-- dump date 20140620_081126 -- class Genbank::CDS -- table cds_note -- id note YP_328728.1 binds to the dnaA-box as an ATP-bound complex at the origin of replication during the initiation of chromosomal replication; can also affect transcription of multiple genes including itself. YP_328729.1 binds the polymerase to DNA and acts as a sliding clamp YP_328731.1 identified by similarity to GB:AAN57796.1; match to protein family HMM PF06107 YP_328733.1 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_328734.1 Enables the recycling of peptidyl-tRNAs produced at termination of translation YP_328735.1 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_328736.1 identified by match to protein family HMM PF01479 YP_328737.1 identified by similarity to GB:AAN57801.1 YP_328738.1 identified by similarity to GB:BAC63104.1 YP_328739.1 identified by similarity to GB:AAK33154.1 YP_328740.1 identified by match to protein family HMM PF01171; match to protein family HMM TIGR02432; match to protein family HMM TIGR02433 YP_328741.1 Catalyzes the salvage synthesis of inosine-5'-monophosphate (IMP) and guanosine-5'-monophosphate (GMP) from the purine bases hypoxanthine and guanine, respectively YP_328742.1 identified by similarity to SP:P37476; match to protein family HMM PF00004; match to protein family HMM PF01434; match to protein family HMM PF06480; match to protein family HMM TIGR01241 YP_328743.1 identified by similarity to GB:CAC28144.1; match to protein family HMM PF05257 YP_328744.1 catalyzes the formation of 5-phospho-alpha-D-ribose 1-phosphate from D-ribose 5-phosphate and ATP YP_328745.1 catalyzes the transamination of the aromatic amino acid forming a ketoacid; first step in aromatic amino acid degradation in lactococci YP_328746.1 involved in DNA repair and RecFOR pathway recombination; RecFOR proteins displace ssDNA-binding protein and facilitate the production of RecA-coated ssDNA YP_328747.1 identified by match to protein family HMM PF02517 YP_328748.1 involved in acylation of glycerol-3-phosphate to form 1-acyl-glycerol-3 phosphate for use in phospholipid biosynthesis; functions with PlsY YP_328749.1 carries the fatty acid chain in fatty acid biosynthesis YP_328750.1 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_328751.1 identified by match to protein family HMM PF01965; match to protein family HMM PF02769; match to protein family HMM TIGR01857 YP_328752.1 Catalyzes first step of the de novo purine nucleotide biosynthetic pathway YP_328753.1 catalyzes the formation of 1-(5-phosphoribosyl)-5-aminoimidazole from 2-(formamido)-N1-(5-phosphoribosyl)acetamidine and ATP in purine biosynthesis YP_328754.1 glycinamide ribonucleotide transformylase; GAR Tfase; catalyzes the synthesis of 5'-phosphoribosylformylglycinamide from 5'-phosphoribosylglycinamide and 10-formyltetrahydrofolate; PurN requires formyl folate for the reaction unlike PurT which uses formate YP_328755.1 identified by match to protein family HMM PF00583 YP_328756.1 involved in de novo purine biosynthesis YP_328757.1 identified by similarity to GB:AAC46072.1; match to protein family HMM PF01551 YP_328758.1 identified by similarity to GB:AAG18477.1; match to protein family HMM PF01476 YP_328759.1 Converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate YP_328760.1 identified by similarity to GB:AAO21863.1; match to protein family HMM PF01547 YP_328761.1 identified by match to protein family HMM PF00528 YP_328762.1 identified by similarity to SP:P94530; match to protein family HMM PF00528 YP_328763.1 identified by match to protein family HMM PF04074; match to protein family HMM TIGR00022 YP_328764.1 identified by match to protein family HMM PF04854 YP_328765.1 identified by similarity to SP:P06995; match to protein family HMM PF00701 YP_328766.1 identified by match to protein family HMM PF00480 YP_328767.1 identified by similarity to GB:AAB68821.1; match to protein family HMM PF05448 YP_328768.1 identified by match to protein family HMM PF01380; match to protein family HMM PF01418 YP_328769.1 catalyzes the formation of N(1)-(5-phospho-D-ribosyl)glycinamide from 5-phospho-D-ribosylamine and glycine in purine biosynthesis YP_328770.1 Catalyzes a step in the de novo purine nucleotide biosynthetic pathway YP_328771.1 With PurE catalyzes the conversion of aminoimidazole ribonucleotide to carboxyaminoimidazole ribonucleotide in the de novo purine nucleotide biosynthetic pathway YP_328773.1 Catalyzes two discrete reactions in the de novo synthesis of purines: the cleavage of adenylosuccinate and succinylaminoimidazole carboxamide ribotide YP_328774.1 identified by match to protein family HMM PF01381 YP_328775.1 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_328776.1 identified by similarity to SP:P24666; match to protein family HMM PF01451 YP_328777.1 identified by match to protein family HMM PF02493 YP_328778.1 identified by match to protein family HMM PF01757 YP_328779.1 identified by similarity to SP:Q24803; match to protein family HMM PF00465 YP_328780.1 similar to zinc-dependent eukaryotic ADH enzymes and distinct from fermentative ADHs YP_328781.1 catalyzes the formation of L-threonine from O-phospho-L-homoserine YP_328782.1 identified by match to protein family HMM PF01554; match to protein family HMM TIGR00797 YP_328783.1 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_328784.1 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_328785.1 L4 is important during the early stages of 50S assembly; it initially binds near the 5' end of the 23S rRNA YP_328786.1 binds third domain of 23S rRNA and protein L29; part of exit tunnel YP_328787.1 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_328788.1 protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA YP_328789.1 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_328790.1 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_328791.1 located in the peptidyl transferase center and may be involved in peptidyl transferase activity; similar to archaeal L10e YP_328792.1 one of the stabilizing components for the large ribosomal subunit YP_328793.1 primary binding protein; helps mediate assembly; involved in translation fidelity YP_328794.1 binds to the 23S rRNA between the centers for peptidyl transferase and GTPase YP_328795.1 assembly initiator protein; binds to 5' end of 23S rRNA and nucleates assembly of the 50S; surrounds polypeptide exit tunnel YP_328796.1 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_328797.1 located in the peptidyl transferase center and involved in assembly of 30S ribosome subunit; similar to what is observed with proteins L31 and L33, some proteins in this family contain CXXC motifs that are involved in zinc binding; if two copies are present in a genome, then the duplicated copy appears to have lost the zinc-binding motif and is instead regulated by zinc; the proteins in this group appear to contain the zinc-binding motif YP_328798.1 binds directly to 16S rRNA central domain where it helps coordinate assembly of the platform of the 30S subunit YP_328799.1 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_328800.1 binds 5S rRNA along with protein L5 and L25 YP_328801.1 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_328802.1 L30 binds domain II of the 23S rRNA and the 5S rRNA; similar to eukaryotic protein L7 YP_328803.1 late assembly protein YP_328804.1 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_328805.1 essential enzyme that recycles AMP in active cells; converts ATP and AMP to two molecules of ADP YP_328806.1 stimulates the activities of the other two initiation factors, IF-2 and IF-3 YP_328807.1 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_328808.2 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_328809.1 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_328810.1 is a component of the macrolide binding site in the peptidyl transferase center YP_328813.1 identified by similarity to GB:AAN58065.1; match to protein family HMM PF06042 YP_328814.1 identified by similarity to GB:AAO35217.1 YP_328815.1 identified by similarity to GB:AAD50429.1 YP_328816.1 identified by match to protein family HMM PF00300 YP_328817.1 identified by match to protein family HMM PF02557 YP_328818.1 identified by match to protein family HMM PF01832 YP_328819.1 Negative regulator of class I heat shock genes (grpE-dnaK-dnaJ and groELS operons). Prevents heat-shock induction of these operons YP_328820.1 with DnaK and DnaJ acts in response to hyperosmotic and heat shock by preventing the aggregation of stress-denatured proteins; may act as a thermosensor YP_328821.1 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_328822.1 chaperone Hsp40; co-chaperone with DnaK; Participates actively in the response to hyperosmotic and heat shock by preventing the aggregation of stress-denatured proteins and by disaggregating proteins, also in an autonomous, dnaK-independent fashion YP_328823.1 identified by match to protein family HMM PF00392 YP_328824.1 mediates pseudouridylation (positions 38, 39, 40) at the tRNA anticodon region which contributes to the structural stability YP_328825.1 catalyzes the formation of 4-amino-2-methyl-5-diphosphomethylpyrimidine YP_328827.1 identified by similarity to GB:BAC63325.1; match to protein family HMM PF04260; match to protein family HMM TIGR01440 YP_328828.1 identified by match to protein family HMM PF00924 YP_328829.1 Tig; RopA; peptidyl-prolyl cis/trans isomerase; promotes folding of newly synthesized proteins; binds ribosomal 50S subunit; forms a homodimer YP_328830.1 participates in both the initiation and recycling phases of transcription; in the presence of the delta subunit, RNAP displays an increased specificity of transcription, a decreased affinity for nucleic acids, and an increased efficiency of RNA synthesis because of enhanced recycling YP_328831.1 CTP synthase; CTP synthase; cytidine triphosphate synthetase; catalyzes the ATP-dependent amination of UTP to CTP with either L-glutamine or ammonia as the source of nitrogen; in Escherichia coli this enzyme forms a homotetramer YP_328832.1 identified by similarity to GB:AAK34601.1 YP_328833.1 catalyzes the formation of dUMP from dUTP YP_328834.1 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_328835.1 identified by match to protein family HMM PF00484 YP_328836.1 Involved in disulfide oxidoreductase activity and electron transport YP_328837.1 identified by similarity to GB:AAN00658.1; match to protein family HMM PF00665 YP_328838.1 Charges one glutamine molecule and pairs it to its corresponding RNA trinucleotide during protein translation YP_328839.1 identified by similarity to SP:P02925; match to protein family HMM PF00532 YP_328840.1 identified by similarity to SP:P04984; match to protein family HMM PF02653 YP_328841.1 identified by similarity to SP:P04983; match to protein family HMM PF00005 YP_328842.1 cytoplasmic mutarotase that catalyzes the conversion between beta-pyran and beta-furan forms of D-ribose; RbsD is required for efficient ribose utilization in E. coli; rbsD-mutant E. coli strains are unable to use ribose as a sole carbon source YP_328843.1 identified by similarity to SP:P36945; match to protein family HMM PF00294; match to protein family HMM TIGR02152 YP_328844.1 identified by similarity to SP:P36944; match to protein family HMM PF00356; match to protein family HMM PF00532 YP_328845.1 identified by match to protein family HMM PF02687 YP_328846.1 identified by match to protein family HMM PF00005 YP_328847.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00486 YP_328848.1 identified by match to protein family HMM PF00512; match to protein family HMM PF00672; match to protein family HMM PF02518 YP_328849.1 catalyzes the formation of 2-N(omega)-(L-arginino)succinate from L-citrulline and L-aspartate in arginine biosynthesis, AMP-forming YP_328850.1 catalyzes the formation of arginine from (N-L-arginino)succinate YP_328851.1 catalyzes the formation of glycerone phosphate and glyceraldehyde 3-phosphate from fructose 1,6, bisphosphate YP_328852.1 identified by similarity to SP:P14295; match to protein family HMM PF00056; match to protein family HMM PF02866 YP_328853.1 required for 70S ribosome assembly YP_328854.1 identified by similarity to GB:AAO82795.1; match to protein family HMM PF03780 YP_328855.1 identified by match to protein family HMM PF02734 YP_328856.1 identified by match to protein family HMM PF01145 YP_328857.1 This element is related to but different from ISSag2. The end sequences of this single copy element were not identified.; identified by similarity to GB:BAC64953.1; match to protein family HMM PF00665 YP_328859.1 identified by similarity to SP:P27951; match to protein family HMM PF00746; match to protein family HMM PF04650; match to protein family HMM PF05062; match to protein family HMM TIGR01167; match to protein family HMM TIGR01168 YP_328860.1 identified by match to protein family HMM PF04140 YP_328861.1 identified by match to protein family HMM PF00512; match to protein family HMM PF00672; match to protein family HMM PF02518 YP_328862.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00486 YP_328863.1 identified by match to protein family HMM PF01609 YP_328864.1 identified by similarity to GB:AAT10382.1 YP_328866.1 identified by similarity to GB:AAL97043.1; match to protein family HMM PF00005 YP_328867.1 identified by match to protein family HMM PF00497; match to protein family HMM PF00528; match to protein family HMM TIGR01726 YP_328868.1 identified by similarity to GB:AAK33351.1 YP_328869.1 BacA; phosphatase activity in Escherichia coli not kinase; involved in bacitracin resistance as bacitracin supposedly sequesters undecaprenyl disphosphate which reduces the pool of lipid carrier available to the cell YP_328870.1 enables recognition and targeting of proteins for proteolysis, involved in negative regulation of competence YP_328871.1 identified by match to protein family HMM PF00953 YP_328872.1 identified by match to protein family HMM PF00005; match to protein family HMM TIGR01978 YP_328873.1 identified by match to protein family HMM PF01458; match to protein family HMM TIGR01981 YP_328874.1 identified by match to protein family HMM PF00266; match to protein family HMM TIGR01979 YP_328875.1 identified by match to protein family HMM PF01592; match to protein family HMM TIGR01994 YP_328876.1 identified by match to protein family HMM PF01458; match to protein family HMM TIGR01980 YP_328877.1 identified by match to protein family HMM PF00768 YP_328878.1 identified by similarity to SP:P08750; match to protein family HMM PF00768; match to protein family HMM PF07943 YP_328879.1 identified by similarity to GB:AAM99056.1; match to protein family HMM PF00496 YP_328880.1 identified by similarity to SP:P24138; match to protein family HMM PF00528 YP_328881.1 identified by similarity to SP:P24139; match to protein family HMM PF00528 YP_328882.1 identified by similarity to SP:P24136; match to protein family HMM PF00005; match to protein family HMM TIGR01727 YP_328883.1 identified by similarity to SP:P24137; match to protein family HMM PF00005 YP_328884.1 An essential enzyme in the nonmevalonate pathway of isopentenyl diphosphate and dimethylallyl diphosphate biosynthesis YP_328885.1 identified by similarity to GB:AAO43167.1; match to protein family HMM PF01047 YP_328886.1 identified by similarity to SP:O87862; match to protein family HMM PF00005 YP_328887.1 identified by similarity to GB:CAA96187.1; match to protein family HMM PF00950 YP_328888.1 identified by similarity to PIR:D86644 YP_328889.1 catalyzes the formation of tyrosyl-tRNA(Tyr) from tyrosine and tRNA(Tyr) YP_328890.1 identified by similarity to GB:BAD00819.1; match to protein family HMM PF00905; match to protein family HMM PF00912 YP_328891.1 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates; beta subunit is part of the catalytic core which binds with a sigma factor to produce the holoenzyme YP_328892.1 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Subunit beta' binds to sigma factor allowing it to bind to the -10 region of the promoter YP_328893.1 identified by match to protein family HMM PF06279 YP_328894.1 identified by similarity to GB:AAC45310.1; match to protein family HMM PF00437 YP_328895.1 identified by similarity to SP:P25954; similarity to GB:AAC23738.1; match to protein family HMM PF00482 YP_328896.1 identified by similarity to SP:P25955; similarity to GB:AAC23739.1; match to protein family HMM PF07963; match to protein family HMM TIGR02532 YP_328897.1 identified by similarity to GB:AAC23740.1 YP_328898.1 identified by similarity to GB:AAN59587.1 YP_328899.1 identified by similarity to GB:AAN59586.1 YP_328900.1 identified by similarity to GB:AAK33225.1 YP_328901.1 identified by similarity to GB:AAL96922.1 YP_328902.1 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_328903.1 identified by match to protein family HMM PF01381 YP_328905.1 identified by similarity to GB:AAN59581.1 YP_328906.1 identified by match to protein family HMM PF02517 YP_328907.1 catalyzes the formation of L-proline from pyrroline-5-carboxylate YP_328908.1 identified by similarity to SP:Q48677; match to protein family HMM PF05343 YP_328910.1 identified by similarity to GB:AAL96928.1 YP_328911.1 identified by match to protein family HMM PF00085 YP_328912.1 identified by match to protein family HMM PF01588 YP_328914.1 binds to single stranded DNA and may facilitate the binding and interaction of other proteins to DNA YP_328915.1 identified by match to protein family HMM PF00702; match to protein family HMM TIGR01509 YP_328916.1 identified by match to protein family HMM PF01590; match to protein family HMM PF02518; match to protein family HMM PF06580; match to protein family HMM PF07694 YP_328917.1 identified by match to protein family HMM PF00072; match to protein family HMM PF04397 YP_328918.1 identified by match to protein family HMM PF03788 YP_328919.1 identified by match to protein family HMM PF04172 YP_328920.1 identified by similarity to SP:P42061; match to protein family HMM PF00496 YP_328921.1 identified by similarity to SP:P42062; match to protein family HMM PF00528 YP_328922.1 identified by similarity to SP:P26904; match to protein family HMM PF00528 YP_328923.1 identified by match to protein family HMM PF00005 YP_328924.1 identified by match to protein family HMM PF00005 YP_328925.1 identified by match to protein family HMM PF00358; match to protein family HMM PF00367; match to protein family HMM PF02378; match to protein family HMM TIGR00826; match to protein family HMM TIGR00830; match to protein family HMM TIGR01992 YP_328926.1 identified by match to protein family HMM PF00128; match to protein family HMM TIGR02403 YP_328927.1 identified by match to protein family HMM PF00359; match to protein family HMM PF00874 YP_328928.1 identified by match to protein family HMM PF02302 YP_328929.1 membrane component; functions with enzymes IIB (sgaB; ulaB) and IIA (sgaA; ulaC) enzyme I and HPr for anaerobic utilization and uptake of L-ascorbate; sgaTBA are regulated by yifQ as well as Crp and Fnr YP_328930.1 identified by similarity to SP:Q58094; match to protein family HMM PF00456 YP_328931.1 identified by similarity to SP:Q58092; match to protein family HMM PF02779; match to protein family HMM PF02780 YP_328932.1 identified by match to protein family HMM PF00175 YP_328933.1 primary rRNA binding protein; helps nucleate assembly of 30S; binds directly to the 16S rRNA and an intersubunit bridge to the 23S rRNA; autoregulates translation through interactions with the mRNA leader sequence YP_328934.1 identified by similarity to SP:P50849; 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_328935.1 identified by similarity to PIR:F86856 YP_328936.1 identified by match to protein family HMM TIGR01172 YP_328938.1 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_328939.1 identified by match to protein family HMM PF05948 YP_328940.1 identified by match to protein family HMM PF00588; match to protein family HMM PF08032; match to protein family HMM TIGR00186 YP_328941.1 identified by match to protein family HMM PF05991 YP_328942.1 identified by match to protein family HMM PF02645; match to protein family HMM TIGR00762 YP_328944.1 in Escherichia coli this protein is one of the earliest assembly proteins in the large subunit YP_328945.1 forms a direct contact with the tRNA during translation YP_328946.1 identified by match to protein family HMM PF00589 YP_328947.1 identified by match to protein family HMM PF01381 YP_328949.1 identified by similarity to GB:AAO82898.1 YP_328950.1 identified by match to protein family HMM PF06970 YP_328951.1 identified by similarity to PIR:F98022 YP_328952.1 identified by match to protein family HMM PF02486 YP_328954.1 identified by similarity to SP:P13925; match to protein family HMM PF01076 YP_328956.1 identified by match to protein family HMM PF05016; match to protein family HMM TIGR02385 YP_328957.1 identified by similarity to GB:AAK34628.1 YP_328958.1 identified by match to protein family HMM PF06013 YP_328961.1 identified by similarity to PIR:AC1425 YP_328966.1 identified by match to protein family HMM TIGR01716 YP_328967.1 identified by match to protein family HMM PF07690 YP_328968.1 identified by similarity to SP:O34742; similarity to SP:P39775; match to protein family HMM PF00528 YP_328969.1 identified by similarity to SP:O32243; match to protein family HMM PF04069 YP_328970.1 identified by similarity to SP:O34878; similarity to SP:Q45461; match to protein family HMM PF00528 YP_328971.1 identified by similarity to SP:O34992; similarity to SP:Q45460; match to protein family HMM PF00005; match to protein family HMM PF00571; match to protein family HMM TIGR01186 YP_328972.1 The translational stop site for this transposase gene is