -- id note YP_001405618.1 identified by glimmer; putative YP_001405619.1 identified by match to protein family HMM PF01051 YP_001405620.1 identified by glimmer; putative YP_001405621.1 identified by match to protein family HMM PF05713 YP_001405622.1 identified by match to protein family HMM PF03432 YP_001405623.1 identified by match to protein family HMM PF00308; match to protein family HMM PF08299; match to protein family HMM TIGR00362 YP_001405624.1 identified by glimmer; putative YP_001405625.1 binds the polymerase to DNA and acts as a sliding clamp YP_001405626.1 negatively supercoils closed circular double-stranded DNA YP_001405627.1 identified by match to protein family HMM PF00563 YP_001405628.1 identified by match to protein family HMM PF01227; match to protein family HMM TIGR03139 YP_001405631.1 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_001405632.1 identified by match to protein family HMM PF07690 YP_001405633.1 identified by match to protein family HMM PF00994; match to protein family HMM PF03453; match to protein family HMM PF03454; match to protein family HMM TIGR00177 YP_001405634.1 identified by match to protein family HMM PF00484 YP_001405635.1 identified by match to protein family HMM PF00924 YP_001405636.1 identified by glimmer; putative YP_001405638.1 Tig; RopA; peptidyl-prolyl cis/trans isomerase; promotes folding of newly synthesized proteins; binds ribosomal 50S subunit; forms a homodimer YP_001405639.1 hydrolyzes proteins to small peptides; with the ATPase subunits ClpA or ClpX, ClpP degrades specific substrates YP_001405640.1 cleaves off formyl group from N-terminal methionine residues of newly synthesized proteins; binds iron(2+) YP_001405641.1 identified by match to protein family HMM PF01078; match to protein family HMM TIGR00368 YP_001405642.1 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_001405643.1 identified by match to protein family HMM PF00551; match to protein family HMM TIGR00639 YP_001405644.1 identified by match to protein family HMM PF00571; match to protein family HMM PF01595; match to protein family HMM PF03471 YP_001405645.1 Catalyzes the reversible hydration of fumaric acid to yield I-malic acid YP_001405646.1 identified by match to protein family HMM PF05683; match to protein family HMM TIGR00723 YP_001405647.1 identified by glimmer; putative YP_001405648.1 identified by match to protein family HMM PF03741 YP_001405649.1 identified by match to protein family HMM PF03653; match to protein family HMM TIGR00701 YP_001405650.1 identified by match to protein family HMM PF00999; match to protein family HMM PF06965; match to protein family HMM TIGR00773 YP_001405651.1 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_001405652.1 Regulates rRNA biosynthesis by transcriptional antitermination YP_001405653.1 type 1 subfamily; involved in last step of pyrimidine biosynthesis; converts orotidine 5'-phosphate to UMP and carbon dioxide; OMP decarboxylase; OMPDCase; OMPdecase YP_001405654.1 identified by match to protein family HMM PF01435 YP_001405655.1 identified by match to protein family HMM PF03547 YP_001405656.1 in Escherichia coli SbmA is involved in uptake of microcin J25; functions along with FhuA, TonB, and ExbB/D in this capacity; in Sinorhizobium meliloti, BacA is essential and required for symbiosis; defects appear to affect the cell envelope YP_001405658.1 MoaC; along with MoaA is involved in conversion of a guanosine derivative into molybdopterin precursor Z; involved in molybdenum cofactor biosynthesis YP_001405661.1 a small basic protein that is one of the last in the subunit assembly; omission does not prevent assembly but the subunit is inactive; binds central domain of 16S rRNA YP_001405663.1 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_001405664.1 identified by match to protein family HMM PF00266; match to protein family HMM PF01212; match to protein family HMM TIGR03403 YP_001405665.1 identified by match to protein family HMM PF01106; match to protein family HMM PF01592; match to protein family HMM PF04324 YP_001405666.1 identified by glimmer; putative YP_001405667.1 NADH-dependent hydroxypyruvatereductase; hpr; gdh; hydroxypyruvate dehydrogenase; glyoxylatereductase; (hpr-a; identified by match to protein family HMM PF00389; match to protein family HMM PF02826 YP_001405668.1 catalyzes the oxygen-independent formation of protoporphyrinogen-IX from coproporphyrinogen-III YP_001405669.1 identified by glimmer; putative YP_001405670.1 identified by glimmer; putative YP_001405671.1 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_001405672.1 identified by glimmer; putative YP_001405673.1 identified by match to protein family HMM PF01202 YP_001405674.1 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_001405675.1 identified by match to protein family HMM PF00892 YP_001405676.1 catalyzes the formation of 2-dehydro-3-deoxy-D-octonate 8-phosphate from phosphoenolpyruvate and D-arabinose 5-phosphate in LPS biosynthesis YP_001405678.1 identified by match to protein family HMM PF03435 YP_001405679.1 identified by match to protein family HMM PF01844; match to protein family HMM PF03235 YP_001405682.1 identified by glimmer; putative YP_001405683.1 identified by glimmer; putative YP_001405686.1 identified by glimmer; putative YP_001405687.1 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_001405690.1 identified by match to protein family HMM PF00106 YP_001405691.1 identified by glimmer; putative YP_001405692.1 identified by glimmer; putative YP_001405693.1 identified by match to protein family HMM PF00266 YP_001405694.1 identified by match to protein family HMM PF03008 YP_001405695.1 identified by glimmer; putative YP_001405696.1 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_001405697.1 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_001405698.1 L4 is important during the early stages of 50S assembly; it initially binds near the 5' end of the 23S rRNA YP_001405699.1 binds third domain of 23S rRNA and protein L29; part of exit tunnel YP_001405700.1 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_001405701.1 protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA YP_001405702.1 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_001405703.1 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_001405704.1 located in the peptidyl transferase center and may be involved in peptidyl transferase activity; similar to archaeal L10e YP_001405705.1 one of the stabilizing components for the large ribosomal subunit YP_001405706.1 primary binding protein; helps mediate assembly; involved in translation fidelity YP_001405707.1 binds to the 23S rRNA between the centers for peptidyl transferase and GTPase YP_001405708.1 assembly initiator protein; binds to 5' end of 23S rRNA and nucleates assembly of the 50S; surrounds polypeptide exit tunnel YP_001405709.1 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_001405710.1 identified by match to protein family HMM PF00253 YP_001405711.1 binds directly to 16S rRNA central domain where it helps coordinate assembly of the platform of the 30S subunit YP_001405712.1 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_001405713.1 binds 5S rRNA along with protein L5 and L25 YP_001405714.1 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_001405715.1 late assembly protein YP_001405716.1 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_001405717.1 catalyzes the removal of N-terminal amino acids from peptides and arylamides; generally Co(II) however activity has been shown for some methionine aminopeptidases with Zn, Fe, or Mn YP_001405718.1 identified by match to protein family HMM PF04073; match to protein family HMM TIGR00011 YP_001405719.1 identified by match to protein family HMM PF08241; match to protein family HMM PF08242 YP_001405720.1 identified by match to protein family HMM PF01678; match to protein family HMM TIGR00652 YP_001405721.1 identified by match to protein family HMM PF01121; match to protein family HMM TIGR00152 YP_001405722.1 catalyzes the formation of 1-(5-phosphoribosyl)-5-aminoimidazole from 2-(formamido)-N1-(5-phosphoribosyl)acetamidine and ATP in purine biosynthesis YP_001405723.1 identified by match to protein family HMM PF09312 YP_001405724.1 Charges one glutamine molecule and pairs it to its corresponding RNA trinucleotide during protein translation YP_001405725.1 identified by match to protein family HMM PF00390; match to protein family HMM PF03949 YP_001405726.1 identified by match to protein family HMM PF04095; match to protein family HMM TIGR01513 YP_001405727.1 catalyzes the formation of chorismate from 5-O-(1-carboxyvinyl)-3-phosphoshikimate in aromatic amino acid biosynthesis YP_001405728.1 identified by match to protein family HMM PF07963; match to protein family HMM TIGR02532 YP_001405729.1 identified by match to protein family HMM PF02391 YP_001405730.1 identified by match to protein family HMM PF02597 YP_001405731.1 identified by match to protein family HMM PF00278; match to protein family HMM TIGR01047 YP_001405732.1 identified by glimmer; putative YP_001405733.1 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_001405734.1 catalyzes the NADP-dependent rearrangement and reduction of 1-deoxy-D-xylulose-5-phosphate (DXP) to 2-C-methyl-D-erythritol 4-phosphate YP_001405735.1 identified by match to protein family HMM PF01148 YP_001405736.1 identified by match to protein family HMM PF05670 YP_001405737.1 catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate in leucine biosynthesis YP_001405739.1 identified by match to protein family HMM PF02253 YP_001405740.1 identified by glimmer; putative YP_001405741.1 identified by glimmer; putative YP_001405742.1 identified by match to protein family HMM PF02335 YP_001405743.1 identified by match to protein family HMM TIGR03153 YP_001405744.1 identified by match to protein family HMM PF00383; match to protein family HMM TIGR00326 YP_001405745.1 Involved in peptide bond synthesis; alters the affinity of the ribosome for aminoacyl-tRNA YP_001405746.1 identified by match to protein family HMM PF01368; match to protein family HMM PF02272; match to protein family HMM TIGR00644 YP_001405747.1 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_001405748.1 identified by match to protein family HMM PF00589 YP_001405750.1 identified by match to protein family HMM PF00436; match to protein family HMM TIGR00621 YP_001405752.1 identified by match to protein family HMM PF07424 YP_001405755.1 identified by glimmer; putative YP_001405756.1 identified by glimmer; putative YP_001405757.1 identified by match to protein family HMM PF01909 YP_001405758.1 identified by match to protein family HMM PF03432 YP_001405760.1 identified by glimmer; putative YP_001405761.1 identified by glimmer; putative YP_001405763.1 identified by glimmer; putative YP_001405764.1 identified by glimmer; putative YP_001405765.1 identified by glimmer; putative YP_001405766.1 identified by glimmer; putative YP_001405767.1 identified by match to protein family HMM PF06414 YP_001405768.1 identified by glimmer; putative YP_001405769.1 identified by match to protein family HMM PF00176; match to protein family HMM PF00271; match to protein family HMM PF02384; match to protein family HMM PF04851 YP_001405770.1 identified by glimmer; putative YP_001405771.1 identified by match to protein family HMM PF01464 YP_001405772.1 identified by match to protein family HMM PF01131; match to protein family HMM PF01751; match to protein family HMM TIGR01056 YP_001405773.1 identified by glimmer; putative YP_001405774.1 identified by glimmer; putative YP_001405775.1 identified by glimmer; putative YP_001405776.1 identified by match to protein family HMM PF07424 YP_001405778.1 identified by match to protein family HMM PF02534 YP_001405780.1 identified by match to protein family HMM PF00437; match to protein family HMM TIGR02788 YP_001405782.1 identified by match to protein family HMM PF03743 YP_001405783.1 identified by match to protein family HMM PF03524; match to protein family HMM TIGR02781 YP_001405784.1 identified by match to protein family HMM PF04335 YP_001405785.1 identified by glimmer; putative YP_001405786.1 identified by glimmer; putative YP_001405789.1 Catalyzes the transfer of electrons from NADH to ubiquinone YP_001405790.1 The point of entry for the majority of electrons that traverse the respiratory chain eventually resulting in the reduction of oxygen YP_001405791.1 Catalyzes the transfer of electrons from NADH to ubiquinone YP_001405792.1 Catalyzes the transfer of electrons from NADH to quinone YP_001405795.1 Catalyzes the transfer of electrons from NADH to ubiquinone YP_001405796.1 Catalyzes the transfer of electrons from NADH to quinone YP_001405797.1 Catalyzes the transfer of electrons from NADH to quinone YP_001405798.1 Catalyzes the transfer of electrons from NADH to quinone YP_001405799.1 Catalyzes the transfer of electrons from NADH to quinone YP_001405800.1 Catalyzes the transfer of electrons from NADH to ubiquinone YP_001405801.1 Catalyzes the transfer of electrons from NADH to quinone YP_001405802.1 Catalyzes the transfer of electrons from NADH to quinone YP_001405803.1 B2 or R2 protein; type 1b enzyme; catalyzes the rate-limiting step in dNTP synthesis; converts nucleotides to deoxynucleotides; forms a homodimer and then a multimeric complex with NrdE YP_001405804.1 catalyzes the methyl esterification of L-isoaspartyl residues that are formed in damaged proteins YP_001405805.1 UDP-N-acetylmuramyl-tripeptide synthetase; Meso-diaminopimelate-adding enzyme; (UDP-MurNAc-tripeptide synthetase; 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_001405806.1 identified by glimmer; putative YP_001405807.1 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_001405808.1 identified by match to protein family HMM PF02575; match to protein family HMM TIGR00103 YP_001405809.1 identified by match to protein family HMM PF00348 YP_001405810.1 catalyzes the formation of ribose 5-phosphate and xylulose 5-phosphate from sedoheptulose 7-phosphate and glyceraldehyde 3-phosphate; can transfer ketol groups between several groups; in Escherichia coli there are two tkt genes, tktA expressed during exponential growth and the tktB during stationary phase YP_001405811.1 is a component of the macrolide binding site in the peptidyl transferase center YP_001405812.1 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_001405813.1 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_001405814.1 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_001405815.1 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_001405816.1 stimulates the activities of the other two initiation factors, IF-2 and IF-3 YP_001405817.1 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_001405818.1 involved in fifth step of pyrimidine biosynthesis; converts orotidine 5'-phosphate and diphosphate to orotate and 5-phospho-alpha-D-ribose 1-diphosphate YP_001405820.1 identified by match to protein family HMM PF00037 YP_001405821.1 identified by match to protein family HMM PF00070; match to protein family HMM PF07992; match to protein family HMM TIGR01292 YP_001405822.1 identified by match to protein family HMM