-- dump date 20140619_021731 -- class Genbank::CDS -- table cds_note -- id note YP_001397274.1 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_001397275.1 binds the polymerase to DNA and acts as a sliding clamp YP_001397276.1 negatively supercoils closed circular double-stranded DNA YP_001397277.1 member of the sodium:solute symporter family; cotranscribed with the acs gene which encodes acetyl coenzyme A synthase; mutations affect acetate uptake YP_001397278.1 identified by match to protein family HMM PF04341 YP_001397279.1 identified by match to protein family HMM PF03553; match to protein family HMM PF03600; match to protein family HMM PF06808 YP_001397280.1 identified by match to protein family HMM PF00310; match to protein family HMM PF01493; match to protein family HMM PF01645; match to protein family HMM PF04898 YP_001397281.1 identified by match to protein family HMM PF03235; match to protein family HMM PF07510 YP_001397282.1 glutamate synthase is composed of subunits alpha and beta; beta subunit is a flavin adenine dinucleotide-NADPH dependent oxidoreductase; provides electrons to the alpha subunit, which binds L-glutamine and 2-oxoglutarate and forms L-glutamate YP_001397283.1 RNH2; RNase HII; binds manganese; endonuclease which specifically degrades the RNA of RNA-DNA hybrids YP_001397284.1 identified by match to protein family HMM PF00633; match to protein family HMM TIGR00426 YP_001397285.1 identified by match to protein family HMM PF00301; match to protein family HMM PF02915; match to protein family HMM PF06397; match to protein family HMM TIGR00319 YP_001397286.1 catalyzes the dehydration of 2,3-dihydroxy-3-methylbutanoate to 3-methyl-2-oxobutanoate in valine and isoleucine biosynthesis YP_001397288.1 identified by match to protein family HMM PF02568; match to protein family HMM PF06508; match to protein family HMM TIGR00364 YP_001397289.1 identified by match to protein family HMM PF02600 YP_001397290.1 identified by glimmer; putative YP_001397291.1 identified by match to protein family HMM PF01557 YP_001397292.1 identified by match to protein family HMM PF00849 YP_001397293.1 Catalyzes two discrete reactions in the de novo synthesis of purines: the cleavage of adenylosuccinate and succinylaminoimidazole carboxamide ribotide YP_001397294.1 Catalyzes the rate-limiting step in dNTP synthesis YP_001397295.1 identified by match to protein family HMM PF00375 YP_001397296.1 flavin dependent thymidylate synthase; ThyX; thymidylate synthase complementing protein; catalyzes the formation of dTMP and tetrahydrofolate from dUMP and methylenetetrahydrofolate; the enzyme from Mycobacterium tuberculosis forms homotetramers; uses FAD as a cofactor YP_001397297.1 CTP synthase; cytidine triphosphate synthetase; catalyzes the ATP-dependent amination of UTP to CTP with either L-glutamine or ammonia as the source of nitrogen; in Escherichia coli this enzyme forms a homotetramer YP_001397298.1 identified by match to protein family HMM PF01368; match to protein family HMM PF02272; match to protein family HMM TIGR00644 YP_001397299.1 identified by match to protein family HMM PF00710; match to protein family HMM TIGR00520 YP_001397300.1 identified by match to protein family HMM PF01810 YP_001397301.1 identified by glimmer; putative YP_001397302.1 identified by match to protein family HMM PF01019; match to protein family HMM TIGR00066 YP_001397304.1 identified by match to protein family HMM PF06421 YP_001397305.1 identified by match to protein family HMM PF00939; match to protein family HMM PF03600; match to protein family HMM TIGR00785 YP_001397306.1 First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan YP_001397307.1 identified by match to protein family HMM PF04402 YP_001397309.1 identified by match to protein family HMM PF00034 YP_001397310.1 identified by glimmer; putative YP_001397311.1 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_001397312.1 identified by glimmer; putative YP_001397313.1 identified by glimmer; putative YP_001397314.1 acts as a scaffold for the assembly of hook proteins onto the flagellar basal body rod YP_001397315.1 identified by match to protein family HMM PF00460; match to protein family HMM PF06429; match to protein family HMM PF07559 YP_001397317.1 catalyzes a sulfuration reaction to synthesize 2-thiouridine at the U34 position of tRNAs YP_001397318.1 identified by match to protein family HMM PF03641 YP_001397319.1 identified by glimmer; putative YP_001397320.1 identified by glimmer; putative YP_001397323.1 identified by match to protein family HMM PF03412 YP_001397324.1 One of three proteins involved in switching the direction of the flagellar rotation YP_001397325.1 with FliG and FliN makes up the switch complex which is involved in switching the direction of the flagella rotation YP_001397326.1 sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released; this sigma factor directs late flagellar biosynthesis genes YP_001397328.1 identified by match to protein family HMM PF01656 YP_001397329.1 positive regulator of class III flagellar genes YP_001397330.1 identified by match to protein family HMM PF01288; match to protein family HMM TIGR01498 YP_001397331.1 catalyzes the formation of 3-dehydroshikimate from 3-dehydroquinate in chorismate biosynthesis YP_001397332.1 Catalyzes the hydrolytic cleavage of a carbon-halogen bond in N-ethylammeline YP_001397333.1 identified by match to protein family HMM PF01343; match to protein family HMM TIGR00706 YP_001397334.1 identified by glimmer; putative YP_001397335.1 identified by match to protein family HMM PF02589 YP_001397336.1 identified by match to protein family HMM PF00037; match to protein family HMM PF02589; match to protein family HMM TIGR00273 YP_001397337.1 identified by match to protein family HMM PF02754 YP_001397338.1 identified by match to protein family HMM PF02652; match to protein family HMM TIGR00795 YP_001397340.1 identified by match to protein family HMM PF01654 YP_001397341.1 identified by match to protein family HMM PF02322; match to protein family HMM TIGR00203 YP_001397342.1 identified by match to protein family HMM PF01177; match to protein family HMM TIGR00035 YP_001397343.1 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_001397344.1 catalyzes the formation of fumarate from aspartate YP_001397345.1 functions in anaerobic transport of C4-dicarboxylate compounds such as fumarate; similar to dcuB YP_001397346.1 identified by match to protein family HMM PF03797; match to protein family HMM TIGR01414 YP_001397348.1 identified by match to protein family HMM PF00829; match to protein family HMM TIGR00061 YP_001397349.1 involved in the peptidyltransferase reaction during translation YP_001397350.1 essential GTPase; exhibits high exchange rate for GTP/GDP; associates with 50S ribosomal subunit; involved in regulation of chromosomal replication YP_001397351.1 identified by glimmer; putative YP_001397352.1 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_001397353.1 catalyzes the formation of biotinyl-5'-AMP, also acts as a transcriptional repressor of the biotin operon YP_001397354.1 identified by match to protein family HMM PF01656 YP_001397355.1 identified by match to protein family HMM PF02195; match to protein family HMM TIGR00180 YP_001397356.1 Produces ATP from ADP in the presence of a proton gradient across the membrane. Subunit B' is part of the membrane proton channel. YP_001397357.1 Produces ATP from ADP in the presence of a proton gradient across the membrane. Subunit B is part of the membrane proton channel. YP_001397358.1 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_001397359.1 produces ATP from ADP in the presence of a proton gradient across the membrane; the alpha chain is a catalytic subunit YP_001397360.1 Produces ATP from ADP in the presence of a proton gradient across the membrane. The gamma chain is a regulatory subunit YP_001397361.1 Produces ATP from ADP in the presence of a proton gradient across the membrane. The beta chain is a regulatory subunit YP_001397362.1 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_001397363.1 identified by match to protein family HMM PF01618 YP_001397364.1 identified by match to protein family HMM PF02472; match to protein family HMM TIGR02801 YP_001397366.1 forms dimers; may be involved in cell envelope integrity; interacts with outer membrane proteins and with the C-terminal domain of inner membrane protein TolA YP_001397367.1 identified by match to protein family HMM PF00691; match to protein family HMM TIGR02802 YP_001397371.1 enables the cleavage of the glycosidic bond in both 5'-methylthioadenosine and S-adenosylhomocysteine YP_001397372.1 identified by match to protein family HMM PF01171 YP_001397375.1 identified by match to protein family HMM PF02130; match to protein family HMM TIGR00043 YP_001397377.1 identified by match to protein family HMM PF03797; match to protein family HMM TIGR01414 YP_001397378.1 identified by glimmer; putative YP_001397380.1 identified by glimmer; putative YP_001397381.1 identified by glimmer; putative YP_001397382.1 identified by match to protein family HMM PF01207 YP_001397384.1 identified by match to protein family HMM PF01258 YP_001397385.1 identified by match to protein family HMM PF02590 YP_001397386.1 catalyzes the carboxylation of acetyl-CoA to malonyl-CoA; forms a tetramer of AccA2D2 subunits YP_001397387.1 identified by match to protein family HMM PF00459 YP_001397388.1 identified by match to protein family HMM PF01103; match to protein family HMM PF07244; match to protein family HMM TIGR03303 YP_001397389.1 catalyzes the formation of 4-hydroxyphenylpyruvate from prephenate YP_001397390.1 identified by match to protein family HMM PF01551 YP_001397391.1 zinc-dependent; catalyzes the deacetylation of UDP-(3-O-acyl)-N-acetylglucosamine to UDP-3-O-(3-hydroxytetradecanoyl)-glucosamine in the second step of lipid A biosynthesis YP_001397393.1 catalyzes the formation of O-phospho-L-homoserine from L-homoserine in threonine biosynthesis from asparate YP_001397395.1 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_001397396.1 associates with free 30S ribosomal subunits; essential for efficient processing of 16S rRNA; in Escherichia coli rbfA is induced by cold shock YP_001397397.1 identified by match to protein family HMM PF02576 YP_001397398.1 identified by match to protein family HMM PF07728 YP_001397400.1 identified by match to protein family HMM PF00950; match to protein family HMM PF01032 YP_001397401.1 identified by match to protein family HMM PF00005 YP_001397402.1 identified by match to protein family HMM PF01297 YP_001397403.1 identified by match to protein family HMM PF05787; match to protein family HMM TIGR01409 YP_001397404.1 identified by match to protein family HMM PF00070; match to protein family HMM PF07992; match to protein family HMM TIGR01292 YP_001397405.1 identified by match to protein family HMM PF00085; match to protein family HMM TIGR01068 YP_001397406.1 identified by match to protein family HMM PF02021 YP_001397407.1 catalyzes the formation of L-aspartate 4-semialdehyde from L-homoserine YP_001397408.1 catalyzes the formation of oxalozcetate and L-glutamate from L-aspartate and 2-oxoglutarate YP_001397411.1 identified by match to protein family HMM PF00588; match to protein family HMM PF08032 YP_001397412.1 identified by match to protein family HMM PF00590; match to protein family HMM TIGR00096 YP_001397413.1 RpmE; there appears to be two types of ribosomal proteins L31 in bacterial genomes; some contain a CxxC motif while others do not; Bacillus subtilis has both types; the proteins in this cluster have the CXXC motif; RpmE is found in exponentially growing Bacilli while YtiA was found after exponential growth; expression of ytiA is controlled by a zinc-specific transcriptional repressor; RpmE contains one zinc ion and a CxxC motif is responsible for this binding; forms an RNP particle along with proteins L5, L18, and L25 and 5S rRNA; found crosslinked to L2 and L25 and EF-G; may be near the peptidyltransferase site of the 50S ribosome YP_001397414.1 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_001397417.1 identified by match to protein family HMM TIGR03367 YP_001397418.1 identified by match to protein family HMM PF04055 YP_001397419.1 together with moaC, is involved in the conversion of a guanosine derivative (GXP) into molybdopterin precursor Z YP_001397422.1 UbiA prenyltransferase family catalyzes the transfer of a prenyl group to various acceptors with hydrophobic ring structures in the biosynthesis of respiratory quinones, hemes, chlorophylls, vitamin E, and shikonin YP_001397423.1 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_001397424.1 identified by match to protein family HMM PF02659 YP_001397425.1 identified by match to protein family HMM PF00081; match to protein family HMM PF02777 YP_001397427.1 identified by match to protein family HMM PF03435 YP_001397428.1 identified by match to protein family HMM PF00005 YP_001397429.1 identified by match to protein family HMM PF00528 YP_001397430.1 identified by match to protein family HMM PF01547 YP_001397431.1 in Escherichia coli SbmA is involved in uptake of microcin J25; functions along with FhuA, TonB, and ExbB/D in this capacity; in Sinorhizobium meliloti, BacA is essential and required for symbiosis; defects appear to affect the cell envelope YP_001397432.1 identified by match to protein family HMM PF00571; match to protein family HMM PF01595; match to protein family HMM PF03471 YP_001397433.1 identified by match to protein family HMM PF03831 YP_001397434.1 identified by match to protein family HMM PF03741 YP_001397435.1 identified by match to protein family HMM PF00551; match to protein family HMM TIGR00639 YP_001397436.1 identified by match to protein family HMM PF01256; match to protein family HMM PF03853; match to protein family HMM TIGR00196; match to protein family HMM TIGR00197 YP_001397437.1 identified by match to protein family HMM PF01936 YP_001397438.1 identified by match to protein family HMM PF01078; match to protein family HMM PF07728; match to protein family HMM TIGR00368 YP_001397439.1 cleaves off formyl group from N-terminal methionine residues of newly synthesized proteins; binds iron(2+) YP_001397440.1 hydrolyzes proteins to small peptides; with the ATPase