located outside the IS element.; identified by match to protein family HMM PF01609 YP_328974.1 identified by similarity to PIR:AI1798 YP_328978.1 identified by match to protein family HMM PF01381 YP_328979.1 identified by match to protein family HMM PF00583 YP_328980.1 identified by match to protein family HMM PF00583 YP_328981.1 identified by match to protein family HMM PF00583 YP_328982.1 identified by similarity to GB:AAT29250.1 YP_328983.1 identified by similarity to SP:O05404; match to protein family HMM PF04542 YP_328984.1 identified by match to protein family HMM PF00440 YP_328985.1 identified by match to protein family HMM PF01061 YP_328986.1 identified by match to protein family HMM PF00005 YP_328987.1 identified by similarity to GB:AAS43182.1 YP_328988.1 identified by match to protein family HMM PF03551 YP_328990.1 identified by match to protein family HMM PF01979; match to protein family HMM TIGR00221 YP_328991.1 identified by match to protein family HMM PF04140 YP_328992.1 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_328993.1 identified by similarity to SP:P41407; match to protein family HMM PF02525 YP_328994.1 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_328995.1 identified by similarity to SP:P60082; match to protein family HMM PF05979 YP_328996.1 identified by similarity to PIR:H95145; match to protein family HMM PF06961 YP_328997.1 Converts glycerol and ADP to glycerol-3-phosphate and ADP YP_328998.1 identified by similarity to SP:P35596; match to protein family HMM PF01266 YP_328999.1 identified by similarity to SP:P18156; match to protein family HMM PF00230; match to protein family HMM TIGR00861 YP_329000.1 identified by match to protein family HMM PF00070; match to protein family HMM PF07992 YP_329001.1 identified by similarity to PIR:E98120 YP_329002.1 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_329003.1 identified by similarity to GB:AAL98224.1 YP_329004.1 identified by match to protein family HMM PF00005 YP_329005.1 identified by similarity to GB:AAK34431.1 YP_329006.1 identified by match to protein family HMM PF00367; match to protein family HMM PF02378 YP_329007.1 catalyzes the formation of glutamate 5-phosphate from glutamate in proline biosynthesis YP_329008.1 Catalyzes the phosphorylation of L-glutamate during the proline biosynthesis pathway YP_329009.1 identified by match to protein family HMM PF01795; match to protein family HMM TIGR00006 YP_329010.1 identified by similarity to SP:Q07867; match to protein family HMM TIGR02209 YP_329011.1 identified by match to protein family HMM PF00905; match to protein family HMM PF03717; match to protein family HMM PF03793 YP_329012.1 First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan YP_329013.1 identified by match to protein family HMM PF00270; match to protein family HMM PF00271 YP_329014.1 identified by match to protein family HMM PF00497 YP_329015.1 identified by match to protein family HMM PF00528; match to protein family HMM TIGR01726 YP_329016.1 identified by match to protein family HMM PF00005 YP_329017.1 identified by similarity to GB:AAK34421.1 YP_329018.1 identified by match to protein family HMM PF00070; match to protein family HMM PF07992; match to protein family HMM TIGR01292 YP_329019.1 catalyzes the formation of 5-phospho-alpha-D-ribose 1-diphosphate and nicotinate from nicotinate D-ribonucleotide and diphosphate YP_329020.1 catalyzes the formation of nicotinamide adenine dinucleotide (NAD) from nicotinic acid adenine dinucleotide (NAAD) using either ammonia or glutamine as the amide donor and ATP; ammonia-utilizing enzymes include the ones from Bacillus and Escherichia coli while glutamine-utilizing enzymes include the Mycobacterial one; forms homodimers YP_329021.1 identified by similarity to SP:Q56115; match to protein family HMM PF03051 YP_329022.1 identified by match to protein family HMM PF00905; match to protein family HMM PF00912; match to protein family HMM TIGR02074 YP_329023.1 functions in homologous recombination, DNA repair, and chromosome segregation; binds preferentially to three- and four-stranded DNA intermediates; introduces specific nick sites in four-stranded DNA substrates; functions similarly to Escherichia coli RuvC YP_329024.1 identified by similarity to GB:AAN58218.1; match to protein family HMM PF06908 YP_329025.1 GpsB; guiding PBP1 shuttling; similar to DivIVA YP_329026.1 identified by similarity to GB:AAO80952.1; match to protein family HMM PF01170 YP_329027.1 identified by similarity to GB:AAM79992.1 YP_329028.1 catalyzes the hydrolysis of S-ribosylhomocysteine to homocysteine and autoinducer-2 YP_329029.1 identified by match to protein family HMM PF00013; match to protein family HMM PF01966; match to protein family HMM TIGR00277 YP_329030.1 identified by match to protein family HMM PF00005 YP_329031.1 identified by similarity to SP:P75774 YP_329032.1 identified by match to protein family HMM PF02518; match to protein family HMM PF07730 YP_329033.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00196 YP_329034.1 identified by similarity to GB:AAS08951.1; match to protein family HMM PF06736 YP_329035.1 Essential for recycling GMP and indirectly, cGMP YP_329036.1 Promotes RNA polymerase assembly. Latches the N- and C-terminal regions of the beta' subunit thereby facilitating its interaction with the beta and alpha subunits YP_329037.1 binding of PriA to forked DNA starts the assembly of the primosome, also possesses 3'-5' helicase activity YP_329038.1 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_329039.1 identified by match to protein family HMM PF01029; match to protein family HMM PF01189; match to protein family HMM TIGR00563 YP_329040.1 identified by similarity to GB:AAL58473.1; match to protein family HMM PF00481 YP_329041.1 identified by similarity to GB:AAL58474.1; match to protein family HMM PF00069; match to protein family HMM PF03793 YP_329042.1 identified by similarity to GB:BAC63589.1 YP_329043.1 identified by match to protein family HMM PF02518; match to protein family HMM PF07730 YP_329044.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00196 YP_329045.1 identified by match to protein family HMM PF00160; match to protein family HMM PF00702; match to protein family HMM TIGR00099; match to protein family HMM TIGR01484 YP_329046.1 identified by similarity to SP:P80870; match to protein family HMM PF00575 YP_329047.1 identified by similarity to SP:Q46267; match to protein family HMM PF04055; match to protein family HMM TIGR02494 YP_329048.1 identified by match to protein family HMM PF00455 YP_329049.1 identified by match to protein family HMM PF04198 YP_329050.1 identified by match to protein family HMM PF02255 YP_329051.1 identified by match to protein family HMM PF02302 YP_329052.1 identified by match to protein family HMM PF02378; match to protein family HMM TIGR00410 YP_329053.1 identified by match to protein family HMM PF01228; match to protein family HMM PF02901; match to protein family HMM TIGR01774 YP_329054.1 similar to transaldolase from Escherichia coli; many organisms have multiple copies YP_329055.1 forms dimers and octamers; involved in conversion of glycerol to dihydroxy-acetone YP_329056.1 identified by match to protein family HMM PF00291; match to protein family HMM TIGR01136; match to protein family HMM TIGR01139 YP_329057.1 identified by similarity to GB:AAN58242.1; match to protein family HMM PF01205; match to protein family HMM TIGR00257 YP_329058.1 identified by similarity to SP:P39145; match to protein family HMM PF00270; match to protein family HMM PF00271; match to protein family HMM PF04851 YP_329059.1 identified by similarity to SP:P39147 YP_329060.1 identified by match to protein family HMM PF02482; match to protein family HMM TIGR00741 YP_329061.1 catalyzes the formation of 4-phospho-L-aspartate from L-aspartate and ATP; lysine and threonine sensitive YP_329062.1 identified by match to protein family HMM PF00702; match to protein family HMM TIGR01509; match to protein family HMM TIGR01549 YP_329063.1 Catalyzes the reversible hydration of unsaturated fatty acyl-CoA to beta-hydroxyacyl-CoA YP_329064.1 identified by match to protein family HMM PF01047 YP_329065.1 FabH; beta-ketoacyl-acyl carrier protein synthase III; catalyzes the condensation of acetyl-CoA with malonyl-ACP to initiate cycles of fatty acid elongation; differs from 3-oxoacyl-(acyl carrier protein) synthase I and II in that it utilizes CoA thioesters as primers rather than acyl-ACPs YP_329066.1 carries the fatty acid chain in fatty acid biosynthesis YP_329067.1 identified by similarity to GB:AAF98273.1; match to protein family HMM PF03060 YP_329068.1 identified by similarity to SP:P25715; match to protein family HMM PF00698; match to protein family HMM TIGR00128 YP_329069.1 catalyzes the first of the two reduction steps in the elongation cycle of fatty acid synthesis YP_329070.1 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_329071.1 composes the biotin carboxyl carrier protein subunit of the acetyl-CoA carboxylase complex, the enzyme that catalyzes the carboxylation of acetyl-CoA to malonyl-CoA, which in turn controls the rate of fatty acid metabolism YP_329072.1 in Pseudomonas aeruginosa this enzyme is a trimer of dimers; essential for membrane formation; performs third step of type II fatty acid biosynthesis; catalyzes dehydration of (3R)-hydroxyacyl-ACP to trans-2-acyl-ACP YP_329073.1 an AccC homodimer forms the biotin carboxylase subunit of the acetyl CoA carboxylase, an enzyme that catalyzes the formation of malonyl-CoA, which in turn controls the rate of fatty acid metabolism YP_329074.1 catalyzes the carboxylation of acetyl-CoA to malonyl-CoA; forms a tetramer of AccA2D2 subunits YP_329075.1 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; these proteins present a shorter N-terminus YP_329076.1 identified by similarity to GB:AAN59530.1 YP_329077.1 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_329079.1 identified by match to protein family HMM PF06115 YP_329080.1 identified by similarity to SP:P08188; match to protein family HMM PF03613 YP_329081.1 identified by similarity to SP:P08187; match to protein family HMM PF03609 YP_329082.1 identified by similarity to SP:P08186; match to protein family HMM PF03610; match to protein family HMM PF03830 YP_329083.1 identified by match to protein family HMM PF00702; match to protein family HMM TIGR00099; match to protein family HMM TIGR01484 YP_329085.1 identified by match to protein family HMM PF07099 YP_329086.1 identified by match to protein family HMM PF00860 YP_329087.1 identified by similarity to GB:AAO80758.1; match to protein family HMM PF02367; match to protein family HMM TIGR00150 YP_329088.1 identified by match to protein family HMM PF00583 YP_329089.1 identified by similarity to SP:Q02115; match to protein family HMM PF03816; match to protein family HMM TIGR00350 YP_329090.1 identified by similarity to GB:AAN58165.1 YP_329091.1 identified by match to protein family HMM PF01230 YP_329093.1 identified by similarity to SP:P55339; match to protein family HMM PF00005 YP_329094.1 identified by match to protein family HMM PF05975 YP_329095.1 identified by similarity to GB:AAK34472.1 YP_329096.1 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_329097.1 in Streptococcus pneumoniae this gene was found to be essential; structure determination of the Streptococcus protein shows that it is similar to a number of other proteins YP_329098.1 modifies transcription through interactions with RNA polymerase affecting elongation, readthrough, termination, and antitermination YP_329099.1 identified by similarity to PDB:1G2R; match to protein family HMM PF04296 YP_329100.1 identified by match to protein family HMM PF01248 YP_329101.1 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_329102.1 associates with free 30S ribosomal subunits; essential for efficient processing of 16S rRNA; in Escherichia coli rbfA is induced by cold shock YP_329103.1 identified by match to protein family HMM PF07859 YP_329104.1 identified by similarity to GB:AAG10085.1; match to protein family HMM PF03965 YP_329105.1 identified by similarity to SP:P37279; similarity to GB:AAG10086.1; match to protein family HMM PF00122; match to protein family HMM PF00403; match to protein family HMM PF00702; match to protein family HMM TIGR00003; match to protein family HMM TIGR01494; match to protein family HMM TIGR01511; match to protein family HMM TIGR01525 YP_329106.1 identified by similarity to GB:AAG10087.1; match to protein family HMM PF00403 YP_329107.1 identified by match to protein family HMM PF03458 YP_329108.1 identified by match to protein family HMM PF00702; match to protein family HMM TIGR00099; match to protein family HMM TIGR01484 YP_329109.1 has 3'-5' exonuclease, 5'-3' exonuclease and 5'-3'polymerase activities, primarily functions to fill gaps during DNA replication and repair YP_329110.1 identified by match to protein family HMM PF02629 YP_329111.1 identified by match to protein family HMM PF01475 YP_329112.1 identified by match to protein family HMM PF04650; match to protein family HMM TIGR01167; match to protein family HMM TIGR01168 YP_329113.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00486 YP_329114.1 identified by match to protein family HMM PF00512; match to protein family HMM PF00672; match to protein family HMM PF02518 YP_329115.1 identified by match to protein family HMM PF06161 YP_329116.1 Exchanges the guanine residue with 7-aminomethyl-7-deazaguanine in tRNAs with GU(N) anticodons (tRNA-Asp, -Asn, -His and -Tyr) YP_329117.1 identified by match to protein family HMM PF05495 YP_329118.1 identified by similarity to GB:AAM99365.1; match to protein family HMM PF02632 YP_329119.1 identified by match to protein family HMM PF00753 YP_329120.1 identified by match to protein family HMM PF00383 YP_329121.1 functions in sugar metabolism in glycolysis and the Embden-Meyerhof pathways (EMP) and in gluconeogenesis; catalyzes reversible isomerization of glucose-6-phosphate to fructose-6-phosphate; member of PGI family YP_329122.1 identified by match to protein family HMM PF01812 YP_329123.1 identified by match to protein family HMM PF01694 YP_329124.1 identified by match to protein family HMM PF02608 YP_329125.1 identified by match to protein family HMM PF00483; match to protein family HMM TIGR01099 YP_329126.1 catalyzes the NAD(P)H-dependent reduction of glycerol 3-phosphate to glycerone phosphate YP_329127.1 protein component of RNaseP which catalyzes the removal of the 5'-leader sequence from pre-tRNA to produce the mature 5'terminus; this enzyme also cleaves other RNA substrates YP_329128.1 identified by match to protein family HMM PF02096 YP_329129.1 identified by match to protein family HMM PF01424 YP_329130.1 identified by match to protein family HMM PF04167 YP_329131.1 binds RecA and inhibits RecA-mediated DNA strand exchange and ATP hydrolysis and coprotease activities YP_329132.1 identified by match to protein family HMM PF01938; match to protein family HMM PF05958; match to protein family HMM TIGR00479 YP_329133.1 identified by similarity to GB:AAS09038.1 YP_329134.1 identified by match to protein family HMM PF00583 YP_329135.1 identified by match to protein family HMM PF00535 YP_329136.1 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_329137.1 in Salmonella NrdI has a stimulatory effect on the ribonucleotide reductase activity of NrdH with NrdEF YP_329138.1 Catalyzes the rate-limiting step in dNTP synthesis YP_329139.1 identified by similarity to GB:AAL97553.1 YP_329140.1 identified by match to protein family HMM PF01243 YP_329141.1 identified by similarity to GB:AAN00393.1; match to protein family HMM PF02178 YP_329142.1 identified by similarity to GB:AAN00394.1; match to protein family HMM PF00665 YP_329143.1 identified by similarity to GB:AAT03293.1; match to protein family HMM PF06445 YP_329146.1 identified by similarity to SP:P20370; match to protein family HMM PF02627 YP_329147.1 identified by similarity to GB:CAD65066.1; match to protein family HMM PF07883 YP_329148.1 identified by match to protein family HMM PF00248 YP_329149.1 identified by match to protein family HMM PF01545; match to protein family HMM TIGR01297 YP_329150.1 identified by match to protein family HMM PF00440 YP_329151.1 identified by match to protein family HMM PF00165 YP_329152.1 identified by similarity to SP:Q02192; match to protein family HMM PF00746; match to protein family HMM PF04650; match to protein family HMM TIGR01167; match to protein family HMM TIGR01168; match to protein family HMM TIGR02331 YP_329153.1 identified by similarity to GB:AAL98149.1 YP_329154.1 identified by similarity to GB:AAN58977.1; match to protein family HMM PF07883 YP_329155.1 identified by similarity to GB:BAB94108.1 YP_329156.1 identified by match to protein family HMM PF00359 YP_329157.1 identified by similarity to SP:P37187; match to protein family HMM PF00359 YP_329158.1 identified by similarity to SP:P37188; match to protein family HMM PF02302 YP_329159.1 identified by similarity to SP:P37189; match to protein family HMM PF03611 YP_329160.1 identified by similarity to SP:P32169; match to protein family HMM PF00596 YP_329161.1 identified by similarity to SP:P37187; match to protein family HMM PF00359 YP_329162.1 identified by similarity to SP:P37189; match to protein family HMM PF03611 YP_329163.1 identified by similarity to SP:P37188 YP_329164.1 identified by match to protein family HMM PF00165; match to protein family HMM PF02311 YP_329165.1 identified by similarity to PIR:AE1460; match to protein family HMM PF01547 YP_329166.1 identified by similarity to PIR:T46751; match to protein family HMM PF00528 YP_329167.1 identified by match to protein family HMM PF00528 YP_329168.1 identified by similarity to SP:P27756; match to protein family HMM PF02065 YP_329169.1 catalyzes the formation of alpha-D-glucose 1-phosphate and UDP-galactose from UDP-glucose and alpha-D-galactose 1-phosphate in galactose metabolism YP_329170.1 identified by match to protein family HMM PF01370; match to protein family HMM PF07993; match to protein family HMM TIGR01179 YP_329171.1 identified by match to protein family HMM PF01263 YP_329172.1 identified by similarity to GB:AAT10382.1 YP_329173.1 identified by match to protein family HMM PF01609 YP_329175.1 identified by similarity to GB:AAN59402.1 YP_329176.1 identified by similarity to GB:BAC63680.1 YP_329177.1 identified by match to protein family HMM PF00583 YP_329179.1 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_329180.1 identified by similarity to GB:BAB47518.1 YP_329181.1 identified by match to protein family HMM PF01408; match to protein family HMM PF02894 YP_329182.1 identified by match to protein family HMM PF01544 YP_329183.1 identified by similarity to GB:AAN58254.1; match to protein family HMM PF04237 YP_329184.1 catalyzes the formation of asparagine from aspartate and ammonia YP_329186.1 identified by match to protein family HMM PF03602; match to protein family HMM TIGR00095 YP_329187.1 Catalyzes the conversion of ATP and pantetheine 4'-phosphate to diphosphate and 3'-dephospho-coA YP_329188.1 identified by similarity to GB:AAN58262.1 YP_329189.1 identified by match to protein family HMM PF00149 YP_329190.1 identified by match to protein family HMM PF06265 YP_329191.1 23S rRNA m2A2503 methyltransferase; methylates the C2 position of the A2530 nucleotide in 23S rRNA; may be involved in antibiotic resistance YP_329192.1 identified by match to protein family HMM PF04892 YP_329193.1 identified by match to protein family HMM PF00005; match to protein family HMM PF00664 YP_329194.1 identified by match to protein family HMM PF00005; match to protein family HMM PF00664 YP_329195.1 TrpG; with TrpE catalyzes the formation of anthranilate and glutamate from chorismate and glutamine; TrpG provides the glutamine amidotransferase activity YP_329196.1 The translational stop site for this transposase gene is located outside the IS element.; identified by match to protein family HMM PF01609 YP_329197.1 identified by similarity to GB:AAN59451.1; match to protein family HMM PF02632 YP_329198.1 identified by similarity to SP:P53557; match to protein family HMM PF04055; match to protein family HMM PF06968 YP_329199.1 identified by similarity to GB:AAL97281.1 YP_329200.1 identified by match to protein family HMM PF00108; match to protein family HMM PF02803; match to protein family HMM TIGR01930 YP_329201.1 identified by similarity to GB:AAL97283.1 YP_329202.1 identified by match to protein family HMM PF00633; match to protein family HMM PF00730; match to protein family HMM TIGR01083 YP_329203.1 identified by match to protein family HMM PF01478 YP_329204.1 identified by similarity to GB:AAM79788.1; match to protein family HMM PF06014 YP_329205.1 identified by similarity to SP:P54495; match to protein family HMM PF00480; match to protein family HMM TIGR00744 YP_329206.1 identified by match to protein family HMM PF00581 YP_329207.1 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_329208.1 identified by similarity to GB:BAC63780.1 YP_329209.1 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_329210.1 UDP-N-acetylglucosamine--N-acetylmuramyl- (pentapeptide) pyrophosphoryl-undecaprenol N-acetylglucosamine transferase; involved in cell wall formation; inner membrane-associated; last step of peptidoglycan synthesis YP_329211.1 identified by similarity to SP:P16655; match to protein family HMM PF03799 YP_329212.1 identified by similarity to SP:P28264; match to protein family HMM PF02491; match to protein family HMM TIGR01174 YP_329213.1 GTPase; similar structure to tubulin; forms ring-shaped polymers at the site of cell division; other proteins such as FtsA, ZipA, and ZapA, interact with and regulate FtsZ function