PF00085; match to protein family HMM TIGR01068 YP_001405823.1 identified by match to protein family HMM PF02021 YP_001405824.1 catalyzes the formation of L-aspartate 4-semialdehyde from L-homoserine YP_001405825.1 catalyzes the formation of oxalozcetate and L-glutamate from L-aspartate and 2-oxoglutarate YP_001405828.1 identified by match to protein family HMM PF00588; match to protein family HMM PF08032; match to protein family HMM TIGR00186 YP_001405829.1 identified by match to protein family HMM PF00590; match to protein family HMM TIGR00096 YP_001405830.1 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_001405831.1 identified by match to protein family HMM PF02028; match to protein family HMM TIGR00842 YP_001405834.1 catalyzes the carboxylation of acetyl-CoA to malonyl-CoA; forms a tetramer composed of two alpha (AccA) and two beta (AccD) subunits; one of the two catalytic subunits that can form the acetyl CoA carboxylase enzyme together with a carrier protein YP_001405835.1 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_001405836.1 carries the fatty acid chain in fatty acid biosynthesis YP_001405837.1 Catalyzes the first of the two reduction steps in the elongation cycle of fatty acid synthesis YP_001405838.1 identified by match to protein family HMM PF00753 YP_001405839.1 catalyzes the formation of N(1)-(5-phospho-D-ribosyl)glycinamide from 5-phospho-D-ribosylamine and glycine in purine biosynthesis YP_001405840.1 identified by match to protein family HMM PF06271 YP_001405841.1 identified by match to protein family HMM PF04453 YP_001405843.1 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 YP_001405844.1 identified by match to protein family HMM PF00582 YP_001405845.1 identified by match to protein family HMM PF01810 YP_001405846.1 dapE-encoded N-succinyl-L,L-diaminopimelic acid desuccinylase (DapE), catalyzes the hydrolysis of N-succinyl-L,Ldiaminopimelate L,L-SDAP to L,L-diaminopimelate and succinate. It is a metalloprotease containing dinuclear active sites. Its structure is similar to the carboxypeptidase G2 from Pseudomonas sp. strain RS-16 and the aminopeptidase from Aeromonas proteolytica. YP_001405847.1 binds cooperatively with S18 to the S15-16S complex, allowing platform assembly to continue with S11 and S21 YP_001405848.1 identified by match to protein family HMM PF00436; match to protein family HMM TIGR00621 YP_001405849.1 binds as a heterodimer with protein S6 to the central domain of the 16S rRNA; helps stabilize the platform of the 30S subunit YP_001405851.1 Assists in DNA repair by cleaving phosphodiester bonds at apurinic or apyrimidinic sties to produce new 5' ends that are base-free deoxyribose 5-phosphate residues YP_001405852.1 identified by match to protein family HMM PF03349 YP_001405853.1 identified by match to protein family HMM PF00881 YP_001405854.1 identified by match to protein family HMM PF00717; match to protein family HMM PF01381 YP_001405855.1 identified by glimmer; putative YP_001405856.1 identified by glimmer; putative YP_001405857.1 identified by glimmer; putative YP_001405859.1 identified by glimmer; putative YP_001405860.1 identified by glimmer; putative YP_001405861.1 identified by glimmer; putative YP_001405862.1 identified by glimmer; putative YP_001405864.1 identified by glimmer; putative YP_001405867.1 identified by match to protein family HMM PF08861 YP_001405869.1 identified by match to protein family HMM PF04233; match to protein family HMM TIGR01641 YP_001405870.1 identified by glimmer; putative YP_001405871.1 identified by match to protein family HMM TIGR01630 YP_001405872.1 identified by match to protein family HMM PF02796 YP_001405878.1 identified by glimmer; putative YP_001405879.1 identified by match to protein family HMM PF05838 YP_001405880.1 identified by glimmer; putative YP_001405881.1 identified by glimmer; putative YP_001405882.1 identified by glimmer; putative YP_001405883.1 identified by match to protein family HMM TIGR02675 YP_001405884.1 identified by glimmer; putative YP_001405885.1 identified by glimmer; putative YP_001405886.1 identified by glimmer; putative YP_001405887.1 identified by glimmer; putative YP_001405888.1 identified by glimmer; putative YP_001405890.1 identified by glimmer; putative YP_001405892.1 identified by glimmer; putative YP_001405893.1 identified by glimmer; putative YP_001405894.1 identified by match to protein family HMM PF00817 YP_001405895.1 identified by glimmer; putative YP_001405896.1 identified by glimmer; putative YP_001405897.1 identified by match to protein family HMM PF00719 YP_001405898.1 essential enzyme that recycles AMP in active cells; converts ATP and AMP to two molecules of ADP YP_001405899.1 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_001405900.1 catalyzes the phosphorylation of NAD to NADP YP_001405901.1 identified by match to protein family HMM PF02463 YP_001405902.1 identified by match to protein family HMM PF01026; match to protein family HMM TIGR00010 YP_001405903.1 identified by match to protein family HMM PF01464 YP_001405904.1 identified by match to protein family HMM PF03330; match to protein family HMM PF05036; match to protein family HMM TIGR00413 YP_001405905.1 catalyzes the dehydration of D-erythro-1-(imidazol-4-yl)glycerol 3-phosphate to 3-(imidazol-4-yl)-2-oxopropyl phosphate in histidine biosynthesis YP_001405906.1 identified by match to protein family HMM TIGR01662; match to protein family HMM TIGR01670 YP_001405907.1 identified by match to protein family HMM PF06835 YP_001405908.1 identified by match to protein family HMM PF03968 YP_001405909.1 identified by match to protein family HMM PF01926; match to protein family HMM TIGR00650 YP_001405910.1 catalyzes the formation of N-acetyl-L-glutamate from acetyl-CoA and L-glutamate YP_001405912.1 identified by match to protein family HMM PF00905; match to protein family HMM PF03717; match to protein family HMM TIGR03423 YP_001405913.1 identified by match to protein family HMM PF07505 YP_001405914.1 identified by match to protein family HMM PF03797 YP_001405915.1 identified by match to protein family HMM PF00528; match to protein family HMM TIGR02141 YP_001405916.1 identified by glimmer; putative YP_001405917.1 identified by match to protein family HMM PF00005 YP_001405919.1 identified by match to protein family HMM TIGR01256 YP_001405920.1 identified by match to protein family HMM PF00126; match to protein family HMM PF03459; match to protein family HMM TIGR00638 YP_001405921.1 identified by match to protein family HMM PF04333 YP_001405922.1 identified by match to protein family HMM PF05494 YP_001405925.1 identified by match to protein family HMM PF00301; match to protein family HMM PF02915; match to protein family HMM PF06397; match to protein family HMM TIGR00319 YP_001405926.1 UbiA prenyltransferase family catalyzes the transfer of a prenyl group to various acceptors with hydrophobic ring structures in the biosynthesis of respiratory quinones, hemes, chlorophylls, vitamin E, and shikonin YP_001405928.1 together with moaC, is involved in the conversion of a guanosine derivative (GXP) into molybdopterin precursor Z YP_001405929.1 identified by match to protein family HMM PF04055 YP_001405934.1 identified by match to protein family HMM PF00270 YP_001405936.1 identified by match to protein family HMM PF01758; match to protein family HMM TIGR00832 YP_001405937.1 identified by match to protein family HMM PF03773 YP_001405941.1 catalyzes the reduction of UDP-N-acetylglucosamine enolpyruvate to form UDP-N-acetylmuramate in peptidoglycan biosynthesis YP_001405942.1 identified by match to protein family HMM PF02642 YP_001405943.1 identified by glimmer; putative YP_001405944.1 identified by match to protein family HMM PF06271 YP_001405945.1 identified by glimmer; putative YP_001405946.1 identified by match to protein family HMM PF01734 YP_001405947.1 NADP-GDH; NAD(P)H-dependent glutamate dehydrogenase; 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_001405948.1 identified by match to protein family HMM PF02621 YP_001405949.1 Excises uracil residues from the DNA which can arise as a result of misincorporation of dUMP residues by DNA polymerase or due to deamination of cytosine YP_001405950.1 identified by match to protein family HMM PF01061 YP_001405951.1 identified by match to protein family HMM PF01061 YP_001405952.1 identified by match to protein family HMM PF00005 YP_001405953.1 identified by match to protein family HMM PF00529 YP_001405954.1 identified by glimmer; putative YP_001405955.1 identified by match to protein family HMM PF00122; match to protein family HMM PF00702; match to protein family HMM TIGR01494; match to protein family HMM TIGR01525 YP_001405957.1 identified by glimmer; putative YP_001405960.1 identified by match to protein family HMM PF04332 YP_001405961.1 identified by glimmer; putative YP_001405963.1 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_001405964.1 identified by match to protein family HMM PF03840; match to protein family HMM TIGR00810 YP_001405965.1 identified by match to protein family HMM PF01027 YP_001405966.1 identified by glimmer; putative YP_001405967.1 identified by match to protein family HMM PF00081; match to protein family HMM PF02777 YP_001405968.1 identified by match to protein family HMM PF07690 YP_001405969.1 identified by match to protein family HMM PF00209 YP_001405970.1 identified by glimmer; putative YP_001405971.1 identified by match to protein family HMM PF03150 YP_001405972.1 required for the assembly and function of the DNAX complex which is required for the assembly of the beta subunit onto primed DNA YP_001405973.1 identified by match to protein family HMM PF00773; match to protein family HMM PF08206 YP_001405974.1 identified by glimmer; putative YP_001405975.1 catalyzes the formation of (R)-2,3-dihydroxy-3-methylbutanoate from (S)-2-hydroxy-2-methyl-3-oxobutanoate in valine and isoleucine biosynthesis YP_001405976.1 identified by match to protein family HMM PF04748 YP_001405977.1 identified by match to protein family HMM PF02481 YP_001405978.1 similar to RuvC resolvase with substantial differences; NMR structural information suggests this protein is monomeric; unknown cellular function YP_001405979.1 identified by glimmer; putative YP_001405981.1 identified by match to protein family HMM PF06738 YP_001405983.1 identified by glimmer; putative YP_001405984.1 identified by glimmer; putative YP_001405985.1 identified by glimmer; putative YP_001405986.1 identified by glimmer; putative YP_001405987.1 identified by glimmer; putative YP_001405988.1 identified by glimmer; putative YP_001405989.1 identified by glimmer; putative YP_001405990.1 identified by glimmer; putative YP_001405991.1 identified by glimmer; putative YP_001405992.1 identified by glimmer; putative YP_001405993.1 identified by match to protein family HMM TIGR01573 YP_001405994.1 identified by match to protein family HMM PF01930 YP_001405995.1 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_001405996.1 identified by match to protein family HMM TIGR02592; match to protein family HMM TIGR02593 YP_001405999.1 identified by match to protein family HMM TIGR01877 YP_001406000.1 identified by match to protein family HMM PF01435 YP_001406001.1 identified by match to protein family HMM PF00512; match to protein family HMM PF02518 YP_001406002.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00486 YP_001406003.1 identified by match to protein family HMM PF01909 YP_001406004.1 identified by match to protein family HMM PF00005; match to protein family HMM TIGR00972 YP_001406005.1 identified by match to protein family HMM PF00528; match to protein family HMM TIGR00974 YP_001406006.1 identified by match to protein family HMM PF00528; match to protein family HMM TIGR02138 YP_001406007.1 identified by match to protein family HMM PF01547; match to protein family HMM TIGR00975 YP_001406009.1 identified by glimmer; putative YP_001406011.1 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_001406012.1 identified by glimmer; putative YP_001406013.1 identified by glimmer; putative YP_001406014.1 identified by glimmer; putative YP_001406015.1 identified by match to protein family HMM PF07719 YP_001406016.1 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_001406017.1 identified by match to protein family HMM PF02706 YP_001406018.1 converts L-alanine to D-alanine which is used in cell wall biosynthesis; binds one pyridoxal phosphate per monomer; forms a homodimer YP_001406019.1 identified by match to protein family HMM PF03772; match to protein family HMM TIGR00360 YP_001406021.1 identified by match to protein family HMM PF00037 YP_001406022.1 Catalyzes the reduction of nucleoside 5'-triphosphates to 2'-deoxynucleoside 5'-triphosphates YP_001406023.1 identified by match to protein family HMM PF04055; match to protein family HMM TIGR02495 YP_001406024.1 identified by glimmer; putative YP_001406025.1 identified by glimmer; putative YP_001406026.1 identified by match to protein family HMM PF01351 YP_001406028.1 identified by match to protein family HMM PF00528; match to protein family HMM TIGR01726 YP_001406029.1 identified by match to protein family HMM PF00005 YP_001406030.1 identified by match to protein family HMM PF00497 YP_001406031.1 identified by glimmer; putative YP_001406032.1 identified by match to protein family HMM PF02581; match to protein family HMM TIGR00693 YP_001406033.1 identified by match to protein family HMM PF02673; match to protein family HMM TIGR00753 YP_001406034.1 identified by match to protein family HMM PF00497 YP_001406036.1 identified by glimmer; putative YP_001406037.1 identified by match to protein family HMM PF01926; 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_001406038.1 identified by match to protein family HMM PF04023 YP_001406039.1 identified by glimmer; putative YP_001406040.1 identified by match to protein family HMM PF00578; match to protein family HMM PF08534 YP_001406041.1 identified by match to protein family HMM PF00005 YP_001406042.1 involved in lipoprotein release; identified by match to protein family HMM PF02687 YP_001406043.1 identified by match to protein family HMM PF02687 YP_001406044.1 identified by match to protein family HMM PF04945 YP_001406046.1 identified by match to protein family HMM PF03239 YP_001406048.1 identified by match to protein family HMM PF01177; match to protein family HMM TIGR00035 YP_001406049.1 identified by glimmer; putative YP_001406052.1 identified by glimmer; putative YP_001406053.1 identified by glimmer; putative YP_001406054.1 identified by match to protein family HMM PF00730 YP_001406056.1 identified by match to protein family HMM PF05673 YP_001406057.1 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_001406058.1 identified by match to protein family HMM PF01551 YP_001406059.1 identified by match to protein family HMM PF08245; match to protein family HMM TIGR01499 YP_001406061.1 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_001406063.1 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_001406064.1 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_001406065.1 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_001406066.1 Transfers