subunits ClpA or ClpX, ClpP degrades specific substrates YP_001397441.1 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_001397442.1 involved in type III protein export during flagellum assembly YP_001397443.1 Catalyzes first step of the de novo purine nucleotide biosynthetic pathway YP_001397444.1 catalyzes the reduction of 2,3-dihydrodipicolinate to 2,3,4,5-tetrahydrodipicolinate in lysine and diaminopimelate biosynthesis YP_001397445.1 identified by match to protein family HMM PF00004 YP_001397446.1 identified by glimmer; putative YP_001397448.1 identified by match to protein family HMM PF03169; match to protein family HMM TIGR00728; match to protein family HMM TIGR00733 YP_001397449.1 identified by match to protein family HMM PF02673; match to protein family HMM TIGR00753 YP_001397450.1 catalyzes the formation of threonyl-tRNA(Thr) from threonine and tRNA(Thr); catalyzes a two-step reaction, first charging a threonine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA YP_001397451.1 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_001397452.1 identified by match to protein family HMM PF02086 YP_001397453.1 catalyzes the reduction of N-acetyl-5-glutamyl phosphate to N-acetyl-L-glutamate 5-semialdehyde in arginine biosynthesis and the reduction of N-acetyl-gamma-aminoadipyl-phosphate to N-acetyl-L-aminoadipate-semialdehyde in lysine biosynthesis; involved in both the arginine and lysine biosynthetic pathways; lysine is produced via the AAA pathway, lysine from alpha-aminoadipate YP_001397454.1 identified by match to protein family HMM PF00583 YP_001397455.1 catalyzes the phosphorylation of N-acetyl-L-glutamate to form N-acetyl-L-glutamate 5-phosphate YP_001397456.1 identified by match to protein family HMM PF00202; match to protein family HMM TIGR00707 YP_001397457.1 catalyzes the methyl esterification of L-isoaspartyl residues that are formed in damaged proteins YP_001397458.1 identified by match to protein family HMM PF00132 YP_001397459.1 catalyzes the formation of 5-phospho-alpha-D-ribose 1-diphosphate and nicotinate from nicotinate D-ribonucleotide and diphosphate YP_001397460.1 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_001397461.1 identified by match to protein family HMM PF06271 YP_001397462.1 involved in fifth step of pyrimidine biosynthesis; converts orotidine 5'-phosphate and diphosphate to orotate and 5-phospho-alpha-D-ribose 1-diphosphate YP_001397463.1 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_001397464.1 identified by match to protein family HMM PF03840; match to protein family HMM TIGR00810 YP_001397465.1 identified by match to protein family HMM PF01027 YP_001397466.1 identified by match to protein family HMM PF00484 YP_001397467.1 identified by match to protein family HMM PF00924 YP_001397468.1 identified by match to protein family HMM PF01106; match to protein family HMM PF01592; match to protein family HMM PF04324 YP_001397469.1 identified by match to protein family HMM PF00266; match to protein family HMM TIGR03403 YP_001397471.1 identified by match to protein family HMM PF01632; match to protein family HMM TIGR00001 YP_001397472.1 binds directly to 23S ribosomal RNA prior to in vitro assembly of the 50S ribosomal subunit YP_001397473.1 identified by match to protein family HMM PF08668 YP_001397474.1 identified by glimmer; putative YP_001397475.1 identified by match to protein family HMM PF00083; match to protein family HMM PF07690 YP_001397476.1 identified by glimmer; putative YP_001397477.1 MoaC; along with MoaA is involved in conversion of a guanosine derivative into molybdopterin precursor Z; involved in molybdenum cofactor biosynthesis YP_001397479.1 identified by glimmer; putative YP_001397480.1 identified by match to protein family HMM PF03372; match to protein family HMM TIGR00195; match to protein family HMM TIGR00633 YP_001397481.1 identified by match to protein family HMM PF01385; match to protein family HMM PF07282; match to protein family HMM TIGR01766 YP_001397482.1 identified by match to protein family HMM PF01053 YP_001397483.1 identified by match to protein family HMM PF01042; match to protein family HMM TIGR00004 YP_001397484.1 identified by match to protein family HMM PF08348 YP_001397485.1 identified by match to protein family HMM PF00023 YP_001397486.1 identified by match to protein family HMM PF00199 YP_001397488.1 identified by glimmer; putative YP_001397489.1 An electron-transfer protein; flavodoxin binds one FMN molecule, which serves as a redox-active prosthetic group YP_001397491.1 identified by match to protein family HMM PF00009; match to protein family HMM TIGR00231; match to protein family HMM TIGR00475 YP_001397492.1 catalyzes the formation of selenocysteinyl-tRNA(Sec) from seryl-tRNA(Sec) and L-selenophosphate in selenoprotein biosynthesis YP_001397493.1 identified by match to protein family HMM PF00037 YP_001397494.1 identified by match to protein family HMM PF07690 YP_001397495.1 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_001397497.1 identified by match to protein family HMM PF05494 YP_001397498.1 identified by match to protein family HMM PF04333 YP_001397499.1 identified by match to protein family HMM PF00156 YP_001397500.1 identified by match to protein family HMM PF00860; match to protein family HMM PF00916 YP_001397501.1 identified by match to protein family HMM PF04055; match to protein family HMM TIGR00423 YP_001397503.1 Catalyzes the first step in hexosamine metabolism, converting fructose-6P into glucosamine-6P using glutamine as a nitrogen source YP_001397504.1 class II family (does not require metal); tetrameric enzyme; fumarase C; reversibly converts (S)-malate to fumarate and water; functions in the TCA cycle YP_001397505.1 identified by match to protein family HMM PF01594 YP_001397506.1 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_001397508.1 identified by match to protein family HMM PF00589 YP_001397511.1 identified by glimmer; putative YP_001397512.1 identified by glimmer; putative YP_001397514.1 identified by glimmer; putative YP_001397516.1 identified by glimmer; putative YP_001397519.1 identified by glimmer; putative YP_001397520.1 identified by glimmer; putative YP_001397522.1 identified by match to protein family HMM PF03374 YP_001397523.1 identified by match to protein family HMM PF08346 YP_001397525.1 identified by glimmer; putative YP_001397529.1 identified by glimmer; putative YP_001397531.1 identified by glimmer; putative YP_001397532.1 identified by match to protein family HMM PF00717 YP_001397533.1 identified by glimmer; putative YP_001397534.1 identified by glimmer; putative YP_001397535.1 identified by glimmer; putative YP_001397538.1 identified by match to protein family HMM PF05866 YP_001397542.1 identified by glimmer; putative YP_001397543.1 identified by glimmer; putative YP_001397544.1 identified by glimmer; putative YP_001397545.1 identified by glimmer; putative YP_001397547.1 identified by glimmer; putative YP_001397549.1 identified by match to protein family HMM PF00083; match to protein family HMM PF07690 YP_001397550.1 catalyzes the reversible transfer of the terminal phosphate of ATP to form a long chain polyphosphate YP_001397551.1 identified by match to protein family HMM PF03264; match to protein family HMM TIGR03153 YP_001397552.1 identified by match to protein family HMM PF02335 YP_001397554.1 identified by match to protein family HMM PF00589 YP_001397555.1 identified by match to protein family HMM PF05840 YP_001397556.1 identified by glimmer; putative YP_001397557.1 identified by match to protein family HMM PF00263 YP_001397558.1 identified by glimmer; putative YP_001397559.1 identified by glimmer; putative YP_001397560.1 identified by glimmer; putative YP_001397561.1 identified by glimmer; putative YP_001397562.1 identified by glimmer; putative YP_001397563.1 identified by glimmer; putative YP_001397564.1 identified by glimmer; putative YP_001397567.1 identified by match to protein family HMM PF05016 YP_001397568.1 identified by glimmer; putative YP_001397570.1 identified by match to protein family HMM PF05670 YP_001397571.1 identified by glimmer; putative YP_001397572.1 identified by match to protein family HMM PF01148 YP_001397573.1 catalyzes the NADP-dependent rearrangement and reduction of 1-deoxy-D-xylulose-5-phosphate (DXP) to 2-C-methyl-D-erythritol 4-phosphate YP_001397575.1 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_001397576.1 identified by match to protein family HMM PF07963; match to protein family HMM TIGR02532 YP_001397577.1 identified by match to protein family HMM PF01973 YP_001397578.1 identified by match to protein family HMM PF01973 YP_001397579.1 FlaA; structural flagella protein; in Helicobacter the flagella are composed of flagellin A and flagellin B; the amounts of each seem to be controlled by environmental conditions YP_001397580.1 identified by match to protein family HMM PF01973 YP_001397581.1 identified by match to protein family HMM PF01973 YP_001397582.1 identified by match to protein family HMM PF01973 YP_001397584.1 identified by match to protein family HMM PF02348 YP_001397585.1 identified by match to protein family HMM PF01408 YP_001397586.1 identified by match to protein family HMM PF00483; match to protein family HMM PF00571 YP_001397587.1 identified by match to protein family HMM PF02350 YP_001397588.1 identified by match to protein family HMM PF00551; match to protein family HMM PF02911 YP_001397589.1 identified by match to protein family HMM PF02350 YP_001397590.1 identified by match to protein family HMM PF03102; match to protein family HMM PF08666 YP_001397592.1 identified by match to protein family HMM PF08241; match to protein family HMM PF08242 YP_001397593.1 identified by match to protein family HMM PF08241; match to protein family HMM PF08242 YP_001397594.1 identified by match to protein family HMM PF01041 YP_001397595.1 identified by match to protein family HMM PF01073; match to protein family HMM PF01370; match to protein family HMM PF02719; match to protein family HMM PF04321; match to protein family HMM PF07993 YP_001397596.1 identified by match to protein family HMM PF03102; match to protein family HMM PF08666 YP_001397598.1 with HisF IGPS catalyzes the conversion of phosphoribulosyl-formimino-5-aminoimidazole-4-carboxamide ribonucleotide phosphate and glutamine to imidazole-glycerol phosphate, 5-aminoimidazol-4-carboxamide ribonucleotide, and glutamate in histidine biosynthesis; the HisH subunit provides the glutamine amidotransferase activity that produces the ammonia necessary to HisF for the synthesis of imidazole-glycerol phosphate and 5-aminoimidazol-4-carboxamide ribonucleotide YP_001397599.1 catalyzes the conversion of 5-[(5-phospho-1-deoxyribulos-1-ylamino)methylideneamino]- 1-(5-phosphoribosyl)imidazole-4-carboxamide and glutamine to imidazole-glycerolphosphate, 5-aminoimidazol-4-carboxamideribonucleotide and glutamate; the HisF subunit acts as a cyclase YP_001397600.1 identified by match to protein family HMM PF00583 YP_001397603.1 identified by glimmer; putative YP_001397604.1 identified by match to protein family HMM PF00483; match to protein family HMM PF02348 YP_001397609.1 identified by match to protein family HMM PF00501 YP_001397612.1 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; paralogs which do not contain the N-X-R ACP-binding site motif YP_001397613.1 identified by match to protein family HMM TIGR01681; match to protein family HMM TIGR01686 YP_001397615.1 identified by match to protein family HMM PF08241; match to protein family HMM PF08242 YP_001397619.1 identified by match to protein family HMM PF01041; match to protein family HMM PF01212 YP_001397620.1 identified by match to protein family HMM PF00106; match to protein family HMM PF01073; match to protein family HMM PF01370; match to protein family HMM PF02719; match to protein family HMM PF04321; match to protein family HMM PF07993 YP_001397621.1 Catalyzes the formation of dUTP from dCTP in thymidylate biosynthesis YP_001397622.1 identified by match to protein family HMM PF00364; match to protein family HMM TIGR00531 YP_001397623.1 biotin carboxylase; biotin carboxylase catalyzes the carboxylation of the carrier protein and then the transcarboxylase transfers the carboxyl group to form malonyl-CoA; catalyzes the formation of malonyl-CoA, which in turn controls the rate of fatty acid metabolism YP_001397624.1 identified by match to protein family HMM PF09312 YP_001397625.1 Charges one glutamine molecule and pairs it to its corresponding RNA trinucleotide during protein translation YP_001397626.1 identified by match to protein family HMM PF00390; match to protein family HMM PF03949 YP_001397627.1 identified by match to protein family HMM PF02621 YP_001397628.1 identified by match to protein family HMM PF02080; match to protein family HMM PF02254 YP_001397629.1 identified by match to protein family HMM PF02386; match to protein family HMM TIGR00933 YP_001397630.1 identified by match to protein family HMM PF00849; match to protein family HMM PF01479; match to protein family HMM TIGR00005 YP_001397631.1 identified by match to protein family HMM PF00041 YP_001397632.1 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_001397633.1 identified by match to protein family HMM PF00005 YP_001397635.1 identified by match to protein family HMM PF01551 YP_001397636.1 Catalyzes the phosphorylation of UMP to UDP YP_001397637.1 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_001397638.1 identified by match to protein family HMM PF01842; match to protein family HMM PF01966; match to protein family HMM PF02824; match to protein family HMM PF04607; match to protein family HMM TIGR00691 YP_001397639.1 catalyzes the formation of tyrosyl-tRNA(Tyr) from tyrosine and tRNA(Tyr) YP_001397640.1 identified by match to protein family HMM PF03060 YP_001397641.1 identified by match to protein family HMM PF01520 YP_001397642.1 catalyzes the formation of 5-methylaminomethyl-2-thiouridine in position 34 of the anticodon of tRNA molecules YP_001397643.1 identified by match to protein family HMM PF01058; match to protein family HMM PF08425; match to protein family HMM TIGR00391; match to protein family HMM TIGR01409 YP_001397644.1 identified by match to protein family HMM PF00374 YP_001397645.1 identified by match to protein family HMM PF01292; match to protein family HMM TIGR02125 YP_001397646.1 identified by match to protein family HMM PF01750; match to protein family HMM TIGR00072 YP_001397647.1 involved in a recombinational process of DNA repair, independent of the recBC complex YP_001397648.1 identified by match to protein family HMM PF00512; match to protein family HMM PF00672; match to protein family HMM PF02518 YP_001397649.