YP_329214.1 identified by match to protein family HMM PF01168; match to protein family HMM TIGR00044 YP_329215.1 identified by similarity to GB:BAC63787.1; match to protein family HMM PF04472 YP_329216.1 identified by match to protein family HMM PF02325 YP_329217.1 identified by match to protein family HMM PF01479 YP_329218.1 identified by similarity to GB:CAB06818.1; match to protein family HMM PF05103 YP_329219.1 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; some organisms carry two different copies of this enzyme YP_329220.1 identified by similarity to GB:BAC63792.1 YP_329221.1 identified by match to protein family HMM PF00293 YP_329222.1 identified by similarity to GB:AAD01782.1; match to protein family HMM PF00004; match to protein family HMM PF02151; match to protein family HMM PF07724 YP_329223.1 identified by similarity to GB:AAK34305.1 YP_329224.1 identified by match to protein family HMM PF00528; match to protein family HMM TIGR01726 YP_329225.1 identified by match to protein family HMM PF00005 YP_329226.1 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_329227.1 catalyzes the formation of 5,10-methenyltetrahydrofolate from 5,10-methylenetetrahydrofolate and subsequent formation of 10-formyltetrahydrofolate from 5,10-methenyltetrahydrofolate YP_329228.1 identified by match to protein family HMM PF01256; match to protein family HMM TIGR00196 YP_329229.1 bidirectionally degrades single-stranded DNA into large acid-insoluble oligonucleotides YP_329230.1 catalyzes the bidirectional exonucleolytic cleavage of DNA YP_329231.1 identified by similarity to SP:O66126; match to protein family HMM PF00348 YP_329232.1 identified by similarity to SP:Q06803; match to protein family HMM PF01479; match to protein family HMM PF01728; match to protein family HMM TIGR00478 YP_329233.1 identified by similarity to SP:P17893; match to protein family HMM PF01316; match to protein family HMM PF02863 YP_329234.1 identified by match to protein family HMM PF02463; match to protein family HMM TIGR00634 YP_329235.1 identified by match to protein family HMM PF02645; match to protein family HMM TIGR00762 YP_329236.1 identified by match to protein family HMM PF00657 YP_329237.1 identified by similarity to GB:BAC63810.1 YP_329238.1 identified by similarity to SP:P08821; match to protein family HMM PF00216 YP_329239.1 identified by match to protein family HMM PF00589 YP_329240.1 identified by similarity to GB:BAB94962.1; match to protein family HMM PF05154 YP_329241.1 identified by similarity to GB:BAC63608.1; match to protein family HMM PF06114 YP_329242.1 identified by match to protein family HMM PF01381 YP_329243.1 identified by match to protein family HMM PF01381 YP_329244.1 identified by similarity to GB:AAL97901.1 YP_329246.1 identified by similarity to GB:BAC63612.1 YP_329247.1 identified by similarity to GB:AAL97899.1 YP_329248.1 identified by match to protein family HMM TIGR01618 YP_329249.1 identified by match to protein family HMM PF00271; match to protein family HMM PF04851 YP_329250.1 identified by similarity to PIR:B56658; match to protein family HMM PF05037 YP_329251.1 identified by similarity to GB:AAA72952.1; similarity to GB:AAB22892.1 YP_329252.1 identified by similarity to GB:CAC04162.1 YP_329253.1 identified by similarity to GB:BAC63995.1; match to protein family HMM PF06190 YP_329254.1 identified by similarity to GB:AAL97891.1 YP_329257.1 identified by similarity to GB:BAC63626.1; match to protein family HMM PF07852 YP_329260.1 identified by similarity to GB:AAA85782.1 YP_329262.1 identified by match to protein family HMM PF01844 YP_329263.1 identified by similarity to GB:AAK34269.1 YP_329264.1 identified by similarity to GB:AAM99482.1; match to protein family HMM PF07360 YP_329265.1 identified by similarity to GB:AAM99483.1 YP_329268.1 identified by similarity to GB:AAM99485.1 YP_329270.1 identified by similarity to GB:AAK34260.1 YP_329271.1 identified by similarity to GB:AAP81924.1 YP_329272.1 identified by similarity to GB:AAP81925.1 YP_329273.1 identified by similarity to GB:AAL98042.1 YP_329275.1 identified by similarity to GB:AAG18636.1 YP_329276.1 identified by similarity to GB:AAS66818.1 YP_329278.1 identified by match to protein family HMM PF05709; match to protein family HMM TIGR01633 YP_329279.1 identified by match to protein family HMM PF01391; match to protein family HMM PF01832 YP_329280.1 identified by match to protein family HMM PF05895 YP_329281.1 identified by similarity to GB:BAC63647.1 YP_329282.1 identified by similarity to GB:AAM79915.1 YP_329284.1 identified by match to protein family HMM PF04531; match to protein family HMM TIGR01598 YP_329285.1 identified by similarity to GB:AAN28166.2; match to protein family HMM PF01183; match to protein family HMM PF05257 YP_329286.1 identified by similarity to PIR:AD1752 YP_329287.1 identified by similarity to GB:BAC63656.1 YP_329289.1 catalyzes the conversion of dihydroorotate to orotate in the pyrimidine biosynthesis pathway; subclass 1A is a dimer formed by two identical PyrD subunits each containing an FMN group YP_329290.1 identified by similarity to PIR:G95071; match to protein family HMM PF02388 YP_329291.1 identified by similarity to GB:CAB89535.1; match to protein family HMM PF02388 YP_329292.1 identified by similarity to GB:CAB89535.1; match to protein family HMM PF02388 YP_329293.1 identified by match to protein family HMM PF00702; match to protein family HMM TIGR00099; match to protein family HMM TIGR01484 YP_329294.1 identified by match to protein family HMM PF01966 YP_329295.1 identified by similarity to GB:AAK33593.1 YP_329296.1 identified by match to protein family HMM PF00122; match to protein family HMM PF00689; match to protein family HMM PF00690; match to protein family HMM PF00702; match to protein family HMM TIGR01494 YP_329297.1 identified by match to protein family HMM PF06874 YP_329298.1 identified by match to protein family HMM PF00037; match to protein family HMM TIGR00276 YP_329299.1 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_329300.1 identified by match to protein family HMM PF00005 YP_329301.1 identified by match to protein family HMM PF02687 YP_329302.1 The translational stop site for this transposase gene is located outside the IS element.; identified by match to protein family HMM PF01609 YP_329303.1 identified by similarity to GB:AAO80138.1 YP_329304.1 identified by match to protein family HMM PF00753 YP_329305.1 identified by similarity to SP:Q04520; match to protein family HMM PF00106; match to protein family HMM TIGR02415 YP_329306.1 unwinds DNA YP_329307.1 catalyzes the formation of oxalozcetate and L-glutamate from L-aspartate and 2-oxoglutarate YP_329308.1 catalyzes a two-step reaction, first charging an asparagine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA YP_329309.1 identified by similarity to GB:AAO82299.1 YP_329310.1 identified by match to protein family HMM PF01156 YP_329311.1 identified by similarity to GB:AAL73576.1; match to protein family HMM PF02566 YP_329312.1 identified by match to protein family HMM PF03668 YP_329313.1 identified by match to protein family HMM TIGR01826 YP_329314.1 identified by similarity to GB:AAK33617.1; match to protein family HMM PF02650; match to protein family HMM TIGR00647 YP_329315.1 identified by similarity to SP:Q48558; match to protein family HMM PF03577 YP_329316.1 identified by similarity to SP:Q8CWN2; match to protein family HMM PF01297 YP_329317.1 RpmE2; there appears to be two types of ribosomal proteins L31 in bacterial genomes; some contain a CxxC motif while others do not; Bacillus subtilis has both types; the proteins in this cluster do not have the CXXC motif; RpmE is found in exponentially growing Bacilli while YtiA was found after exponential growth; expression of ytiA is controlled by a zinc-specific transcriptional repressor; RpmE contains one zinc ion and a CxxC motif is responsible for this binding; forms an RNP particle along with proteins L5, L18, and L25 and 5S rRNA; found crosslinked to L2 and L25 and EF-G; may be near the peptidyltransferase site of the 50S ribosome YP_329318.1 identified by match to protein family HMM PF01368; match to protein family HMM PF02272 YP_329319.1 catalyzes the formation of inosine from adenosine YP_329320.1 An electron-transfer protein; flavodoxin binds one FMN molecule, which serves as a redox-active prosthetic group YP_329321.1 identified by match to protein family HMM PF01817; match to protein family HMM TIGR01805 YP_329322.1 identified by match to protein family HMM PF00654 YP_329323.1 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_329324.1 identified by similarity to GB:CAD46233.1 YP_329325.1 identified by similarity to GB:AAO04335.1 YP_329326.1 identified by match to protein family HMM PF02687 YP_329327.1 identified by similarity to GB:AAK92524.1; match to protein family HMM PF00005 YP_329328.1 identified by similarity to PIR:H95069; match to protein family HMM PF02687 YP_329329.1 identified by similarity to GB:AAD25108.1; match to protein family HMM PF00072; match to protein family HMM PF00486 YP_329330.1 identified by similarity to GB:AAD25109.1; match to protein family HMM PF00512; match to protein family HMM PF00672; match to protein family HMM PF02518 YP_329331.1 identified by similarity to GB:AAM99533.1; match to protein family HMM PF00665 YP_329332.1 identified by match to protein family HMM PF05532 YP_329333.1 identified by similarity to GB:BAC63656.1 YP_329334.1 identified by similarity to GB:AAM22611.1; match to protein family HMM PF01098 YP_329335.1 identified by match to protein family HMM PF00702; match to protein family HMM TIGR01549 YP_329336.2 negatively supercoils closed circular double-stranded DNA YP_329337.1 acts to negatively regulates ftsZ ring formation by modulating the frequency and position of the ftsZ ring formation YP_329338.1 identified by match to protein family HMM PF00702; match to protein family HMM TIGR00338; match to protein family HMM TIGR01488 YP_329339.1 identified by match to protein family HMM PF00293 YP_329340.1 identified by similarity to GB:AAN58933.1; match to protein family HMM PF07997 YP_329341.1 enolase; catalyzes the formation of phosphoenolpyruvate from 2-phospho-D-glycerate in glycolysis YP_329342.1 identified by similarity to PIR:D86644 YP_329343.1 catalyzes the formation of 5-O-(1-carboxyvinyl)-3-phosphoshikimate from phosphoenolpyruvate and 3-phosphoshikimate in tryptophan biosynthesis YP_329344.1 catalyzes the formation of shikimate 3-phosphate from shikimate in aromatic amino acid biosynthesis YP_329345.1 identified by match to protein family HMM PF03816; match to protein family HMM TIGR00350 YP_329346.1 identified by match to protein family HMM PF01938; match to protein family HMM PF05958; match to protein family HMM TIGR00479 YP_329347.1 identified by similarity to GB:AAL94822.1; match to protein family HMM PF08020 YP_329349.1 identified by match to protein family HMM PF00440 YP_329350.1 identified by match to protein family HMM PF00746; match to protein family HMM PF01391; match to protein family HMM PF04650; match to protein family HMM PF07501; match to protein family HMM TIGR01167; match to protein family HMM TIGR01168 YP_329351.1 identified by similarity to GB:AAS39307.1 YP_329352.1 identified by similarity to GB:AAR83200.1 YP_329353.1 identified by match to protein family HMM PF00476 YP_329354.1 identified by similarity to GB:AAR83202.1 YP_329355.1 identified by similarity to GB:AAR83203.1 YP_329356.1 identified by similarity to GB:AAR83204.1 YP_329357.1 identified by similarity to GB:AAR83205.1 YP_329358.1 identified by match to protein family HMM PF03288; match to protein family HMM TIGR01613 YP_329360.1 identified by similarity to GB:AAS39321.1 YP_329361.1 identified by match to protein family HMM PF00176 YP_329362.1 identified by similarity to GB:AAR83210.1 YP_329363.1 methionine adenosyltransferase; catalyzes the formation of S-adenosylmethionine from methionine and ATP; methionine adenosyltransferase YP_329364.1 identified by match to protein family HMM PF01844 YP_329365.1 identified by match to protein family HMM PF01555; match to protein family HMM PF02195 YP_329366.1 identified by match to protein family HMM PF00145; match to protein family HMM TIGR00675 YP_329367.1 identified by similarity to GB:AAS39331.1 YP_329368.1 identified by match to protein family HMM PF05119; match to protein family HMM TIGR01558 YP_329369.1 identified by match to protein family HMM PF03354 YP_329370.1 identified by match to protein family HMM PF04221; match to protein family HMM TIGR02384 YP_329371.1 identified by match to protein family HMM PF05016; match to protein family HMM TIGR02385 YP_329372.1 identified by similarity to GB:AAS09633.1 YP_329373.1 identified by match to protein family HMM PF04860; match to protein family HMM TIGR01537 YP_329374.1 identified by match to protein family HMM PF00574 YP_329375.1 identified by match to protein family HMM PF05065; match to protein family HMM TIGR01554 YP_329378.1 identified by similarity to GB:AAT29567.1 YP_329379.1 identified by similarity to GB:AAT35269.1 YP_329380.1 identified by match to protein family HMM TIGR01603 YP_329381.1 identified by similarity to GB:AAR83232.1 YP_329382.1 identified by similarity to GB:AAR83233.1 YP_329383.1 identified by match to protein family HMM PF05017; match to protein family HMM TIGR01760 YP_329385.1 identified by match to protein family HMM TIGR01665 YP_329386.1 identified by match to protein family HMM PF05895 YP_329387.1 identified by match to protein family HMM PF05105; match to protein family HMM TIGR01593 YP_329388.1 identified by match to protein family HMM PF01832 YP_329389.1 identified by match to protein family HMM PF01476 YP_329390.1 identified by match to protein family HMM PF00239; match to protein family HMM PF07508 YP_329391.1 identified by match to protein family HMM PF00239; match to protein family HMM PF07508 YP_329393.1 identified by similarity to PDB:1O6Y; match to protein family HMM PF00069 YP_329394.1 identified by similarity to PIR:D97764 YP_329395.1 Class B; non-specific; catalyzes the dephosphorylation of organic phosphomonoesters; also has phosphotransferase activity YP_329396.1 identified by similarity to GB:AAL94822.1; match to protein family HMM PF08020 YP_329398.1 identified by similarity to SP:Q02192; match to protein family HMM PF04650; match to protein family HMM TIGR01168 YP_329399.1 identified by similarity to GB:AAM99533.1; match to protein family HMM PF00665 YP_329400.1 identified by match to protein family HMM PF01527 YP_329401.1 identified by match to protein family HMM PF01430 YP_329402.1 identified by match to protein family HMM PF00165 YP_329403.1 identified by match to protein family HMM PF00746; match to protein family HMM PF05738; match to protein family HMM TIGR01167 YP_329404.1 identified by match to protein family HMM PF00746; match to protein family HMM PF05738; match to protein family HMM TIGR01167 YP_329405.1 identified by similarity to GB:AAC13546.1; match to protein family HMM PF04203; match to protein family HMM TIGR01076 YP_329406.1 identified by similarity to GB:AAC13546.1; match to protein family HMM PF04203; match to protein family HMM TIGR01076 YP_329407.1 identified by match to protein family HMM PF00092; match to protein family HMM PF05738 YP_329408.1 identified by match to protein family HMM PF05738 YP_329410.1 identified by match to protein family HMM PF00144 YP_329411.1 identified by match to protein family HMM PF00005 YP_329412.1 identified by similarity to GB:BAB79887.1; match to protein family HMM PF06182 YP_329413.1 identified by match to protein family HMM PF06182 YP_329414.1 identified by similarity to GB:CAD46288.1 YP_329415.1 identified by similarity to GB:CAD46289.1 YP_329416.1 identified by similarity to GB:AAD32035.1; match to protein family HMM PF00106 YP_329417.1 identified by similarity to GB:AAD32036.1 YP_329418.1 identified by similarity to GB:AAD32037.1; match to protein family HMM PF03061; match to protein family HMM PF07977 YP_329419.1 identified by similarity to GB:AAD32038.1; match to protein family HMM PF00005 YP_329420.1 identified by similarity to GB:AAD32039.1 YP_329421.1 identified by similarity to GB:AAD32040.1 YP_329422.1 identified by similarity to GB:AAF89494.1; match to protein family HMM PF01571 YP_329423.1 identified by similarity to GB:AAM99561.1; match to protein family HMM PF00109; match to protein family HMM PF02801 YP_329424.1 identified by similarity to GB:AAM99562.1 YP_329425.1 identified by similarity to GB:AAF01071.1 YP_329427.1 identified by similarity to SP:P11657 YP_329428.1 identified by similarity to GB:AAK27981.1; match to protein family HMM PF00082; match to protein family HMM PF06280 YP_329430.1 identified by similarity to GB:AAT32184.2 YP_329431.1 identified by similarity to PIR:D69747 YP_329432.1 identified by similarity to PIR:D69747 YP_329433.1 identified by match to protein family HMM PF02687 YP_329434.1 identified by similarity to PIR:G95069; match to protein family HMM PF00005 YP_329435.1 identified by similarity to GB:AAO05041.1 YP_329436.1 identified by similarity to SP:Q03158 YP_329437.1 identified by match to protein family HMM PF00597 YP_329438.1 identified by similarity to GB:AAS08546.1; match to protein family HMM PF00005 YP_329439.1 identified by match to protein family HMM PF03649; match to protein family HMM TIGR00245 YP_329440.1 identified by similarity to PIR:E95095 YP_329441.1 identified by match to protein family HMM PF00126; match to protein family HMM PF03466 YP_329443.1 catalyzes the formation of pyruvate from lactate YP_329444.1 identified by similarity to GB:AAD11508.1 YP_329445.1 identified by match to protein family HMM PF00294 YP_329446.1 identified by similarity to SP:P05804; match to protein family HMM PF00703; match to protein family HMM PF02836; match to protein family HMM PF02837 YP_329447.1 identified by match to protein family HMM PF00392; match to protein family HMM PF07729 YP_329448.1 identified by match to protein family HMM PF01081; match to protein family HMM TIGR01182 YP_329449.1 catalyzes the interconversion of D-glucuronate to D-fructuronate or D-galacturonate to D-tagaturonate; functions in glucuronic and galacturonic metabolism YP_329450.1 catalyzes the formation of 2-dehydro-3-deoxy-D-gluconate from mannonate YP_329451.1 Converts D-mannonate to D-mannuronate YP_329452.1 identified by similarity to GB:BAB79851.1 YP_329453.1 identified by match to protein family HMM PF00933 YP_329454.1 identified by similarity to SP:P46545; match to protein family HMM PF00557 YP_329455.1 identified by similarity to SP:P25144; match to protein family HMM PF00356; match to protein family HMM PF00532; match to protein family HMM TIGR01481 YP_329456.1 converts 1,4-alpha-D-glucans to maltodextrin YP_329457.1 identified by match to protein family HMM PF00534 YP_329458.1 identified by match to protein family HMM PF00534 YP_329459.1 catalyzes a two-step reaction, first charging a threonine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; catalyzes the formation of threonyl-tRNA(Thr) from threonine and tRNA(Thr) YP_329460.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00486 YP_329461.1 identified by similarity to GB:AAL97284.1 YP_329462.1 identified by match to protein family HMM PF03413 YP_329463.1 identified by match to protein family HMM PF00528; match to protein family HMM TIGR01726 YP_329464.1 identified by match to protein family HMM PF00528; match to protein family HMM TIGR01726 YP_329465.1 identified by similarity to SP:P27676; match to protein family HMM PF00497 YP_329466.1 identified by similarity to SP:P27675; similarity to SP:P48243; match to protein family HMM PF00005 YP_329467.