the fatty acyl group on membrane lipoproteins YP_001406068.1 catalyzes the formation of 3-phosphonooxypyruvate from 3-phospho-D-glycerate in serine biosynthesis; can also reduce alpha ketoglutarate to form 2-hydroxyglutarate YP_001406069.1 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_001406070.1 identified by glimmer; putative YP_001406071.1 catalyzes the conversion of 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate into isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP); functions in the nonmevalonate isoprenoid biosynthesis pathway YP_001406072.1 catalyzes the formation of 5-O-(1-carboxyvinyl)-3-phosphoshikimate from phosphoenolpyruvate and 3-phosphoshikimate in tryptophan biosynthesis YP_001406073.1 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_001406074.1 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_001406075.1 identified by match to protein family HMM PF01230 YP_001406076.1 methylates ribosomal protein L11 at multiple amino acid positions; mutations of these genes in Escherichia coli or Thermus thermophilus has no apparent phenotype YP_001406077.1 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 PF07728; match to protein family HMM TIGR01241 YP_001406078.1 identified by match to protein family HMM PF01066; match to protein family HMM TIGR00473 YP_001406079.1 catalyzes the formation of 2-isopropylmalate from acetyl-CoA and 2-oxoisovalerate in leucine biosynthesis YP_001406080.1 identified by match to protein family HMM PF01678; match to protein family HMM TIGR00652 YP_001406081.1 identified by match to protein family HMM PF01632; match to protein family HMM TIGR00001 YP_001406082.1 binds directly to 23S ribosomal RNA prior to in vitro assembly of the 50S ribosomal subunit YP_001406083.1 identified by glimmer; putative YP_001406084.1 identified by glimmer; putative YP_001406085.1 identified by glimmer; putative YP_001406088.1 recognizes the termination signals UGA 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 RF2; in some organisms control of PrfB protein levels is maintained through a +1 ribosomal frameshifting mechanism; this protein is similar to release factor 1 YP_001406089.1 catalyzes the formation of (R)-pantothenate from pantoate and beta-alanine YP_001406090.1 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 TIGR01125 YP_001406091.1 tRNA(Ile)-lysidinesynthetase; tRNA(Ile)-2-lysyl-cytidine synthase; identified by match to protein family HMM PF01171; match to protein family HMM TIGR02432 YP_001406093.1 identified by match to protein family HMM PF04028 YP_001406094.1 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_001406096.1 modifies transcription through interactions with RNA polymerase affecting elongation, readthrough, termination, and antitermination YP_001406098.1 identified by glimmer; putative YP_001406099.1 identified by match to protein family HMM PF02687 YP_001406100.1 identified by match to protein family HMM PF00005 YP_001406102.1 identified by match to protein family HMM PF08241 YP_001406103.1 identified by match to protein family HMM PF08279 YP_001406104.1 identified by match to protein family HMM PF01297 YP_001406105.1 identified by match to protein family HMM PF00005 YP_001406106.1 identified by match to protein family HMM PF00950; match to protein family HMM PF01032 YP_001406107.1 identified by match to protein family HMM PF00578; match to protein family HMM PF08534 YP_001406108.1 identified by match to protein family HMM PF00497 YP_001406109.1 identified by glimmer; putative YP_001406110.1 catalyzes the formation of D-fructose 6-phosphate from D-glucose 6-phosphate YP_001406111.1 identified by match to protein family HMM PF00483; match to protein family HMM TIGR01099 YP_001406112.1 identified by match to protein family HMM PF01205 YP_001406114.1 identified by match to protein family HMM PF01551 YP_001406115.1 identified by glimmer; putative YP_001406116.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00486 YP_001406117.1 identified by match to protein family HMM PF00512; match to protein family HMM PF02518 YP_001406118.1 identified by match to protein family HMM PF00209 YP_001406119.1 identified by glimmer; putative YP_001406120.1 identified by glimmer; putative YP_001406121.1 identified by match to protein family HMM PF01207 YP_001406123.1 identified by match to protein family HMM PF01258 YP_001406124.1 identified by match to protein family HMM PF02590 YP_001406125.1 catalyzes the carboxylation of acetyl-CoA to malonyl-CoA; forms a tetramer of AccA2D2 subunits YP_001406126.1 identified by match to protein family HMM PF06808; match to protein family HMM TIGR02123 YP_001406127.1 identified by match to protein family HMM TIGR02122 YP_001406128.1 identified by match to protein family HMM PF00005 YP_001406129.1 identified by match to protein family HMM PF02361 YP_001406131.1 catalyzes the ATP-dependent transport of cobalt YP_001406132.1 identified by glimmer; putative YP_001406134.1 catalyzes the hydrolysis of S-ribosylhomocysteine to homocysteine and autoinducer-2 YP_001406136.1 identified by match to protein family HMM PF08761 YP_001406137.1 identified by match to protein family HMM PF00004; match to protein family HMM PF05362; match to protein family HMM PF07728; match to protein family HMM TIGR00763 YP_001406139.1 catalyzes the formation of L-proline from pyrroline-5-carboxylate YP_001406140.1 identified by match to protein family HMM PF07963; match to protein family HMM TIGR02532 YP_001406141.1 identified by match to protein family HMM PF07963; match to protein family HMM TIGR02532 YP_001406143.1 identified by match to protein family HMM PF02482; match to protein family HMM TIGR00741 YP_001406144.1 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_001406145.1 identified by match to protein family HMM PF00886; match to protein family HMM TIGR00002 YP_001406147.1 identified by match to protein family HMM PF01782; match to protein family HMM PF05239; match to protein family HMM TIGR02273 YP_001406148.1 methylates guanosine-37 in various tRNAs; uses S-adenosyl-L-methionine to transfer methyl group to tRNA YP_001406149.1 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_001406150.1 identified by match to protein family HMM PF03061; match to protein family HMM TIGR00051 YP_001406151.1 identified by match to protein family HMM PF02321; match to protein family HMM TIGR01845 YP_001406152.1 identified by match to protein family HMM PF00873; match to protein family HMM TIGR00915 YP_001406153.1 identified by match to protein family HMM PF00529; match to protein family HMM TIGR01730 YP_001406154.1 identified by match to protein family HMM PF00440 YP_001406155.1 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_001406156.1 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_001406157.1 identified by glimmer; putative YP_001406158.1 identified by glimmer; putative YP_001406160.1 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_001406161.1 plays an essential role in ATP-dependent branch migration of the Holliday junction YP_001406163.1 identified by match to protein family HMM PF02470 YP_001406164.1 identified by match to protein family HMM PF00005 YP_001406165.1 identified by match to protein family HMM PF02405; match to protein family HMM TIGR00056 YP_001406166.1 identified by match to protein family HMM PF03023; match to protein family HMM TIGR01695 YP_001406167.1 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_001406168.1 identified by match to protein family HMM PF00005; match to protein family HMM PF00664 YP_001406169.1 catalyzes the conversion of dihydroorotate to orotate in the pyrimidine biosynthesis pathway; uses a flavin nucleotide as an essential cofactor; class 2 enzymes are monomeric and compared to the class 1 class 2 possess an extended N terminus, which plays a role in the membrane association of the enzyme and provides the binding site for the respiratory quinones that serve as physiological electron acceptors YP_001406170.1 identified by match to protein family HMM PF00675; match to protein family HMM PF05193 YP_001406171.1 catalyzes the formation of dihydrodipicolinate from L-aspartate 4-semialdehyde and pyruvate in lysine and diaminopimelate biosynthesis YP_001406172.1 Acts on the hydroxyl group at position 7 of the steroid frame YP_001406173.1 identified by match to protein family HMM PF01066; match to protein family HMM TIGR00560 YP_001406174.1 identified by glimmer; putative YP_001406175.1 identified by glimmer; putative YP_001406176.1 identified by glimmer; putative YP_001406177.1 identified by match to protein family HMM PF00353 YP_001406178.1 identified by glimmer; putative YP_001406179.1 identified by glimmer; putative YP_001406180.1 identified by glimmer; putative YP_001406181.1 contains 2 copies of ggxgxdxxx repeat; identified by match to protein family HMM PF00353 YP_001406182.1 identified by glimmer; putative YP_001406183.1 identified by glimmer; putative YP_001406185.1 identified by glimmer; putative YP_001406186.1 identified by match to protein family HMM PF01476 YP_001406187.1 identified by glimmer; putative YP_001406188.1 identified by glimmer; putative YP_001406189.1 identified by glimmer; putative YP_001406190.1 identified by glimmer; putative YP_001406191.1 identified by glimmer; putative YP_001406192.1 identified by match to protein family HMM PF00353 YP_001406193.1 identified by glimmer; putative YP_001406194.1 identified by match to protein family HMM PF02163; match to protein family HMM TIGR00054 YP_001406195.1 identified by match to protein family HMM TIGR00044 YP_001406196.1 identified by glimmer; putative YP_001406197.1 identified by match to protein family HMM PF00011 YP_001406198.1 catalyzes the formation of threonyl-tRNA(Thr) from threonine and tRNA(Thr); 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 YP_001406199.1 IF-3 has several functions that are required and promote translation initiation including; preventing association of 70S by binding to 30S; monitoring codon-anticodon interactions by promoting disassociation of fMet-tRNA(fMet) from initiation complexes formed on leaderless mRNAs or incorrectly bound noninitiatior tRNAs and complexes with noncanonical start sites; stimulates codon-anticodon interactions at P-site; involved in moving mRNA to the P-site; and in recycling subunits YP_001406200.1 identified by glimmer; putative YP_001406201.1 identified by match to protein family HMM PF01219 YP_001406204.1 identified by match to protein family HMM PF05175; match to protein family HMM TIGR00536 YP_001406205.1 identified by match to protein family HMM PF01435 YP_001406206.1 identified by match to protein family HMM PF00005 YP_001406207.1 identified by match to protein family HMM PF02322 YP_001406208.1 identified by match to protein family HMM PF01654 YP_001406211.1 identified by glimmer; putative YP_001406212.1 identified by match to protein family HMM PF00958 YP_001406213.1 identified by match to protein family HMM PF00165 YP_001406214.1 identified by match to protein family HMM PF00005 YP_001406215.1 identified by match to protein family HMM PF00005 YP_001406216.1 identified by glimmer; putative YP_001406219.1 identified by glimmer; putative YP_001406220.1 identified by match to protein family HMM PF02086 YP_001406221.1 identified by glimmer; putative YP_001406222.1 contains glutamine-hydrolyzing domain and glutamine amidotransferase; GMP-binding domain; functions to produce GMP from XMP in the IMP pathway YP_001406223.1 identified by glimmer; putative YP_001406225.1 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_001406226.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00512; match to protein family HMM PF02518 YP_001406227.1 identified by match to protein family HMM PF00072 YP_001406228.1 identified by match to protein family HMM PF00137; match to protein family HMM TIGR01260 YP_001406229.1 identified by match to protein family HMM PF01863 YP_001406230.1 identified by match to protein family HMM PF01554; match to protein family HMM TIGR00797 YP_001406231.1 in Escherichia coli transcription of this gene is enhanced by polyamines YP_001406232.1 identified by match to protein family HMM TIGR00188 YP_001406233.1 identified by match to protein family HMM PF01809; match to protein family HMM TIGR00278 YP_001406234.1 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_001406236.1 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_001406237.1 identified by match to protein family HMM PF03279 YP_001406239.1 identified by match to protein family HMM PF00534 YP_001406240.1 identified by match to protein family HMM PF04932 YP_001406241.1 identified by match to protein family HMM PF01522 YP_001406242.1 identified by match to protein family HMM PF00534 YP_001406243.1 identified by match to protein family HMM PF00534 YP_001406244.1 identified by match to protein family HMM PF01522 YP_001406245.1 identified by match to protein family HMM PF00535 YP_001406246.1 identified by match to protein family HMM PF00884 YP_001406247.1 identified by match to protein family HMM PF00984; match to protein family HMM PF03720; match to protein family HMM PF03721; match to protein family HMM TIGR03026 YP_001406248.1 catalyzes the formation of 2-(formamido)-N1-(5-phospho-D-ribosyl)acetamidine from N2-formyl-N1-(5-phospho-D-ribosyl)glycinamide and L-glutamine in purine biosynthesis YP_001406249.1 identified by match to protein family HMM PF00226 YP_001406250.1 identified by glimmer; putative YP_001406251.1 involved in de novo purine biosynthesis YP_001406253.1 required for the synthesis of the hydromethylpyrimidine moiety of thiamine YP_001406255.1 identified by glimmer; putative YP_001406257.1 essential GTPase; exhibits high exchange rate for GTP/GDP; associates with 50S ribosomal subunit; involved in regulation of chromosomal replication YP_001406258.1 catalyzes the formation of glutamate 5-phosphate from glutamate in proline biosynthesis YP_001406259.1 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_001406260.1 catalyzes the formation of biotinyl-5'-AMP, also acts as a transcriptional repressor of the biotin operon YP_001406261.1 identified by match to protein family HMM PF01656 YP_001406262.1 identified by match to protein family HMM PF02195; match to protein family HMM TIGR00180 YP_001406263.1 identified by match to protein family HMM PF00430 YP_001406264.1 Produces ATP from ADP in the presence of a proton gradient across the membrane. Subunit B is part of the membrane proton channel. YP_001406265.1 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_001406266.1 produces ATP from ADP in the presence of a proton gradient across the membrane; the alpha chain is a catalytic subunit YP_001406267.1 Produces ATP from ADP in the presence of a proton gradient across the membrane. The gamma chain is a regulatory subunit YP_001406268.1 Produces ATP from ADP in the presence of a proton gradient across the membrane. The beta chain is a regulatory subunit YP_001406269.1 part of catalytic core of ATP synthase; alpha(3)beta(3)gamma(1)delta(1)epsilon(1); involved in producing ATP from ADP in the presence of the proton motive force across the membrane YP_001406270.1 identified by match to protein