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00486 YP_001397650.1 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_001397651.1 identified by match to protein family HMM PF05538 YP_001397652.1 identified by match to protein family HMM PF01451 YP_001397653.1 identified by match to protein family HMM PF07690 YP_001397655.1 identified by match to protein family HMM PF01361; match to protein family HMM TIGR00013 YP_001397656.1 identified by match to protein family HMM PF03167 YP_001397657.1 identified by match to protein family HMM PF00013; match to protein family HMM PF00575; match to protein family HMM PF01138; match to protein family HMM PF03725; match to protein family HMM PF03726 YP_001397658.1 identified by match to protein family HMM PF04453 YP_001397659.1 identified by match to protein family HMM PF06271 YP_001397660.1 catalyzes the formation of N(1)-(5-phospho-D-ribosyl)glycinamide from 5-phospho-D-ribosylamine and glycine in purine biosynthesis YP_001397661.1 identified by glimmer; putative YP_001397662.1 contains glutamine-hydrolyzing domain and glutamine amidotransferase; GMP-binding domain; functions to produce GMP from XMP in the IMP pathway YP_001397663.1 identified by glimmer; putative YP_001397664.1 identified by glimmer; putative YP_001397665.1 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_001397667.1 identified by match to protein family HMM PF04055 YP_001397668.1 catalyzes the formation of coproporphyrinogen from uroporphyrinogen III YP_001397669.1 identified by match to protein family HMM PF07690 YP_001397670.1 catalyzes oxidation of 4-(phosphohydroxy)-L-threonine into 2-amino-3-oxo-4-(phosphohydroxy)butyric acid which decarboxylates to form 1-amino-3-(phosphohydroxy)propan-2-one (3-amino-2-oxopropyl phosphate) YP_001397671.1 involved in the de novo synthesis of pyridoxine (Vitamin B6) YP_001397672.1 identified by match to protein family HMM PF02541 YP_001397673.1 identified by match to protein family HMM PF02636 YP_001397674.1 identified by match to protein family HMM PF01551 YP_001397675.1 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_001397676.1 identified by match to protein family HMM PF00702; match to protein family HMM TIGR01549 YP_001397677.1 identified by glimmer; putative YP_001397678.1 identified by match to protein family HMM PF00999; match to protein family HMM PF02254 YP_001397679.1 identified by match to protein family HMM PF00376 YP_001397680.1 identified by match to protein family HMM PF00226; match to protein family HMM PF01556 YP_001397681.1 identified by match to protein family HMM PF00089; match to protein family HMM PF00595; match to protein family HMM TIGR02037 YP_001397682.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00486 YP_001397683.1 identified by match to protein family HMM PF00512; match to protein family HMM PF00672; match to protein family HMM PF02518 YP_001397684.1 identified by glimmer; putative YP_001397685.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00486 YP_001397687.1 identified by glimmer; putative YP_001397688.1 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_001397689.1 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_001397691.1 catalyzes the formation of riboflavin from 6,7-dimethyl-8-(1-D-ribityl)lumazine YP_001397692.1 identified by match to protein family HMM PF02578 YP_001397694.1 identified by match to protein family HMM PF01551 YP_001397696.1 identified by match to protein family HMM PF01565; match to protein family HMM PF02913 YP_001397697.1 identified by match to protein family HMM PF03631; match to protein family HMM TIGR00765 YP_001397698.1 identified by match to protein family HMM PF09335 YP_001397699.1 protein from Staphylococcus aureus has phosphodiesterase activity against 2'-3'-cAMP and 2'-3'-cGMP YP_001397700.1 identified by match to protein family HMM PF00578; match to protein family HMM PF08534 YP_001397701.1 identified by match to protein family HMM PF00448; match to protein family HMM TIGR00064 YP_001397702.1 identified by glimmer; putative YP_001397703.1 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_001397704.1 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_001397705.1 identified by match to protein family HMM PF02219; match to protein family HMM TIGR00676 YP_001397706.1 catalyzes the transfer of a methyl group from 5-methyltetrahydrofolate to homocysteine to form methionine YP_001397707.1 identified by match to protein family HMM PF03180 YP_001397708.1 identified by match to protein family HMM PF03171 YP_001397709.1 catalyzes the hydrolysis of S-ribosylhomocysteine to homocysteine and autoinducer-2 YP_001397710.1 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_001397711.1 catalyzes the NAD(P)H-dependent reduction of glycerol 3-phosphate to glycerone phosphate YP_001397712.1 Catalyzes the reversible hydrolysis of the amide bond within dihydroorotate. This metabolic intermediate is required for the biosynthesis of pyrimidine nucleotides YP_001397713.1 identified by match to protein family HMM PF01384 YP_001397714.1 identified by match to protein family HMM PF00375 YP_001397715.1 identified by match to protein family HMM PF00015 YP_001397716.1 identified by match to protein family HMM PF08447 YP_001397717.1 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_001397718.1 identified by match to protein family HMM PF00355; match to protein family HMM TIGR01416 YP_001397719.1 identified by match to protein family HMM PF00032; match to protein family HMM PF00033 YP_001397720.1 identified by match to protein family HMM PF00034 YP_001397721.1 identified by match to protein family HMM PF02353; match to protein family HMM PF08241; match to protein family HMM PF08242 YP_001397722.1 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_001397723.1 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_001397724.1 identified by match to protein family HMM PF00005 YP_001397725.1 FliR, with proteins FliP and FliQ, forms the core of the central channel in the flagella export apparatus YP_001397727.1 Essential for recycling GMP and indirectly, cGMP YP_001397728.1 identified by match to protein family HMM PF02416; match to protein family HMM TIGR01411 YP_001397729.1 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_001397730.1 identified by match to protein family HMM PF00893 YP_001397731.1 identified by match to protein family HMM PF00893 YP_001397732.1 identified by match to protein family HMM PF01709; match to protein family HMM TIGR01033 YP_001397733.1 identified by match to protein family HMM PF00160 YP_001397734.1 identified by glimmer; putative YP_001397735.1 identified by match to protein family HMM PF02866 YP_001397737.1 identified by match to protein family HMM PF01545; match to protein family HMM TIGR01297 YP_001397738.1 identified by glimmer; putative YP_001397739.1 identified by match to protein family HMM PF00122; match to protein family HMM PF00403; match to protein family HMM PF00702; match to protein family HMM TIGR01494; match to protein family HMM TIGR01525 YP_001397740.1 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_001397741.1 An RNA-DNA helicase that actively releases nascent mRNAs from paused transcription complexes YP_001397742.1 identified by match to protein family HMM PF00122; match to protein family HMM PF00702; match to protein family HMM TIGR01494; match to protein family HMM TIGR01525 YP_001397743.1 identified by match to protein family HMM PF03597; match to protein family HMM TIGR00847 YP_001397744.1 identified by match to protein family HMM PF00034 YP_001397745.1 identified by match to protein family HMM PF08645; match to protein family HMM TIGR00213; match to protein family HMM TIGR01656; match to protein family HMM TIGR01662 YP_001397746.1 identified by match to protein family HMM PF01073; match to protein family HMM PF01370; match to protein family HMM PF04321; match to protein family HMM PF07993; match to protein family HMM TIGR02197 YP_001397747.1 identified by match to protein family HMM PF00294; match to protein family HMM PF01467; match to protein family HMM TIGR00125; match to protein family HMM TIGR02198; match to protein family HMM TIGR02199 YP_001397748.1 catalyzes the isomerization of sedoheptulose 7-phosphate to D-glycero-D-manno-heptose 7-phosphate YP_001397749.1 identified by match to protein family HMM PF01755 YP_001397750.1 identified by match to protein family HMM PF01075; match to protein family HMM TIGR02195 YP_001397751.1 identified by match to protein family HMM PF00535 YP_001397752.1 identified by match to protein family HMM PF01501 YP_001397753.1 identified by match to protein family HMM PF00535 YP_001397754.1 identified by match to protein family HMM PF00534 YP_001397755.1 identified by match to protein family HMM PF00535 YP_001397756.1 acylates the intermediate (KDO)2-lipid IVA to form (KDO)2-(lauroyl)-lipid IVA; essential for survival; plays a role in cell responses to environmental changes YP_001397757.1 identified by match to protein family HMM PF01075; match to protein family HMM TIGR02193 YP_001397759.1 identified by match to protein family HMM PF01073; match to protein family HMM PF01370; match to protein family HMM PF02719; match to protein family HMM PF04321; match to protein family HMM PF07993; match to protein family HMM TIGR01179 YP_001397760.1 identified by match to protein family HMM PF00005; match to protein family HMM PF00664 YP_001397761.1 identified by match to protein family HMM PF00534 YP_001397762.1 identified by match to protein family HMM PF00535 YP_001397763.1 identified by match to protein family HMM PF00534 YP_001397764.1 identified by match to protein family HMM PF02516 YP_001397765.1 identified by match to protein family HMM PF00534 YP_001397766.1 identified by match to protein family HMM PF02397 YP_001397768.1 identified by match to protein family HMM PF01041 YP_001397770.1 identified by match to protein family HMM PF00072 YP_001397771.1 methylates ribosomal protein L11 at multiple amino acid positions; mutations of these genes in Escherichia coli or Thermus thermophilus has no apparent phenotype YP_001397772.1 identified by match to protein family HMM PF00004; match to protein family HMM PF01434; match to protein family HMM PF06480; match to protein family HMM PF07728; match to protein family HMM TIGR01241 YP_001397773.1 identified by match to protein family HMM PF02666 YP_001397774.1 identified by match to protein family HMM PF01066; match to protein family HMM TIGR00473 YP_001397775.1 identified by match to protein family HMM PF04305 YP_001397776.1 this stereospecific enzymes reduces the R isomer of methionine sulfoxide while MsrA reduces the S form; a fusion protein of this enzyme with MsrA and thioredoxin provides protection against oxidative stress in Neisseria gonorrhoeae YP_001397777.1 identified by match to protein family HMM PF00015; match to protein family HMM PF08447; match to protein family HMM TIGR00229 YP_001397778.1 leucyltransferase; phenylalanyltransferse; functions in the N-end rule pathway; transfers Leu, Phe, Met, from aminoacyl-tRNAs to N-terminal of proteins with Arg or Lys YP_001397779.1 identified by match to protein family HMM PF00004; match to protein family HMM PF02861; match to protein family HMM PF07724; match to protein family HMM PF07728; match to protein family HMM TIGR02639 YP_001397780.1 identified by match to protein family HMM PF02617 YP_001397782.1 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_001397783.1 catalyzes the phosphorylation of 4-diphosphocytidyl-2-C-methyl-D-erythritol in the nonmevalonate pathway of isoprenoid biosynthesis YP_001397784.1 identified by match to protein family HMM PF02599; match to protein family HMM TIGR00202 YP_001397785.1 catalyzes isomerization of specific uridines in RNA to pseudouridine; responsible for residues in T loops of many tRNAs YP_001397786.1 identified by match to protein family HMM PF00580 YP_001397788.1 identified by match to protein family HMM PF01432; match to protein family HMM PF08439; match to protein family HMM TIGR02290 YP_001397789.1 catalyzes the transfer of the carbamoyl moiety from carbamoyl phosphate to L- aspartate in pyrimidine biosynthesis YP_001397790.1 involved in the import of serine and threonine coupled with the import of sodium YP_001397791.1 catalyzes the formation of S-adenosylmethionine from methionine and ATP; methionine adenosyltransferase YP_001397792.1 Transfers the fatty acyl group on membrane lipoproteins YP_001397793.1 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_001397794.1 part of the preprotein secretory system; when complexed with proteins SecF and YajC, SecDFyajC stimulates the proton motive force-driven protein translocation, and appears to be required for the release of mature proteins from the extracytoplasmic side of the membrane YP_001397795.1 forms a complex with SecD and YajC; SecDFyajC stimulates the proton motive force-driven protein translocation; seems to modulate the cycling of SecA by stabilizing its membrane-inserted state and appears to be required for the release of mature proteins from the extracytoplasmic side of the membrane; in some organisms, such as Bacillus subtilis, SecD is fused to SecF YP_001397796.1 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_001397798.1 identified by match to protein family HMM PF08245; match to protein family HMM TIGR01499 YP_001397799.1 identified by match to protein family HMM PF04519 YP_001397800.1 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 TIGR00580 YP_001397801.1 identified by match to protein family HMM PF05673 YP_001397802.1 identified by match to protein family HMM PF00730 YP_001397803.1 identified by match to protein family HMM PF01256; match to protein family HMM PF08543; match to protein family HMM TIGR00097 YP_001397804.1 catalyzes the formation of uroporphyrinogen-III from hydroxymethylbilane; functions in tetrapyrrole and heme biosynthesis