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00486 YP_329468.1 identified by match to protein family HMM PF00512; match to protein family HMM PF00672; match to protein family HMM PF00785; match to protein family HMM PF00989; match to protein family HMM PF02518; match to protein family HMM TIGR00229 YP_329469.1 identified by similarity to GB:AAK33525.1; match to protein family HMM PF00753 YP_329470.1 identified by similarity to PIR:D95146; match to protein family HMM PF04304 YP_329471.1 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_329472.1 identified by similarity to SP:P51834; match to protein family HMM PF02463; match to protein family HMM PF02483; match to protein family HMM PF06470; match to protein family HMM TIGR02168 YP_329473.1 identified by match to protein family HMM PF00702; match to protein family HMM TIGR00099; match to protein family HMM TIGR01484 YP_329474.1 identified by match to protein family HMM PF00702; match to protein family HMM TIGR00099; match to protein family HMM TIGR01484 YP_329475.1 identified by similarity to SP:P10121; similarity to SP:P51835; match to protein family HMM PF00448; match to protein family HMM PF02881; match to protein family HMM TIGR00064 YP_329476.1 identified by similarity to GB:AAN58470.1 YP_329477.1 identified by match to protein family HMM PF03773 YP_329479.1 identified by match to protein family HMM PF00296 YP_329480.1 identified by match to protein family HMM PF00575 YP_329481.1 identified by match to protein family HMM PF03926 YP_329482.1 identified by match to protein family HMM PF04024 YP_329484.1 catalyzes the phosphorylation of the phosphocarrier protein HPr of the bacterial phosphotransferase system YP_329485.1 transfers the N-acyl diglyceride moiety to the prospective N-terminal cysteine in prolipoprotein YP_329486.1 identified by similarity to GB:AAK33568.1; match to protein family HMM PF06103 YP_329487.1 identified by similarity to GB:BAC64535.1; match to protein family HMM PF02987 YP_329488.1 identified by similarity to GB:BAC64534.1 YP_329489.1 identified by match to protein family HMM PF01136 YP_329490.1 identified by match to protein family HMM PF01136 YP_329491.1 identified by similarity to GB:AAN58489.1 YP_329493.1 identified by match to protein family HMM PF01566; match to protein family HMM TIGR01197 YP_329494.1 identified by similarity to SP:P17618; match to protein family HMM PF00383; match to protein family HMM PF01872; match to protein family HMM TIGR00227; match to protein family HMM TIGR00326 YP_329495.1 catalyzes the formation of riboflavin from 6,7-dimethyl-8-(1-D-ribityl)lumazine YP_329496.1 identified by similarity to SP:P50855; match to protein family HMM PF00925; match to protein family HMM PF00926; match to protein family HMM TIGR00505; match to protein family HMM TIGR00506 YP_329497.1 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_329498.1 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_329499.1 identified by match to protein family HMM PF00702; match to protein family HMM TIGR01549 YP_329500.1 identified by match to protein family HMM PF00300 YP_329501.1 identified by match to protein family HMM PF04073 YP_329502.1 identified by match to protein family HMM PF07993 YP_329503.1 identified by similarity to GB:CAA72266.1; match to protein family HMM PF01183 YP_329504.1 identified by similarity to GB:AAN58439.1 YP_329506.1 identified by match to protein family HMM PF01432; match to protein family HMM TIGR00181 YP_329507.1 catalyzes the formation of oxaloacetate from phosphoenolpyruvate YP_329508.1 identified by match to protein family HMM PF01098 YP_329509.1 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_329510.1 Reversibly isomerizes the ketone sugar dihydroxyacetone phosphate to the aldehyde sugar glyceraldehyde-3-phosphate YP_329511.1 2,3-bisphosphoglycerate-dependent; catalyzes the interconversion of 2-phosphoglycerate to 3-phosphoglycerate YP_329512.1 identified by similarity to GB:AAC44614.1; match to protein family HMM PF00905; match to protein family HMM PF03717 YP_329513.1 involved in a recombinational process of DNA repair, independent of the recBC complex YP_329514.1 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_329515.1 identified by similarity to SP:P96613; match to protein family HMM PF01225; match to protein family HMM PF02875; match to protein family HMM TIGR01143 YP_329516.1 identified by match to protein family HMM PF07690 YP_329517.1 identified by match to protein family HMM TIGR02206 YP_329518.1 identified by match to protein family HMM PF00746; match to protein family HMM PF05738; match to protein family HMM TIGR01167 YP_329519.1 stimulates the release of release factors 1 and 2 from the ribosome after hydrolysis of the ester bond in peptidyl-tRNA has occurred; GDP/GTP-binding protein YP_329520.1 identified by similarity to GB:AAO81936.1; match to protein family HMM PF08000 YP_329521.1 identified by similarity to SP:P30750; match to protein family HMM PF00005 YP_329522.1 identified by similarity to SP:P31547; match to protein family HMM PF00528 YP_329523.1 identified by similarity to GB:AAL94854.1; match to protein family HMM PF03180 YP_329524.1 identified by match to protein family HMM PF00270; match to protein family HMM PF00271 YP_329525.1 identified by match to protein family HMM PF01541 YP_329526.1 identified by similarity to GB:AAO82396.1 YP_329527.1 identified by match to protein family HMM PF01553 YP_329528.1 identified by similarity to SP:P39694; match to protein family HMM PF00633; match to protein family HMM TIGR00426 YP_329529.1 identified by similarity to SP:P39695; match to protein family HMM PF00753; match to protein family HMM PF03772; match to protein family HMM TIGR00360; match to protein family HMM TIGR00361 YP_329530.1 identified by match to protein family HMM PF00702; match to protein family HMM TIGR00099; match to protein family HMM TIGR01484 YP_329531.1 identified by match to protein family HMM PF00356; match to protein family HMM PF00532 YP_329532.1 identified by match to protein family HMM PF07859 YP_329533.1 identified by similarity to PIR:T34740 YP_329534.1 required for the assembly and function of the DNAX complex which is required for the assembly of the beta subunit onto primed DNA YP_329535.1 identified by similarity to SP:Q59949; match to protein family HMM PF00081; match to protein family HMM PF02777 YP_329536.1 identified by match to protein family HMM PF00874; match to protein family HMM PF03123 YP_329537.1 identified by similarity to SP:P40739; match to protein family HMM PF00358; match to protein family HMM PF00367; match to protein family HMM PF02378; match to protein family HMM TIGR00830; match to protein family HMM TIGR01995 YP_329538.1 identified by match to protein family HMM PF00232 YP_329539.1 identified by similarity to GB:BAC14786.1 YP_329540.1 identified by match to protein family HMM PF02595; match to protein family HMM TIGR00045 YP_329541.1 identified by match to protein family HMM PF02447 YP_329542.1 identified by similarity to GB:AAN58364.1 YP_329543.1 identified by match to protein family HMM PF01047 YP_329544.1 Synthesizes oQ from preQ1 in a single S-adenosylmethionine-requiring step YP_329545.1 identified by similarity to GB:CAD65470.1; match to protein family HMM PF01988 YP_329546.1 identified by similarity to SP:P59686; match to protein family HMM PF01182; match to protein family HMM TIGR00502 YP_329547.1 identified by match to protein family HMM PF00043 YP_329548.1 identified by match to protein family HMM PF00849; match to protein family HMM PF01479; match to protein family HMM TIGR00093 YP_329549.1 identified by match to protein family HMM PF07690 YP_329550.1 identified by similarity to GB:AAC23746.1; match to protein family HMM PF06054 YP_329551.1 identified by similarity to SP:Q53778; match to protein family HMM PF01432; match to protein family HMM TIGR00181 YP_329552.1 identified by match to protein family HMM PF00702; match to protein family HMM TIGR01549 YP_329553.1 identified by match to protein family HMM PF01596 YP_329554.1 cis/trans isomerase of peptidylprolyl; PPIase; membrane-bound lipoprotein YP_329555.1 identified by match to protein family HMM PF04525 YP_329556.1 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_329557.1 identified by similarity to GB:AAM23846.1; match to protein family HMM PF04474 YP_329558.1 identified by match to protein family HMM PF01501 YP_329560.1 identified by match to protein family HMM PF01381 YP_329561.1 identified by similarity to GB:BAC63902.1 YP_329562.1 identified by similarity to PIR:AE1253; match to protein family HMM TIGR02357 YP_329563.1 The translational stop site for this transposase gene is located outside the IS element.; identified by match to protein family HMM PF01609 YP_329564.1 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_329565.1 Catalyzes the rate-limiting step in dNTP synthesis YP_329566.1 identified by match to protein family HMM TIGR02194 YP_329567.1 identified by similarity to SP:P24366; match to protein family HMM PF00381; match to protein family HMM TIGR01003 YP_329568.1 identified by similarity to SP:P45595; match to protein family HMM PF00391; match to protein family HMM PF02896; match to protein family HMM PF05524; match to protein family HMM TIGR01417 YP_329569.1 identified by similarity to SP:Q59931; match to protein family HMM PF00171 YP_329570.1 identified by match to protein family HMM PF01522 YP_329571.1 identified by match to protein family HMM PF00270; match to protein family HMM PF00271 YP_329572.1 functions in pyrimidine salvage; pyrimidine ribonucleoside kinase; phosphorylates nucleosides or dinucleosides to make UMP or CMP using ATP or GTP as the donor YP_329573.1 identified by match to protein family HMM PF01590 YP_329574.1 catalyzes the DNA-template-directed extension of the 3'-end of a DNA strand; the tau chain serves as a scaffold to help in the dimerizaton of the alpha,epsilon and theta core complex; the gamma chain seems to interact with the delta and delta' subunits to transfer the beta subunit on the DNA YP_329575.1 catalyzes the formation of biotinyl-5'-AMP, also acts as a transcriptional repressor of the biotin operon YP_329576.1 methionine adenosyltransferase; catalyzes the formation of S-adenosylmethionine from methionine and ATP; methionine adenosyltransferase YP_329577.1 identified by similarity to GB:AAP87307.1 YP_329578.1 identified by similarity to GB:CAE76704.1 YP_329580.1 identified by match to protein family HMM TIGR02359 YP_329581.1 identified by similarity to PIR:A69859 YP_329582.1 identified by match to protein family HMM PF00005 YP_329583.1 identified by similarity to GB:CAD62881.1 YP_329584.1 identified by match to protein family HMM PF03070 YP_329585.1 catalyzes the formation of 4-amino-2-methyl-5-diphosphomethylpyrimidine YP_329586.1 catalyzes the formation of 4-methyl-5-(2-phosphoethyl)-thiazole and ADP from 4-methyl-5-(2-hydroxyethyl)-thiazole and ATP YP_329587.1 Condenses 4-methyl-5-(beta-hydroxyethyl)-thiazole monophosphate and 4-amino-5-hydroxymethyl pyrimidine pyrophosphate to form thiamine monophosphate YP_329588.1 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_329589.1 identified by match to protein family HMM PF00583 YP_329590.1 identified by match to protein family HMM PF00571; match to protein family HMM PF07085 YP_329591.1 catalyzes the removal of N-terminal amino acids from peptides and arylamides YP_329592.1 identified by match to protein family HMM PF03631; match to protein family HMM TIGR00765 YP_329593.1 identified by match to protein family HMM PF04138 YP_329594.1 identified by similarity to GB:AAL97473.1; match to protein family HMM PF06177 YP_329595.1 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_329596.1 similar to YegS from E. coli YP_329597.1 identified by match to protein family HMM PF00128; match to protein family HMM PF02922; match to protein family HMM TIGR02104 YP_329598.1 catalyzes the transfer of a segment of a 1,4-alpha-D-glucan chain to a primary hydroxy group in a similar glucan chain YP_329599.1 catalyzes the formation of ADP-glucose and diphosphate from ATP and alpha-D-glucose 1-phosphate YP_329600.1 identified by similarity to SP:P39124; match to protein family HMM PF00483; match to protein family HMM TIGR02092 YP_329601.1 catalyzes the formation of alpha-1,4-glucan chains from ADP-glucose YP_329602.1 produces ATP from ADP in the presence of a proton gradient across the membrane; subunit C is part of the membrane proton channel F0 YP_329603.1 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_329604.1 Produces ATP from ADP in the presence of a proton gradient across the membrane. Subunit B is part of the membrane proton channel. YP_329605.1 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_329606.1 produces ATP from ADP in the presence of a proton gradient across the membrane; the alpha chain is a catalytic subunit YP_329607.1 Produces ATP from ADP in the presence of a proton gradient across the membrane. The gamma chain is a regulatory subunit YP_329608.1 Produces ATP from ADP in the presence of a proton gradient across the membrane. The beta chain is a regulatory subunit YP_329609.1 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_329610.1 identified by match to protein family HMM TIGR02327 YP_329611.1 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_329612.1 identified by similarity to GB:AAN59174.1 YP_329613.1 identified by similarity to SP:Q03158; match to protein family HMM PF01223 YP_329614.1 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_329615.1 identified by match to protein family HMM PF00583 YP_329616.1 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_329617.1 identified by match to protein family HMM PF04228 YP_329618.1 identified by similarity to GB:AAC12965.1 YP_329619.1 identified by similarity to GB:AAC12966.1; match to protein family HMM PF00580 YP_329620.1 identified by match to protein family HMM PF01544 YP_329621.1 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_329622.1 identified by match to protein family HMM PF00005 YP_329623.1 identified by similarity to GB:AAA21744.1; match to protein family HMM PF00676 YP_329624.1 identified by similarity to GB:AAA21745.1; match to protein family HMM PF02779; match to protein family HMM PF02780 YP_329625.1 Catalyzes the transfer of acetyl from acetyldihydrolipoamide to coenzyme A to form acetyl CoA YP_329626.1 identified by similarity to GB:AAA21748.1; match to protein family HMM PF00070; match to protein family HMM PF00364; match to protein family HMM PF02852; match to protein family HMM PF07992; match to protein family HMM TIGR01350 YP_329627.1 identified by match to protein family HMM PF03099; match to protein family HMM TIGR00545 YP_329628.1 identified by match to protein family HMM PF07685 YP_329629.1 identified by similarity to GB:AAM99770.1 YP_329630.1 identified by similarity to GB:AAK33928.1; match to protein family HMM PF02457; match to protein family HMM TIGR00159 YP_329631.1 identified by similarity to GB:AAK33929.1; match to protein family HMM PF07949 YP_329632.1 catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate YP_329633.1 identified by similarity to GB:AAS11286.1 YP_329634.1 identified by similarity to GB:AAS11285.1; match to protein family HMM TIGR02328 YP_329635.1 catalyzes the oxygen-independent formation of protoporphyrinogen-IX from coproporphyrinogen-III YP_329636.1 identified by match to protein family HMM PF01643 YP_329637.1 identified by match to protein family HMM PF00702; match to protein family HMM TIGR01457; match to protein family HMM TIGR01460 YP_329638.1 identified by match to protein family HMM PF07314; match to protein family HMM TIGR01906 YP_329639.1 identified by match to protein family HMM PF01844; match to protein family HMM TIGR01865 YP_329640.1 identified by match to protein family HMM TIGR00287 YP_329641.1 identified by match to protein family HMM TIGR01573 YP_329642.1 identified by match to protein family HMM TIGR01866 YP_329643.1 catalyzes the formation of nucleoside triphosphate from ATP and nucleoside diphosphate YP_329644.1 binds to the ribosome on the universally-conserved alpha-sarcin loop YP_329645.1 identified by match to protein family HMM PF00560; match to protein family HMM PF04270 YP_329646.1 identified by match to protein family HMM PF01966 YP_329647.1 identified by match to protein family HMM PF00583 YP_329648.1 this stereospecific enzymes reduces the R isomer of methionine sulfoxide while MsrA reduces the S form; provides protection against oxidative stress YP_329649.1 identified by match to protein family HMM PF00122; match to protein family HMM PF00689; match to protein family HMM PF00690; match to protein family HMM PF00702; match to protein family HMM TIGR01494 YP_329650.1 identified by similarity to PIR:B98056 YP_329651.1 identified by match to protein family HMM PF00132 YP_329653.1 identified by similarity to GB:BAC64211.1 YP_329654.1 identified by match to protein family HMM PF00005 YP_329655.1 identified by match to protein family HMM PF00392 YP_329656.1 Catalyzes DNA-template-directed extension of the 3'-end of a DNA strand by one nucleotide at a time. Proposed to be responsible for the synthesis of the lagging strand. In the low GC gram positive bacteria this enzyme is less processive and more error prone than its counterpart in other bacteria. YP_329657.1 catalyzes the formation of D-fructose 1,6-bisphosphate from D-fructose 6-phosphate in glycolysis YP_329658.1 catalyzes the formation of phosphoenolpyruvate from pyruvate YP_329659.1 identified by similarity to SP:P72365; match to protein family HMM PF00717; match to protein family HMM TIGR02227 YP_329661.1 Catalyzes the first step in hexosamine metabolism, converting fructose-6P into glucosamine-6P using glutamine as a nitrogen source YP_329662.1 identified by match to protein family HMM PF03831; match to protein family HMM TIGR00686 YP_329663.1 identified by match to protein family HMM PF00528; match to protein family HMM TIGR01726 YP_329664.1 identified by similarity to SP:P10346; match to protein family HMM PF00005 YP_329665.1 identified by match to protein family HMM PF00497 YP_329666.2 binds directly to the 16S rRNA and is involved in post-translational inhibition of arginine and ornithine decarboxylase YP_329667.1 catalyzes the formation of (R)-4'-phosphopantothenate in coenzyme A biosynthesis YP_329668.1 identified by match to protein family HMM PF05175 YP_329669.1 Reclaims exogenous and endogenous cytidine and 2'-deoxycytidine molecules for UMP synthesis YP_329670.1 identified by similarity to SP:O31280; match to protein family HMM PF02608 YP_329671.1 identified by match to protein family HMM PF00005 YP_329672.1 identified by match to protein family HMM PF02653 YP_329673.1 identified by match to protein family HMM PF02653 YP_329674.1 identified by similarity to GB:BAA08707.1; match to protein family HMM PF00070; match to protein family HMM PF02852; match to protein family HMM PF07992 YP_329675.1 Converts (S)-lactate and NAD(+) to pyruvate and NADH YP_329676.1 negatively supercoils closed circular double-stranded DNA YP_329677.1 identified by similarity to GB:AAG41778.1; match to protein family HMM PF04203; match to protein family HMM TIGR01076 YP_329678.1 identified by match to protein family HMM PF00903 YP_329679.1 identified by match to protein family HMM PF06207 YP_329680.1 identified by similarity to SP:P26235; match to protein family HMM PF00999 YP_329681.1 identified by similarity to GB:AAT10382.1 YP_329682.1 identified by match to protein family HMM PF01609 YP_329683.1 glutamine-hydrolyzing; contains glutamine-hydrolyzing domain and glutamine amidotransferase; GMP-binding domain; functions to produce GMP from XMP in the IMP pathway YP_329684.1 identified by match to protein family HMM PF00392; match to protein family HMM PF07702 YP_329685.1 TrmFO; Gid; glucose-inhibited division protein; similar to GidA; the gene from Bacillus subtilis encodes a tRNA-methyltransferase that utilizes folate as the carbon donor and bound flavin as reductant; modifies tRNA at position 54 (uridine) of the T-psi loop to form a C5-methyluridine YP_329686.1 identified by match to protein family HMM PF00583 YP_329687.1 identified by similarity to GB:AAL04077.1; match to protein family HMM PF03180 YP_329688.1 identified by similarity to GB:BAC64133.1; match to protein family HMM PF03793 YP_329689.1 identified by similarity to SP:P23648; match to protein family HMM PF03572 YP_329690.1 identified by match to protein family HMM PF00005 YP_329692.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00486 YP_329693.1 identified by match to protein family HMM PF00512; match to protein family HMM PF02518 YP_329694.1 site-specific tyrosine recombinase which cuts and rejoins DNA molecules; binds cooperatively to specific DNA consensus sites; essential to convert chromosome dimers to monomers during cell division and functions during plasmid segregation; cell division protein FtsK may regulate the XerS YP_329695.1 identified by match to protein family HMM PF00496 YP_329697.1 identified by similarity to GB:AAG28336.1 YP_329698.1 identified by similarity to SP:Q54431; 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_329699.1 identified by match to protein family HMM PF04297 YP_329700.1 identified by similarity to SP:Q54955; match to protein family HMM PF00512; match to protein family HMM PF02518 YP_329701.1 identified by similarity to SP:Q54954; match to protein family HMM PF00072; match to protein family HMM PF00486 YP_329702.1 identified by similarity to GB:CAB50785.1; match to protein family HMM PF01433 YP_329703.1 identified by match to protein family HMM PF01895; match to protein family HMM TIGR02135 YP_329704.1 identified by similarity to GB:BAA08137.1; match to protein family HMM PF00005 YP_329705.1 ATP-binding protein; PstABCS is an ATP dependent phosphate uptake system which is responsible for inorganic phosphate uptake during phosphate starvation YP_329706.1 identified by match to protein family HMM PF00528; match to protein family HMM TIGR00974 YP_329707.1 identified by match to protein family HMM PF00528; match to protein family HMM TIGR02138 YP_329708.1 identified by match to protein family HMM PF01547; match to protein family HMM TIGR02136 YP_329709.1 identified by match to protein family HMM PF01189 YP_329710.1 identified by match to protein family HMM PF00459 YP_329711.1 identified by match to protein family HMM PF05256 YP_329712.1 the anti-alpha factor Spx interacts with RNA polymerase alpha subunit C-terminal domain in a region that interacts with the sigma 70 subunit and may interfere with activation of promoters; in Bacillus subtilis this protein is a substrate for ClpXP protease; blocks transcription of the competence regulatory gene encoded by the srf operon; regulates a number of genes involved in thiol homeostasis including trxA and trxB; monomeric member of ArsC family of proteins; does not bind DNA; contains a disulfide bond between C10 and C13 which may sense disulfide stress YP_329713.1 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_329714.1 catalyzes isomerization of specific uridines in RNA to pseudouridine; responsible for residues in T loops of many tRNAs YP_329715.1 identified by match to protein family HMM PF00583 YP_329716.1 identified by similarity to GB:AAN58850.1 YP_329717.1 identified by similarity to GB:BAC64185.1 YP_329718.1 identified by match to protein family HMM PF02517 YP_329719.1 identified by match to protein family HMM PF02687 YP_329720.1 identified by match to protein family HMM PF00005 YP_329721.1 catalyzes the ATP-dependent breakage of single-stranded DNA followed by passage and rejoining, maintains net negative superhelicity YP_329722.1 identified by match to protein family HMM PF02481; match to protein family HMM TIGR00732 YP_329723.1 