family HMM PF01618 YP_001406271.1 identified by match to protein family HMM PF02472 YP_001406273.1 forms dimers; may be involved in cell envelope integrity; interacts with outer membrane proteins and with the C-terminal domain of inner membrane protein TolA YP_001406274.1 identified by match to protein family HMM PF00691 YP_001406276.1 identified by glimmer; putative YP_001406277.1 identified by match to protein family HMM PF00254 YP_001406278.1 identified by match to protein family HMM PF00698; match to protein family HMM TIGR00128 YP_001406279.1 enables the cleavage of the glycosidic bond in both 5'-methylthioadenosine and S-adenosylhomocysteine YP_001406280.1 identified by match to protein family HMM PF01171 YP_001406281.1 7,8-diamino-pelargonic acid aminotransferase; dapaaminotransferase; identified by match to protein family HMM PF00202; match to protein family HMM TIGR00347; match to protein family HMM TIGR00508 YP_001406282.1 identified by match to protein family HMM PF00474 YP_001406283.1 catalyzes the formation of thiamine diphosphate from thiamine phosphate ant ATP YP_001406285.1 identified by match to protein family HMM PF00849 YP_001406286.1 catalyzes the transfer of 2-keto-3-deoxy-D-manno-octulosonic acid to lipid A YP_001406287.1 identified by match to protein family HMM PF02591 YP_001406288.1 identified by match to protein family HMM PF01784; match to protein family HMM TIGR00486 YP_001406289.1 glycine--tRNA ligase alpha chain; GlyRS; class II aminoacyl tRNA synthetase; tetramer of alpha(2)beta(2); catalyzes a two-step reaction; first charging a glycine molecule by linking its carboxyl group to the alpha-phosphate of ATP; second by transfer of the aminoacyl-adenylate to its tRNA YP_001406290.1 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_001406291.1 catalyzes the formation of biotin from dethiobiotin and sulfur 2 S-adenosyl-L-methionine YP_001406292.1 catalyzes the formation of riboflavin from 6,7-dimethyl-8-(1-D-ribityl)lumazine YP_001406293.1 identified by match to protein family HMM PF02578 YP_001406294.1 identified by glimmer; putative YP_001406295.1 sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released; this is the primary sigma factor of bacteria YP_001406296.1 identified by match to protein family HMM PF03458 YP_001406297.1 catalyzes the formation of N-acetyl-l-glutamate 5-semialdehyde from 2-oxoglutarate and N(2)-acetyl-L-ornithine YP_001406298.1 identified by match to protein family HMM PF02636 YP_001406300.1 identified by match to protein family HMM PF03602; match to protein family HMM TIGR00095 YP_001406301.1 identified by match to protein family HMM TIGR02757 YP_001406302.1 identified by match to protein family HMM PF01925 YP_001406303.1 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_001406304.1 identified by match to protein family HMM PF03548 YP_001406305.1 identified by glimmer; putative YP_001406307.1 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_001406309.1 catalyzes the formation of D-fructose 6-phosphate from fructose-1,6-bisphosphate YP_001406310.1 identified by match to protein family HMM PF03205; match to protein family HMM TIGR00176 YP_001406313.1 identified by glimmer; putative YP_001406314.1 catalyzes the formation of tetrahydrofolate and 2-dehydropantoate from 5,10-methylenetetrahydrofolate and 3-methyl-2-oxobutanoate YP_001406315.1 identified by match to protein family HMM PF08238 YP_001406316.1 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_001406317.1 identified by match to protein family HMM PF01594 YP_001406318.1 identified by glimmer; putative YP_001406320.1 identified by match to protein family HMM PF02130; match to protein family HMM TIGR00043 YP_001406321.1 identified by match to protein family HMM PF02568; match to protein family HMM PF06508; match to protein family HMM TIGR00364 YP_001406322.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00486 YP_001406323.1 identified by match to protein family HMM PF00512; match to protein family HMM PF02518 YP_001406325.1 identified by match to protein family HMM PF02541 YP_001406327.1 identified by match to protein family HMM PF00258 YP_001406328.1 identified by glimmer; putative YP_001406329.1 identified by glimmer; putative YP_001406330.1 identified by glimmer; putative YP_001406331.1 identified by glimmer; putative YP_001406332.1 identified by match to protein family HMM PF02403 YP_001406333.1 identified by glimmer; putative YP_001406334.1 identified by match to protein family HMM PF04323 YP_001406336.1 identified by match to protein family HMM PF01073; match to protein family HMM PF01370; match to protein family HMM PF02719; match to protein family HMM PF04321; match to protein family HMM PF07993 YP_001406337.1 identified by glimmer; putative YP_001406338.1 identified by match to protein family HMM PF00589 YP_001406339.1 identified by match to protein family HMM PF03841; match to protein family HMM TIGR00474 YP_001406340.1 identified by match to protein family HMM PF00009; match to protein family HMM PF03144; match to protein family HMM PF09107; match to protein family HMM TIGR00231; match to protein family HMM TIGR00475 YP_001406341.1 binds to the ribosome on the universally-conserved alpha-sarcin loop YP_001406342.1 3'-5' exonuclease of DNA polymerase III YP_001406343.1 catalyzes the interconversion of D-ribulose 5-phosphate to xylulose 5-phosphate YP_001406344.1 identified by match to protein family HMM PF00830; match to protein family HMM TIGR00009 YP_001406345.1 identified by match to protein family HMM PF02254; match to protein family HMM PF07885 YP_001406346.1 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_001406347.1 identified by match to protein family HMM PF00132 YP_001406348.1 identified by match to protein family HMM PF00884 YP_001406349.1 identified by match to protein family HMM PF00209 YP_001406350.1 identified by match to protein family HMM PF01467; match to protein family HMM PF02410; match to protein family HMM TIGR00090; match to protein family HMM TIGR00125; match to protein family HMM TIGR00482 YP_001406351.1 identified by match to protein family HMM PF00044; match to protein family HMM PF02800; match to protein family HMM TIGR01534 YP_001406352.1 Converts 3-phospho-D-glycerate to 3-phospho-D-glyceroyl phosphate during the glycolysis pathway YP_001406353.1 Reversibly isomerizes the ketone sugar dihydroxyacetone phosphate to the aldehyde sugar glyceraldehyde-3-phosphate YP_001406354.1 Catalyzes a key regulatory step in fatty acid biosynthesis YP_001406356.1 catalyzes the formation of a phosphodiester at the site of a single-strand break in duplex DNA YP_001406357.1 identified by match to protein family HMM PF01073; match to protein family HMM PF01370; match to protein family HMM PF02719; match to protein family HMM PF04321; match to protein family HMM PF07993; match to protein family HMM TIGR01179 YP_001406358.1 identified by glimmer; putative YP_001406359.1 identified by glimmer; putative YP_001406361.1 identified by match to protein family HMM PF00350 YP_001406362.1 identified by glimmer; putative YP_001406363.1 identified by glimmer; putative YP_001406364.1 identified by match to protein family HMM PF04355 YP_001406365.1 identified by match to protein family HMM PF03895; match to protein family HMM PF05658; match to protein family HMM PF05662 YP_001406367.1 identified by match to protein family HMM PF00216 YP_001406368.1 identified by match to protein family HMM PF03883 YP_001406369.1 biotin carboxylase; catalyses the carboxylation of the carrier protein which then transfers the carboxyl group to form malonyl-CoA, which in turn controls the rate of fatty acid metabolism YP_001406370.1 identified by glimmer; putative YP_001406371.1 identified by glimmer; putative YP_001406372.1 identified by match to protein family HMM PF06965; match to protein family HMM TIGR00773 YP_001406373.1 identified by glimmer; putative YP_001406375.1 identified by glimmer; putative YP_001406376.1 identified by match to protein family HMM PF00939; match to protein family HMM PF03600; match to protein family HMM TIGR00785 YP_001406378.1 identified by match to protein family HMM PF08003; match to protein family HMM PF08241; match to protein family HMM PF08242 YP_001406379.1 identified by glimmer; putative YP_001406380.1 identified by match to protein family HMM PF00497 YP_001406381.1 identified by glimmer; putative YP_001406384.1 identified by match to protein family HMM PF01795; match to protein family HMM TIGR00006 YP_001406385.1 identified by match to protein family HMM PF00596 YP_001406387.1 identified by match to protein family HMM PF02491; match to protein family HMM TIGR01174 YP_001406388.1 identified by match to protein family HMM PF00091; match to protein family HMM PF03953; match to protein family HMM TIGR00065 YP_001406390.1 identified by match to protein family HMM PF00004 YP_001406392.1 identified by glimmer; putative YP_001406393.1 identified by glimmer; putative YP_001406394.1 Catalyzes the first step in hexosamine metabolism, converting fructose-6P into glucosamine-6P using glutamine as a nitrogen source YP_001406396.1 identified by match to protein family HMM PF04055; match to protein family HMM TIGR00423 YP_001406397.1 identified by match to protein family HMM PF00156 YP_001406398.1 identified by match to protein family HMM PF07690 YP_001406400.1 identified by match to protein family HMM PF07963; match to protein family HMM TIGR02532 YP_001406401.1 identified by match to protein family HMM PF00583 YP_001406402.1 identified by match to protein family HMM PF00005 YP_001406403.1 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_001406404.1 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_001406405.1 identified by glimmer; putative YP_001406406.1 identified by match to protein family HMM PF04371 YP_001406407.1 1-agpacyltransferase; 1-agpat; ysophosphatidic acid acyltransferase; lpaat; identified by match to protein family HMM PF01553 YP_001406409.1 catalyzes the formation of 2-(formamido)-N1-(5-phospho-D-ribosyl)acetamidine from N2-formyl-N1-(5-phospho-D-ribosyl)glycinamide and L-glutamine in purine biosynthesis YP_001406410.1 identified by match to protein family HMM PF02700; match to protein family HMM TIGR00302 YP_001406411.1 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_001406412.1 identified by match to protein family HMM PF00595; match to protein family HMM PF03572; match to protein family HMM TIGR00225 YP_001406413.1 identified by match to protein family HMM PF00004; match to protein family HMM PF02861; match to protein family HMM PF07724; match to protein family HMM PF07728 YP_001406415.1 identified by match to protein family HMM PF00892; match to protein family HMM TIGR00688 YP_001406416.1 identified by match to protein family HMM PF01474; match to protein family HMM TIGR01358 YP_001406417.1 identified by match to protein family HMM PF01557 YP_001406419.1 transfers the N-acyl diglyceride moiety to the prospective N-terminal cysteine in prolipoprotein YP_001406420.1 identified by match to protein family HMM PF02967 YP_001406421.1 part of three member fumarate reductase enzyme complex FrdABC which catalyzes the reduction of fumarate to succinate during anaerobic respiration; FrdAB are the catalytic subcomplex consisting of a flavoprotein subunit and an iron-sulfur subunit, respectively; FrdC is the cytochrome b-556 subunit; the catalytic subunits are similar to succinate dehydrogenase SdhAB YP_001406422.1 part of three member fumarate reductase enzyme complex FrdABC which catalyzes the reduction of fumarate to succinate during anaerobic respiration; FrdAB are the catalytic subcomplex consisting of a flavoprotein subunit and an iron-sulfur subunit, respectively; FrdC is the cytochrome b-556 subunit; the catalytic subunits are similar to succinate dehydrogenase SdhAB YP_001406423.1 identified by match to protein family HMM PF00350 YP_001406424.1 identified by match to protein family HMM PF00350 YP_001406425.1 Membrane-bound hydrogenase small subunit; Hydrogen:quinoneoxidoreductase; identified by match to protein family HMM PF01058; match to protein family HMM PF08425; match to protein family HMM TIGR00391; match to protein family HMM TIGR01409 YP_001406426.1 Membrane-bound hydrogenase large subunit; Hydrogen:quinoneoxidoreductase; identified by match to protein family HMM PF00374 YP_001406427.1 identified by match to protein family HMM PF01292; match to protein family HMM TIGR02125 YP_001406428.1 identified by match to protein family HMM PF01750; match to protein family HMM TIGR00072 YP_001406430.1 identified by match to protein family HMM PF00708; match to protein family HMM PF01300; match to protein family HMM PF07503 YP_001406432.1 identified by glimmer; putative YP_001406433.1 identified by glimmer; putative YP_001406434.1 identified by match to protein family HMM PF01402; match to protein family HMM PF08753 YP_001406435.1 identified by match to protein family HMM PF02492; match to protein family HMM TIGR00073 YP_001406436.1 identified by match to protein family HMM PF01455; match to protein family HMM TIGR00074 YP_001406437.1 identified by match to protein family HMM PF01924; match to protein family HMM TIGR00075 YP_001406438.1 identified by glimmer; putative YP_001406440.1 identified by match to protein family HMM TIGR01352 YP_001406441.1 identified by match to protein family HMM PF02472; match to protein family HMM TIGR02804 YP_001406442.1 identified by match to protein family HMM PF01618; match to protein family HMM TIGR02805 YP_001406443.1 identified by match to protein family HMM PF00586; match to protein family HMM PF02769; match to protein family HMM TIGR02124 YP_001406445.1 identified by glimmer; putative YP_001406446.1 identified by glimmer; putative YP_001406447.1 identified by glimmer; putative YP_001406449.1 identified by glimmer; putative YP_001406450.1 identified by glimmer; putative YP_001406451.1 identified by match to protein family HMM PF00291; match to protein family HMM TIGR01136; match to protein family HMM TIGR01139 YP_001406452.1 identified by match to protein family HMM PF02082; match to protein family HMM TIGR00738 YP_001406453.1 identified by match to protein family HMM PF01053; match to protein family HMM TIGR01326 YP_001406455.1 identified by match to protein family HMM PF00702; match to protein family HMM TIGR01509 YP_001406457.1 identified by match to protein family HMM PF00348 YP_001406458.1 catalyzes the formation of glutamate-1-semialdehyde from glutamyl-tRNA(Glu) and NADPH; the second step of the pathway is catalyzed by glutamate-1-semialdehyde aminomutase which results in the formation of 5-aminolevulinic acid; functions in porphyrin (tetrapyrroles) biosynthesis; the crystal structure showed a C-terminal dimerization domain that appears to be absent in Chlamydial proteins YP_001406459.1 catalyzes the formation of prolyl-tRNA(Pro) from proline and tRNA(Pro) YP_001406461.1 transformation of porphobilinogen to hydroxymethylbilane in porphyrin biosynthesis YP_001406463.1 identified by match to protein family HMM PF01977; match to protein family HMM TIGR00148 YP_001406464.1 identified by glimmer; putative YP_001406465.1 identified by