YP_001397806.1 identified by glimmer; putative YP_001397808.1 catalyzes the formation of L-proline from pyrroline-5-carboxylate YP_001397809.1 binds to flagellin and appears to stabilize flagellin during flagella assembly YP_001397811.1 identified by match to protein family HMM PF00004; match to protein family HMM PF02190; match to protein family HMM PF05362; match to protein family HMM PF07728; match to protein family HMM TIGR00763 YP_001397812.1 binds as a heterodimer with protein S6 to the central domain of the 16S rRNA; helps stabilize the platform of the 30S subunit YP_001397813.1 binds to single stranded DNA and may facilitate the binding and interaction of other proteins to DNA YP_001397814.1 binds cooperatively with S18 to the S15-16S complex, allowing platform assembly to continue with S11 and S21 YP_001397815.1 identified by match to protein family HMM PF04393 YP_001397816.1 identified by match to protein family HMM PF02163; match to protein family HMM TIGR00054 YP_001397817.1 identified by match to protein family HMM PF01066; match to protein family HMM TIGR00560 YP_001397818.1 identified by match to protein family HMM PF00881 YP_001397819.1 identified by match to protein family HMM PF02464; match to protein family HMM TIGR00199 YP_001397820.1 IleRS; catalyzes the formation of isoleucyl-tRNA(Ile) from isoleucine and tRNA(Ile); since isoleucine and other amino acids such as valine are similar, there are additional editing function in this enzyme; one is involved in hydrolysis of activated valine-AMP and the other is involved in deacylation of mischarged Val-tRNA(Ile); there are two active sites, one for aminoacylation and one for editing; class-I aminoacyl-tRNA synthetase family type 1 subfamily; some organisms carry two different copies of this enzyme YP_001397821.1 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_001397822.1 catalyzes the synthesis of xanthosine monophosphate by the NAD+ dependent oxidation of inosine monophosphate YP_001397825.1 identified by match to protein family HMM PF00795 YP_001397826.1 identified by match to protein family HMM PF01522 YP_001397828.1 identified by match to protein family HMM PF02492; match to protein family HMM PF07683 YP_001397829.1 identified by glimmer; putative YP_001397830.1 identified by match to protein family HMM PF02133 YP_001397831.1 identified by match to protein family HMM PF04199 YP_001397833.1 Catalyzes the formation of UDP-N-acetylmuramoyl-L-alanine from UDP-N-acetylmuramate and L-alanine in peptidoglycan synthesis YP_001397835.1 MutS2; MutS-II; involved in blocking homologous and homeologous recombination; has ATPase activity stimulated by recombination intermediates; inhibits DNA strand exchange YP_001397837.1 identified by match to protein family HMM PF02146 YP_001397838.1 identified by match to protein family HMM PF01810 YP_001397839.1 dapE-encoded N-succinyl-L,L-diaminopimelic acid desuccinylase (DapE), catalyzes the hydrolysis of N-succinyl-L,Ldiaminopimelate L,L-SDAP to L,L-diaminopimelate and succinate. It is a metalloprotease containing dinuclear active sites. Its structure is similar to the carboxypeptidase G2 from Pseudomonas sp. strain RS-16 and the aminopeptidase from Aeromonas proteolytica. YP_001397840.1 identified by match to protein family HMM PF02384 YP_001397843.1 identified by glimmer; putative YP_001397844.1 identified by match to protein family HMM PF00565 YP_001397846.1 identified by glimmer; putative YP_001397849.1 identified by match to protein family HMM PF00908 YP_001397850.1 identified by match to protein family HMM PF01370 YP_001397851.1 identified by match to protein family HMM PF01370 YP_001397852.1 identified by match to protein family HMM PF00908 YP_001397853.1 identified by match to protein family HMM PF01041 YP_001397854.1 identified by match to protein family HMM PF01501 YP_001397857.1 identified by glimmer; putative YP_001397858.1 identified by match to protein family HMM PF00535 YP_001397859.1 identified by match to protein family HMM PF00535 YP_001397860.1 identified by match to protein family HMM PF03275; match to protein family HMM TIGR00031 YP_001397861.1 identified by match to protein family HMM PF00535 YP_001397862.1 identified by match to protein family HMM PF00535 YP_001397863.1 identified by match to protein family HMM PF01205 YP_001397865.1 identified by match to protein family HMM PF02348 YP_001397866.1 identified by glimmer; putative YP_001397867.1 identified by glimmer; putative YP_001397868.1 identified by match to protein family HMM PF00156 YP_001397869.1 identified by glimmer; putative YP_001397870.1 identified by match to protein family HMM PF00682 YP_001397872.1 identified by glimmer; putative YP_001397874.1 identified by match to protein family HMM PF02597; match to protein family HMM TIGR01683 YP_001397875.1 catalyzes the adenylation of ThiS which is involved in the formation of 5-methyl-4-(beta-hydroxyethyl)thiazole phosphate YP_001397876.1 functions in thiamine (vitamin B1) biosynthesis; in Bacillus subtilis this enzyme catalyzes the formation of thiazole from dehydroxyglycine and 1-deoxy-D-xylulose-5-phosphate and ThiS-thiocarboxylate YP_001397877.1 in Escherichia coli this enzyme functions in thiamine biosynthesis along with thiFSGI and iscS; with ThiFSG catalyzes the formation of thiazole phosphate from tyrosine, cysteine and 1-deoxy-D-xylulose-5-phosphate; forms a complex with ThiG; contains an iron-sulfur center YP_001397878.1 identified by match to protein family HMM PF02581 YP_001397879.1 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_001397880.1 identified by match to protein family HMM PF01098; match to protein family HMM TIGR02614 YP_001397881.1 biotin carboxylase; catalyses the carboxylation of the carrier protein which then transfers the carboxyl group to form malonyl-CoA, which in turn controls the rate of fatty acid metabolism YP_001397883.1 Conjugates Arg from its aminoacyl-tRNA to the N-termini of proteins containing an N-terminal aspartate or glutamate YP_001397884.1 Catalyzes two discrete reactions in the de novo synthesis of purines: the cleavage of adenylosuccinate and succinylaminoimidazole carboxamide ribotide YP_001397885.1 identified by match to protein family HMM PF00873 YP_001397887.1 identified by match to protein family HMM PF02321 YP_001397888.1 identified by match to protein family HMM PF00593; match to protein family HMM PF07715 YP_001397889.1 identified by match to protein family HMM PF00005 YP_001397890.1 identified by match to protein family HMM PF01497 YP_001397891.1 binds to the ribosome on the universally-conserved alpha-sarcin loop YP_001397894.1 negatively supercoils closed circular double-stranded DNA YP_001397895.1 identified by match to protein family HMM PF04164 YP_001397896.1 identified by glimmer; putative YP_001397897.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00158; match to protein family HMM PF02954 YP_001397898.1 catalyzes the formation of 4-aspartyl phosphate from aspartate 4-semialdehyde YP_001397899.1 identified by match to protein family HMM PF03350 YP_001397902.1 identified by match to protein family HMM PF01094 YP_001397903.1 identified by match to protein family HMM PF01094 YP_001397904.1 identified by match to protein family HMM PF02653 YP_001397905.1 identified by match to protein family HMM PF02653 YP_001397906.1 identified by match to protein family HMM PF00005 YP_001397907.1 identified by match to protein family HMM PF00005 YP_001397908.1 identified by match to protein family HMM PF01578 YP_001397911.1 Exchanges the guanine residue with 7-aminomethyl-7-deazaguanine in tRNAs with GU(N) anticodons (tRNA-Asp, -Asn, -His and -Tyr) YP_001397912.1 identified by match to protein family HMM PF02080 YP_001397913.1 catalyzes the formation of 3-dehydroquinate from 3-deoxy-arabino-heptulonate 7-phosphate; functions in aromatic amino acid biosynthesis YP_001397914.1 identified by match to protein family HMM PF00924 YP_001397915.1 identified by match to protein family HMM PF00919; match to protein family HMM PF04055; match to protein family HMM TIGR00089; match to protein family HMM TIGR01579 YP_001397916.1 identified by match to protein family HMM PF00004; match to protein family HMM PF01434; match to protein family HMM PF06480; match to protein family HMM PF07728 YP_001397918.1 identified by match to protein family HMM PF01694 YP_001397919.1 identified by match to protein family HMM PF00300 YP_001397920.1 sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released; this is the primary sigma factor of bacteria YP_001397922.1 identified by match to protein family HMM PF02527; match to protein family HMM TIGR00138 YP_001397923.1 catalyzes the conversion of GTP to formate and 2,5-diamino-6-hydroxy-4-(5-phosphoribosylamino)pyrimidine and diphosphate YP_001397924.1 catalyzes the formation of porphobilinogen from 5-aminolevulinate YP_001397925.1 catalyzes the formation of L-citrulline from carbamoyl phosphate and L-ornithine in arginine biosynthesis and degradation YP_001397927.1 catalyzes the oxygen-independent formation of protoporphyrinogen-IX from coproporphyrinogen-III YP_001397928.1 identified by match to protein family HMM PF00037; match to protein family HMM PF02754 YP_001397930.1 identified by match to protein family HMM PF03806 YP_001397931.1 catalyzes the release of the N-terminal amino acid from a tripeptide YP_001397932.1 identified by match to protein family HMM PF01546; match to protein family HMM PF07687; match to protein family HMM TIGR01891 YP_001397933.1 identified by match to protein family HMM PF03883 YP_001397935.1 identified by match to protein family HMM PF00497 YP_001397936.1 identified by glimmer; putative YP_001397938.1 identified by match to protein family HMM PF00565 YP_001397941.1 identified by match to protein family HMM PF08003; match to protein family HMM PF08241; match to protein family HMM PF08242 YP_001397942.1 identified by glimmer; putative YP_001397943.1 identified by match to protein family HMM PF03061; match to protein family HMM TIGR00051 YP_001397946.1 identified by match to protein family HMM PF00583 YP_001397947.1 in Escherichia coli transcription of this gene is enhanced by polyamines YP_001397948.1 identified by match to protein family HMM PF00825; match to protein family HMM TIGR00188 YP_001397949.1 identified by match to protein family HMM PF01809; match to protein family HMM TIGR00278 YP_001397950.1 functions to insert inner membrane proteins into the IM in Escherichia coli; interacts with transmembrane segments; functions in both Sec-dependent and -independent membrane insertion; similar to Oxa1p in mitochondria YP_001397952.1 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_001397953.1 catalyzes the formation of 2-(formamido)-N1-(5-phospho-D-ribosyl)acetamidine from N2-formyl-N1-(5-phospho-D-ribosyl)glycinamide and L-glutamine in purine biosynthesis YP_001397954.1 identified by match to protein family HMM PF00226 YP_001397955.1 involved in de novo purine biosynthesis YP_001397956.1 identified by match to protein family HMM PF05016; match to protein family HMM TIGR02385 YP_001397957.1 identified by glimmer; putative YP_001397958.1 identified by match to protein family HMM PF08668 YP_001397960.1 identified by glimmer; putative YP_001397961.1 identified by glimmer; putative YP_001397963.1 identified by match to protein family HMM TIGR02681 YP_001397964.1 identified by glimmer; putative YP_001397965.1 identified by glimmer; putative YP_001397966.1 identified by match to protein family HMM TIGR02681 YP_001397967.1 identified by glimmer; putative YP_001397968.1 identified by match to protein family HMM PF01381 YP_001397969.1 identified by glimmer; putative YP_001397970.1 identified by glimmer; putative YP_001397971.1 identified by match to protein family HMM PF00436; match to protein family HMM TIGR00621 YP_001397972.1 identified by glimmer; putative YP_001397973.1 identified by glimmer; putative YP_001397974.1 identified by match to protein family HMM PF03837; match to protein family HMM TIGR01913 YP_001397975.1 identified by glimmer; putative YP_001397977.1 identified by glimmer; putative YP_001397978.1 identified by glimmer; putative YP_001397979.1 identified by match to protein family HMM PF00265 YP_001397980.1 identified by glimmer; putative YP_001397982.1 identified by glimmer; putative YP_001397983.1 identified by glimmer; putative YP_001397984.1 identified by glimmer; putative YP_001397985.1 identified by glimmer; putative YP_001397986.1 identified by glimmer; putative YP_001397988.1 identified by glimmer; putative YP_001397990.1 identified by glimmer; putative YP_001397992.1 identified by match to protein family HMM PF05406 YP_001397994.1 identified by glimmer; putative YP_001397995.1 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_001397996.1 identified by match to protein family HMM PF00209 YP_001397997.1 identified by match to protein family HMM PF00209 YP_001397998.1 identified by match to protein family HMM PF00364; match to protein family HMM PF00682 YP_001397999.1 PEP carboxykinase; PEP carboxylase; PEPCK; catalyzes the phosphorylation and decarboxylation of oxaloacetate to form phosphoenolpyruvate using ATP YP_001398000.1 catalyzes the formation of arginine from (N-L-arginino)succinate YP_001398001.1 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_001398002.1 catalyzes the removal of N-terminal amino acids preferably leucine from various peptides YP_001398004.1 catalyzes a salvage reaction resulting in the formation of AMP which is metabolically less costly than a de novo synthesis YP_001398006.1 identified by match to protein family HMM PF02502; match to protein family HMM TIGR00689; match to protein family HMM TIGR01120 YP_001398007.1 identified by match to protein family HMM PF01339 YP_001398008.1 identified by match to protein family HMM PF00005 YP_001398009.1 PEB1 YP_001398010.1 identified by match to protein family HMM PF00528; match to protein family HMM TIGR01726 YP_001398011.1 identified by match to protein family HMM PF00528; match to protein family HMM TIGR01726 YP_001398012.1 catalyzes the formation of 5-phospho-alpha-D-ribose 1-phosphate from D-ribose 5-phosphate and ATP YP_001398013.1 identified by match to protein family HMM PF02554 YP_001398014.1 identified by match to protein family HMM PF04328 YP_001398015.1 identified by match to protein family HMM PF03061 YP_001398017.1 identified by match to protein family HMM PF00216 YP_001398018.1 identified by match to protein family HMM PF00291; match to protein family HMM TIGR01136; match to protein family HMM TIGR01139 YP_001398019.1 identified by match to protein family HMM PF02630 YP_001398021.1 identified by match to protein family HMM PF04314 YP_001398023.1 converts L-alanine to D-alanine which is used in cell wall biosynthesis; binds one pyridoxal phosphate per monomer; forms a homodimer YP_001398024.1 identified by match to protein family HMM PF00588 YP_001398025.1 identified by match to protein family HMM PF00005 YP_001398026.1 identified by match to protein family HMM PF00528; match to protein family HMM TIGR01726 YP_001398027.1 identified by glimmer; putative YP_001398028.1 identified by match to protein family HMM PF01965; match to protein family HMM TIGR01383 YP_001398029.1 identified by match to protein family HMM PF01230 YP_001398030.1 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_001398031.1 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_001398032.1 catalyzes the formation of 5-O-(1-carboxyvinyl)-3-phosphoshikimate from phosphoenolpyruvate and 3-phosphoshikimate in tryptophan biosynthesis YP_001398033.1 catalyzes the conversion of 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate into isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP); functions in the nonmevalonate isoprenoid biosynthesis pathway YP_001398034.1 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_001398035.1 identified by glimmer; putative YP_001398036.1 catalyzes the formation of 3-phosphonooxypyruvate from 3-phospho-D-glycerate in serine biosynthesis; can also reduce alpha ketoglutarate to form 2-hydroxyglutarate YP_001398037.