identified by match to protein family HMM PF01497 YP_329724.1 identified by match to protein family HMM PF00005 YP_329725.1 identified by similarity to GB:CAA61302.1; match to protein family HMM PF01032 YP_329726.1 identified by similarity to GB:CAA61301.1; match to protein family HMM PF01032 YP_329727.1 identified by similarity to SP:P77791; match to protein family HMM PF00132 YP_329728.1 RNH2; RNase HII; binds manganese; endonuclease which specifically degrades the RNA of RNA-DNA hybrids YP_329729.1 essential GTPase; functions in ribosome assembly; binds a unique part of the 23S rRNA; interacts with ribosomal protein L25(Ctc) YP_329730.1 identified by match to protein family HMM PF03734 YP_329731.1 identified by match to protein family HMM PF02554 YP_329732.1 identified by match to protein family HMM PF00072; match to protein family HMM PF04397 YP_329733.1 identified by match to protein family HMM PF01590; match to protein family HMM PF02518; match to protein family HMM PF06580; match to protein family HMM PF07694 YP_329736.1 identified by similarity to PIR:D83772 YP_329739.1 identified by similarity to PIR:D83772 YP_329741.1 identified by similarity to GB:BAB94416.1 YP_329743.1 identified by similarity to PIR:D90064 YP_329744.1 identified by match to protein family HMM PF01580 YP_329745.1 identified by similarity to GB:BAC13271.1 YP_329746.1 identified by similarity to GB:BAC13270.1 YP_329749.1 identified by similarity to GB:AAP09046.1; match to protein family HMM PF06013 YP_329750.1 identified by similarity to GB:AAP09046.1; match to protein family HMM PF06013 YP_329753.1 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_329754.1 catalyzes production of carbamoyl phosphate from bicarbonate and glutamine in pyrimidine and arginine biosynthesis pathways; forms an octamer composed of four CarAB dimers YP_329755.1 catalyzes the transfer of the carbamoyl moiety from carbamoyl phosphate to L- aspartate in pyrimidine biosynthesis YP_329756.1 catalyzes the formation of N-carbamoyl-L-aspartate from (S)-dihydroorotate in pyrimidine biosynthesis YP_329757.1 involved in fifth step of pyrimidine biosynthesis; converts orotidine 5'-phosphate and diphosphate to orotate and 5-phospho-alpha-D-ribose 1-diphosphate YP_329758.1 OMP decarboxylase; OMPDCase; OMPdecase; type 1 subfamily; involved in last step of pyrimidine biosynthesis; converts orotidine 5'-phosphate to UMP and carbon dioxide; OMP decarboxylase; OMPDCase; OMPdecase YP_329759.1 identified by match to protein family HMM PF06738 YP_329760.1 identified by match to protein family HMM PF00005 YP_329761.1 identified by match to protein family HMM PF03477 YP_329762.1 catalyzes the formation of 4-aspartyl phosphate from aspartate 4-semialdehyde YP_329763.1 identified by similarity to GB:CAD27183.1; match to protein family HMM PF08017 YP_329764.1 identified by similarity to SP:O66043; match to protein family HMM PF00614 YP_329765.1 catalyzes the formation of 10-formyltetrahydrofolate from formate and tetrahydrofolate YP_329766.1 identified by match to protein family HMM PF03099; match to protein family HMM TIGR00545 YP_329767.1 identified by similarity to GB:AAL97783.1 YP_329768.1 identified by match to protein family HMM PF01661 YP_329769.1 identified by match to protein family HMM PF01597 YP_329770.1 identified by match to protein family HMM PF00296 YP_329771.1 identified by match to protein family HMM PF00724 YP_329772.1 identified by similarity to GB:AAK34079.1 YP_329773.1 identified by match to protein family HMM PF04127; match to protein family HMM TIGR02114 YP_329774.1 decarboxylates 4-phosphopantothenoylcysteine to form 4'-phosphopantotheine. YP_329776.1 identified by match to protein family HMM PF00408; match to protein family HMM PF02878; match to protein family HMM PF02880 YP_329777.1 identified by match to protein family HMM PF00005; match to protein family HMM PF00249; match to protein family HMM PF00664 YP_329778.1 identified by match to protein family HMM PF00005; match to protein family HMM PF00664 YP_329779.1 identified by similarity to SP:Q9AHT6 YP_329780.1 identified by similarity to GB:AAO81943.1 YP_329781.1 catalyzes the reaction of glycine with 5,10-methylenetetrahydrofolate to form L-serine and tetrahydrofolate YP_329782.1 identified by match to protein family HMM PF01300; match to protein family HMM TIGR00057 YP_329783.1 identified by match to protein family HMM TIGR00536 YP_329784.1 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_329785.1 catalyzes the formation of thymidine 5'-phosphate from thymidine YP_329786.1 4-OT; member of subfamily 5; forms a dimer; the function in the Escherichia coli cell is unknown YP_329787.1 identified by match to protein family HMM PF02424 YP_329788.1 identified by match to protein family HMM PF03358 YP_329789.1 identified by match to protein family HMM PF03358 YP_329790.1 identified by match to protein family HMM PF01226 YP_329791.1 identified by similarity to SP:P42086; match to protein family HMM PF00860; match to protein family HMM TIGR00801 YP_329792.1 Catalyzes the transfer of the phosphoribosyl moiety from 5-phospho--D-ribosyl-1-pyrophosphate (PRib-PP) to the 6-oxo-guanine and -xanthine YP_329793.1 identified by match to protein family HMM PF00478; match to protein family HMM TIGR01306 YP_329794.1 identified by similarity to GB:AAF40441.1; match to protein family HMM PF07690 YP_329795.1 identified by similarity to GB:AAK34004.1 YP_329796.1 identified by match to protein family HMM PF02705 YP_329797.1 identified by match to protein family HMM PF00106 YP_329798.1 in Salmonella this enzyme is required for ethanolamine catabolism; has higher affinity for CoA than Pta YP_329799.1 identified by match to protein family HMM PF00849; match to protein family HMM TIGR00005 YP_329800.1 catalyzes the phosphorylation of NAD to NADP YP_329801.1 identified by match to protein family HMM PF04607 YP_329802.1 identified by match to protein family HMM PF01928 YP_329803.1 catalyzes the formation of 5-phospho-alpha-D-ribose 1-phosphate from D-ribose 5-phosphate and ATP YP_329804.1 identified by similarity to SP:O54055; match to protein family HMM PF00266 YP_329805.1 identified by similarity to PIR:D86857 YP_329806.1 modulates transcription in response to the NADH/NAD(+) redox state YP_329807.1 Involved in DNA double-strand break repair and recombination. Promotes the annealing of complementary single-stranded DNA and by simulation of RAD51 recombinase YP_329808.1 identified by match to protein family HMM PF01594 YP_329809.1 required for arbutin uptake and metabolism YP_329810.1 identified by match to protein family HMM PF00657 YP_329811.1 identified by match to protein family HMM PF00702; match to protein family HMM TIGR00099; match to protein family HMM TIGR01484 YP_329812.1 identified by match to protein family HMM PF00165; match to protein family HMM PF02311 YP_329813.1 identified by match to protein family HMM PF00654; match to protein family HMM PF02080 YP_329814.1 identified by similarity to SP:P23861; match to protein family HMM PF01547 YP_329815.1 identified by similarity to SP:P23859; match to protein family HMM PF00528 YP_329817.1 identified by similarity to SP:P23858; match to protein family HMM PF00005 YP_329818.1 catalyzes the reduction of UDP-N-acetylglucosamine enolpyruvate to form UDP-N-acetylmuramate in peptidoglycan biosynthesis YP_329819.1 identified by similarity to SP:P29252; match to protein family HMM PF01288; match to protein family HMM TIGR01498 YP_329820.1 identified by similarity to SP:P28823; match to protein family HMM PF02152; match to protein family HMM TIGR00525; match to protein family HMM TIGR00526 YP_329821.1 identified by match to protein family HMM PF00809; match to protein family HMM TIGR01496 YP_329822.1 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_329823.1 identified by similarity to SP:Q05865; match to protein family HMM PF01225; match to protein family HMM TIGR01499 YP_329824.1 identified by similarity to SP:P27844; match to protein family HMM PF00892; match to protein family HMM TIGR00688 YP_329825.1 catalyzes the formation of O-phospho-L-homoserine from L-homoserine in threonine biosynthesis from asparate YP_329826.1 catalyzes the formation of L-aspartate 4-semialdehyde from L-homoserine YP_329827.1 identified by match to protein family HMM PF01522 YP_329828.1 This gene is disrupted by an IS element.; identified by similarity to SP:P54417 YP_329829.1 identified by match to protein family HMM PF01609 YP_329830.1 identified by similarity to GB:AAT10382.1 YP_329831.1 identified by match to protein family HMM PF00171 YP_329832.1 identified by match to protein family HMM PF03601 YP_329833.1 identified by similarity to GB:BAC64342.1 YP_329834.1 identified by similarity to PIR:B95039 YP_329835.1 antioxidant activity; thioredoxin-dependent thiol peroxidase; forms homodimers in solution; shows substrate specificity to alkyl hydroperoxides; periplasmic protein YP_329836.1 identified by similarity to GB:AAS09091.1 YP_329837.1 identified by match to protein family HMM PF00392; match to protein family HMM PF02080 YP_329838.1 identified by similarity to SP:Q53485; match to protein family HMM PF02987; match to protein family HMM PF03780 YP_329839.1 identified by match to protein family HMM PF05532 YP_329840.1 identified by similarity to SP:Q53485; match to protein family HMM PF03780 YP_329841.1 identified by similarity to GB:AAK34117.1 YP_329842.1 identified by similarity to GB:BAC64194.1 YP_329843.1 identified by similarity to GB:CAD46866.1; match to protein family HMM PF04226 YP_329844.1 identified by match to protein family HMM PF04226 YP_329845.1 identified by match to protein family HMM PF00580; match to protein family HMM TIGR01073 YP_329846.1 identified by match to protein family HMM PF03061; match to protein family HMM TIGR00369 YP_329847.1 identified by similarity to SP:P41006; match to protein family HMM PF00860; match to protein family HMM TIGR00801 YP_329848.1 identified by match to protein family HMM PF01235; match to protein family HMM TIGR00835 YP_329849.1 identified by match to protein family HMM PF01545; match to protein family HMM TIGR01297 YP_329850.1 identified by match to protein family HMM PF03788 YP_329851.1 identified by match to protein family HMM PF04172 YP_329852.1 identified by similarity to GB:AAK34138.1 YP_329853.1 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_329854.1 identified by similarity to GB:AAK33828.1 YP_329855.1 catalyzes the transamination of the branched-chain amino acids to their respective alpha-keto acids YP_329856.1 decatenates newly replicated chromosomal DNA and relaxes positive and negative DNA supercoiling YP_329857.1 decatenates newly replicated chromosomal DNA and relaxes positive and negative DNA supercoiling YP_329858.1 involved in acylation of glycerol-3-phosphate to form 1-acyl-glycerol-3 phosphate for use in phospholipid biosynthesis; functions with PlsX YP_329859.1 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_329860.1 identified by similarity to GB:AAK33816.1 YP_329861.1 identified by similarity to SP:Q53598; match to protein family HMM PF02348 YP_329862.1 identified by similarity to GB:BAA82289.2 YP_329863.1 identified by match to protein family HMM PF02350 YP_329864.1 identified by similarity to GB:BAB21605.1; match to protein family HMM PF01354; match to protein family HMM PF03102 YP_329865.1 identified by match to protein family HMM PF01943 YP_329866.1 identified by match to protein family HMM PF05855 YP_329867.1 identified by similarity to GB:BAA82284.1; match to protein family HMM PF00535 YP_329868.1 identified by similarity to GB:AAL56393.1; match to protein family HMM PF00535 YP_329869.1 identified by similarity to GB:AAL56399.1; match to protein family HMM PF04932 YP_329870.1 identified by similarity to GB:AAK43608.1; match to protein family HMM PF04101 YP_329871.1 identified by similarity to PIR:T44644 YP_329872.1 identified by similarity to SP:Q04664; match to protein family HMM PF02397 YP_329873.1 identified by similarity to SP:Q04663; match to protein family HMM TIGR01007 YP_329874.1 identified by similarity to SP:P59221; match to protein family HMM PF02706 YP_329875.1 identified by similarity to SP:Q54518; match to protein family HMM PF02811 YP_329876.1 identified by similarity to GB:BAA82275.1; match to protein family HMM PF02916; match to protein family HMM PF03816; match to protein family HMM TIGR00350 YP_329877.1 identified by similarity to GB:CAB36977.1; match to protein family HMM PF00126 YP_329878.1 catalyzes the reversible phosphorolysis of ribonucleosides and 2'- deoxyribonucleosides to the free base and (2'-deoxy)ribose-1- phosphate YP_329879.1 identified by match to protein family HMM PF00654 YP_329880.1 catalyzes the formation of a purine and ribose phosphate from a purine nucleoside; in E. coli this enzyme functions in xanthosine degradation YP_329881.1 identified by similarity to SP:P37311; match to protein family HMM PF03960; match to protein family HMM TIGR00014 YP_329882.1 catalyzes the transfer of phosphate between the C1 and C5 carbons of pentose YP_329883.1 Catalyzes D-ribose 5-phosphate --> D-ribulose 5-phosphate in the nonoxidative branch of the pentose phosphate pathway YP_329884.1 identified by similarity to PIR:F97939 YP_329885.1 identified by similarity to GB:AAF62859.1 YP_329886.1 identified by match to protein family HMM PF00753; match to protein family HMM PF07521 YP_329887.1 identified by match to protein family HMM PF00005 YP_329888.1 identified by match to protein family HMM PF02653 YP_329889.1 identified by similarity to GB:CAD64823.1; match to protein family HMM PF04392 YP_329890.1 identified by similarity to GB:AAL85276.1; match to protein family HMM PF05670; match to protein family HMM PF05833 YP_329891.1 identified by match to protein family HMM PF03306; match to protein family HMM TIGR01252 YP_329892.1 catalyzes the formation of 2-acetolactate from pyruvate in stationary phase YP_329893.1 identified by similarity to GB:AAK33910.1; match to protein family HMM PF00515; match to protein family HMM PF07719 YP_329894.1 identified by match to protein family HMM PF01594 YP_329895.1 identified by match to protein family HMM PF00293 YP_329896.1 identified by similarity to SP:P41354; match to protein family HMM PF00293 YP_329897.1 identified by similarity to GB:CAA75865.1; match to protein family HMM PF02278; match to protein family HMM PF02884; match to protein family HMM PF08124 YP_329898.1 identified by match to protein family HMM PF01370; match to protein family HMM PF07993; match to protein family HMM TIGR01181 YP_329899.1 identified by similarity to PDB:1NXM; match to protein family HMM PF00908 YP_329900.1 identified by match to protein family HMM PF00483; match to protein family HMM TIGR01207 YP_329901.1 identified by match to protein family HMM PF01266 YP_329902.1 identified by match to protein family HMM PF01784; match to protein family HMM TIGR00486 YP_329903.1 identified by similarity to GB:AAO81171.1; match to protein family HMM PF04816 YP_329904.1 identified by match to protein family HMM PF04271; match to protein family HMM TIGR01446 YP_329905.1 catalyzes a salvage reaction resulting in the formation of AMP which is metabolically less costly than a de novo synthesis YP_329906.1 identified by match to protein family HMM PF07538 YP_329907.1 identified by match to protein family HMM PF01368; match to protein family HMM PF02272; match to protein family HMM TIGR00644 YP_329908.1 identified by match to protein family HMM PF00106 YP_329909.1 member of metallo-beta-lactamase; the purified enzyme from Escherichia coli forms dimeric zinc phosphodiesterase; in Bacillus subtilis this protein is a 3'-tRNA processing endoribonuclease and is essential while in Escherichia coli it is not; associates with two zinc ions YP_329910.1 identified by similarity to GB:AAN59131.1 YP_329911.1 identified by match to protein family HMM TIGR00231 YP_329912.1 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_329915.1 identified by similarity to GB:AAG33958.1; match to protein family HMM PF00128; match to protein family HMM PF00746; match to protein family HMM PF02922; match to protein family HMM PF03714; match to protein family HMM PF04650; match to protein family HMM TIGR01167; match to protein family HMM TIGR01168; match to protein family HMM TIGR02102 YP_329917.1 identified by match to protein family HMM PF03167 YP_329918.1 divalent metal ion-dependent extracellular dipeptidase; able to hydrolyze a broad range of dipeptides but no tri-, tetra-, or larger oligopeptides; differences in the amino acid specificity of the cleavage site varies between species; similar to succinyl-diaminopimelate desuccinylases YP_329919.1 identified by match to protein family HMM PF00881 YP_329920.1 identified by match to protein family HMM PF03009 YP_329921.1 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_329922.1 identified by similarity to GB:BAC63267.1; match to protein family HMM PF02677 YP_329923.1 identified by match to protein family HMM PF01554; match to protein family HMM TIGR00797 YP_329924.1 identified by match to protein family HMM PF00903 YP_329925.1 identified by similarity to PIR:B96915 YP_329926.1 identified by similarity to GB:AAC03455.1; match to protein family HMM PF07553 YP_329927.1 identified by match to protein family HMM PF01527 YP_329928.1 identified by similarity to GB:AAL12834.1; match to protein family HMM PF00665 YP_329929.1 identified by similarity to GB:CAD46961.1 YP_329930.1 identified by similarity to GB:AAK06759.1; match to protein family HMM PF04270; match to protein family HMM TIGR01363 YP_329931.1 identified by similarity to GB:AAD13796.1; match to protein family HMM PF01297 YP_329932.1 identified by match to protein family HMM PF00082; match to protein family HMM PF02225; match to protein family HMM PF06280 YP_329933.1 identified by similarity to GB:CAC42045.1 YP_329934.1 identified by match to protein family HMM PF01527 YP_329935.1 identified by similarity to GB:AAL12831.1; match to protein family HMM PF00665 YP_329936.1 identified by match to protein family HMM PF00929; match to protein family HMM PF07453; match to protein family HMM TIGR00573 YP_329938.1 identified by match to protein family HMM PF00589 YP_329939.1 identified by match to protein family HMM PF01719 YP_329941.1 identified by similarity to GB:BAC64913.1 YP_329943.1 An isoschizomer of SagNORF1324P found in Streptococcus agalactiae NEM316.; identified by similarity to GB:CAD46983.1 YP_329944.1 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_329945.1 binds the two ribosomal protein L7/L12 dimers and anchors them to the large ribosomal subunit YP_329946.1 identified by similarity to SP:Q06716; match to protein family HMM PF00004; match to protein family HMM PF02151; match to protein family HMM PF07724 YP_329947.1 converts homocysteine and S-adenosyl-methionine to methionine and S-adenosyl-homocysteine or S-methyl-methionine and homocysteine to two methionines YP_329948.1 identified by similarity to SP:P39137; match to protein family HMM PF00324 YP_329949.1 identified by similarity to GB:BAC12591.1 YP_329951.1 identified by match to protein family HMM PF00440 YP_329952.1 binds guanine nucleotides; in Escherichia coli depletion results in defective cell division and filamentation; in Bacillus subtilis this gene is essential YP_329953.1 binds and unfolds substrates as part of the ClpXP protease YP_329955.1 identified by similarity to SP:Q54801; match to protein family HMM PF00186 YP_329956.1 ThyA; catalyzes formation of dTMP and 7,8-dihydrofolate from 5,10-methylenetetrahydrofolate and dUMP; involved in deoxyribonucleotide biosynthesis; there are 2 copies in some Bacilli, one of which appears to be phage-derived YP_329957.1 identified by similarity to GB:AAG02453.1; match to protein family HMM PF01154; match to protein family HMM TIGR01835 YP_329958.1 identified by match to protein family HMM PF00368; match to protein family HMM TIGR00532 YP_329959.1 identified by similarity to GB:AAK34031.1 YP_329960.1 identified by similarity to SP:P54176; match to protein family HMM PF03006; match to protein family HMM TIGR01065 YP_329961.1 identified by similarity to GB:AAL97739.1; match to protein family HMM PF00781; match to protein family HMM TIGR00147 YP_329962.1 identified by similarity to GB:BAC91315.1 YP_329963.1 identified by similarity to GB:AAN58515.1 YP_329964.1 catalyzes the isomerization of isopentenyl pyrophosphate to dimethylallyl diphosphate YP_329965.1 identified by similarity to GB:AAG02457.1; match to protein family HMM PF00288; match to protein family HMM TIGR01220 YP_329966.1 identified by similarity to GB:AAG02456.1; match to protein family HMM PF00288; match to protein family HMM TIGR01240 YP_329967.1 identified by match to protein family HMM PF00288; match to protein family HMM TIGR00549 YP_329968.1 identified by match to protein family HMM PF00512; match to protein family HMM PF02518 YP_329969.