glimmer; putative YP_001406467.1 identified by match to protein family HMM PF02464; match to protein family HMM TIGR00199 YP_001406468.1 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 1 subfamily; some organisms carry two different copies of this enzyme YP_001406469.1 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_001406470.1 catalyzes the synthesis of xanthosine monophosphate by the NAD+ dependent oxidation of inosine monophosphate YP_001406471.1 identified by match to protein family HMM PF00561; match to protein family HMM TIGR01392 YP_001406474.1 identified by glimmer; putative YP_001406475.1 identified by match to protein family HMM PF01155 YP_001406477.1 identified by match to protein family HMM PF00300 YP_001406478.1 identified by match to protein family HMM PF04305 YP_001406479.1 identified by match to protein family HMM PF01694 YP_001406481.1 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_001406482.1 identified by match to protein family HMM PF00994; match to protein family HMM PF03453; match to protein family HMM PF03454; match to protein family HMM TIGR00177 YP_001406483.1 identified by match to protein family HMM PF02441; match to protein family HMM TIGR00421 YP_001406484.1 Catalyzes the conversion of ATP and pantetheine 4'-phosphate to diphosphate and 3'-dephospho-coA YP_001406485.1 catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to thymidine monophosphate (dTMP) to form thymidine diphosphate (dTDP) YP_001406486.1 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_001406487.1 catalyzes the formation of agmatine from arginine in putrescine and spermidine biosynthesis YP_001406488.1 identified by match to protein family HMM PF00132; match to protein family HMM TIGR01172 YP_001406489.1 catalyzes the formation of oxalozcetate and L-glutamate from L-aspartate and 2-oxoglutarate YP_001406490.1 identified by match to protein family HMM TIGR01552 YP_001406491.1 identified by match to protein family HMM PF00561 YP_001406492.1 identified by match to protein family HMM PF02875; match to protein family HMM PF08245 YP_001406493.1 bifunctional enzyme involved in formation of 4-diphosphocytidyl-2-C-methyl-D-erythritol from CTP and 2-C-methyl-D-erythritol 4-phosphate and 2-C-methyl-D-erythritol 2,4-cyclodiphosphate and CMP from 4-diphosphocytidyl-2-C-methyl-D-erythritol 2-phosphate; involved in isoprenoid and isopentenyl-PP biosynthesis; binds divalent cations YP_001406494.1 identified by glimmer; putative YP_001406497.1 identified by match to protein family HMM PF02082; match to protein family HMM TIGR00738 YP_001406498.1 identified by match to protein family HMM PF00312; match to protein family HMM TIGR00952 YP_001406499.1 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_001406500.1 identified by match to protein family HMM PF02687 YP_001406503.1 identified by glimmer; putative YP_001406504.1 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; NAD(P)H-dependentdihydroxyacetone-phosphate reductase; catalyzes the NAD(P)H-dependent reduction of glycerol 3-phosphate to glycerone phosphate YP_001406505.1 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_001406506.1 identified by glimmer; putative YP_001406507.1 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_001406508.1 identified by match to protein family HMM PF00117; match to protein family HMM PF07685; match to protein family HMM TIGR01855 YP_001406510.1 identified by match to protein family HMM PF01073; match to protein family HMM PF01370; match to protein family HMM PF02719; match to protein family HMM PF04321 YP_001406511.1 identified by match to protein family HMM PF01041; match to protein family HMM PF01212 YP_001406513.1 identified by match to protein family HMM PF02397 YP_001406514.1 identified by match to protein family HMM PF00534 YP_001406515.1 identified by match to protein family HMM PF02516 YP_001406516.1 identified by match to protein family HMM PF00534 YP_001406517.1 identified by match to protein family HMM PF00534 YP_001406518.1 identified by match to protein family HMM PF00535 YP_001406519.1 identified by match to protein family HMM PF00534 YP_001406520.1 identified by match to protein family HMM PF00535 YP_001406522.1 identified by match to protein family HMM PF00037 YP_001406523.1 identified by match to protein family HMM PF01943; match to protein family HMM PF03023 YP_001406524.1 identified by match to protein family HMM PF03974 YP_001406525.1 catalyzes the transfer of the carbamoyl moiety from carbamoyl phosphate to L- aspartate in pyrimidine biosynthesis YP_001406526.1 identified by match to protein family HMM PF01979; match to protein family HMM TIGR00857 YP_001406527.1 identified by glimmer; putative YP_001406528.1 identified by glimmer; putative YP_001406529.1 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_001406530.1 catalyzes the conjugation of cysteine to 4'-phosphopantothenate to form 4-phosphopantothenoylcysteine, which is then decarboxylated to form 4'-phosphopantotheine YP_001406531.1 identified by match to protein family HMM PF01255; match to protein family HMM TIGR00055 YP_001406532.1 identified by match to protein family HMM PF01478; match to protein family HMM PF06750 YP_001406533.1 identified by match to protein family HMM PF03739 YP_001406534.1 tRNA-uridine isomeraseI; tRNA pseudouridylate synthase I; mediates pseudouridylation (positions 38, 39, 40) at the tRNA anticodon region which contributes to the structural stability YP_001406535.1 identified by match to protein family HMM PF00999; match to protein family HMM PF02254 YP_001406536.1 identified by match to protein family HMM PF00376 YP_001406537.1 identified by match to protein family HMM PF00226; match to protein family HMM PF01556 YP_001406538.1 identified by match to protein family HMM PF00089; match to protein family HMM PF00595; match to protein family HMM TIGR02037 YP_001406539.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00486 YP_001406540.1 identified by match to protein family HMM PF00512; match to protein family HMM PF00672 YP_001406541.1 identified by match to protein family HMM PF00085; match to protein family HMM PF02683 YP_001406542.1 identified by match to protein family HMM PF03976 YP_001406543.1 identified by glimmer; putative YP_001406544.1 identified by match to protein family HMM PF00905; match to protein family HMM PF00912; match to protein family HMM TIGR02074 YP_001406545.1 Maf; overexpression in Bacillus subtilis inhibits septation in the dividing cell YP_001406547.1 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_001406548.1 identified by match to protein family HMM PF01408 YP_001406549.1 protoheme ferro-lyase; catalyzes the insertion of a ferrous ion into protoporphyrin IX to form protoheme; involved in protoheme biosynthesis; in some organisms this protein is membrane-associated while in others it is cytosolic YP_001406551.1 identified by match to protein family HMM PF00580 YP_001406552.1 identified by glimmer; putative YP_001406553.1 identified by match to protein family HMM PF00210 YP_001406554.1 identified by glimmer; putative YP_001406555.1 identified by match to protein family HMM PF04608 YP_001406556.1 unwinds double stranded DNA YP_001406557.1 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_001406558.1 catalyzes the oxygen-independent formation of protoporphyrinogen-IX from coproporphyrinogen-III YP_001406559.1 (Di)nucleosidepentaphosphate pyrophosphatase; Ap5A pyrophosphatase; Protein InvA; hydrolyzes diadenosine polyphosphate YP_001406560.1 catalyzes the formation of 4-phospho-L-aspartate from L-aspartate and ATP, in Bacillus, lysine sensitive; regulated by response to starvation. YP_001406562.1 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_001406563.1 identified by match to protein family HMM PF00809; match to protein family HMM TIGR01496 YP_001406564.1 identified by match to protein family HMM PF07656 YP_001406565.1 identified by glimmer; putative YP_001406567.1 molecular chaperone YP_001406568.1 identified by match to protein family HMM PF02537 YP_001406570.1 catalyzes the modification of U13 in tRNA(Glu) YP_001406571.1 thiol-specific antioxidant protein fragment; identified by match to protein family HMM PF00578; match to protein family HMM PF08534 YP_001406572.1 identified by glimmer; putative YP_001406573.1 identified by match to protein family HMM PF02390; match to protein family HMM PF08241; match to protein family HMM PF08242; match to protein family HMM TIGR00740 YP_001406574.1 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_001406575.1 identified by match to protein family HMM PF08212 YP_001406576.1 identified by match to protein family HMM PF01479; match to protein family HMM PF01728 YP_001406577.1 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_001406579.1 CMP-2-keto-3-deoxyoctulosonic acid synthetase; catalyzes the formation of CMP-3-deoxy-D-manno-octulosonate from CTP and 3-deoxy-D-manno-octulosonate which is incorporated into LPS YP_001406580.1 catalyzes the formation of L-threonine from O-phospho-L-homoserine YP_001406582.1 catalyzes the phosphorylation of N-acetyl-L-glutamate to form N-acetyl-L-glutamate 5-phosphate YP_001406583.1 transfers the gamma-phosphate of ATP to the 4' position of a tetraacyldisaccharide 1-phosphate intermediate to form tetraacyldisaccharide 1,4'-bis-phosphate YP_001406584.1 identified by match to protein family HMM PF02540; match to protein family HMM PF06508; match to protein family HMM TIGR00552 YP_001406585.1 identified by match to protein family HMM PF00753 YP_001406586.1 catalyzes branch migration in Holliday junction intermediates YP_001406587.1 identified by match to protein family HMM PF00675; match to protein family HMM PF05193 YP_001406588.1 identified by match to protein family HMM PF04055; match to protein family HMM TIGR00423 YP_001406589.1 identified by match to protein family HMM PF01957 YP_001406590.1 identified by match to protein family HMM PF01145 YP_001406593.1 Converts (S)-4-amino-5-oxopentanoate to 5-aminolevulinate during the porphyrin biosynthesis pathway YP_001406595.1 catalyzes the formation of 5,10-methenyltetrahydrofolate from 5,10-methylenetetrahydrofolate and subsequent formation of 10-formyltetrahydrofolate from 5,10-methenyltetrahydrofolate YP_001406596.1 identified by match to protein family HMM PF00717; match to protein family HMM TIGR02227 YP_001406597.1 identified by glimmer; putative YP_001406600.1 identified by match to protein family HMM PF02502; match to protein family HMM TIGR00689; match to protein family HMM TIGR01120 YP_001406601.1 identified by glimmer; putative YP_001406602.1 catalyzes a salvage reaction resulting in the formation of AMP which is metabolically less costly than a de novo synthesis YP_001406604.1 catalyzes the removal of N-terminal amino acids preferably leucine from various peptides YP_001406605.1 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_001406606.1 undecaprenyl-pp-murnac-pentapeptide-UDPGlcNAC- GlcNACtransferase; 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_001406607.1 identified by match to protein family HMM PF01098 YP_001406608.1 identified by match to protein family HMM PF01580 YP_001406609.1 identified by match to protein family HMM PF00482 YP_001406610.1 identified by match to protein family HMM PF00437; match to protein family HMM PF05157 YP_001406611.1 identified by glimmer; putative YP_001406614.1 identified by match to protein family HMM PF00263; match to protein family HMM PF07655 YP_001406616.1 identified by glimmer; putative YP_001406618.1 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_001406619.1 heat shock protein involved in degradation of misfolded proteins YP_001406620.1 heat shock protein involved in degradation of misfolded proteins YP_001406621.1 identified by match to protein family HMM PF01281; match to protein family HMM PF03948; match to protein family HMM TIGR00158 YP_001406622.1 catalyzes the formation of 2-N(omega)-(L-arginino)succinate from L-citrulline and L-aspartate in arginine biosynthesis, AMP-forming YP_001406624.1 identified by match to protein family HMM PF01479 YP_001406625.1 identified by match to protein family HMM PF02367; match to protein family HMM TIGR00150 YP_001406626.1 identified by match to protein family HMM PF00005 YP_001406627.1 identified by match to protein family HMM PF03180 YP_001406628.1 identified by match to protein family HMM PF00994; match to protein family HMM TIGR00177 YP_001406629.1 identified by match to protein family HMM PF00004; match to protein family HMM PF01434 YP_001406630.1 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_001406631.1 identified by match to protein family HMM PF00924 YP_001406632.1 catalyzes the formation of 3-dehydroquinate from 3-deoxy-arabino-heptulonate 7-phosphate; functions in aromatic amino acid biosynthesis YP_001406634.1 identified by match to protein family HMM PF00639 YP_001406635.1 identified by match to protein family HMM PF09335 YP_001406636.1 identified by match to protein family HMM PF00149 YP_001406638.1 identified by match to protein family HMM PF00529; match to protein family HMM TIGR01730 YP_001406639.1 identified by match to protein family HMM PF00005; match to protein family HMM PF02687 YP_001406640.1 identified by match to protein family HMM PF02321 YP_001406641.1 d-aspartateaminotransferase; d-amino acid aminotransferase; d-amino acidtransaminase; daat; identified by match to protein family HMM PF01063 YP_001406643.1 identified by match to protein family HMM PF01625; match to protein family HMM PF01641; match to protein family HMM TIGR00357; match to protein family HMM TIGR00401 YP_001406646.1 identified by glimmer; putative YP_001406647.1 identified by glimmer; putative YP_001406648.1 identified by match to protein family HMM PF00892 YP_001406649.1 Synthesizes oQ from preQ1 in a single S-adenosylmethionine-requiring step YP_001406650.1 identified by match to protein family HMM PF00902; match to protein family HMM TIGR00945 YP_001406651.1 identified by match to protein family HMM TIGR01410 YP_001406652.1 identified by glimmer; putative YP_001406653.1 identified by glimmer; putative YP_001406656.1 identified by match to protein family HMM PF02086 YP_001406658.1 identified by glimmer; putative YP_001406659.1 catalyzes the formation of S-adenosylmethionine from methionine and ATP; methionine adenosyltransferase YP_001406660.1 involved in the import of serine and threonine coupled with the import of sodium YP_001406661.1 identified by match to protein family HMM PF01432; match to protein family HMM PF08439 YP_001406662.1 identified by match to protein family HMM PF02690 YP_001406664.1 identified by match to protein family HMM PF00580 YP_001406665.1 tRNA pseudouridine 55synthase; Psi55 synthase; RNA-uridine isomerase; RNApseudouridylate synthase; catalyzes isomerization of specific uridines in RNA to pseudouridine; responsible for residues in T loops of many tRNAs YP_001406666.1 CMK; 4-(cytidine-5'-diphospho)-2-C-methyl-D-erythritol kinase; catalyzes the phosphorylation of 4-diphosphocytidyl-2-C-methyl-D-erythritol in the nonmevalonate pathway of isoprenoid biosynthesis YP_001406667.1 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_001406669.1 