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00486 YP_001398038.1 identified by match to protein family HMM PF00512; match to protein family HMM PF02518 YP_001398039.1 identified by match to protein family HMM PF00005 YP_001398040.1 identified by match to protein family HMM PF00580 YP_001398041.1 identified by glimmer; putative YP_001398042.1 identified by glimmer; putative YP_001398045.1 identified by glimmer; putative YP_001398046.1 identified by match to protein family HMM PF06447 YP_001398049.1 identified by glimmer; putative YP_001398053.1 identified by match to protein family HMM PF00059 YP_001398055.1 identified by glimmer; putative YP_001398056.1 identified by match to protein family HMM PF05016; match to protein family HMM TIGR02385 YP_001398057.1 identified by glimmer; putative YP_001398061.1 identified by glimmer; putative YP_001398064.1 identified by match to protein family HMM PF01555 YP_001398065.1 identified by glimmer; putative YP_001398066.1 identified by glimmer; putative YP_001398067.1 identified by glimmer; putative YP_001398068.1 identified by glimmer; putative YP_001398069.1 identified by glimmer; putative YP_001398071.1 identified by glimmer; putative YP_001398072.1 identified by match to protein family HMM PF05012; match to protein family HMM TIGR01550 YP_001398076.1 identified by glimmer; putative YP_001398078.1 identified by match to protein family HMM PF05818 YP_001398079.1 identified by glimmer; putative YP_001398080.1 identified by glimmer; putative YP_001398081.1 identified by glimmer; putative YP_001398083.1 identified by match to protein family HMM PF01381 YP_001398085.1 identified by glimmer; putative YP_001398086.1 identified by glimmer; putative YP_001398087.1 identified by glimmer; putative YP_001398088.1 identified by glimmer; putative YP_001398089.1 identified by glimmer; putative YP_001398090.1 identified by glimmer; putative YP_001398092.1 identified by glimmer; putative YP_001398094.1 catalyzes the conversion of citrate to isocitrate and the conversion of 2-methylaconitate to 2-methylisocitrate YP_001398095.1 identified by match to protein family HMM PF01035; match to protein family HMM TIGR00589 YP_001398097.1 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_001398099.1 catalyzes the formation of D-fructose 6-phosphate from fructose-1,6-bisphosphate YP_001398100.1 identified by match to protein family HMM PF03205; match to protein family HMM TIGR00176 YP_001398101.1 identified by match to protein family HMM PF01464 YP_001398102.1 identified by match to protein family HMM PF02325 YP_001398103.1 charges one glutamine molecule and pairs it with tRNA(Gln) YP_001398104.1 identified by match to protein family HMM PF00149 YP_001398105.1 catalyzes the decarboxylaton of phospatidyl-L-sering to phosphatidylethanolamine YP_001398106.1 identified by match to protein family HMM TIGR00789 YP_001398107.1 identified by glimmer; putative YP_001398108.1 identified by match to protein family HMM PF07690 YP_001398111.1 Converts (S)-4-amino-5-oxopentanoate to 5-aminolevulinate during the porphyrin biosynthesis pathway YP_001398113.1 catalyzes the formation of 5,10-methenyltetrahydrofolate from 5,10-methylenetetrahydrofolate and subsequent formation of 10-formyltetrahydrofolate from 5,10-methenyltetrahydrofolate YP_001398114.1 identified by match to protein family HMM PF00717; match to protein family HMM TIGR02227 YP_001398115.1 identified by match to protein family HMM PF00994; match to protein family HMM PF03453; match to protein family HMM PF03454; match to protein family HMM TIGR00177 YP_001398116.1 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_001398117.1 identified by match to protein family HMM PF00892 YP_001398118.1 identified by match to protein family HMM PF00117; match to protein family HMM TIGR00566 YP_001398119.1 identified by match to protein family HMM PF00425 YP_001398120.1 identified by match to protein family HMM PF00589 YP_001398123.1 identified by match to protein family HMM PF01323 YP_001398127.1 membrane protein involved in the flagellar export apparatus YP_001398128.1 identified by match to protein family HMM PF02082; match to protein family HMM TIGR00738 YP_001398129.1 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_001398130.1 identified by match to protein family HMM PF01580 YP_001398131.1 with FlgK acts as a hook filament junction protein to join the flagellar filament to the hook YP_001398133.1 identified by glimmer; putative YP_001398134.1 identified by glimmer; putative YP_001398136.1 identified by match to protein family HMM PF03797; match to protein family HMM TIGR01414 YP_001398137.1 identified by match to protein family HMM PF01155; match to protein family HMM TIGR00100 YP_001398138.1 identified by match to protein family HMM PF00586; match to protein family HMM PF02769; match to protein family HMM TIGR02124 YP_001398139.1 identified by match to protein family HMM PF01924; match to protein family HMM TIGR00075 YP_001398140.1 identified by match to protein family HMM PF01455; match to protein family HMM TIGR00074 YP_001398141.1 identified by match to protein family HMM PF02492; match to protein family HMM TIGR00073 YP_001398142.1 identified by match to protein family HMM PF00708; match to protein family HMM PF01300; match to protein family HMM PF07503; match to protein family HMM TIGR00143 YP_001398143.1 identified by glimmer; putative YP_001398144.1 identified by match to protein family HMM PF01863 YP_001398145.1 identified by match to protein family HMM PF01554; match to protein family HMM TIGR00797 YP_001398146.1 ATP-binding protein; PstABCS is an ATP dependent phosphate uptake system which is responsible for inorganic phosphate uptake during phosphate starvation YP_001398147.1 identified by match to protein family HMM PF00528; match to protein family HMM TIGR00974 YP_001398148.1 identified by match to protein family HMM PF00528; match to protein family HMM TIGR02138 YP_001398150.1 identified by glimmer; putative YP_001398151.1 identified by match to protein family HMM PF00210 YP_001398152.1 identified by match to protein family HMM PF03062 YP_001398153.1 identified by match to protein family HMM PF04311 YP_001398155.1 identified by match to protein family HMM PF02321 YP_001398156.1 identified by match to protein family HMM PF00005; match to protein family HMM PF02687 YP_001398157.1 identified by match to protein family HMM PF00529; match to protein family HMM TIGR01730 YP_001398158.1 identified by match to protein family HMM PF01546; match to protein family HMM PF07687; match to protein family HMM TIGR01891 YP_001398159.1 identified by match to protein family HMM PF00085; match to protein family HMM PF02683 YP_001398160.1 identified by match to protein family HMM PF00209 YP_001398162.1 identified by match to protein family HMM PF00691 YP_001398163.1 identified by glimmer; putative YP_001398164.1 catalyzes the formation of glycerone phosphate and glyceraldehyde 3-phosphate from fructose 1,6, bisphosphate YP_001398165.1 identified by match to protein family HMM PF00639 YP_001398166.1 identified by match to protein family HMM PF00730; match to protein family HMM TIGR01083 YP_001398167.1 identified by match to protein family HMM PF01223 YP_001398168.1 identified by match to protein family HMM PF03458 YP_001398169.1 identified by glimmer; putative YP_001398171.1 identified by match to protein family HMM PF08241; match to protein family HMM PF08242; match to protein family HMM TIGR00740 YP_001398172.1 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_001398173.1 identified by match to protein family HMM PF01728 YP_001398174.1 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_001398175.1 identified by match to protein family HMM PF00809; match to protein family HMM TIGR01496 YP_001398176.1 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_001398178.1 catalyzes the formation of 4-phospho-L-aspartate from L-aspartate and ATP, in Bacillus, lysine sensitive; regulated by response to starvation. YP_001398179.1 hydrolyzes diadenosine polyphosphate YP_001398180.1 catalyzes the oxygen-independent formation of protoporphyrinogen-IX from coproporphyrinogen-III YP_001398181.1 identified by match to protein family HMM PF00902; match to protein family HMM TIGR00945 YP_001398182.1 Synthesizes oQ from preQ1 in a single S-adenosylmethionine-requiring step YP_001398183.1 adds the O-linked and N-linked 3(R)-hydroxy fatty acids to the glucosamine disaccharide during lipid A biosynthesis YP_001398184.1 with IlvI catalyzes the formation of 2-acetolactate from pyruvate, the small subunit is required for full activity and valine sensitivity; E.coli produces 3 isoenzymes of acetolactate synthase which differ in specificity to substrates, valine sensitivity and affinity for cofactors; also known as acetolactate synthase 3 small subunit YP_001398185.1 catalyzes the formation of 2-acetolactate from pyruvate, leucine resistant; also known as acetolactate synthase 3 large subunit YP_001398186.1 bifunctional enzyme DHBP synthase/GTP cyclohydrolase II; functions in riboflavin synthesis; converts GTP to 2,5-diamino-6-hydroxy-4-(5-phosphoribosylamino)pyrimidine; converts ribulose 5-phopshate to 3,4-dihydroxy-2-butanone 4-phosphate YP_001398187.1 identified by match to protein family HMM PF00589 YP_001398189.1 identified by glimmer; putative YP_001398191.1 identified by glimmer; putative YP_001398192.1 identified by glimmer; putative YP_001398197.1 identified by match to protein family HMM PF03374 YP_001398199.1 identified by glimmer; putative YP_001398200.1 identified by glimmer; putative YP_001398202.1 identified by glimmer; putative YP_001398204.1 identified by glimmer; putative YP_001398205.1 identified by glimmer; putative YP_001398206.1 identified by glimmer; putative YP_001398207.1 identified by glimmer; putative YP_001398209.1 identified by match to protein family HMM PF00717 YP_001398212.1 identified by match to protein family HMM PF05866 YP_001398222.1 identified by glimmer; putative YP_001398223.1 identified by glimmer; putative YP_001398224.1 identified by glimmer; putative YP_001398226.1 identified by glimmer; putative YP_001398227.1 identified by glimmer; putative YP_001398229.1 identified by glimmer; putative YP_001398230.1 identified by match to protein family HMM PF07087 YP_001398232.1 identified by glimmer; putative YP_001398233.1 identified by glimmer; putative YP_001398235.1 identified by match to protein family HMM PF03797; match to protein family HMM TIGR01414 YP_001398237.1 identified by match to protein family HMM PF00528; match to protein family HMM TIGR01726 YP_001398238.1 identified by match to protein family HMM PF02687 YP_001398239.1 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_001398240.1 participates with LolB in the incorporation of lipoprotein into the outer membrane YP_001398243.1 identified by match to protein family HMM PF00795 YP_001398244.1 identified by match to protein family HMM PF01545; match to protein family HMM TIGR01297 YP_001398245.1 identified by match to protein family HMM PF04371 YP_001398246.1 identified by match to protein family HMM PF03724 YP_001398248.1 catalyzes the conversion of citrate to isocitrate and the conversion of 2-methylaconitate to 2-methylisocitrate YP_001398249.1 identified by match to protein family HMM PF00023 YP_001398250.1 identified by match to protein family HMM PF00106; match to protein family HMM PF01370 YP_001398251.1 identified by match to protein family HMM PF03553 YP_001398252.1 catalyzes the formation of 5-methyl-uridine at position 54 in all tRNAs YP_001398253.1 identified by match to protein family HMM PF04323 YP_001398255.1 catalyzes the formation of 2-oxobutanoate from L-threonine YP_001398256.1 mediates pseudouridylation (positions 38, 39, 40) at the tRNA anticodon region which contributes to the structural stability YP_001398257.1 identified by match to protein family HMM PF03739 YP_001398258.1 identified by match to protein family HMM PF01478; match to protein family HMM PF06750 YP_001398259.1 identified by match to protein family HMM PF01255; match to protein family HMM TIGR00055 YP_001398261.1 catalyzes the conjugation of cysteine to 4'-phosphopantothenate to form 4-phosphopantothenoylcysteine, which is then decarboxylated to form 4'-phosphopantotheine YP_001398262.1 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_001398263.1 FliP, with proteins FliQ and FliR, forms the core of the central channel in the flagella export apparatus YP_001398265.1 identified