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00486 YP_329970.1 identified by match to protein family HMM PF04607 YP_329971.1 identified by match to protein family HMM PF00005; match to protein family HMM PF00664 YP_329972.1 identified by match to protein family HMM PF00005; match to protein family HMM PF00664 YP_329973.1 identified by match to protein family HMM PF01047 YP_329974.1 identified by match to protein family HMM PF00149; match to protein family HMM PF02872; match to protein family HMM TIGR01167 YP_329975.1 cleaves off formyl group from N-terminal methionine residues of newly synthesized proteins; binds iron(2+) YP_329976.1 converts 2-oxoglutarate to glutamate; in Escherichia coli this enzyme plays a role in glutamate synthesis when the cell is under energy restriction; uses NADPH; forms a homohexamer YP_329978.1 identified by match to protein family HMM PF00005; match to protein family HMM PF00664 YP_329979.1 identified by match to protein family HMM PF00005; match to protein family HMM PF00664 YP_329980.1 identified by match to protein family HMM PF00583 YP_329981.1 identified by match to protein family HMM PF00005 YP_329982.1 catalyzes the addition and repair of the 3'-terminal CCA sequence in tRNA; these proteins belong to the CCA-adding enzyme subfamily 2 which does not have phosphohydrolase activity YP_329983.1 identified by similarity to SP:Q8P1E4; match to protein family HMM PF02645; match to protein family HMM TIGR00762 YP_329984.1 identified by similarity to GB:AAK33787.1; match to protein family HMM PF06619 YP_329985.1 identified by similarity to PIR:G95089 YP_329986.1 identified by similarity to PIR:C86750 YP_329987.1 identified by similarity to GB:AAM73727.1; match to protein family HMM PF00359; match to protein family HMM PF02378; match to protein family HMM PF02379; match to protein family HMM TIGR00829; match to protein family HMM TIGR00848; match to protein family HMM TIGR01427 YP_329988.1 identified by similarity to SP:O31714; match to protein family HMM PF00294 YP_329989.1 identified by match to protein family HMM PF00455 YP_329990.1 identified by similarity to PIR:G95071; match to protein family HMM PF02388 YP_329991.1 identified by similarity to GB:CAC83744.1; match to protein family HMM PF04650; match to protein family HMM TIGR01168 YP_329992.1 ketopantoate reductase; catalyzes the NADPH reduction of ketopantoate to pantoate; functions in pantothenate (vitamin B5) biosynthesis YP_329994.1 identified by match to protein family HMM PF00070; match to protein family HMM PF07992 YP_329995.1 methylates guanosine-37 in various tRNAs; uses S-adenosyl-L-methionine to transfer methyl group to tRNA YP_329996.1 Essential for efficient processing of 16S rRNA YP_329997.1 identified by match to protein family HMM PF07003 YP_329998.1 identified by similarity to GB:AAN58581.1 YP_329999.1 binds to lower part of 30S body where it stabilizes two domains; required for efficient assembly of 30S; in Escherichia coli this protein has nuclease activity YP_330000.1 identified by match to protein family HMM PF02687 YP_330001.1 identified by match to protein family HMM PF00005 YP_330002.1 identified by match to protein family HMM TIGR01730 YP_330003.1 identified by match to protein family HMM PF02787 YP_330004.1 catalyzes production of carbamoyl phosphate from bicarbonate and glutamine in pyrimidine and arginine biosynthesis pathways; forms an octamer composed of four CarAB dimers YP_330005.1 regulates pyrimidine biosynthesis by binding to the mRNA of the pyr genes, also has been shown to have uracil phosphoribosyltransferase activity YP_330006.1 identified by match to protein family HMM PF00849; match to protein family HMM PF01479; match to protein family HMM TIGR00005 YP_330007.1 lipoprotein signal peptidase; integral membrane protein that removes signal peptides from prolipoproteins during lipoprotein biosynthesis YP_330008.1 identified by match to protein family HMM PF00126; match to protein family HMM PF03466 YP_330009.1 involved in the peptidyltransferase reaction during translation YP_330010.1 identified by match to protein family HMM PF04327 YP_330011.1 identified by similarity to SP:P26908; match to protein family HMM PF00829; match to protein family HMM TIGR00061 YP_330012.1 identified by similarity to SP:P19579 YP_330013.1 Required for the synthesis of the thiazole moiety YP_330014.1 identified by match to protein family HMM PF00266 YP_330015.1 identified by similarity to GB:AAN58556.1 YP_330016.1 catalyzes the reduction of 2 glutathione to glutathione disulfide; maintains high levels of reduced glutathione in the cytosol; involved in redox regulation and oxidative defense YP_330017.1 identified by match to protein family HMM PF06133 YP_330018.1 catalyzes the formation of chorismate from 5-O-(1-carboxyvinyl)-3-phosphoshikimate in aromatic amino acid biosynthesis YP_330019.1 catalyzes the formation of 3-dehydroquinate from 3-deoxy-arabino-heptulonate 7-phosphate; functions in aromatic amino acid biosynthesis YP_330020.1 catalyzes the dehydration of 3-dehydroquinate to form 3-dehydroshikimate in aromatic amino acid biosynthesis YP_330021.1 identified by similarity to GB:AAO81058.1 YP_330022.1 identified by match to protein family HMM PF00884 YP_330023.1 binds directly to 23S ribosomal RNA prior to in vitro assembly of the 50S ribosomal subunit YP_330024.1 identified by similarity to SP:P55874; match to protein family HMM PF01632; match to protein family HMM TIGR00001 YP_330025.1 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_330026.1 Catalyzes the formation of (d)CDP from ATP and (d)CMP YP_330027.1 identified by similarity to GB:BAC64413.1; match to protein family HMM PF01476 YP_330028.1 identified by similarity to SP:P00212 YP_330029.1 identified by similarity to GB:AAK33737.1 YP_330030.1 catalyzes the release of the N-terminal amino acid from a tripeptide YP_330031.1 identified by match to protein family HMM PF01943 YP_330032.1 involved in cell wall formation; peptidoglycan synthesis; cytoplasmic enzyme; catalyzes the addition of lysine to UDP-N-acetylmuramoyl-L-alanyl-D-glutamate forming UDP-N-acetylmuramoyl-L-alanyl-D-glutamyl-L-lysine YP_330033.1 identified by similarity to SP:P49938; match to protein family HMM PF00005 YP_330034.1 identified by similarity to SP:P37580; match to protein family HMM PF01497 YP_330035.1 identified by similarity to SP:P49936; match to protein family HMM PF01032 YP_330036.1 identified by match to protein family HMM PF01032 YP_330037.1 identified by similarity to GB:AAN59323.1 YP_330038.1 catalyzes the hydrolysis of pyrophosphate to phosphate YP_330039.1 identified by similarity to SP:O68575; match to protein family HMM PF04055; match to protein family HMM TIGR02493 YP_330040.1 identified by match to protein family HMM PF00571; match to protein family HMM PF01595; match to protein family HMM PF03471 YP_330041.1 identified by similarity to GB:BAC14264.1; match to protein family HMM PF06962 YP_330042.1 identified by match to protein family HMM PF04055; match to protein family HMM TIGR01212 YP_330043.1 identified by match to protein family HMM PF01569 YP_330045.1 identified by match to protein family HMM PF04203 YP_330047.1 identified by similarity to GB:AAC13546.1; match to protein family HMM PF04203; match to protein family HMM TIGR01076 YP_330048.1 identified by similarity to GB:AAO49409.1; match to protein family HMM PF00746; match to protein family HMM PF05738; match to protein family HMM TIGR01167; match to protein family HMM TIGR01451 YP_330049.1 identified by match to protein family HMM PF00746; match to protein family HMM PF05738; match to protein family HMM TIGR01167; match to protein family HMM TIGR02543 YP_330051.1 identified by similarity to SP:O07344; match to protein family HMM PF00717; match to protein family HMM TIGR02227 YP_330053.1 identified by match to protein family HMM PF00534 YP_330054.1 identified by match to protein family HMM PF00535 YP_330055.1 identified by match to protein family HMM PF01943 YP_330057.1 identified by match to protein family HMM PF00535 YP_330058.1 identified by match to protein family HMM PF00535 YP_330059.1 identified by similarity to GB:AAN00286.1; match to protein family HMM PF07993 YP_330060.1 identified by match to protein family HMM PF01128 YP_330061.1 identified by similarity to GB:AAD37094.1; match to protein family HMM PF04991 YP_330063.1 identified by similarity to GB:AAO81921.1 YP_330064.1 identified by match to protein family HMM PF00535 YP_330065.1 identified by similarity to PIR:T00087; match to protein family HMM PF00535 YP_330066.1 identified by similarity to PIR:T00086 YP_330067.1 identified by similarity to GB:BAA21509.1; match to protein family HMM PF04321; match to protein family HMM PF07993; match to protein family HMM TIGR01214 YP_330068.1 identified by match to protein family HMM PF01883 YP_330069.1 sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released; primary sigma factor of bacterium YP_330070.1 synthesizes RNA primers at the replication forks YP_330071.1 identified by similarity to SP:O68285; match to protein family HMM PF01741; match to protein family HMM TIGR00220 YP_330072.1 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_330073.1 identified by similarity to GB:AAN58421.1; match to protein family HMM PF03692 YP_330074.1 identified by match to protein family HMM PF00497 YP_330075.1 identified by similarity to SP:Q07429; match to protein family HMM PF00909 YP_330076.1 identified by similarity to GB:AAO03788.1; match to protein family HMM PF07992 YP_330077.1 identified by match to protein family HMM PF00581 YP_330078.1 identified by similarity to GB:AAK33830.1 YP_330079.1 identified by similarity to SP:P08194; match to protein family HMM PF07690 YP_330080.1 identified by match to protein family HMM PF00343; match to protein family HMM TIGR02093 YP_330081.1 amylomaltase; acts to release glucose from maltodextrins YP_330082.1 identified by similarity to SP:Q08511; match to protein family HMM PF00356; match to protein family HMM PF00532 YP_330083.1 identified by match to protein family HMM PF01547 YP_330084.1 identified by similarity to PIR:S63615; match to protein family HMM PF00528 YP_330085.1 identified by similarity to PIR:S63616; match to protein family HMM PF00528 YP_330086.1 identified by match to protein family HMM PF00854; match to protein family HMM PF07690; match to protein family HMM TIGR00924 YP_330087.1 identified by match to protein family HMM PF00293 YP_330088.1 identified by similarity to PIR:G95204 YP_330089.1 identified by match to protein family HMM PF00534 YP_330090.1 functions in protein export; can interact with acidic membrane phospholipids and the SecYEG protein complex; binds to preproteins; binds to ATP and undergoes a conformational change to promote membrane insertion of SecA/bound preprotein; ATP hydrolysis appears to drive release of the preprotein from SecA and deinsertion of SecA from the membrane; additional proteins SecD/F/YajC aid SecA recycling; exists in an equilibrium between monomers and dimers; may possibly form higher order oligomers; in some organisms, especially gram positive pathogens, have paralogs that have been found to be nonessential but do function in secretion of a subset of exported proteins YP_330091.1 identified by similarity to GB:AAK17000.1 YP_330092.1 identified by similarity to GB:AAK16999.1 YP_330093.1 identified by similarity to GB:AAK16998.1 YP_330094.1 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_330096.1 identified by match to protein family HMM PF00535 YP_330097.1 identified by match to protein family HMM PF01501 YP_330098.1 identified by match to protein family HMM PF01501 YP_330099.1 identified by match to protein family HMM PF01501 YP_330100.1 identified by similarity to PIR:B95206 YP_330101.1 identified by match to protein family HMM PF00746; match to protein family HMM TIGR01167 YP_330102.1 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_330103.1 identified by match to protein family HMM PF02517 YP_330104.1 identified by match to protein family HMM PF00497; match to protein family HMM PF00528; match to protein family HMM TIGR01726 YP_330105.1 identified by match to protein family HMM PF00005 YP_330106.1 identified by similarity to GB:AAN58520.1 YP_330107.2 essential GTPase; exhibits high exchange rate for GTP/GDP; associates with 50S ribosomal subunit; involved in regulation of chromosomal replication YP_330108.1 identified by similarity to GB:BAC63943.1 YP_330109.1 identified by similarity to SP:Q9X4A7; match to protein family HMM PF02073 YP_330110.1 identified by match to protein family HMM PF00746; match to protein family HMM TIGR01167 YP_330111.1 identified by match to protein family HMM PF01425; match to protein family HMM TIGR01167 YP_330112.1 identified by match to protein family HMM PF00849; match to protein family HMM PF01479; match to protein family HMM TIGR00093 YP_330113.1 identified by match to protein family HMM PF00248 YP_330114.1 identified by match to protein family HMM PF00881 YP_330115.1 identified by match to protein family HMM PF00903; match to protein family HMM TIGR00068 YP_330116.1 identified by similarity to SP:Q45539; match to protein family HMM PF00535 YP_330117.1 identified by similarity to SP:O06005; similarity to SP:P39312; match to protein family HMM PF00324 YP_330118.1 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_330119.1 identified by match to protein family HMM PF00575; match to protein family HMM PF00773; match to protein family HMM TIGR00358; match to protein family HMM TIGR02063 YP_330120.1 identified by match to protein family HMM PF03840; match to protein family HMM TIGR00810 YP_330121.1 identified by match to protein family HMM PF07690 YP_330123.1 identified by match to protein family HMM PF00005 YP_330124.1 catalyzes the phosphorylation of the 3'-hydroxyl group of dephosphocoenzyme A to form coenzyme A; involved in coenzyme A biosynthesis YP_330125.1 Involved in base excision repair of DNA damaged by oxidation or by mutagenic agents. Acts as DNA glycosylase that recognizes and removes damaged bases YP_330126.1 identified by match to protein family HMM PF01381; match to protein family HMM TIGR01716 YP_330129.1 identified by match to protein family HMM PF02517 YP_330130.1 identified by similarity to GB:BAC64608.1 YP_330131.1 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_330132.1 identified by similarity to SP:Q05888; match to protein family HMM PF01219 YP_330133.1 identified by similarity to SP:Q8DSY7; match to protein family HMM PF02130; match to protein family HMM TIGR00043 YP_330134.1 identified by similarity to SP:P39887; match to protein family HMM PF02409 YP_330135.1 identified by match to protein family HMM PF00293 YP_330136.1 identified by similarity to GB:AAN57949.1 YP_330137.1 identified by match to protein family HMM PF00013; match to protein family HMM PF02562 YP_330138.1 in group A Streptococci this protein was found to cross react with anti myosin antibodies and may play a role in rheumatic fever YP_330139.1 identified by match to protein family HMM PF06855 YP_330140.1 this stereospecific enzymes reduces the S isomer of methionine sulfoxide while MsrB reduces the R form; provides protection against oxidative stress YP_330142.1 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_330143.1 Catalyzes the phosphorylation of UMP to UDP YP_330144.1 identified by similarity to SP:P33594; match to protein family HMM PF00005 YP_330145.1 identified by match to protein family HMM PF00005 YP_330146.1 identified by similarity to SP:P33592; match to protein family HMM PF00528 YP_330147.1 identified by similarity to SP:P33591; match to protein family HMM PF00528 YP_330148.1 identified by similarity to SP:P33590; match to protein family HMM PF00496; match to protein family HMM TIGR02294 YP_330149.1 in Escherichia coli and Methanococcus, this protein autoregulates expression; the binding site in the mRNA mimics the binding site in the 23S rRNA YP_330150.1 binds directly to 23S ribosomal RNA YP_330151.1 identified by similarity to GB:AAN00658.1; match to protein family HMM PF00665 YP_330152.1 identified by match to protein family HMM PF07690 YP_330153.1 identified by similarity to GB:AAF36227.1; match to protein family HMM PF01546; match to protein family HMM PF07687; match to protein family HMM TIGR01891 YP_330154.1 identified by match to protein family HMM PF00126; match to protein family HMM PF03466 YP_330155.1 identified by similarity to GB:AAN00393.1; match to protein family HMM PF02178 YP_330156.1 identified by similarity to GB:AAN00394.1; match to protein family HMM PF00665 YP_330157.1 identified by match to protein family HMM PF00425; match to protein family HMM TIGR00553 YP_330158.1 identified by similarity to SP:P21458; match to protein family HMM PF01580 YP_330159.1 identified by match to protein family HMM PF00160 YP_330160.1 identified by similarity to GB:AAD56938.1; match to protein family HMM PF00950 YP_330161.1 identified by similarity to PIR:F86789; match to protein family HMM PF00005 YP_330162.1 identified by similarity to GB:AAD56936.1; match to protein family HMM PF01297 YP_330163.1 identified by match to protein family HMM PF01325; match to protein family HMM PF02742; match to protein family HMM PF04023 YP_330164.1 enables the cleavage of the glycosidic bond in both 5'-methylthioadenosine and S-adenosylhomocysteine YP_330165.1 identified by similarity to GB:BAC64638.1 YP_330166.1 identified by match to protein family HMM PF00293 YP_330167.1 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_330169.1 identified by match to protein family HMM PF00903 YP_330170.1 identified by match to protein family HMM PF01408 YP_330171.1 Catalyzes the first of the two reduction steps in the elongation cycle of fatty acid synthesis YP_330172.1 identified by similarity to GB:AAO81543.1 YP_330173.1 identified by similarity to PIR:F86878 YP_330174.1 identified by match to protein family HMM PF00583 YP_330175.1 identified by match to protein family HMM PF00535 YP_330176.1 identified by similarity to PIR:F83928 YP_330178.1 identified by similarity to GB:BAC14468.1 YP_330179.1 identified by similarity to GB:BAC14469.1 YP_330180.1 identified by similarity to SP:P94499; match to protein family HMM PF05525; match to protein family HMM TIGR00796 YP_330181.1 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_330182.1 with TehA confers resistance to tellurite YP_330183.1 identified by match to protein family HMM PF06912 YP_330185.1 identified by similarity to GB:AAS09721.1; match to protein family HMM PF06028 YP_330186.1 identified by match to protein family HMM PF03372; match to protein family HMM TIGR00195; match to protein family HMM TIGR00633 YP_330187.1 identified by match to protein family HMM PF03960; match to protein family HMM TIGR01617 YP_330188.1 identified by match to protein family HMM PF01035; match to protein family HMM TIGR00589 YP_330189.1 identified by match to protein family HMM PF00389; match to protein family HMM PF01842; match to protein family HMM PF02826 YP_330190.1 identified by match to protein family HMM PF00583 YP_330191.1 identified by match to protein family HMM PF03932 YP_330192.1 identified by match to protein family HMM PF00590; match to protein family HMM TIGR00096 YP_330193.1 in Bacillus subtilis this protein is involved in the negative regulation of DNA replication initiation; interacts with DnaN and DnaA YP_330194.1 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_330195.1 catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to thymidine monophosphate (dTMP) to form thymidine diphosphate (dTDP) YP_330196.1 identified by similarity to GB:AAN00658.1; match to protein family HMM PF00665 YP_330197.1 identified by match to protein family HMM PF00571; match to protein family HMM PF01842 YP_330198.1 identified by similarity to SP:P22731; match to protein family HMM PF00005 YP_330199.1 identified by similarity to SP:P22730; match to protein family HMM PF00005 YP_330200.1 identified by similarity to SP:P22729; match to protein family HMM PF02653 YP_330201.1 identified by similarity to SP:P08340; match to protein family HMM PF02653 YP_330202.1 identified by similarity to SP:P60420 YP_330203.1 hydrolyzes proteins to small peptides; with the ATPase subunits ClpA or ClpX, ClpP degrades specific substrates YP_330204.1 Catalyzes the formation of uracil and 5-phospho-alpha-D-ribosy 1-diphosphate from UMP and diphosphate YP_330205.1 identified by match to protein family HMM PF00155 YP_330206.1 identified by match to protein family HMM PF00588 YP_330207.1 identified by match to protein family HMM PF00324 YP_330208.1 involved in potassium uptake; found to be peripherally associated with the inner membrane in Escherichia coli; contains an NAD-binding domain YP_330209.1 identified by similarity to SP:P21166; match to protein family HMM PF02386 YP_330210.1 identified by similarity to SP:Q8DSR1; match to protein family HMM PF01809; match to protein family HMM TIGR00278 YP_330211.1 identified by similarity to SP:P35159; match to protein family HMM PF00849; match to protein family HMM PF01479; match to protein family HMM TIGR00093 YP_330212.1 functions during chromosome segregation; may form a condensin-like structure with SMC and ScpA; forms a homodimer YP_330213.1 functions during chromosome segregation; may form a condensin-like structure with SMC and ScpB YP_330214.1 site-specific tyrosine recombinase which cuts and rejoins DNA molecules; binds cooperatively to specific DNA consensus sites; forms a heterotetrameric complex with XerC; XerCD exhibit similar sequences; essential to convert chromosome dimers to monomers during cell division and functions during plasmid segregation; cell division protein FtsK may regulate the XerCD complex; enzyme from Streptococcus group has unusual active site motifs YP_330215.1 identified by match to protein family HMM PF00571 YP_330216.1 identified by match to protein family HMM PF00149; match to protein family HMM TIGR00040 YP_330217.1 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_330218.1 converts L-glutamate to D-glutamate, a component of peptidoglycan YP_330219.1 identified by similarity to SP:Q8DSQ4; match to protein family HMM PF03672 YP_330221.1 identified by match to protein family HMM PF02829 YP_330222.1 identified by similarity to GB:AAL97152.1; match to protein family HMM PF01027 YP_330223.1 identified by similarity to GB:AAN59357.1 YP_330224.1 identified by match to protein family HMM PF00588; match to protein family HMM PF08032 YP_330225.1 catalyzes the hydrolysis of acylphosphate YP_330226.1 