identified by match to protein family HMM PF02617 YP_001406670.1 identified by match to protein family HMM PF00004; match to protein family HMM PF07724; match to protein family HMM PF07728 YP_001406671.1 identified by match to protein family HMM PF00905 YP_001406672.1 identified by match to protein family HMM PF00122; match to protein family HMM PF00702; match to protein family HMM TIGR01494; match to protein family HMM TIGR01511; match to protein family HMM TIGR01525 YP_001406673.1 identified by match to protein family HMM TIGR00847 YP_001406674.1 identified by match to protein family HMM PF01594 YP_001406675.1 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_001406676.1 identified by match to protein family HMM PF01025 YP_001406677.1 Acts as a negative regulator of the grpE-dnaK-dnaJ and groELS class I heat shock operons by preventing heat-shock induction YP_001406678.1 identified by match to protein family HMM PF00209 YP_001406679.1 identified by match to protein family HMM PF01545; match to protein family HMM TIGR01297 YP_001406680.1 identified by match to protein family HMM PF00795 YP_001406682.1 identified by glimmer; putative YP_001406683.1 identified by glimmer; putative YP_001406684.1 identified by glimmer; putative YP_001406685.1 identified by match to protein family HMM PF01384 YP_001406686.1 identified by glimmer; putative YP_001406687.1 identified by glimmer; putative YP_001406688.1 identified by match to protein family HMM PF00589 YP_001406690.1 identified by match to protein family HMM PF02618 YP_001406691.1 identified by match to protein family HMM PF03971; match to protein family HMM TIGR00178 YP_001406692.1 identified by match to protein family HMM PF00056 YP_001406693.1 catalyzes the interconversion of succinyl-CoA and succinate YP_001406694.1 identified by match to protein family HMM PF00549; match to protein family HMM PF02629; match to protein family HMM TIGR01019 YP_001406695.1 identified by match to protein family HMM PF00037 YP_001406696.1 identified by match to protein family HMM PF01855 YP_001406697.1 identified by match to protein family HMM PF02775 YP_001406698.1 identified by match to protein family HMM PF01558 YP_001406699.1 identified by glimmer; putative YP_001406700.1 identified by glimmer; putative YP_001406701.1 involved in a recombinational process of DNA repair, independent of the recBC complex YP_001406702.1 identified by match to protein family HMM PF00512; match to protein family HMM PF00672; match to protein family HMM PF02518 YP_001406703.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00486 YP_001406704.1 identified by match to protein family HMM PF00226; match to protein family HMM PF00684; match to protein family HMM PF01556; match to protein family HMM TIGR02349 YP_001406705.1 identified by glimmer; putative YP_001406706.1 identified by glimmer; putative YP_001406707.1 identified by glimmer; putative YP_001406708.1 identified by glimmer; putative YP_001406710.1 identified by glimmer; putative YP_001406711.1 identified by match to protein family HMM PF03797; match to protein family HMM TIGR01414 YP_001406712.1 identified by match to protein family HMM PF02222; match to protein family HMM PF02785; match to protein family HMM PF02786; match to protein family HMM PF08443 YP_001406713.1 identified by glimmer; putative YP_001406714.1 identified by glimmer; putative YP_001406716.1 identified by match to protein family HMM PF00023 YP_001406717.1 AckA utilizes acetate and can acetylate CheY which increases signal strength during flagellar rotation; utilizes magnesium and ATP; also involved in conversion of acetate to aceyl-CoA YP_001406718.1 identified by match to protein family HMM PF01515; match to protein family HMM TIGR00651 YP_001406720.1 catalyzes the formation of 2-acetolactate from pyruvate, leucine resistant; also known as acetolactate synthase 3 large subunit YP_001406721.1 with IlvI catalyzes the formation of 2-acetolactate from pyruvate, the small subunit is required for full activity and valine sensitivity; E.coli produces 3 isoenzymes of acetolactate synthase which differ in specificity to substrates, valine sensitivity and affinity for cofactors; also known as acetolactate synthase 3 small subunit YP_001406722.1 adds the O-linked and N-linked 3(R)-hydroxy fatty acids to the glucosamine disaccharide during lipid A biosynthesis YP_001406723.1 identified by match to protein family HMM PF00441; match to protein family HMM PF02771; match to protein family HMM PF08028 YP_001406725.1 identified by match to protein family HMM PF01717; match to protein family HMM PF08267 YP_001406726.1 identified by match to protein family HMM PF02566 YP_001406727.1 Exchanges the guanine residue with 7-aminomethyl-7-deazaguanine in tRNAs with GU(N) anticodons (tRNA-Asp, -Asn, -His and -Tyr) YP_001406728.1 identified by match to protein family HMM PF03600; match to protein family HMM PF03605; match to protein family HMM TIGR00770 YP_001406729.1 identified by glimmer; putative YP_001406730.1 identified by match to protein family HMM PF02581 YP_001406731.1 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_001406732.1 functions in thiamine (vitamin B1) biosynthesis; in Bacillus subtilis this enzyme catalyzes the formation of thiazole from dehydroxyglycine and 1-deoxy-D-xylulose-5-phosphate and ThiS-thiocarboxylate YP_001406733.1 identified by match to protein family HMM PF00899; match to protein family HMM TIGR02354 YP_001406734.1 identified by match to protein family HMM PF02597; match to protein family HMM TIGR01683 YP_001406735.1 identified by match to protein family HMM PF01936 YP_001406737.1 identified by match to protein family HMM PF05525; match to protein family HMM TIGR00796 YP_001406738.1 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_001406739.1 identified by glimmer; putative YP_001406740.1 identified by glimmer; putative YP_001406741.1 identified by match to protein family HMM PF00353 YP_001406742.1 identified by glimmer; putative YP_001406745.1 identified by glimmer; putative YP_001406747.1 identified by glimmer; putative YP_001406748.1 identified by match to protein family HMM PF00353 YP_001406749.1 identified by glimmer; putative YP_001406750.1 identified by glimmer; putative YP_001406751.1 identified by glimmer; putative YP_001406752.1 identified by glimmer; putative YP_001406753.1 identified by match to protein family HMM PF00353 YP_001406754.1 identified by glimmer; putative YP_001406755.1 identified by match to protein family HMM PF00353 YP_001406756.1 identified by glimmer; putative YP_001406757.1 identified by glimmer; putative YP_001406758.1 identified by glimmer; putative YP_001406759.1 identified by glimmer; putative YP_001406760.1 catalyzes a sulfuration reaction to synthesize 2-thiouridine at the U34 position of tRNAs YP_001406761.1 identified by match to protein family HMM PF03641; match to protein family HMM TIGR00730 YP_001406763.1 identified by match to protein family HMM PF01288; match to protein family HMM TIGR01498 YP_001406764.1 identified by match to protein family HMM PF00557 YP_001406765.1 identified by match to protein family HMM PF01220; match to protein family HMM TIGR01088 YP_001406766.1 Catalyzes the hydrolytic cleavage of a carbon-halogen bond in N-ethylammeline YP_001406767.1 identified by match to protein family HMM PF01343; match to protein family HMM TIGR00706 YP_001406770.1 catalyzes the oxidation of L-histidinol to L-histidinaldehyde and then to L-histidine in histidine biosynthesis; functions as a dimer YP_001406774.1 catalyzes the formation of glycerone phosphate and glyceraldehyde 3-phosphate from fructose 1,6, bisphosphate YP_001406775.1 identified by match to protein family HMM PF00639 YP_001406776.1 identified by match to protein family HMM PF00730; match to protein family HMM TIGR01083 YP_001406777.1 identified by match to protein family HMM PF00989; match to protein family HMM PF08447; match to protein family HMM TIGR00229 YP_001406779.1 identified by match to protein family HMM PF00905; match to protein family HMM PF00912 YP_001406780.1 identified by match to protein family HMM PF01835 YP_001406781.1 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_001406782.1 identified by match to protein family HMM PF04556 YP_001406783.1 identified by match to protein family HMM PF01555 YP_001406784.1 identified by match to protein family HMM PF04342 YP_001406785.1 identified by match to protein family HMM PF00005 YP_001406786.1 identified by match to protein family HMM PF00528 YP_001406787.1 identified by match to protein family HMM PF00034 YP_001406789.1 identified by match to protein family HMM PF00033 YP_001406790.1 identified by match to protein family HMM PF00355; match to protein family HMM TIGR01416 YP_001406791.1 identified by glimmer; putative YP_001406792.1 identified by match to protein family HMM PF00375 YP_001406793.1 identified by glimmer; putative YP_001406794.1 catalyzes the formation of 4-aspartyl phosphate from aspartate 4-semialdehyde YP_001406795.1 negatively supercoils closed circular double-stranded DNA YP_001406796.1 identified by match to protein family HMM PF00497 YP_001406797.1 glycine--tRNA ligase beta chain; glyS; class II aminoacyl tRNA synthetase; tetramer of alpha(2)beta(2); catalyzes a two-step reaction; first charging a glycine molecule by linking the carboxyl group to the alpha-phosphate of ATP; second by transfer of the aminoacyl-adenylate to its tRNA YP_001406798.1 identified by match to protein family HMM PF03372 YP_001406799.1 identified by match to protein family HMM PF00588 YP_001406800.1 identified by match to protein family HMM PF00551; match to protein family HMM TIGR00655 YP_001406802.1 Essential for recycling GMP and indirectly, cGMP YP_001406803.1 identified by match to protein family HMM PF02416; match to protein family HMM TIGR01411 YP_001406804.1 identified by match to protein family HMM PF02416; match to protein family HMM TIGR01411 YP_001406805.1 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_001406806.1 identified by match to protein family HMM PF00004; match to protein family HMM TIGR02397 YP_001406807.1 rppk; phosphoribosylpyrophosphate synthetase; p-rib-pp synthetase; prpp synthetase; catalyzes the formation of 5-phospho-alpha-D-ribose 1-phosphate from D-ribose 5-phosphate and ATP YP_001406808.1 identified by glimmer; putative YP_001406810.1 identified by match to protein family HMM PF01925 YP_001406811.1 identified by glimmer; putative YP_001406812.1 identified by match to protein family HMM PF01743 YP_001406815.1 catalyzes the oxidation of 3-isopropylmalate to 3-carboxy-4-methyl-2-oxopentanoate in leucine biosynthesis YP_001406816.1 isopropylmalate isomerase; alpha-ipm isomerase; ipmi; identified by match to protein family HMM PF00694; match to protein family HMM TIGR02087 YP_001406817.1 identified by match to protein family HMM PF01810 YP_001406819.1 catalyzes the formation of coproporphyrinogen from uroporphyrinogen III YP_001406820.1 identified by match to protein family HMM PF04055 YP_001406821.1 An electron-transfer protein; flavodoxin binds one FMN molecule, which serves as a redox-active prosthetic group YP_001406824.1 identified by match to protein family HMM PF00697 YP_001406825.1 catalyzes the formation of L-tryptophan from L-serine and 1-(indol-3-yl)glycerol 3-phosphate YP_001406826.1 catalyzes the formation of indole and glyceraldehyde 3-phosphate from indoleglycerol phosphate in tryptophan biosynthesis YP_001406827.1 identified by glimmer; putative YP_001406828.1 catalyzes the formation of 5-methylaminomethyl-2-thiouridine in position 34 of the anticodon of tRNA molecules YP_001406829.1 identified by match to protein family HMM PF01520 YP_001406830.1 identified by match to protein family HMM PF03060 YP_001406831.1 catalyzes the formation of tyrosyl-tRNA(Tyr) from tyrosine and tRNA(Tyr) YP_001406832.1 identified by 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_001406833.1 identified by match to protein family HMM PF01192; match to protein family HMM TIGR00690 YP_001406834.1 Catalyzes the phosphorylation of UMP to UDP YP_001406835.1 identified by match to protein family HMM PF01551 YP_001406837.1 identified by match to protein family HMM PF00005 YP_001406838.1 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_001406839.1 identified by match to protein family HMM PF00041 YP_001406840.1 identified by match to protein family HMM PF00849; match to protein family HMM PF01479; match to protein family HMM TIGR00005 YP_001406841.1 identified by match to protein family HMM PF01098 YP_001406843.1 catalyzes the formation of 3-phosphonooxypyruvate and glutamate from O-phospho-L-serine and 2-oxoglutarate; required both in major phosphorylated pathway of serine biosynthesis and in the biosynthesis of pyridoxine YP_001406844.1 bidirectionally degrades single-stranded DNA into large acid-insoluble oligonucleotides YP_001406845.1 Catalyzes the carbon methylation reaction in the biosynthesis of ubiquinone YP_001406846.1 identified by glimmer; putative YP_001406847.1 identified by match to protein family HMM PF01475 YP_001406848.1 catalyzes the formation of 1-deoxy-D-xylulose 5-phosphate from pyruvate and D-glyceraldehyde 3-phosphate YP_001406849.1 catalyzes the formation of L-histidinol phosphate from imidazole-acetol phosphate and glutamate in histidine biosynthesis YP_001406850.1 identified by match to protein family HMM PF00800; match to protein family HMM PF01817 YP_001406851.1 identified by match to protein family HMM TIGR01460 YP_001406852.1 identified by match to protein family HMM PF00278; match to protein family HMM PF02784; match to protein family HMM TIGR01048 YP_001406853.1 identified by match to protein family HMM PF03739 YP_001406854.1 identified by match to protein family HMM PF01195; match to protein family HMM TIGR00447 YP_001406855.1 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_001406856.1 identified by match to protein family HMM PF00437; match to protein family HMM TIGR01420 YP_001406857.1 Important for the balance of metabolites in the pentose-phosphate pathway YP_001406858.1 identified by match to protein family HMM PF00702; match to protein family HMM PF08282; match to protein family HMM TIGR00338; match to protein family HMM TIGR01488 YP_001406860.1 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_001406861.1 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_001406862.1 catalyzes the formation of lipid A disaccharide from UDP-2,3-diacylglucosamine and 2,3-diacylglucosamine-1-phosphate, lipid A disaccharide is a precursor of lipid A that anchors LPS to the OM YP_001406863.1 identified by glimmer; putative YP_001406864.1 catalyzes the conversion of a phosphate monoester to an alcohol and a phosphate YP_001406865.1 identified by match to protein family HMM PF00899 YP_001406867.1 identified by glimmer; putative YP_001406868.1 identified by match to protein family HMM PF02397; match to protein family HMM TIGR03025 YP_001406869.1 identified by match to protein family HMM TIGR00407 YP_001406870.1 identified by match to protein family HMM PF00070; match to protein family HMM PF07992 YP_001406871.1 identified by match to protein family HMM PF05175 