by match to protein family HMM PF00497 YP_001398266.1 CMP-2-keto-3-deoxyoctulosonic acid synthetase; catalyzes the formation of CMP-3-deoxy-D-manno-octulosonate from CTP and 3-deoxy-D-manno-octulosonate which is incorporated into LPS YP_001398267.1 catalyzes the formation of L-threonine from O-phospho-L-homoserine YP_001398268.1 transfers the gamma-phosphate of ATP to the 4' position of a tetraacyldisaccharide 1-phosphate intermediate to form tetraacyldisaccharide 1,4'-bis-phosphate YP_001398269.1 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_001398270.1 identified by match to protein family HMM PF00753 YP_001398271.1 identified by glimmer; putative YP_001398272.1 Acts on the hydroxyl group at position 7 of the steroid frame YP_001398273.1 catalyzes the formation of dihydrodipicolinate from L-aspartate 4-semialdehyde and pyruvate in lysine and diaminopimelate biosynthesis YP_001398274.1 identified by match to protein family HMM PF00675; match to protein family HMM PF05193 YP_001398275.1 catalyzes the conversion of dihydroorotate to orotate in the pyrimidine biosynthesis pathway; uses a flavin nucleotide as an essential cofactor; class 2 enzymes are monomeric and compared to the class 1 class 2 possess an extended N terminus, which plays a role in the membrane association of the enzyme and provides the binding site for the respiratory quinones that serve as physiological electron acceptors YP_001398276.1 identified by match to protein family HMM PF00005; match to protein family HMM PF00664 YP_001398277.1 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_001398278.1 identified by match to protein family HMM PF03023; match to protein family HMM TIGR01695 YP_001398280.1 plays an essential role in ATP-dependent branch migration of the Holliday junction YP_001398281.1 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_001398282.1 identified by match to protein family HMM TIGR01552 YP_001398283.1 identified by match to protein family HMM PF00561 YP_001398284.1 identified by match to protein family HMM PF08245 YP_001398285.1 identified by match to protein family HMM PF00512; match to protein family HMM PF02518 YP_001398286.1 identified by match to protein family HMM PF03008 YP_001398287.1 identified by match to protein family HMM PF00266 YP_001398288.1 produces formate from formyl-tetrahydrofolate which is the major source of formate for PurT in de novo purine nucleotide biosynthesis; has a role in one-carbon metabolism; forms a homohexamer; activated by methionine and inhibited by glycine YP_001398289.1 identified by match to protein family HMM PF01743 YP_001398292.1 identified by glimmer; putative YP_001398294.1 identified by match to protein family HMM PF00578; match to protein family HMM PF08534 YP_001398295.1 identified by match to protein family HMM PF00580 YP_001398297.1 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_001398298.1 identified by match to protein family HMM PF00005 YP_001398299.1 identified by match to protein family HMM PF00528 YP_001398300.1 identified by match to protein family HMM PF03180 YP_001398301.1 identified by match to protein family HMM PF03180 YP_001398302.1 identified by match to protein family HMM PF03180 YP_001398303.1 required for the assembly of the flagellar basal body P-ring YP_001398304.1 catalyzes the formation of 2-octaprenylphenol from 3-octaprenyl-4-hydroxybenzoate YP_001398305.1 Catalyzes the conversion of ATP and pantetheine 4'-phosphate to diphosphate and 3'-dephospho-coA YP_001398306.1 catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to thymidine monophosphate (dTMP) to form thymidine diphosphate (dTDP) YP_001398307.1 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_001398308.1 catalyzes the formation of agmatine from arginine in putrescine and spermidine biosynthesis YP_001398309.1 identified by match to protein family HMM PF00132; match to protein family HMM TIGR01172 YP_001398310.1 catalyzes the formation of oxalozcetate and L-glutamate from L-aspartate and 2-oxoglutarate YP_001398311.1 identified by match to protein family HMM TIGR01444 YP_001398313.1 identified by match to protein family HMM PF01385; match to protein family HMM PF07282; match to protein family HMM TIGR01766 YP_001398314.1 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_001398315.1 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_001398316.1 Acts as a negative regulator of the grpE-dnaK-dnaJ and groELS class I heat shock operons by preventing heat-shock induction YP_001398317.1 identified by match to protein family HMM PF00593; match to protein family HMM PF07715 YP_001398318.1 identified by match to protein family HMM PF03544; match to protein family HMM TIGR01352 YP_001398319.1 identified by glimmer; putative YP_001398320.1 identified by match to protein family HMM PF07690; match to protein family HMM TIGR01272 YP_001398321.1 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_001398322.1 catalyzes the conversion of ATP and D-glucose to ADP and D-glucose 6-phosphate YP_001398323.1 identified by match to protein family HMM TIGR01198 YP_001398324.1 identified by match to protein family HMM PF00479; match to protein family HMM PF02781; match to protein family HMM TIGR00871 YP_001398325.1 catalyzes the formation of 2-dehydro-3-deoxy-6-phospho-D-gluconate from 6-phospho-D-gluconate YP_001398326.1 identified by match to protein family HMM PF01081; match to protein family HMM TIGR01182 YP_001398327.1 identified by glimmer; putative YP_001398328.1 identified by match to protein family HMM PF00497 YP_001398329.1 identified by match to protein family HMM PF07719 YP_001398330.1 identified by match to protein family HMM PF01544; match to protein family HMM TIGR00383 YP_001398331.1 forms a trimer; related to eukaryotic protein gephyrin; functions during molybdenum cofactor biosynthesis YP_001398332.1 identified by glimmer; putative YP_001398333.1 identified by match to protein family HMM PF01435 YP_001398334.1 identified by match to protein family HMM PF05175; match to protein family HMM TIGR00536 YP_001398336.1 identified by match to protein family HMM PF00669 YP_001398337.1 identified by match to protein family HMM TIGR00044 YP_001398338.1 catalyzes DNA-template-directed extension of the 3'- end of a DNA strand by one nucleotide at a time; main replicative polymerase YP_001398339.1 identified by match to protein family HMM PF03960 YP_001398340.1 identified by match to protein family HMM PF01474; match to protein family HMM TIGR01358 YP_001398341.1 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_001398342.1 methylates guanosine-37 in various tRNAs; uses S-adenosyl-L-methionine to transfer methyl group to tRNA YP_001398343.1 identified by match to protein family HMM PF01782; match to protein family HMM PF05239; match to protein family HMM TIGR02273 YP_001398345.1 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_001398346.1 identified by match to protein family HMM PF00448; match to protein family HMM PF02881; match to protein family HMM PF02978; match to protein family HMM TIGR00959 YP_001398347.1 identified by match to protein family HMM PF00849 YP_001398348.1 catalyzes the transfer of 2-keto-3-deoxy-D-manno-octulosonic acid to lipid A YP_001398349.1 identified by match to protein family HMM PF02591 YP_001398350.1 identified by match to protein family HMM PF01784; match to protein family HMM TIGR00486 YP_001398351.1 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_001398353.1 identified by match to protein family HMM PF00731; match to protein family HMM TIGR01162 YP_001398354.1 identified by match to protein family HMM PF01136 YP_001398356.1 identified by match to protein family HMM PF00120; match to protein family HMM PF03951; match to protein family HMM TIGR00653 YP_001398357.1 makes up the distal portion of the flagellar basal body rod YP_001398358.1 identified by match to protein family HMM PF00460; match to protein family HMM PF06429 YP_001398359.1 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_001398360.1 identified by match to protein family HMM PF02491; match to protein family HMM TIGR01174 YP_001398362.1 identified by match to protein family HMM PF01795; match to protein family HMM TIGR00006 YP_001398365.1 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_001398366.1 identified by match to protein family HMM PF01515; match to protein family HMM TIGR00651 YP_001398367.1 part of the flagellar basal body which consists of four rings L,P, S and M mounted on a central rod YP_001398368.1 catalyzes the conversion of 2C-methyl-D-erythritol 2,4-cyclodiphosphate into 4-hydroxy-3-methyl-2-en-1-yl diphosphate; involved in isoprenoid synthesis YP_001398369.1 binding of PriA to forked DNA starts the assembly of the primosome, also possesses 3'-5' helicase activity YP_001398370.1 identified by glimmer; putative YP_001398373.1 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_001398374.1 sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released; sigma 54 factor is responsible for the expression of enzymes involved in nitrogen assimilation and metabolism; the rhizobia often have 2 copies of this sigma factor; in Rhizobium etli RpoN1 shown to be involved in the assimilation of several nitrogen and carbon sources during free-living aerobic growth and RpoN2 is involved in symbiotic nitrogen fixation; in Bradyrhizobium both RpoN1 and N2 are functional in free-living and symbiotic conditions, rpoN1 gene was regulated in response to oxygen YP_001398375.1 identified by match to protein family HMM PF00005 YP_001398376.1 identified by match to protein family HMM PF02367; match to protein family HMM TIGR00150 YP_001398377.1 identified by match to protein family HMM PF01479 YP_001398378.1 identified by glimmer; putative YP_001398379.1 catalyzes the formation of 2-N(omega)-(L-arginino)succinate from L-citrulline and L-aspartate in arginine biosynthesis, AMP-forming YP_001398380.1 in Escherichia coli this protein is wrapped around the base of the L1 stalk YP_001398381.1 heat shock protein involved in degradation of misfolded proteins YP_001398382.1 heat shock protein involved in degradation of misfolded proteins YP_001398383.1 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_001398385.1 identified by glimmer; putative YP_001398386.1 identified by glimmer; putative YP_001398387.1 identified by match to protein family HMM PF00854; match to protein family HMM PF07690; match to protein family HMM TIGR00924 YP_001398388.1 identified by match to protein family HMM PF00854; match to protein family HMM PF07690; match to protein family HMM TIGR00924 YP_001398389.1 identified by match to protein family HMM PF00557; match to protein family HMM PF01321 YP_001398390.1 identified by match to protein family HMM PF00905; match to protein family HMM PF03717; match to protein family HMM TIGR03423 YP_001398392.1 binds guanine nucleotides; in Escherichia coli depletion results in defective cell division and filamentation; in Bacillus subtilis this gene is essential YP_001398393.1 identified by match to protein family HMM PF03968 YP_001398394.1 identified by match to protein family HMM PF06835 YP_001398395.1 identified by match to protein family HMM TIGR01662; match to protein family HMM TIGR01670 YP_001398396.1 identified by match to protein family HMM PF03330; match to protein family HMM PF05036; match to protein family HMM TIGR00413 YP_001398397.1 identified by match to protein family HMM PF01464; match to protein family HMM PF01476 YP_001398398.1 identified by match to protein family HMM PF01026; match to protein family HMM TIGR00010 YP_001398399.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00990; match to protein family HMM TIGR00254 YP_001398400.1 identified by match to protein family HMM PF02463 YP_001398401.1 catalyzes the phosphorylation of NAD to NADP YP_001398402.1 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_001398403.1 essential enzyme that recycles AMP in active cells; converts ATP and AMP to two molecules of ADP YP_001398404.1 identified by match to protein family HMM PF00719 YP_001398405.1 this stereospecific enzymes reduces the S isomer of methionine sulfoxide while MsrB reduces the R form; provides protection against oxidative stress YP_001398406.1 similar to RuvC resolvase with substantial differences; NMR structural information suggests this protein is monomeric; unknown cellular function YP_001398407.1 identified by match to protein family HMM PF02481 YP_001398408.1 identified by match to protein family HMM PF04748 YP_001398409.1 catalyzes the formation of (R)-2,3-dihydroxy-3-methylbutanoate from (S)-2-hydroxy-2-methyl-3-oxobutanoate in valine and isoleucine biosynthesis YP_001398410.1 identified by match to protein family HMM PF00773; match to protein family HMM PF08206 YP_001398411.1 required for the assembly and function of the DNAX complex which is required for the assembly of the beta subunit onto primed DNA YP_001398412.1 identified by match to protein family HMM PF03797; match to protein family HMM TIGR01414 YP_001398413.1 unwinds double stranded DNA YP_001398414.1 identified by match to protein family HMM PF00070; match to protein family HMM PF03486; match to protein family HMM PF07992 YP_001398415.1 identified by glimmer; putative YP_001398419.1 identified by match to protein family HMM PF06166 YP_001398420.1 identified by match to protein family HMM PF06149 YP_001398421.1 Involved in peptide bond synthesis; alters the affinity of the ribosome for aminoacyl-tRNA YP_001398422.1 identified by glimmer; putative YP_001398423.1 flagellin specific chaperone YP_001398424.1 Also called hook-associated protein 2; involved in flagellin assembly YP_001398425.1 possibly involved in flagella export YP_001398426.1 identified by match to protein family HMM PF01977; match to protein family HMM TIGR00148 YP_001398427.1 transformation of porphobilinogen to hydroxymethylbilane in porphyrin biosynthesis YP_001398429.1 catalyzes the formation of prolyl-tRNA(Pro) from proline and tRNA(Pro) YP_001398430.1 catalyzes the formation of glutamate-1-semialdehyde from glutamyl-tRNA(Glu) and NADPH; the second step of the pathway is catalyzed by glutamate-1-semialdehyde aminomutase which results in the formation of 5-aminolevulinic acid; functions in porphyrin (tetrapyrroles) biosynthesis; the crystal structure showed a C-terminal