involved in biogenesis of membrane proteins; Firmicutes specific proteins are shorter than other bacterial counterparts and have a signal peptide and lipid attachment site YP_330227.1 identified by match to protein family HMM PF00528; match to protein family HMM TIGR01726 YP_330228.1 identified by match to protein family HMM PF00497 YP_330229.1 catalyzes the hydrolysis of a monocarboxylic acid amid to form a monocarboxylate and ammonia YP_330230.1 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_330231.1 identified by similarity to GB:AAK33398.1; match to protein family HMM PF02618; match to protein family HMM TIGR00247 YP_330232.1 identified by match to protein family HMM PF00583 YP_330233.1 Catalyzes the formation of UDP-N-acetylmuramoyl-L-alanine from UDP-N-acetylmuramate and L-alanine in peptidoglycan synthesis YP_330234.1 identified by similarity to GB:BAC64703.1 YP_330236.1 identified by match to protein family HMM PF00176; match to protein family HMM PF00270; match to protein family HMM PF00271; match to protein family HMM PF04434 YP_330237.1 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_330238.1 Primosomal protein that may act to load helicase DnaC during DNA replication YP_330239.1 identified by match to protein family HMM PF07261 YP_330240.1 identified by match to protein family HMM PF03477; match to protein family HMM TIGR00244 YP_330241.1 identified by similarity to GB:AAC64936.1; match to protein family HMM PF00512; match to protein family HMM PF00672; match to protein family HMM PF02518 YP_330242.1 identified by similarity to GB:AAC64935.1; match to protein family HMM PF00072; match to protein family HMM PF00486 YP_330243.1 identified by similarity to GB:BAC64711.1; match to protein family HMM PF02620 YP_330244.1 metalloprotease YP_330245.1 identified by match to protein family HMM PF04011 YP_330246.1 glucose-inhibited division protein B; SAM-dependent methyltransferase; methylates the N7 position of guanosine in position 527 of 16S rRNA YP_330247.1 identified by match to protein family HMM PF02386 YP_330248.1 identified by similarity to GB:BAA31234.1; match to protein family HMM PF02254 YP_330249.1 identified by match to protein family HMM PF02361 YP_330250.1 identified by match to protein family HMM PF00005 YP_330251.1 identified by match to protein family HMM PF07155 YP_330252.1 involved in the import of serine and threonine coupled with the import of sodium YP_330253.1 identified by match to protein family HMM PF00107 YP_330254.1 identified by similarity to SP:P31547; match to protein family HMM PF00528 YP_330255.1 identified by similarity to SP:P30750; match to protein family HMM PF00005 YP_330256.1 identified by match to protein family HMM PF01546; match to protein family HMM PF07687 YP_330257.1 identified by match to protein family HMM PF03180 YP_330258.1 identified by similarity to GB:AAL04076.1; match to protein family HMM PF00497 YP_330259.1 identified by match to protein family HMM PF00117; match to protein family HMM PF07722 YP_330260.1 identified by similarity to SP:Q8DSJ4; match to protein family HMM PF01709; match to protein family HMM TIGR01033 YP_330261.1 similar to DhaK; in Lactococcus lactis this protein froms a stable complex with DhaS and activates transcription of the dha operon in the presence of dihydroxyacetone YP_330262.1 identified by match to protein family HMM TIGR02366 YP_330264.1 with DhaL and DhaM forms dihydroxyacetone kinase, which is responsible for phosphorylating dihydroxyacetone; DhaK is the dihydroxyacetone binding subunit of the dihydroxyacetone kinase YP_330265.1 identified by match to protein family HMM PF02734; match to protein family HMM TIGR02365 YP_330266.1 identified by similarity to GB:AAT05441.1; match to protein family HMM PF03610; match to protein family HMM TIGR02364 YP_330267.1 identified by similarity to SP:P18156; match to protein family HMM PF00230; match to protein family HMM TIGR00861 YP_330268.1 identified by similarity to GB:AAM30233.1; match to protein family HMM PF07883 YP_330269.1 identified by match to protein family HMM PF00376; match to protein family HMM PF07739 YP_330270.1 identified by match to protein family HMM PF05636 YP_330272.1 identified by similarity to GB:AAO82559.1 YP_330273.1 identified by match to protein family HMM PF02410; match to protein family HMM TIGR00090 YP_330274.1 identified by match to protein family HMM PF00857 YP_330275.1 identified by match to protein family HMM PF01966; match to protein family HMM TIGR00488 YP_330276.1 transfers an adenyl group from ATP to NaMN to form nicotinic acid adenine dinucleotide (NaAD) which is then converted to the ubiquitous compound NAD by NAD synthetase; essential enzyme in bacteria YP_330277.1 identified by similarity to GB:AAN59425.1; match to protein family HMM PF01985; match to protein family HMM TIGR00253 YP_330278.1 in Bacillus subtilis this enzyme appears to be involved in 30S ribosomal RNA subunit biogenesis YP_330279.1 identified by match to protein family HMM TIGR01662; match to protein family HMM TIGR01668 YP_330280.1 identified by match to protein family HMM PF00892 YP_330281.1 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_330282.1 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_330283.1 allows the formation of correctly charged Asn-tRNA(Asn) or Gln-tRNA(Gln) through the transamidation of misacylated Asp-tRNA(Asn) or Glu-tRNA(Gln) in organisms which lack either or both of asparaginyl-tRNA or glutaminyl-tRNA synthetases; reaction takes place in the presence of glutamine and ATP through an activated phospho-Asp-tRNA(Asn) or phospho-Glu-tRNA; some Mycoplasma proteins contain an N-terminal fusion to an unknown domain YP_330284.1 catalyzes the formation of phosphoenolpyruvate from pyruvate YP_330285.1 identified by similarity to SP:Q92AE2; match to protein family HMM PF03618 YP_330286.1 identified by match to protein family HMM PF00571 YP_330287.1 converts (S)-3-hydroxybutanoyl-CoA to 3-acetoacetyl-CoA YP_330288.1 identified by match to protein family HMM PF00857 YP_330289.1 CodY; DNA-binding protein that represses the expression of many genes that are induced as cells make the transition from rapid exponential growth to stationary phase (By similarity). It is a GTP-binding protein that senses the intracellular GTP concentration as an indicator of nutritional limitations. At low GTP concentration it no longer binds GTP and stop to act as a transcriptional repressor YP_330290.1 broad specificity; family IV; in Corynebacterium glutamicum this protein can use glutamate, 2-aminobutyrate, and aspartate as amino donors and pyruvate as the acceptor YP_330291.1 identified by match to protein family HMM PF00582 YP_330292.1 identified by match to protein family HMM PF00702; match to protein family HMM TIGR00099; match to protein family HMM TIGR01484 YP_330293.1 identified by match to protein family HMM PF00710 YP_330294.1 identified by similarity to SP:P28244; match to protein family HMM PF01488; match to protein family HMM TIGR00507 YP_330295.1 identified by match to protein family HMM PF00248 YP_330296.1 catalyzes branch migration in Holliday junction intermediates YP_330297.1 identified by similarity to GB:AAB52379.1; match to protein family HMM PF05257 YP_330298.1 converts L-alanine to D-alanine which is used in cell wall biosynthesis; binds one pyridoxal phosphate per monomer; forms a homodimer YP_330299.1 Catalyzes the formation of holo-ACP, which mediates the essential transfer of acyl fatty acid intermediates during the biosynthesis of fatty acids and lipids YP_330300.1 catalyzes the formation of 3-deoxy-D-arabino-hept-2-ulosonate 7 phosphate from phosphoenolpyruvate and D-erythrose 4-phosphate, phenylalanine sensitive YP_330301.1 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_330302.1 identified by similarity to SP:Q59935; match to protein family HMM PF01238; match to protein family HMM TIGR00218 YP_330303.1 identified by similarity to SP:Q07211; match to protein family HMM PF00480 YP_330304.1 identified by similarity to SP:P12655; match to protein family HMM PF00358; match to protein family HMM PF00367; match to protein family HMM PF02378; match to protein family HMM TIGR00826; match to protein family HMM TIGR00830; match to protein family HMM TIGR01996 YP_330305.1 identified by similarity to SP:P13522; match to protein family HMM PF00251; match to protein family HMM TIGR01322 YP_330306.1 identified by similarity to SP:Q54430; match to protein family HMM PF00356; match to protein family HMM PF00532 YP_330307.1 Regulates rRNA biosynthesis by transcriptional antitermination YP_330308.1 identified by similarity to GB:AAO80782.1; match to protein family HMM PF03780 YP_330309.1 Involved in peptide bond synthesis; alters the affinity of the ribosome for aminoacyl-tRNA YP_330310.1 identified by similarity to PIR:D83772 YP_330315.1 identified by match to protein family HMM PF00383 YP_330316.1 identified by similarity to PIR:F86738 YP_330317.1 identified by match to protein family HMM PF07690; match to protein family HMM TIGR00711 YP_330318.1 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_330319.1 identified by similarity to GB:AAK34550.1; match to protein family HMM PF06570 YP_330320.1 identified by match to protein family HMM PF01544 YP_330321.1 binds as a heterodimer with protein S6 to the central domain of the 16S rRNA; helps stabilize the platform of the 30S subunit YP_330322.1 binds to single stranded DNA and may facilitate the binding and interaction of other proteins to DNA YP_330323.1 binds cooperatively with S18 to the S15-16S complex, allowing platform assembly to continue with S11 and S21 YP_330324.1 identified by match to protein family HMM PF00633; match to protein family HMM PF00730; match to protein family HMM TIGR01084 YP_330325.1 identified by match to protein family HMM PF01381 YP_330326.1 identified by match to protein family HMM PF00085; match to protein family HMM TIGR01068 YP_330327.1 Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.; identified by match to protein family HMM PF00488; match to protein family HMM PF01713; match to protein family HMM TIGR01069 YP_330328.1 identified by match to protein family HMM PF02674 YP_330329.1 identified by similarity to GB:AAK34561.1 YP_330330.1 An endonuclease that specifically degrades the RNA strand of RNA-DNA hybrids YP_330331.1 identified by similarity to SP:O07344; match to protein family HMM PF00717; match to protein family HMM TIGR02227 YP_330332.1 identified by match to protein family HMM TIGR01448 YP_330333.1 identified by similarity to GB:BAC63368.1 YP_330334.1 involved in translesion DNA polymerization with beta clamp of polymerase III; belongs to Y family of polymerases; does not contain proofreading function YP_330335.1 identified by match to protein family HMM PF01228; match to protein family HMM PF02901; match to protein family HMM TIGR01255 YP_330336.1 identified by similarity to SP:Q46604; match to protein family HMM PF01243 YP_330337.1 identified by match to protein family HMM PF00144 YP_330338.1 identified by similarity to GB:AAN58153.1 YP_330340.1 identified by similarity to SP:P22094; match to protein family HMM PF00230 YP_330341.1 identified by match to protein family HMM PF00582 YP_330342.1 identified by match to protein family HMM PF07690 YP_330343.1 identified by similarity to SP:P22262 YP_330344.1 catalyzes the removal of N-terminal dipeptides when proline is the penultimate residue YP_330346.1 identified by match to protein family HMM PF00348 YP_330347.1 identified by similarity to SP:P94367; match to protein family HMM PF00005; match to protein family HMM PF00664 YP_330348.1 identified by similarity to SP:P94366; match to protein family HMM PF00005; match to protein family HMM PF00664 YP_330349.1 identified by similarity to SP:P94365; match to protein family HMM PF02322; match to protein family HMM TIGR00203 YP_330350.1 identified by similarity to SP:P94364; match to protein family HMM PF01654 YP_330351.1 identified by match to protein family HMM PF00070; match to protein family HMM PF07992 YP_330352.1 catalyzes the formation of dimethylmenaquinone from 1,4-dihydroxy-2-naphthoate and octaprenyl diphosphate YP_330354.1 identified by match to protein family HMM PF02384; match to protein family HMM PF02506; match to protein family HMM TIGR00497 YP_330356.1 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_330357.1 similar to novel fructose-6-phosphate aldolase from Escherichia coli; enzyme from Methanocaldococcus janaschii shows transaldolase activity YP_330358.1 identified by similarity to SP:P32719; match to protein family HMM PF00834 YP_330359.1 identified by match to protein family HMM PF02378; match to protein family HMM TIGR01427 YP_330360.1 identified by match to protein family HMM PF00359; match to protein family HMM TIGR00848 YP_330361.1 identified by match to protein family HMM PF02379; match to protein family HMM TIGR00829 YP_330362.1 identified by match to protein family HMM PF00359; match to protein family HMM PF00874 YP_330363.1 identified by similarity to GB:AAT33441.1; match to protein family HMM PF04229 YP_330364.1 identified by match to protein family HMM PF02567; match to protein family HMM TIGR00654 YP_330365.1 identified by similarity to GB:AAO81687.1; match to protein family HMM PF00583 YP_330367.1 identified by similarity to SP:Q8DVS3; match to protein family HMM PF02575; match to protein family HMM TIGR00103 YP_330368.1 identified by match to protein family HMM PF02353 YP_330369.1 identified by match to protein family HMM PF00376 YP_330370.1 3'-5' exonuclease of DNA polymerase III YP_330371.1 identified by similarity to GB:AAN58149.1; match to protein family HMM PF04394 YP_330372.1 identified by similarity to PIR:C97953; match to protein family HMM PF03486; match to protein family HMM PF07992; match to protein family HMM TIGR00275 YP_330373.1 identified by similarity to PIR:D86729 YP_330374.1 located in the peptidyl transferase center and involved in assembly of 30S ribosome subunit; similar to what is observed with proteins L31 and L33, some proteins in this family contain CXXC motifs that are involved in zinc binding; if two copies are present in a genome, then the duplicated copy appears to have lost the zinc-binding motif and is instead regulated by zinc; the proteins in this group do not appear to have the zinc-binding motif YP_330375.1 identified by similarity to SP:O50584 YP_330376.1 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_330377.1 identified by match to protein family HMM PF00583; match to protein family HMM TIGR01575 YP_330378.1 Classified as a nonpeptidase homolog (98% ID) of the metallopeptidase M22 (O-sialoglycoprotein endopeptidase) family in the MEROPS database. Peptidase activity for the family has been demonstrated for only one member, and is in dispute.; identified by match to protein family HMM PF00814 YP_330379.1 identified by similarity to GB:AAK34589.1; match to protein family HMM PF07288 YP_330380.1 identified by match to protein family HMM PF00753; match to protein family HMM PF07521; match to protein family HMM TIGR00649 YP_330381.1 identified by match to protein family HMM PF05257 YP_330382.1 identified by match to protein family HMM PF00120; match to protein family HMM PF03951; match to protein family HMM TIGR00653 YP_330383.1 identified by similarity to SP:P37582; match to protein family HMM PF00376 YP_330384.1 identified by similarity to GB:AAK34593.1 YP_330385.1 Converts 3-phospho-D-glycerate to 3-phospho-D-glyceroyl phosphate during the glycolysis pathway YP_330386.1 identified by similarity to GB:CAA73175.1; match to protein family HMM PF03767; match to protein family HMM TIGR01533 YP_330387.1 catalyzes the formation of 3-phospho-D-glyceroyl phosphate from D-glyceraldehyde 3-phosphate YP_330388.1 EF-G; promotes GTP-dependent translocation of the ribosome during translation; many organisms have multiple copies of this gene YP_330389.1 binds directly to 16S rRNA where it nucleates assembly of the head domain of the 30S subunit YP_330390.1 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_330391.1 identified by match to protein family HMM PF00156; match to protein family HMM TIGR01743 YP_330392.1 identified by match to protein family HMM PF01336; match to protein family HMM PF01966 YP_330393.1 identified by match to protein family HMM PF00672; match to protein family HMM PF02646 YP_330394.1 identified by match to protein family HMM PF04263; match to protein family HMM PF04265; match to protein family HMM TIGR01378 YP_330395.1 catalyzes the interconversion of D-ribulose 5-phosphate to xylulose 5-phosphate YP_330396.2 EngC; RsgA; CpgA; circularly permuted GTPase; ribosome small subunit-dependent GTPase A; has the pattern G4-G1-G3 as opposed to other GTPases; interacts strongly with 30S ribosome which stimulates GTPase activity YP_330398.1 catalyzes the transfer of a total of four methyl groups from S-adenosyl-l-methionine (S-AdoMet) to two adjacent adenosine bases A1518 and A1519 in 16S rRNA; mutations in ksgA causes resistance to the translation initiation inhibitor kasugamycin YP_330399.1 identified by match to protein family HMM PF01230 YP_330400.1 identified by match to protein family HMM PF01751; match to protein family HMM TIGR00334 YP_330401.1 identified by match to protein family HMM PF01026; match to protein family HMM TIGR00010 YP_330403.1 identified by similarity to PIR:AH1798 YP_330404.1 identified by similarity to PIR:AC1425 YP_330405.1 identified by similarity to PIR:AD1425; match to protein family HMM PF07006 YP_330406.1 identified by similarity to SP:P39578; match to protein family HMM PF04914; match to protein family HMM PF04915; match to protein family HMM PF04918 YP_330407.1 D-alanyl carrier protein subunit; involved in the incorporation of D-alanine into membrane-associated D-alanyl-lipoteichoic acid; D-alanyl carrier protein is the acceptor of activated D-alanine which it donates to a membrane acceptor(D-alanyl transferase) for incorporation into membrane lipoteichoic acid YP_330408.1 identified by similarity to SP:P39580; match to protein family HMM PF03062 YP_330409.1 transfers D-alanine to the D-alanyl carrier protein during the incorporation of D-alanine into lipoteichoic acid YP_330410.1 identified by similarity to SP:Q8E3C7; match to protein family HMM PF00512; match to protein family HMM PF02518 YP_330411.1 identified by similarity to SP:Q8DXQ7; match to protein family HMM PF00072; match to protein family HMM PF00486 YP_330412.1 in Escherichia coli transcription of this gene is enhanced by polyamines YP_330413.1 identified by match to protein family HMM PF07670 YP_330414.1 identified by similarity to GB:AAK05549.1; match to protein family HMM PF00528; match to protein family HMM PF04069 YP_330415.1 identified by similarity to SP:P46920; match to protein family HMM PF00005; match to protein family HMM PF00571; match to protein family HMM TIGR01186 YP_330416.1 identified by similarity to SP:Q937F6; match to protein family HMM PF03894 YP_330417.1 identified by similarity to GB:AAP96600.1 YP_330418.1 identified by match to protein family HMM PF00874 YP_330419.1 identified by similarity to GB:CAD65645.1 YP_330420.1 identified by match to protein family HMM PF00370; match to protein family HMM PF02782 YP_330421.1 identified by match to protein family HMM PF04909 YP_330422.1 identified by match to protein family HMM PF03611 YP_330423.1 identified by match to protein family HMM PF00389; match to protein family HMM PF02826 YP_330425.1 identified by match to protein family HMM PF00356; match to protein family HMM PF00532 YP_330426.1 similar to novel fructose-6-phosphate aldolase from Escherichia coli; enzyme from Methanocaldococcus janaschii shows transaldolase activity YP_330427.1 catalyzes the formation of D-xylulose 5-phosphate from L-ribulose 5-phosphate in the L-arabinose and L-ascorbate degradation pathways YP_330428.1 L-xylulose 5-phosphate 3-epimerase activity not yet demonstrated; may be involved in the utilization of 2,3-diketo-L-gulonate YP_330429.1 catalyzes the formation of L-xylulose-5-phosphate from 3-keto-L-gulonate-6-phosphate in anaerobic L-ascorbate utilization YP_330430.1 identified by match to protein family HMM PF00359 YP_330431.1 identified by match to protein family HMM PF02302 YP_330432.1 membrane component; functions with enzymes IIB (sgaB; ulaB) and IIA (sgaA; ulaC) enzyme I and HPr for anaerobic utilization and uptake of L-ascorbate; sgaTBA are regulated by yifQ as well as Crp and Fnr YP_330435.1 catalyzes the formation of N6-(1,2,-dicarboxyethyl)-AMP from L-aspartate, inosine monophosphate and GTP in AMP biosynthesis YP_330437.1 identified by similarity to GB:AAS96679.1 YP_330438.1 Synthesizes glutathione from L-glutamate and L-cysteine via gamma-L-glutamyl-L-cysteine YP_330439.1 identified by similarity to GB:BAC63221.1 YP_330440.1 identified by similarity to GB:AAB93480.1 YP_330441.1 becomes active under oxidative stress; four conserved cysteines bind a zinc atom when they are in the reduced state and the enzyme is inactive; oxidative stress results in oxidized cysteines, release of zinc, and binding of Hsp33 to aggregation-prone proteins; forms dimers and higher order oligomers YP_330442.1 identified by match to protein family HMM PF01207; match to protein family HMM TIGR00737 YP_330443.1 identified by match to protein family HMM PF01712 YP_330444.1 identified by similarity to SP:Q57146; match to protein family HMM PF00583 YP_330445.1 identified by similarity to GB:AAD01783.1; match to protein family HMM PF00004; match to protein family HMM PF02861; match to protein family HMM PF07724 YP_330446.1 identified by similarity to SP:P37568; match to protein family HMM PF05848 YP_330447.1 identified by similarity to GB:AAS80534.1; match to protein family