YP_001406872.1 identified by match to protein family HMM PF07719 YP_001406873.1 involved in tryptophan biosynthesis; amino acid biosynthesis; converts 1-(2-carboxyphenylamino)-1-deoxy-D-ribulose 5-phosphate to C(1)-(3-indolyl)-glycerol 3-phosphate and carbon dioxide and water YP_001406874.1 identified by match to protein family HMM PF01230 YP_001406875.1 bifunctional enzyme DHBP synthase/GTP cyclohydrolase II; functions in riboflavin synthesis; converts GTP to 2,5-diamino-6-hydroxy-4-(5-phosphoribosylamino)pyrimidine; converts ribulose 5-phopshate to 3,4-dihydroxy-2-butanone 4-phosphate YP_001406876.1 identified by glimmer; putative YP_001406877.1 identified by match to protein family HMM PF00448; match to protein family HMM TIGR00064 YP_001406878.1 identified by match to protein family HMM PF08534 YP_001406879.1 identified by match to protein family HMM PF01812; match to protein family HMM TIGR02727 YP_001406880.1 protein from Staphylococcus aureus has phosphodiesterase activity against 2'-3'-cAMP and 2'-3'-cGMP YP_001406884.1 identified by match to protein family HMM PF01578; match to protein family HMM TIGR02595 YP_001406886.1 identified by glimmer; putative YP_001406888.1 identified by glimmer; putative YP_001406889.1 identified by match to protein family HMM PF00829; match to protein family HMM TIGR00061 YP_001406890.1 involved in the peptidyltransferase reaction during translation YP_001406893.1 An RNA-DNA helicase that actively releases nascent mRNAs from paused transcription complexes YP_001406894.1 identified by match to protein family HMM PF00497 YP_001406895.1 identified by match to protein family HMM PF00037; match to protein family HMM TIGR02745 YP_001406896.1 identified by match to protein family HMM PF06555 YP_001406897.1 identified by match to protein family HMM TIGR01414 YP_001406899.1 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_001406900.1 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_001406901.1 functions in MreBCD complex in some organisms YP_001406902.1 binds and unfolds substrates as part of the ClpXP protease YP_001406903.1 catalyzes the addition of (R)-3-hydroxytetradecanoyl to the glucosamine disaccharide in lipid A biosynthesis YP_001406904.1 identified by match to protein family HMM PF07977; match to protein family HMM TIGR01750 YP_001406905.1 identified by match to protein family HMM PF02677 YP_001406906.1 identified by match to protein family HMM PF05359 YP_001406907.1 catalyzes the reduction of 2,3-dihydrodipicolinate to 2,3,4,5-tetrahydrodipicolinate in lysine and diaminopimelate biosynthesis YP_001406908.1 Catalyzes first step of the de novo purine nucleotide biosynthetic pathway YP_001406910.1 identified by glimmer; putative YP_001406911.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00486 YP_001406912.1 identified by match to protein family HMM PF00512; match to protein family HMM PF00989; match to protein family HMM PF02518; match to protein family HMM PF08447; match to protein family HMM TIGR00229 YP_001406914.1 catalyzes production of carbamoyl phosphate from bicarbonate and glutamine in pyrimidine and arginine biosynthesis pathways; forms an octamer composed of four CarAB dimers YP_001406915.1 identified by match to protein family HMM PF04368 YP_001406916.1 identified by glimmer; putative YP_001406918.1 May allow the feedback regulation of ATP phosphoribosyltransferase activity by histidine YP_001406919.1 catalyzes the formation of N6-(1,2,-dicarboxyethyl)-AMP from L-aspartate, inosine monophosphate and GTP in AMP biosynthesis YP_001406920.1 identified by glimmer; putative YP_001406922.1 identified by match to protein family HMM PF00291; match to protein family HMM PF01842; match to protein family HMM PF02629; match to protein family HMM TIGR01127 YP_001406923.1 catalyzes the formation of 5-methyl-uridine at position 54 in all tRNAs YP_001406924.1 identified by match to protein family HMM PF03553 YP_001406925.1 identified by match to protein family HMM PF00106; match to protein family HMM PF01370; match to protein family HMM PF08659 YP_001406926.1 catalyzes the reduction of hydroxylamine to ammonia and water YP_001406927.1 identified by match to protein family HMM PF01464 YP_001406928.1 identified by match to protein family HMM PF02325 YP_001406929.1 charges one glutamine molecule and pairs it with tRNA(Gln) YP_001406930.1 identified by match to protein family HMM PF01741; match to protein family HMM TIGR00220 YP_001406931.1 identified by match to protein family HMM PF00027 YP_001406932.1 identified by match to protein family HMM PF00149 YP_001406933.1 catalyzes the decarboxylaton of phospatidyl-L-sering to phosphatidylethanolamine YP_001406934.1 identified by match to protein family HMM PF07963; match to protein family HMM TIGR02532 YP_001406935.1 binding of PriA to forked DNA starts the assembly of the primosome, also possesses 3'-5' helicase activity YP_001406936.1 identified by glimmer; putative YP_001406938.1 identified by glimmer; putative YP_001406939.1 identified by glimmer; putative YP_001406940.1 identified by match to protein family HMM PF00580 YP_001406945.1 identified by match to protein family HMM PF00034 YP_001406946.1 identified by match to protein family HMM TIGR02736 YP_001406947.1 CcoO; FixO YP_001406948.1 CcoN; FixN YP_001406949.1 identified by match to protein family HMM PF03895; match to protein family HMM PF05658; match to protein family HMM PF05662 YP_001406950.1 identified by match to protein family HMM PF05658; match to protein family HMM PF05662 YP_001406952.1 identified by match to protein family HMM PF02661 YP_001406954.1 identified by glimmer; putative YP_001406957.1 identified by glimmer; putative YP_001406958.1 identified by glimmer; putative YP_001406959.1 identified by match to protein family HMM PF05901 YP_001406960.1 identified by glimmer; putative YP_001406961.1 identified by glimmer; putative YP_001406962.1 identified by glimmer; putative YP_001406964.1 catalyzes the conversion of citrate to isocitrate and the conversion of 2-methylaconitate to 2-methylisocitrate YP_001406965.1 6-o-methylguanine-DNA methyltransferase; mgmt; O-6-methylguanine-DNA-alkyltransferase; identified by match to protein family HMM PF01035; match to protein family HMM TIGR00589 YP_001406966.1 identified by glimmer; putative YP_001406967.1 identified by match to protein family HMM PF00403 YP_001406968.1 identified by match to protein family HMM PF01709; match to protein family HMM TIGR01033 YP_001406969.1 identified by match to protein family HMM PF00160 YP_001406970.1 identified by match to protein family HMM PF01648; match to protein family HMM TIGR00516; match to protein family HMM TIGR00556 YP_001406971.1 identified by match to protein family HMM PF05656 YP_001406972.1 identified by match to protein family HMM PF01925 YP_001406973.1 identified by glimmer; putative YP_001406974.1 identified by glimmer; putative YP_001406976.1 identified by glimmer; putative YP_001406977.1 identified by glimmer; putative YP_001406978.1 identified by glimmer; putative YP_001406979.1 identified by match to protein family HMM PF00353 YP_001406980.1 identified by glimmer; putative YP_001406981.1 identified by match to protein family HMM PF00353; match to protein family HMM PF06594 YP_001406982.1 identified by match to protein family HMM PF02321 YP_001406983.1 identified by match to protein family HMM PF00905; match to protein family HMM PF00912 YP_001406984.1 identified by match to protein family HMM PF00529; match to protein family HMM TIGR01843 YP_001406985.1 identified by match to protein family HMM PF00005; match to protein family HMM PF00664; match to protein family HMM PF03412; match to protein family HMM TIGR01846 YP_001406986.1 identified by match to protein family HMM PF01502; match to protein family HMM PF01503; match to protein family HMM TIGR03188; match to protein family HMM TIGR03456 YP_001406987.1 identified by match to protein family HMM PF01145 YP_001406988.1 catalyzes the transamination of the branched-chain amino acids to their respective alpha-keto acids YP_001406989.1 identified by match to protein family HMM PF03480 YP_001406991.1 identified by glimmer; putative YP_001406992.1 identified by match to protein family HMM PF02146 YP_001406994.1 identified by glimmer; putative YP_001406995.1 identified by match to protein family HMM PF00589 YP_001406996.1 identified by glimmer; putative YP_001406997.1 identified by glimmer; putative YP_001406998.1 identified by glimmer; putative YP_001406999.1 identified by glimmer; putative YP_001407000.1 identified by match to protein family HMM TIGR02681 YP_001407003.1 identified by glimmer; putative YP_001407004.1 identified by glimmer; putative YP_001407005.1 identified by glimmer; putative YP_001407006.1 identified by glimmer; putative YP_001407009.1 identified by match to protein family HMM PF00534 YP_001407010.1 identified by match to protein family HMM PF03808; match to protein family HMM TIGR00696 YP_001407011.1 identified by match to protein family HMM PF00534 YP_001407013.1 identified by match to protein family HMM PF00984; match to protein family HMM PF03446; match to protein family HMM PF03720; match to protein family HMM PF03721; match to protein family HMM TIGR03026 YP_001407014.1 identified by match to protein family HMM PF02350; match to protein family HMM TIGR00236 YP_001407015.1 identified by match to protein family HMM PF00535 YP_001407016.1 identified by match to protein family HMM PF01943 YP_001407017.1 identified by match to protein family HMM PF08241; match to protein family HMM PF08242 YP_001407018.1 catalyzes the formation of uroporphyrinogen-III from hydroxymethylbilane; functions in tetrapyrrole and heme biosynthesis YP_001407019.1 catalyzes the formation of arginine from (N-L-arginino)succinate YP_001407020.1 identified by match to protein family HMM PF00188 YP_001407021.1 PEP carboxykinase; PEP carboxylase; PEPCK; catalyzes the phosphorylation and decarboxylation of oxaloacetate to form phosphoenolpyruvate using ATP YP_001407022.1 identified by match to protein family HMM PF00037 YP_001407023.1 catalyzes the formation of nucleoside triphosphate from ATP and nucleoside diphosphate YP_001407025.1 some L32 proteins have zinc finger motifs consisting of CXXC while others do not YP_001407026.1 involved in acylation of glycerol-3-phosphate to form 1-acyl-glycerol-3 phosphate for use in phospholipid biosynthesis; functions with PlsY YP_001407027.1 3-oxoacyl-[acyl-carrier-protein] synthase III; Beta-ketoacyl-ACP synthase III; KAS III; EcFabH; 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_001407028.1 identified by match to protein family HMM PF03783 YP_001407030.1 identified by match to protein family HMM PF05643 YP_001407032.1 identified by match to protein family HMM PF00171 YP_001407033.1 identified by match to protein family HMM PF08543; match to protein family HMM TIGR00097 YP_001407034.1 identified by match to protein family HMM PF03824 YP_001407035.1 identified by match to protein family HMM PF00731; match to protein family HMM TIGR01162 YP_001407036.1 identified by match to protein family HMM PF01136 YP_001407037.1 identified by match to protein family HMM PF02811; match to protein family HMM TIGR01856 YP_001407038.1 identified by match to protein family HMM PF02152 YP_001407039.1 identified by match to protein family HMM PF02660; match to protein family HMM TIGR00023 YP_001407041.1 identified by glimmer; putative YP_001407043.1 identified by match to protein family HMM PF05977; match to protein family HMM PF07690 YP_001407044.1 identified by match to protein family HMM PF05433 YP_001407047.1 identified by match to protein family HMM PF00384; match to protein family HMM PF01568; match to protein family HMM TIGR00509 YP_001407048.1 identified by glimmer; putative YP_001407051.1 identified by glimmer; putative YP_001407052.1 identified by glimmer; putative YP_001407054.1 identified by glimmer; putative YP_001407055.1 identified by glimmer; putative YP_001407056.1 identified by glimmer; putative YP_001407057.1 identified by glimmer; putative YP_001407058.1 identified by glimmer; putative YP_001407059.1 identified by glimmer; putative YP_001407060.1 identified by glimmer; putative YP_001407062.1 identified by glimmer; putative YP_001407064.1 identified by glimmer; putative YP_001407066.1 identified by glimmer; putative YP_001407067.1 identified by glimmer; putative YP_001407068.1 identified by match to protein family HMM PF05594; match to protein family HMM PF05860; match to protein family HMM TIGR01731; match to protein family HMM TIGR01901 YP_001407069.1 identified by match to protein family HMM PF03865; match to protein family HMM PF08479 YP_001407070.1 catalyzes DNA-template-directed extension of the 3'- end of a DNA strand by one nucleotide at a time; main replicative polymerase YP_001407071.1 identified by glimmer; putative YP_001407072.1 identified by glimmer; putative YP_001407073.1 identified by match to protein family HMM PF01022 YP_001407074.1 identified by match to protein family HMM PF01206 YP_001407075.1 identified by glimmer; putative YP_001407076.1 identified by glimmer; putative YP_001407078.1 identified by match to protein family HMM PF00459 YP_001407079.1 identified by match to protein family HMM PF00285; match to protein family HMM TIGR01798 YP_001407080.1 identified by match to protein family HMM PF00999 YP_001407081.1 identified by match to protein family HMM PF00149; match to protein family HMM TIGR00040 YP_001407082.1 catalyzes the ATP-dependent breakage of single-stranded DNA followed by passage and rejoining, maintains net negative superhelicity YP_001407083.1 Catalyzes the formation of dUTP from dCTP in thymidylate biosynthesis YP_001407084.1 identified by match to protein family HMM PF00364; match to protein family HMM TIGR00531 YP_001407085.1 biotin carboxylase; biotin carboxylase catalyzes the carboxylation of the carrier protein and then the transcarboxylase transfers the carboxyl group to form malonyl-CoA; catalyzes the formation of malonyl-CoA, which in turn controls the rate of fatty acid metabolism YP_001407086.1 identified by match to protein family HMM PF00206 YP_001407087.1 identified by match to protein family HMM PF03605; match to protein family HMM TIGR00770 YP_001407088.1 identified by match to protein family HMM PF00884 YP_001407089.1 identified by glimmer; putative YP_001407090.1 identified by match to protein family HMM PF07963; match to protein family HMM TIGR02532 YP_001407091.1 identified by match to protein family HMM PF00589 YP_001407092.1 identified by match to protein family HMM PF07963; match to protein family HMM TIGR02532 YP_001407093.1 identified by glimmer; putative YP_001407094.1 identified by glimmer; putative YP_001407095.1 identified by match to protein family HMM PF07963; match to protein family HMM TIGR02532 YP_001407096.1 identified by match to protein family HMM PF02371 YP_001407097.1 identified by glimmer; putative YP_001407098.1 identified by glimmer; putative YP_001407100.1 identified by glimmer; putative YP_001407101.1 identified by glimmer; putative YP_001407102.1 identified by glimmer; putative YP_001407103.1 identified by glimmer; putative