dimerization domain that appears to be absent in Chlamydial proteins YP_001398431.1 identified by match to protein family HMM PF00348 YP_001398433.1 identified by glimmer; putative YP_001398434.1 identified by match to protein family HMM PF01558 YP_001398435.1 identified by match to protein family HMM PF02775 YP_001398436.1 identified by match to protein family HMM PF01855 YP_001398437.1 identified by match to protein family HMM PF00037 YP_001398438.1 identified by match to protein family HMM PF00549; match to protein family HMM PF02629; match to protein family HMM TIGR01019 YP_001398439.1 catalyzes the interconversion of succinyl-CoA and succinate YP_001398440.1 identified by match to protein family HMM PF00056; match to protein family HMM PF02866 YP_001398441.1 identified by match to protein family HMM PF03971; match to protein family HMM TIGR00178 YP_001398443.1 identified by match to protein family HMM PF02618 YP_001398444.1 with FlgF and C makes up the proximal portion of the flagellar basal body rod; Vibrio parahaemolyticus protein is associated with the polar flagella YP_001398445.1 with FlgF and B makes up the proximal portion of the flagellar basal body rod YP_001398446.1 forms a junction between the M-ring and FlgB during flagella biosynthesis YP_001398447.1 identified by match to protein family HMM PF00905; match to protein family HMM PF03717 YP_001398448.1 identified by glimmer; putative YP_001398450.1 molecular chaperone YP_001398452.1 catalyzes the formation of 2-(formamido)-N1-(5-phospho-D-ribosyl)acetamidine from N2-formyl-N1-(5-phospho-D-ribosyl)glycinamide and L-glutamine in purine biosynthesis YP_001398453.1 identified by match to protein family HMM PF02700; match to protein family HMM TIGR00302 YP_001398454.1 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_001398455.1 identified by match to protein family HMM PF00595; match to protein family HMM PF03572; match to protein family HMM TIGR00225 YP_001398456.1 identified by match to protein family HMM PF02583 YP_001398457.1 identified by match to protein family HMM PF00004; match to protein family HMM PF02861; match to protein family HMM PF07724; match to protein family HMM PF07728 YP_001398459.1 identified by match to protein family HMM PF00106; match to protein family HMM PF01370 YP_001398460.1 identified by match to protein family HMM PF00501 YP_001398461.1 identified by match to protein family HMM PF00905; match to protein family HMM PF00912; match to protein family HMM TIGR02074 YP_001398462.1 Maf; overexpression in Bacillus subtilis inhibits septation in the dividing cell YP_001398463.1 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_001398464.1 identified by match to protein family HMM PF01041; match to protein family HMM PF01053 YP_001398465.1 identified by match to protein family HMM PF01408 YP_001398466.1 protoheme ferro-lyase; catalyzes the insertion of a ferrous ion into protoporphyrin IX to form protoheme; involved in protoheme biosynthesis; in some organisms this protein is membrane-associated while in others it is cytosolic YP_001398468.1 catalyzes the selenophosphate-dependent transfer of selenium from selenophosphate for conversion of 2-thiouridine to 2-selenouridine at the wobble position in tRNA YP_001398469.1 identified by match to protein family HMM PF01230 YP_001398470.1 involved in tryptophan biosynthesis; amino acid biosynthesis; converts 1-(2-carboxyphenylamino)-1-deoxy-D-ribulose 5-phosphate to C(1)-(3-indolyl)-glycerol 3-phosphate and carbon dioxide and water YP_001398472.1 identified by match to protein family HMM PF03692 YP_001398473.1 identified by match to protein family HMM PF05175 YP_001398474.1 identified by glimmer; putative YP_001398475.1 EF-G; promotes GTP-dependent translocation of the ribosome during translation; many organisms have multiple copies of this gene YP_001398476.1 binds directly to 16S rRNA where it nucleates assembly of the head domain of the 30S subunit YP_001398477.1 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_001398478.1 NAD-linked YP_001398479.1 identified by match to protein family HMM PF05336 YP_001398480.1 identified by match to protein family HMM PF04909 YP_001398481.1 identified by match to protein family HMM PF07690 YP_001398482.1 identified by match to protein family HMM PF00106 YP_001398483.1 identified by match to protein family HMM PF04295 YP_001398484.1 identified by match to protein family HMM PF00701 YP_001398485.1 identified by match to protein family HMM PF01614; match to protein family HMM PF09339 YP_001398486.1 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_001398487.1 binds the two ribosomal protein L7/L12 dimers and anchors them to the large ribosomal subunit YP_001398488.1 in Escherichia coli and Methanococcus, this protein autoregulates expression; the binding site in the mRNA mimics the binding site in the 23S rRNA YP_001398489.1 binds directly to 23S ribosomal RNA YP_001398490.1 Modulates Rho-dependent transcription termination YP_001398491.1 forms a complex with SecY and SecG; SecYEG forms a putative protein-conducting channel to which secA binds and translocates targeted polypeptides across the cytoplasmic membrane, a process driven by ATP and a proton-motive force YP_001398492.1 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_001398493.1 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_001398494.1 identified by match to protein family HMM PF00005 YP_001398495.1 identified by match to protein family HMM PF00528; match to protein family HMM TIGR01726 YP_001398496.1 identified by match to protein family HMM PF00528; match to protein family HMM TIGR01726 YP_001398497.1 identified by match to protein family HMM PF00027 YP_001398499.1 catalyzes branch migration in Holliday junction intermediates YP_001398500.1 identified by match to protein family HMM PF05193 YP_001398501.1 identified by match to protein family HMM PF04055; match to protein family HMM TIGR00423 YP_001398502.1 identified by match to protein family HMM PF04332; match to protein family HMM PF07690 YP_001398503.1 modifies transcription through interactions with RNA polymerase affecting elongation, readthrough, termination, and antitermination YP_001398505.1 catalyzes the formation of 2-methylthio-N6-(dimethylallyl)adenosine (ms(2)i(6)A) at position 37 in tRNAs that read codons beginning with uridine from N6-(dimethylallyl)adenosine (i(6)A) YP_001398506.1 identified by match to protein family HMM PF04028 YP_001398507.1 identified by glimmer; putative YP_001398509.1 identified by glimmer; putative YP_001398510.1 required for the synthesis of the hydromethylpyrimidine moiety of thiamine YP_001398511.1 catalyzes the interconversion of D-ribulose 5-phosphate to xylulose 5-phosphate YP_001398512.1 required for 70S ribosome assembly YP_001398513.1 identified by match to protein family HMM PF04325 YP_001398514.1 identified by match to protein family HMM PF00293; match to protein family HMM TIGR00052 YP_001398515.1 identified by match to protein family HMM PF00593; match to protein family HMM PF07715 YP_001398516.1 catalyzes the carboxylation of acetyl-CoA to malonyl-CoA; forms a tetramer composed of two alpha (AccA) and two beta (AccD) subunits; one of the two catalytic subunits that can form the acetyl CoA carboxylase enzyme together with a carrier protein YP_001398517.1 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_001398518.1 carries the fatty acid chain in fatty acid biosynthesis YP_001398519.1 identified by match to protein family HMM PF03070 YP_001398520.1 identified by glimmer; putative YP_001398521.1 identified by match to protein family HMM PF01243 YP_001398522.1 Catalyzes the first of the two reduction steps in the elongation cycle of fatty acid synthesis YP_001398523.1 catalyzes the interconversion of 2-phosphoglycerate and 3-phosphoglycerate YP_001398524.1 First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan YP_001398525.1 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_001398527.1 identified by match to protein family HMM PF01071; match to protein family HMM PF02222; match to protein family HMM PF02655 YP_001398528.1 identified by match to protein family HMM PF08241; match to protein family HMM PF08242 YP_001398529.1 identified by glimmer; putative YP_001398531.1 identified by glimmer; putative YP_001398532.1 identified by glimmer; putative YP_001398535.1 identified by match to protein family HMM PF01205 YP_001398536.1 identified by glimmer; putative YP_001398537.1 identified by match to protein family HMM PF00005 YP_001398539.1 identified by glimmer; putative YP_001398540.1 identified by glimmer; putative YP_001398542.1 identified by match to protein family HMM PF04264 YP_001398543.1 identified by match to protein family HMM PF01230 YP_001398545.1 identified by match to protein family HMM PF07719; match to protein family HMM PF08238 YP_001398546.1 identified by match to protein family HMM PF00350; match to protein family HMM PF01926 YP_001398547.1 identified by match to protein family HMM PF00350; match to protein family HMM PF01926 YP_001398548.1 part of three member fumarate reductase enzyme complex FrdABC which catalyzes the reduction of fumarate to succinate during anaerobic respiration; FrdAB are the catalytic subcomplex consisting of a flavoprotein subunit and an iron-sulfur subunit, respectively; FrdC is the cytochrome b-556 subunit; the catalytic subunits are similar to succinate dehydrogenase SdhAB YP_001398549.1 part of three member fumarate reductase enzyme complex FrdABC which catalyzes the reduction of fumarate to succinate during anaerobic respiration; FrdAB are the catalytic subcomplex consisting of a flavoprotein subunit and an iron-sulfur subunit, respectively; FrdC is the cytochrome b-556 subunit; the catalytic subunits are similar to succinate dehydrogenase SdhAB YP_001398550.1 part of three member fumarate reductase enzyme complex FrdABC which catalyzes the reduction of fumarate to succinate during anaerobic respiration; FrdAB are the catalytic subcomplex consisting of a flavoprotein subunit and an iron-sulfur subunit, respectively; FrdC is the cytochrome b-556 subunit YP_001398551.1 transfers the N-acyl diglyceride moiety to the prospective N-terminal cysteine in prolipoprotein YP_001398553.1 AroE; catalyzes the conversion of shikimate to 3-dehydroshikimate YP_001398554.1 identified by match to protein family HMM PF05036 YP_001398555.1 identified by match to protein family HMM PF08966 YP_001398556.1 catalyzes the reaction of glycine with 5,10-methylenetetrahydrofolate to form L-serine and tetrahydrofolate YP_001398557.1 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_001398558.1 identified by match to protein family HMM PF01475 YP_001398559.1 identified by match to protein family HMM PF02674 YP_001398560.1 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_001398563.1 type III; catalyzes the formation of (R)-4'-phosphopantothenate from (R)-pantothenate in coenzyme A biosynthesis; type III pantothenate kinases are not subject to feedback inhibition from coenzyme A and have a high Km for ATP YP_001398564.1 identified by match to protein family HMM PF01266; match to protein family HMM PF06039 YP_001398565.1 identified by match to protein family HMM PF00224; match to protein family HMM PF02887; match to protein family HMM TIGR01064 YP_001398567.1 identified by match to protein family HMM PF00515; match to protein family HMM PF07719 YP_001398568.1 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_001398569.1 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_001398570.1 catalyzes the formation of shikimate 3-phosphate from shikimate in aromatic amino acid biosynthesis YP_001398571.1 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_001398572.1 identified by match to protein family HMM PF00892 YP_001398573.1 catalyzes the formation of 2-dehydro-3-deoxy-D-octonate 8-phosphate from phosphoenolpyruvate and D-arabinose 5-phosphate in LPS biosynthesis YP_001398574.1 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_001398575.1 Regulates rRNA biosynthesis by transcriptional antitermination YP_001398576.1 type 1 subfamily; involved in last step of pyrimidine biosynthesis; converts orotidine 5'-phosphate to UMP and carbon dioxide; OMP decarboxylase; OMPDCase; OMPdecase YP_001398577.1 in Escherichia coli this periplasmic enzyme was found to encode the periplasmic catalytic subunit of an oxidoreductase; sulfite oxidase activity not demonstrated; requires inner membrane anchor protein YedZ YP_001398578.1 identified by match to protein family HMM PF01794 YP_001398579.1 identified by match to protein family HMM PF00004 YP_001398580.1 identified by glimmer; putative YP_001398582.1 putative nucleotide binding property based on structural studies of Haemophilus influenzae crystallized protein in PDB Accession Number 1IN0 and NMR studies of Escherichia coli YajQ; the YajQ protein from Pseudomonas synringae appears to play a role in activation of bateriophage phi6 segment L transcription YP_001398583.1 Involved in the metabolism of aromatic amino acids YP_001398584.1 identified by match to protein family HMM PF03738 YP_001398586.1 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_001398587.1 identified by match to protein family HMM PF00037; match to protein family HMM TIGR02745 YP_001398588.1 identified by match to protein family HMM PF00440 YP_001398589.1 identified by match to protein family HMM PF00529; match to protein family HMM TIGR01730 YP_001398590.1 identified by match to protein family HMM PF00873; match to protein family HMM TIGR00915 YP_001398591.1 identified by glimmer; putative YP_001398592.1 identified by match to protein family HMM PF03653; match to protein family HMM TIGR00701 YP_001398593.1 lipoprotein signal peptidase; integral membrane protein that removes signal peptides from prolipoproteins during lipoprotein biosynthesis YP_001398594.1 catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate YP_001398595.1 involved in acylation of glycerol-3-phosphate to form 1-acyl-glycerol-3 phosphate for use in phospholipid biosynthesis; functions with PlsX YP_001398597.