HMM PF06695 YP_330448.1 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_330449.1 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_330450.1 identified by similarity to SP:P19479; match to protein family HMM PF00578 YP_330451.1 identified by similarity to SP:P26829; match to protein family HMM PF00070; match to protein family HMM PF07992 YP_330454.1 identified by match to protein family HMM PF02016 YP_330455.1 identified by similarity to GB:AAD40473.1; match to protein family HMM PF01431; match to protein family HMM PF05649 YP_330456.1 identified by match to protein family HMM PF01408; match to protein family HMM PF02894 YP_330457.1 identified by match to protein family HMM PF00027 YP_330458.1 cleaves off formyl group from N-terminal methionine residues of newly synthesized proteins; binds iron(2+) YP_330459.1 identified by match to protein family HMM PF00532 YP_330460.1 identified by similarity to GB:AAL97364.1 YP_330462.1 identified by match to protein family HMM PF00881 YP_330463.1 identified by match to protein family HMM PF01047 YP_330464.1 catalyzes DNA-template-directed extension of the 3'- end of a DNA strand by one nucleotide at a time; required for leading strand synthesis; PolC exhibits 3' to 5' exonuclease activity YP_330465.1 identified by match to protein family HMM PF01832 YP_330466.2 catalyzes the formation of prolyl-tRNA(Pro) from proline and tRNA(Pro) YP_330467.1 identified by match to protein family HMM PF00595; match to protein family HMM PF02163; match to protein family HMM TIGR00054 YP_330468.1 identified by match to protein family HMM PF01148 YP_330469.1 catalyzes the formation of undecaprenyl pyrophosphate from isopentenyl pyrophosphate YP_330470.1 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_330472.1 The translational stop site for this transposase gene is located outside the IS element.; identified by match to protein family HMM PF01609 YP_330473.1 identified by similarity to GB:AAB07709.1; match to protein family HMM PF00390; match to protein family HMM PF03949 YP_330474.1 identified by match to protein family HMM PF03390; match to protein family HMM TIGR00783 YP_330476.1 identified by match to protein family HMM PF00072 YP_330477.1 identified by match to protein family HMM PF01370; match to protein family HMM PF07993; match to protein family HMM TIGR01179 YP_330478.1 identified by similarity to SP:Q99040; match to protein family HMM PF00128 YP_330479.1 identified by similarity to SP:Q00752; match to protein family HMM PF00005; match to protein family HMM PF03459 YP_330480.1 identified by match to protein family HMM TIGR01199 YP_330481.1 identified by match to protein family HMM PF01263 YP_330482.1 catalyzes the reversible reaction of dihydroxyacetone phosphate with glyceraldehyde 3-phosphate to produce tagatose 1,6-bisphosphate; in Streptococcus pyogenes there are two paralogs of tagatose-bisphosphate aldolase, encoded by lacD1 and lacD2; expression of lacD1 is highly regulated by environmental conditions while lacD2 specializes in an efficient utilization of carbohydrate sources YP_330483.1 catalyzes the formation of tagatose 1,6-bisphosphate from tagatose 6-phosphate and ATP YP_330484.1 catalyzes the interconversion of galactose 6-phosphate to tagatose 6-phosphate YP_330485.1 catalyzes the interconversion of galactose 6-phosphate to tagatose 6-phosphate; tagatose pathway for galactose utilization YP_330486.1 identified by similarity to SP:Q59959; match to protein family HMM PF02012 YP_330488.1 identified by match to protein family HMM PF03611 YP_330491.1 identified by match to protein family HMM PF00392; match to protein family HMM PF00455 YP_330492.1 identified by similarity to GB:AAK06759.1; match to protein family HMM PF04270; match to protein family HMM TIGR01363 YP_330493.1 identified by similarity to GB:AAD13796.1; match to protein family HMM PF01297 YP_330494.1 hydrolyzes D-tyrosyl-tRNA(Tyr) into D-tyrosine and free tRNA(Tyr); possible defense mechanism against a harmful effect of D-tyrosine YP_330495.1 identified by similarity to SP:O54408; match to protein family HMM PF01842; match to protein family HMM PF01966; match to protein family HMM PF02824; match to protein family HMM PF04607; match to protein family HMM TIGR00691 YP_330496.1 in Escherichia coli this is a periplasmic enzyme while in gram positive organisms it may be anchored at the cell surface; functions during ribonucleic acid degradation; 2',3'-cyclic nucleotides are first converted to 3'-nucleotide and then cleaved to yield a ribonucleotide and a phosphate YP_330497.1 has a stimulatory effect on the ribonucleotide reductase activity of NrdH with NrdEF YP_330498.1 identified by similarity to SP:Q48677; match to protein family HMM PF05343 YP_330499.1 identified by similarity to GB:AAT32083.1 YP_330500.1 identified by match to protein family HMM PF01547 YP_330501.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00165 YP_330502.1 identified by match to protein family HMM PF00672; match to protein family HMM PF02518; match to protein family HMM PF06580 YP_330503.1 identified by similarity to SP:P08188; match to protein family HMM PF03613 YP_330504.1 identified by match to protein family HMM PF03609 YP_330505.1 identified by match to protein family HMM PF03830 YP_330506.1 identified by match to protein family HMM PF03610 YP_330510.1 identified by similarity to SP:P36497 YP_330511.1 identified by similarity to GB:AAM22582.1 YP_330512.1 identified by similarity to GB:AAM22581.1; match to protein family HMM PF00072 YP_330513.1 identified by similarity to GB:AAM22579.1; match to protein family HMM PF03372 YP_330514.1 identified by similarity to SP:P20166; match to protein family HMM PF00358; match to protein family HMM PF00367; match to protein family HMM PF02378; match to protein family HMM TIGR00826; match to protein family HMM TIGR00830; match to protein family HMM TIGR02003 YP_330515.1 identified by match to protein family HMM PF00512; match to protein family HMM PF00672; match to protein family HMM PF02518 YP_330516.1 identified by similarity to SP:P08402; match to protein family HMM PF00072; match to protein family HMM PF00486; match to protein family HMM PF02756 YP_330517.1 identified by match to protein family HMM PF01895; match to protein family HMM TIGR02135 YP_330518.1 ATP-binding protein; PstABCS is an ATP dependent phosphate uptake system which is responsible for inorganic phosphate uptake during phosphate starvation YP_330519.1 identified by match to protein family HMM PF00528; match to protein family HMM TIGR00974 YP_330520.1 identified by match to protein family HMM PF00528; match to protein family HMM TIGR02138 YP_330521.1 identified by similarity to GB:AAK72111.1 YP_330522.1 identified by similarity to GB:AAT35386.1 YP_330523.1 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_330524.1 methylates ribosomal protein L11 at multiple amino acid positions; mutations of these genes in Escherichia coli or Thermus thermophilus has no apparent phenotype YP_330525.1 identified by similarity to PIR:AG1215 YP_330526.1 identified by match to protein family HMM PF00376; match to protein family HMM PF07739 YP_330527.1 identified by match to protein family HMM PF00583 YP_330528.1 identified by match to protein family HMM PF00293 YP_330529.1 identified by similarity to GB:CAD65197.1 YP_330530.1 identified by similarity to GB:AAN59652.1 YP_330531.1 identified by match to protein family HMM PF00583 YP_330532.1 identified by match to protein family HMM PF00004 YP_330536.1 identified by match to protein family HMM PF00589 YP_330537.1 identified by similarity to GB:AAS08216.1 YP_330538.1 identified by match to protein family HMM PF02486 YP_330541.1 identified by match to protein family HMM PF01381 YP_330542.1 identified by similarity to GB:AAT29751.2 YP_330543.1 identified by match to protein family HMM PF01965 YP_330544.1 identified by similarity to GB:AAT05560.1 YP_330548.1 identified by match to protein family HMM PF06013 YP_330549.1 identified by similarity to GB:AAT05560.1; match to protein family HMM PF07006 YP_330551.1 identified by similarity to PIR:AG1425 YP_330558.1 identified by match to protein family HMM PF00005 YP_330559.1 identified by similarity to SP:P17585 YP_330561.1 identified by similarity to GB:AAT10381.1; match to protein family HMM PF01609 YP_330562.1 identified by similarity to GB:AAT10382.1 YP_330563.1 identified by similarity to GB:AAP07981.1 YP_330564.1 identified by match to protein family HMM PF03551 YP_330565.1 identified by match to protein family HMM PF00583 YP_330567.1 identified by match to protein family HMM PF00005 YP_330568.1 identified by similarity to GB:AAM25340.1 YP_330569.1 identified by match to protein family HMM PF01381 YP_330570.1 identified by match to protein family HMM PF01569 YP_330571.1 identified by match to protein family HMM PF03819 YP_330572.1 identified by match to protein family HMM PF03641; match to protein family HMM TIGR00730 YP_330573.1 identified by match to protein family HMM PF02517 YP_330574.1 identified by match to protein family HMM PF00581 YP_330575.1 identified by similarity to GB:CAA51283.1; match to protein family HMM PF07373 YP_330576.1 identified by similarity to PIR:S70846 YP_330577.1 identified by similarity to SP:P32665; match to protein family HMM PF00465 YP_330578.1 identified by similarity to GB:AAN58984.1; match to protein family HMM PF06210 YP_330579.1 catalyzes the formation of 5,10-methylenetetrahydrofolate from 5-methyltetrahydrofolate and S-adenosyl-L-homocysteine and methionine from S-adenosyl-L-methionine and L-homocysteine; expressed in B. subtilis under methionine starvation conditions YP_330580.1 catalyzes the transfer of a methyl group from 5-methyltetrahydrofolate to homocysteine to form methionine YP_330581.1 identified by match to protein family HMM PF06063 YP_330582.1 identified by match to protein family HMM PF03591 YP_330583.1 identified by similarity to GB:AAN85092.1; match to protein family HMM PF00082; match to protein family HMM PF00746; match to protein family HMM PF02225; match to protein family HMM PF04650; match to protein family HMM PF06280; match to protein family HMM PF07554; match to protein family HMM TIGR01167; match to protein family HMM TIGR01168 YP_330584.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00486 YP_330585.1 identified by match to protein family HMM PF00512; match to protein family HMM PF02518 YP_330587.1 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_330588.1 identified by match to protein family HMM PF00083; match to protein family HMM PF07690 YP_330589.1 identified by match to protein family HMM PF01734 YP_330590.1 Modulates Rho-dependent transcription termination YP_330591.1 identified by similarity to GB:AAT10382.1 YP_330592.1 identified by similarity to GB:AAT10381.1; match to protein family HMM PF01609 YP_330593.1 identified by match to protein family HMM TIGR01168 YP_330594.1 forms a complex with SecY and SecG; SecYEG forms a protein-conducting channel to which secA binds and translocates targeted polypeptides across the cytoplasmic membrane, a process driven by ATP and a proton-motive force YP_330595.1 identified by match to protein family HMM PF00905; match to protein family HMM PF00912; match to protein family HMM TIGR02074 YP_330596.1 identified by match to protein family HMM PF00849; match to protein family HMM TIGR00005 YP_330597.1 identified by similarity to GB:AAK34725.1 YP_330598.1 catalyzes the transfer of phosphate between the C1 and C5 carbons of pentose YP_330599.1 catalyzes the formation of D-glyceraldehyde 3-phosphate and acetaldehyde from 2-deoxy-D-ribose-5-phosphate YP_330600.1 identified by match to protein family HMM PF01773; match to protein family HMM PF07662; match to protein family HMM PF07670 YP_330601.1 identified by similarity to SP:P12758; match to protein family HMM PF01048; match to protein family HMM TIGR01718 YP_330602.1 identified by match to protein family HMM PF00392 YP_330603.1 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_330604.1 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_330605.1 identified by match to protein family HMM PF00005 YP_330606.1 identified by match to protein family HMM PF02653 YP_330607.1 identified by similarity to GB:CAD64823.1; match to protein family HMM PF04392 YP_330608.1 identified by match to protein family HMM PF00702; match to protein family HMM TIGR00099; match to protein family HMM TIGR01484 YP_330609.1 identified by match to protein family HMM PF00903 YP_330610.1 identified by similarity to SP:Q8DRY6; match to protein family HMM PF03883 YP_330611.1 identified by similarity to GB:AAD00216.1; match to protein family HMM PF04055; match to protein family HMM TIGR02491 YP_330612.1 identified by match to protein family HMM PF00583 YP_330613.1 identified by match to protein family HMM PF01408 YP_330614.1 identified by similarity to GB:BAC64886.1 YP_330615.1 Catalyzes the reduction of nucleoside 5'-triphosphates to 2'-deoxynucleoside 5'-triphosphates YP_330617.1 identified by similarity to GB:AAN59672.1 YP_330618.1 identified by similarity to GB:AAK34757.1; match to protein family HMM PF06949 YP_330619.1 similar to RuvC resolvase with substantial differences; NMR structural information suggests this protein is monomeric; unknown cellular function YP_330620.1 identified by match to protein family HMM PF06135 YP_330621.1 the anti-alpha factor Spx interacts with RNA polymerase alpha subunit C-terminal domain in a region that interacts with the sigma 70 subunit and may interfere with activation of promoters; in Bacillus subtilis this protein is a substrate for ClpXP protease; blocks transcription of the competence regulatory gene encoded by the srf operon; regulates a number of genes involved in thiol homeostasis including trxA and trxB; monomeric member of ArsC family of proteins; does not bind DNA; contains a disulfide bond between C10 and C13 which may sense disulfide stress YP_330622.3 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_330623.1 identified by similarity to SP:P46323; match to protein family HMM PF00994; match to protein family HMM PF02464; match to protein family HMM TIGR00199; match to protein family HMM TIGR00200 YP_330624.1 identified by similarity to SP:P05100; match to protein family HMM PF03352 YP_330625.1 plays an essential role in ATP-dependent branch migration of the Holliday junction YP_330626.1 identified by similarity to PIR:S58131; match to protein family HMM PF07690 YP_330627.1 This protein is involved in the repair of mismatches in DNA. It is required for dam-dependent methyl-directed DNA mismatch repair. Promotes the formation of a stable complex between two or more DNA-binding proteins in an ATP-dependent manner without itself being part of a final effector complex YP_330629.1 identified by similarity to GB:CAA76698.1; match to protein family HMM PF00313 YP_330630.1 This protein performs the mismatch recognition step during the DNA repair process YP_330631.1 identified by match to protein family HMM PF01316; match to protein family HMM PF02863; match to protein family HMM TIGR01529 YP_330632.1 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_330634.1 identified by similarity to GB:AAK34790.1; match to protein family HMM PF02588 YP_330635.1 identified by match to protein family HMM PF02588 YP_330636.1 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_330637.1 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_330638.1 some L32 proteins have zinc finger motifs consisting of CXXC while others do not YP_330639.1 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_330640.1 100% identity to IS10R of Salmonella.; identified by match to protein family HMM PF01609 YP_330641.1 identified by similarity to GB:AAB51227.1; match to protein family HMM PF03596; match to protein family HMM TIGR00779 YP_330642.1 identified by similarity to GB:AAB18271.1; match to protein family HMM PF01022 YP_330646.1 identified by match to protein family HMM PF01580 YP_330647.1 identified by similarity to GB:AAK34801.1 YP_330648.1 identified by match to protein family HMM PF01719 YP_330649.1 identified by match to protein family HMM PF00589 YP_330650.1 identified by match to protein family HMM PF03413 YP_330651.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00486 YP_330652.1 identified by match to protein family HMM PF00512; match to protein family HMM PF00672; match to protein family HMM PF02518 YP_330653.1 identified by match to protein family HMM PF03606 YP_330654.1 catalyzes the reversible synthesis of carbamate and ATP from carbamoyl phosphate and ADP YP_330655.1 catalyzes the formation of L-citrulline from carbamoyl phosphate and L-ornithine in arginine biosynthesis and degradation YP_330656.1 identified by match to protein family HMM PF02518 YP_330657.1 identified by match to protein family HMM PF00072 YP_330658.1 identified by similarity to SP:O34992; similarity to SP:Q45460; match to protein family HMM PF00005 YP_330659.1 identified by similarity to SP:O32243; match to protein family HMM PF00528; match to protein family HMM PF04069 YP_330660.1 identified by similarity to GB:AAK15004.1; match to protein family HMM PF04329; match to protein family HMM PF04330; match to protein family HMM PF04331 YP_330661.1 identified by similarity to GB:AAT05192.1 YP_330662.1 identified by similarity to SP:Q02009; match to protein family HMM PF06993 YP_330665.1 identified by similarity to GB:AAK34704.1 YP_330667.1 identified by similarity to PIR:F86690 YP_330669.1 identified by match to protein family HMM TIGR01637 YP_330670.1 identified by similarity to GB:AAK34782.1 YP_330671.1 identified by similarity to GB:AAK34781.1 YP_330672.1 identified by similarity to GB:AAK34780.1 YP_330673.1 identified by match to protein family HMM PF03288; match to protein family HMM TIGR01613 YP_330675.1 identified by similarity to GB:AAK34776.1 YP_330676.1 identified by similarity to GB:AAK34773.1 YP_330678.1 identified by match to protein family HMM PF01402 YP_330679.1 identified by match to protein family HMM PF02498 YP_330680.1 identified by match to protein family HMM PF02498 YP_330681.1 identified by match to protein family HMM PF01381 YP_330684.1 identified by match to protein family HMM PF00589 YP_330685.1 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_330686.1 identified by similarity to GB:AAK34811.1; match to protein family HMM PF06257 YP_330687.1 unwinds double stranded DNA YP_330688.1 in Escherichia coli this protein is wrapped around the base of the L1 stalk YP_330689.1 identified by match to protein family HMM PF01368; match to protein family HMM PF02272 YP_330690.1 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_330691.1 identified by match to protein family HMM PF01914; match to protein family HMM TIGR00427 YP_330692.1 catalyzes a sulfuration reaction to synthesize 2-thiouridine at the U34 position of tRNAs YP_330693.1 identified by match to protein family HMM PF01842; match to protein family HMM PF03315; match to protein family HMM TIGR00719 YP_330694.1 identified by match to protein family HMM PF03313; match to protein family HMM TIGR00718 YP_330695.1 identified by match to protein family HMM PF06737 YP_330696.1 identified by match to protein family HMM PF01476 YP_330697.1 identified by match to protein family HMM PF02361 YP_330698.1 with CbiNQ forms the ABC transporter for cobalt import; Streptococcus has two adjacent copies of this gene YP_330699.1 with CbiNQ forms the ABC transporter for cobalt import; Streptococcus has two adjacent copies of this gene YP_330700.1 identified by similarity to SP:P46322; match to protein family HMM PF01066; match to protein family HMM TIGR00560 YP_330701.1 identified by match to protein family HMM PF00675; match to protein family HMM PF05193 YP_330702.1 identified by match to protein family HMM PF05193 YP_330703.1 identified by similarity to GB:AAM80461.1 YP_330704.1 Required for DNA replication; binds preferentially to single-stranded, linear DNA YP_330705.1 identified by similarity to SP:P40420; similarity to GB:CAA74370.1; match to protein family HMM PF06800 YP_330706.1 identified by match to protein family HMM PF00165; match to protein family HMM PF01381 YP_330707.1 catalyzes the synthesis of xanthosine monophosphate by the NAD+ dependent oxidation of inosine monophosphate YP_330708.1 identified by match to protein family HMM PF01316; match to protein family HMM PF02863 YP_330709.1 identified by match to protein family HMM PF00027; match to protein family HMM PF00325 YP_330710.1 identified by match to protein family HMM PF03483 YP_330711.1 catalyzes the degradation of arginine to citruline and ammonia YP_330712.1 identified by match to protein family HMM PF00583 YP_330713.1 catalyzes the formation of ornithine and carbamylphosphate from citrulline in the arginine catabolic pathway YP_330714.1 identified by similarity to SP:P18275; match to protein family HMM PF00324; match to protein family HMM TIGR00905 YP_330715.1 catalyzes the reversible synthesis of carbamate and ATP from carbamoyl phosphate and ADP YP_330716.1 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_330717.1 identified by match to protein family HMM PF06912 YP_330718.1 identified by similarity to GB:AAL98675.1; match to protein family HMM PF02588 YP_330719.1 identified by similarity to SP:P75790; match to protein family HMM PF00005 YP_330721.1 SPOUT methyltransferase; crystal structure shows homodimer; in Escherichia coli this protein methylates pseudouridine at position 1915 of the 23S ribosomal RNA YP_330722.1 identified by similarity to SP:O34358; similarity to GB:AAF61294.1; match to protein family HMM PF00089; match to protein family HMM PF00595 YP_330723.1 identified by similarity to SP:P26497; match to protein family HMM PF02195; match to protein family HMM TIGR00180