YP_001407104.1 identified by glimmer; putative YP_001407105.1 identified by glimmer; putative YP_001407106.1 identified by glimmer; putative YP_001407107.1 identified by glimmer; putative YP_001407108.1 identified by glimmer; putative YP_001407109.1 identified by glimmer; putative YP_001407111.1 identified by glimmer; putative YP_001407112.1 identified by glimmer; putative YP_001407113.1 identified by glimmer; putative YP_001407114.1 identified by match to protein family HMM PF05838 YP_001407115.1 identified by match to protein family HMM PF01464 YP_001407116.1 identified by glimmer; putative YP_001407117.1 catalyzes the interconversion of 2-phosphoglycerate and 3-phosphoglycerate YP_001407118.1 First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan YP_001407119.1 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_001407120.1 in Escherichia coli this protein is one of the earliest assembly proteins in the large subunit YP_001407121.1 forms a direct contact with the tRNA during translation YP_001407122.1 identified by match to protein family HMM PF00691 YP_001407123.1 identified by match to protein family HMM PF00702; match to protein family HMM TIGR01549 YP_001407124.1 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 TIGR02176 YP_001407125.1 identified by match to protein family HMM PF00034 YP_001407126.1 identified by glimmer; putative YP_001407127.1 identified by glimmer; putative YP_001407129.1 identified by glimmer; putative YP_001407130.1 identified by glimmer; putative YP_001407131.1 identified by glimmer; putative YP_001407133.1 synthesizes RNA primers at the replication forks YP_001407134.1 identified by match to protein family HMM PF07719 YP_001407135.1 An endonuclease that specifically degrades the RNA strand of RNA-DNA hybrids YP_001407136.1 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_001407137.1 identified by glimmer; putative YP_001407138.1 identified by match to protein family HMM PF01565; match to protein family HMM PF02913 YP_001407139.1 identified by match to protein family HMM PF00037; match to protein family HMM PF02754 YP_001407140.1 identified by match to protein family HMM PF00892 YP_001407141.1 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_001407142.1 binds directly to the 16S rRNA and is involved in post-translational inhibition of arginine and ornithine decarboxylase YP_001407143.1 identified by match to protein family HMM PF00364; match to protein family HMM PF00682 YP_001407144.1 identified by match to protein family HMM PF06808; match to protein family HMM TIGR00786 YP_001407145.1 identified by match to protein family HMM PF04290 YP_001407147.1 identified by match to protein family HMM PF00070; match to protein family HMM PF07992 YP_001407148.1 UDPGpyrophosphatase; UGPPase; nucleoside diphosphate-linked moiety xmotif 14; nudix motif 14; identified by match to protein family HMM PF00293; match to protein family HMM TIGR00052 YP_001407149.1 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_001407150.1 identified by match to protein family HMM PF01551 YP_001407152.1 identified by match to protein family HMM PF03372; match to protein family HMM TIGR00195; match to protein family HMM TIGR00633 YP_001407153.1 identified by match to protein family HMM PF00582 YP_001407154.1 identified by match to protein family HMM PF01384 YP_001407155.1 identified by match to protein family HMM PF03992 YP_001407156.1 identified by match to protein family HMM PF01965; match to protein family HMM TIGR01383 YP_001407157.1 identified by match to protein family HMM PF01266; match to protein family HMM PF06039 YP_001407158.1 identified by match to protein family HMM PF00224; match to protein family HMM PF02887; match to protein family HMM TIGR01064 YP_001407159.1 identified by glimmer; putative YP_001407160.1 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_001407161.1 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_001407165.1 identified by match to protein family HMM PF02686; match to protein family HMM TIGR00135 YP_001407166.1 identified by match to protein family HMM PF00437; match to protein family HMM TIGR01420 YP_001407167.1 identified by match to protein family HMM PF02674 YP_001407168.1 identified by match to protein family HMM PF01475 YP_001407169.1 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_001407170.1 catalyzes the reaction of glycine with 5,10-methylenetetrahydrofolate to form L-serine and tetrahydrofolate YP_001407171.1 identified by match to protein family HMM PF05036 YP_001407172.1 AroE; catalyzes the conversion of shikimate to 3-dehydroshikimate YP_001407173.1 identified by match to protein family HMM PF02659 YP_001407174.1 identified by glimmer; putative YP_001407175.1 identified by match to protein family HMM PF00892 YP_001407176.1 identified by match to protein family HMM PF00710; match to protein family HMM TIGR00520 YP_001407177.1 EF-G; promotes GTP-dependent translocation of the ribosome during translation; many organisms have multiple copies of this gene YP_001407178.1 binds directly to 16S rRNA where it nucleates assembly of the head domain of the 30S subunit YP_001407179.1 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_001407180.1 identified by match to protein family HMM PF07681 YP_001407181.1 present in two forms; L12 is normal, while L7 is aminoacylated at the N-terminal serine; the only multicopy ribosomal protein; 4:1 ratio of L7/L12 per ribosome; two L12 dimers bind L10; critically important for translation efficiency and fidelity; stimulates GTPase activity of translation factors YP_001407182.1 binds the two ribosomal protein L7/L12 dimers and anchors them to the large ribosomal subunit YP_001407183.1 in Escherichia coli and Methanococcus, this protein autoregulates expression; the binding site in the mRNA mimics the binding site in the 23S rRNA YP_001407184.1 binds directly to 23S ribosomal RNA YP_001407185.1 Modulates Rho-dependent transcription termination YP_001407186.1 forms a complex with SecY and SecG; SecYEG forms a putative protein-conducting channel to which secA binds and translocates targeted polypeptides across the cytoplasmic membrane, a process driven by ATP and a proton-motive force YP_001407187.1 in Escherichia coli BM108, a mutation that results in lack of L33 synthesis had no effect on ribosome synthesis or function; there are paralogous genes in several bacterial genomes, and a CXXC motif for zinc binding and an upstream regulation region of the paralog lacking this motif that are regulated by zinc similar to other ribosomal proteins like L31; the proteins in this group lack the CXXC motif YP_001407188.1 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_001407189.1 identified by match to protein family HMM PF02576 YP_001407190.1 associates with free 30S ribosomal subunits; essential for efficient processing of 16S rRNA; in Escherichia coli rbfA is induced by cold shock YP_001407191.1 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_001407193.1 catalyzes the formation of O-phospho-L-homoserine from L-homoserine in threonine biosynthesis from asparate YP_001407195.1 zinc-dependent; catalyzes the deacetylation of UDP-(3-O-acyl)-N-acetylglucosamine to UDP-3-O-(3-hydroxytetradecanoyl)-glucosamine in the second step of lipid A biosynthesis YP_001407196.1 identified by match to protein family HMM PF01551 YP_001407197.1 catalyzes the formation of 4-hydroxyphenylpyruvate from prephenate YP_001407198.1 identified by match to protein family HMM PF01103; match to protein family HMM PF07244; match to protein family HMM TIGR03303 YP_001407199.1 identified by glimmer; putative YP_001407200.1 MutS2; MutS-II; involved in blocking homologous and homeologous recombination; has ATPase activity stimulated by recombination intermediates; inhibits DNA strand exchange YP_001407202.1 Catalyzes the formation of UDP-N-acetylmuramoyl-L-alanine from UDP-N-acetylmuramate and L-alanine in peptidoglycan synthesis YP_001407203.1 identified by glimmer; putative YP_001407205.1 identified by match to protein family HMM PF07719; match to protein family HMM PF08238 YP_001407206.1 identified by match to protein family HMM PF01042; match to protein family HMM TIGR00004 YP_001407207.1 catalyzes the oxygen-independent formation of protoporphyrinogen-IX from coproporphyrinogen-III YP_001407209.1 catalyzes the formation of L-citrulline from carbamoyl phosphate and L-ornithine in arginine biosynthesis and degradation YP_001407210.1 catalyzes the formation of porphobilinogen from 5-aminolevulinate YP_001407211.1 catalyzes the conversion of GTP to formate and 2,5-diamino-6-hydroxy-4-(5-phosphoribosylamino)pyrimidine and diphosphate YP_001407212.1 identified by match to protein family HMM PF02527; match to protein family HMM TIGR00138 YP_001407215.1 identified by glimmer; putative YP_001407216.1 identified by glimmer; putative YP_001407217.1 identified by glimmer; putative YP_001407219.1 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_001407220.1 identified by match to protein family HMM PF05538 YP_001407221.1 identified by match to protein family HMM PF00034 YP_001407222.1 identified by match to protein family HMM PF00120; match to protein family HMM PF03951; match to protein family HMM TIGR00653 YP_001407223.1 identified by match to protein family HMM PF00675; match to protein family HMM PF05193 YP_001407224.1 identified by match to protein family HMM PF02637 YP_001407225.1 identified by match to protein family HMM PF02541 YP_001407226.1 involved in the de novo synthesis of pyridoxine (Vitamin B6) YP_001407227.1 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_001407228.1 periplasmic; catalytic subunit; with NapBC catalyzes the reduction of nitrate to nitrite; NapAB receives electrons from NapC YP_001407229.1 part of NapHG quinol dehydrogenase; couples electron transfer from ubiquinone-ubiquinol couple via NapC/B to NapA; secreted by twin arginine translocation pathway YP_001407230.1 identified by match to protein family HMM PF00037; match to protein family HMM TIGR02163 YP_001407231.1 identified by match to protein family HMM PF03892 YP_001407232.1 identified by match to protein family HMM PF00037 YP_001407235.1 identified by glimmer; putative YP_001407236.1 catalyzes the reversible transfer of the terminal phosphate of ATP to form a long chain polyphosphate YP_001407237.1 has 3'-5' exonuclease, 5'-3' exonuclease and 5'-3'polymerase activities, primarily functions to fill gaps during DNA replication and repair YP_001407238.1 identified by match to protein family HMM PF00501; match to protein family HMM PF01553; match to protein family HMM PF07690 YP_001407239.1 identified by glimmer; putative YP_001407240.1 identified by glimmer; putative YP_001407241.1 identified by match to protein family HMM PF00497 YP_001407242.1 Catalyzes the rate-limiting step in dNTP synthesis YP_001407243.1 identified by match to protein family HMM PF00474; match to protein family HMM TIGR00813; match to protein family HMM TIGR02121 YP_001407245.1 identified by glimmer; putative YP_001407246.1 identified by glimmer; putative YP_001407247.1 identified by glimmer; putative YP_001407249.1 identified by glimmer; putative YP_001407250.1 identified by glimmer; putative YP_001407251.1 identified by match to protein family HMM PF04011 YP_001407252.1 Catalyzes two discrete reactions in the de novo synthesis of purines: the cleavage of adenylosuccinate and succinylaminoimidazole carboxamide ribotide YP_001407253.1 identified by match to protein family HMM PF00849 YP_001407254.1 identified by glimmer; putative YP_001407255.1 23S rRNA m2A2503 methyltransferase; methylates the C2 position of the A2530 nucleotide in 23S rRNA; may be involved in antibiotic resistance YP_001407257.1 identified by match to protein family HMM PF00977; match to protein family HMM TIGR00735 YP_001407258.1 identified by match to protein family HMM PF00398; match to protein family HMM TIGR00755 YP_001407259.1 identified by match to protein family HMM PF00753; match to protein family HMM PF07521; match to protein family HMM TIGR00649 YP_001407260.1 identified by match to protein family HMM PF04373 YP_001407261.1 identified by match to protein family HMM PF00571; match to protein family HMM PF01380; match to protein family HMM TIGR00393 YP_001407262.1 identified by match to protein family HMM PF00849; match to protein family HMM PF01479; match to protein family HMM TIGR00093 YP_001407264.1 identified by match to protein family HMM PF00639 YP_001407265.1 identified by glimmer; putative YP_001407267.1 identified by glimmer; putative YP_001407268.1 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_001407269.1 identified by match to protein family HMM PF03553; match to protein family HMM PF03600; match to protein family HMM PF06808 YP_001407270.1 identified by match to protein family HMM PF00171 YP_001407271.1 identified by glimmer; putative YP_001407272.1 identified by glimmer; putative YP_001407273.1 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_001407274.1 identified by glimmer; putative YP_001407275.1 identified by glimmer; putative YP_001407277.1 identified by glimmer; putative YP_001407278.1 identified by glimmer; putative YP_001407279.1 identified by glimmer; putative YP_001407280.1 catalyzes the dehydration of 2,3-dihydroxy-3-methylbutanoate to 3-methyl-2-oxobutanoate in valine and isoleucine biosynthesis YP_001407281.1 identified by match to protein family HMM PF00037 YP_001407282.1 identified by match to protein family HMM PF03916 YP_001407283.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00486 YP_001407284.1 identified by match to protein family HMM PF00512; match to protein family HMM PF02518 YP_001407285.1 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_001407286.1 identified by glimmer; putative YP_001407287.1 identified by match to protein family HMM PF00884 YP_001407288.1 identified by match to protein family HMM PF02769; match to protein family HMM TIGR00476 YP_001407289.1 identified by match to protein family HMM PF01206 YP_001407290.1 identified by match to protein family HMM TIGR01583 YP_001407292.1 identified by match to protein family HMM PF01106 YP_001407293.1 identified by match to protein family HMM PF00578; match to protein family HMM PF08534 YP_001407296.1 enolase; catalyzes the formation of phosphoenolpyruvate from 2-phospho-D-glycerate in glycolysis YP_001407297.1 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_001407298.1 identified by glimmer; putative YP_001407299.1 catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate YP_001407300.1 lipoprotein signal peptidase; integral membrane protein that removes signal peptides from prolipoproteins during lipoprotein biosynthesis YP_001407301.1 identified by match to protein family HMM PF05154 YP_001407302.1 identified by match to protein family HMM PF00857 YP_001407303.1 identified by match to protein family HMM PF00795 YP_001407304.1 endonuclease; resolves Holliday structures; forms a complex of RuvABC; the junction binding protein RuvA forms a hexameric ring along with the RuvB helicase and catalyzes branch migration; RuvC then interacts with RuvAB to resolve the Holliday junction by nicking DNA strands of like polarity