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00486 YP_001398598.1 identified by match to protein family HMM PF00037 YP_001398599.1 identified by match to protein family HMM PF02541 YP_001398601.1 One of three proteins involved in switching the direction of the flagellar rotation YP_001398602.1 catalyzes the formation of indole and glyceraldehyde 3-phosphate from indoleglycerol phosphate in tryptophan biosynthesis YP_001398603.1 catalyzes the formation of L-tryptophan from L-serine and 1-(indol-3-yl)glycerol 3-phosphate YP_001398604.1 identified by match to protein family HMM PF00697 YP_001398605.1 identified by match to protein family HMM PF00117; match to protein family HMM PF00591; match to protein family HMM TIGR00566; match to protein family HMM TIGR01245 YP_001398606.1 identified by match to protein family HMM PF00425 YP_001398608.1 identified by match to protein family HMM PF01925 YP_001398609.1 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_001398610.1 identified by match to protein family HMM PF09335 YP_001398611.1 has 3'-5' exonuclease, 5'-3' exonuclease and 5'-3'polymerase activities, primarily functions to fill gaps during DNA replication and repair YP_001398612.1 With MotB forms the ion channels that couple flagellar rotation to proton/sodium motive force across the membrane and forms the stator elements of the rotary flagellar machine YP_001398613.1 with MotA forms the ion channels that couple flagellar rotation to proton/sodium motive force across the membrane and forms the stator elements of the rotary flagellar machine YP_001398614.1 membrane protein responsible for substrate specificity switching from rod/hook-type export to filament-type export YP_001398615.1 identified by match to protein family HMM PF00578; match to protein family HMM PF08534 YP_001398616.1 identified by match to protein family HMM PF00037 YP_001398617.1 catalyzes the formation of nucleoside triphosphate from ATP and nucleoside diphosphate YP_001398619.1 some L32 proteins have zinc finger motifs consisting of CXXC while others do not YP_001398620.1 involved in acylation of glycerol-3-phosphate to form 1-acyl-glycerol-3 phosphate for use in phospholipid biosynthesis; functions with PlsY YP_001398621.1 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_001398622.1 identified by glimmer; putative YP_001398623.1 catalyzes the formation of 3-phosphonooxypyruvate and glutamate from O-phospho-L-serine and 2-oxoglutarate; required both in major phosphorylated pathway of serine biosynthesis and in the biosynthesis of pyridoxine YP_001398624.1 bidirectionally degrades single-stranded DNA into large acid-insoluble oligonucleotides YP_001398625.1 identified by glimmer; putative YP_001398626.1 identified by match to protein family HMM PF03401 YP_001398628.1 identified by match to protein family HMM PF01970 YP_001398629.1 Catalyzes the carbon methylation reaction in the biosynthesis of ubiquinone YP_001398631.1 identified by match to protein family HMM PF01475 YP_001398632.1 catalyzes the formation of 1-deoxy-D-xylulose 5-phosphate from pyruvate and D-glyceraldehyde 3-phosphate YP_001398633.1 binds to and inhibits the function of flagella specific ATPase FliI YP_001398634.1 One of three proteins involved in switching the direction of the flagellar rotation YP_001398635.1 the MS-ring anchors the flagellum to the cytoplasmic membrane; part of the flagellar basal body which consists of four rings L, P, S, and M mounted on a central rod YP_001398636.1 catalyzes the formation of L-histidinol phosphate from imidazole-acetol phosphate and glutamate in histidine biosynthesis YP_001398637.1 identified by match to protein family HMM PF00800; match to protein family HMM PF01817; match to protein family HMM PF01842; match to protein family HMM TIGR01807 YP_001398638.1 identified by match to protein family HMM TIGR01460 YP_001398639.1 identified by glimmer; putative YP_001398640.1 identified by match to protein family HMM PF01555 YP_001398641.1 identified by match to protein family HMM PF00278; match to protein family HMM PF02784; match to protein family HMM TIGR01048 YP_001398642.1 identified by match to protein family HMM PF03739 YP_001398643.1 Enables the recycling of peptidyl-tRNAs produced at termination of translation YP_001398644.1 the Ctc family of proteins consists of two types, one that contains the N-terminal ribosomal protein L25 domain only which in Escherichia coli binds the 5S rRNA while a subset of proteins contain a C-terminal extension that is involved in the stress response YP_001398645.1 identified by match to protein family HMM PF00893 YP_001398646.1 identified by match to protein family HMM PF00893 YP_001398648.1 catalyzes the formation of S-adenosyl-4-methylthionine-2-oxobutanoate and 7,8-diaminononanoate from S-adenosyl-L-methionine and 8-amino-7-oxononanoate YP_001398649.1 identified by match to protein family HMM PF00155 YP_001398650.1 identified by match to protein family HMM PF04301 YP_001398651.1 identified by match to protein family HMM PF08242; match to protein family HMM TIGR02072 YP_001398652.1 identified by glimmer; putative YP_001398653.1 identified by match to protein family HMM PF03459 YP_001398654.1 catalyzes the formation of tetrahydrofolate and 2-dehydropantoate from 5,10-methylenetetrahydrofolate and 3-methyl-2-oxobutanoate YP_001398655.1 catalyzes the formation of (R)-pantothenate from pantoate and beta-alanine YP_001398656.1 Converts L-aspartate to beta-alanine and provides the major route of beta-alanine production in bacteria. Beta-alanine is essential for the biosynthesis of pantothenate (vitamin B5) YP_001398657.1 identified by match to protein family HMM PF00899 YP_001398658.1 catalyzes the conversion of a phosphate monoester to an alcohol and a phosphate YP_001398660.1 identified by match to protein family HMM PF01555 YP_001398661.1 identified by glimmer; putative YP_001398662.1 identified by glimmer; putative YP_001398663.1 identified by match to protein family HMM PF04851 YP_001398664.1 catalyzes the formation of lipid A disaccharide from UDP-2,3-diacylglucosamine and 2,3-diacylglucosamine-1-phosphate, lipid A disaccharide is a precursor of lipid A that anchors LPS to the OM YP_001398665.1 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_001398667.1 identified by match to protein family HMM PF00072; match to protein family HMM PF01584 YP_001398668.1 identified by match to protein family HMM PF00072; match to protein family HMM PF01584; match to protein family HMM PF01627; match to protein family HMM PF02518; match to protein family HMM PF02895 YP_001398669.1 identified by match to protein family HMM PF01584 YP_001398670.1 identified by match to protein family HMM PF00702; match to protein family HMM TIGR00338; match to protein family HMM TIGR01488 YP_001398671.1 Important for the balance of metabolites in the pentose-phosphate pathway YP_001398673.1 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_001398674.1 in some organisms this protein is a transmembrane protein while in others it is periplasmic; involved in some organisms with other components of the MreBCD complex and with penicillin binding proteins in the periplasm or cell wall YP_001398675.1 functions in MreBCD complex in some organisms YP_001398676.1 binds and unfolds substrates as part of the ClpXP protease YP_001398677.1 catalyzes the addition of (R)-3-hydroxytetradecanoyl to the glucosamine disaccharide in lipid A biosynthesis YP_001398678.1 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_001398679.1 identified by match to protein family HMM PF02677 YP_001398680.1 identified by match to protein family HMM PF00578; match to protein family HMM PF08534 YP_001398681.1 identified by match to protein family HMM PF01361 YP_001398682.1 identified by match to protein family HMM PF01497 YP_001398683.1 identified by match to protein family HMM PF01497 YP_001398684.1 identified by match to protein family HMM PF00950; match to protein family HMM PF01032 YP_001398685.1 identified by match to protein family HMM PF00005 YP_001398686.1 identified by match to protein family HMM PF00127 YP_001398687.1 identified by match to protein family HMM PF08443 YP_001398688.1 catalyzes the transamination of the branched-chain amino acids to their respective alpha-keto acids YP_001398689.1 identified by match to protein family HMM PF01145 YP_001398692.1 identified by glimmer; putative YP_001398693.1 identified by glimmer; putative YP_001398694.1 identified by match to protein family HMM PF00015; match to protein family HMM PF00672; match to protein family HMM PF05581 YP_001398696.1 catalyzes the formation of N-carbamoyl-L-aspartate from (S)-dihydroorotate in pyrimidine biosynthesis YP_001398697.1 identified by glimmer; putative YP_001398698.1 identified by match to protein family HMM PF01219 YP_001398699.1 identified by match to protein family HMM PF00884; match to protein family HMM PF08019 YP_001398700.1 identified by match to protein family HMM PF01385; match to protein family HMM PF07282; match to protein family HMM TIGR01766 YP_001398702.1 identified by match to protein family HMM PF01058; match to protein family HMM PF08425; match to protein family HMM TIGR00391 YP_001398703.1 Catalyzes a key regulatory step in fatty acid biosynthesis YP_001398704.1 Reversibly isomerizes the ketone sugar dihydroxyacetone phosphate to the aldehyde sugar glyceraldehyde-3-phosphate YP_001398705.1 Converts 3-phospho-D-glycerate to 3-phospho-D-glyceroyl phosphate during the glycolysis pathway YP_001398706.1 identified by match to protein family HMM PF00044; match to protein family HMM PF02800; match to protein family HMM TIGR01534 YP_001398707.1 identified by match to protein family HMM PF02410; match to protein family HMM TIGR00090 YP_001398708.1 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_001398709.1 interacts with the cytoplasmic MS ring of the basal body and may act to stabilize the MotAB complexes which surround the MS ring YP_001398710.1 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_001398712.1 identified by match to protein family HMM PF00067 YP_001398713.1 identified by glimmer; putative YP_001398714.1 identified by match to protein family HMM PF05159 YP_001398715.1 identified by match to protein family HMM PF05159 YP_001398716.1 converts ATP and adenylyl sulfate to ADP and 3'-phosphoadenylyl sulfate; in Escherichia coli this enzyme functions in cysteine biosynthesis YP_001398717.1 identified by match to protein family HMM PF00483 YP_001398719.1 identified by match to protein family HMM PF00391 YP_001398720.1 identified by match to protein family HMM PF08241; match to protein family HMM PF08242 YP_001398721.1 identified by match to protein family HMM PF08241 YP_001398722.1 identified by match to protein family HMM PF00483 YP_001398723.1 identified by match to protein family HMM TIGR00441 YP_001398724.1 identified by glimmer; putative YP_001398725.1 identified by match to protein family HMM PF00288; match to protein family HMM PF08544 YP_001398726.1 identified by match to protein family HMM PF01073; match to protein family HMM PF01370; match to protein family HMM PF04321 YP_001398727.1 identified by match to protein family HMM PF01370; match to protein family HMM PF02719; match to protein family HMM PF07993 YP_001398728.1 identified by match to protein family HMM PF01370 YP_001398729.1 identified by match to protein family HMM PF01370 YP_001398731.1 identified by glimmer; putative YP_001398732.1 identified by glimmer; putative YP_001398733.1 identified by match to protein family HMM PF00571; match to protein family HMM PF01380; match to protein family HMM TIGR00393 YP_001398734.1 identified by match to protein family HMM PF02563 YP_001398735.1 identified by match to protein family HMM PF02706 YP_001398736.1 identified by match to protein family HMM PF00005 YP_001398737.1 identified by match to protein family HMM PF01061 YP_001398739.1 identified by glimmer; putative YP_001398740.1 identified by match to protein family HMM PF08761 YP_001398741.1 identified by match to protein family HMM PF04401 YP_001398742.1 identified by match to protein family HMM PF01171; match to protein family HMM TIGR02432 YP_001398743.1 identified by match to protein family HMM PF00919; match to protein family HMM PF04055; match to protein family HMM TIGR00089; match to protein family HMM TIGR01125 YP_001398744.1 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_001398745.1 identified by match to protein family HMM PF01112 YP_001398746.1 catalyzes the modification of U13 in tRNA(Glu) YP_001398747.1 catalyzes the formation of thiamine diphosphate from thiamine phosphate ant ATP YP_001398750.1 identified by match to protein family HMM PF03602 YP_001398752.1 identified by glimmer; putative YP_001398753.1 identified by match to protein family HMM PF08241 YP_001398756.1 identified by match to protein family HMM TIGR01681; match to protein family HMM TIGR01689 YP_001398757.1 identified by match to protein family HMM PF00483 YP_001398761.1 identified by match to protein family HMM PF00702; match to protein family HMM TIGR01509 YP_001398764.1 part of the basal body which consists of four rings L, P, S, and M mounted on a central rod; Vibrio parahaemolyticus, Yersinia, Bradyrhizobium and other bacteria have two copies of this and other flagellar genes; the V. parahaemolyticus protein is associated with the polar flagella and the Bradyrhizobium protein is associated with the thick flagellum YP_001398768.1 with FlgL acts as a hook filament junction protein to join the flagellar filament to the hook YP_001398769.1 identified by match to protein family HMM TIGR02757 YP_001398770.1 identified by match to protein family HMM PF01925 YP_001398771.1 identified by match to protein family HMM PF00482 YP_001398772.1 identified by match to protein family HMM PF00437 YP_001398775.1 identified by match to protein family HMM PF00263; match to protein family HMM PF07655; match to protein family HMM PF07660; match to protein family HMM TIGR02519 YP_001398777.1 identified by match to protein family HMM PF00037; match to protein family HMM PF01558; match to protein family HMM PF01855; match to protein family HMM TIGR02176 YP_001398778.1 identified by match to protein family HMM PF00702; match to protein family HMM TIGR01549 YP_001398779.1 identified by match to protein family HMM PF00691; match to protein family HMM PF01389 YP_001398780.1 forms a direct contact with the tRNA during translation YP_001398781.1 in Escherichia coli this protein is one of the earliest assembly proteins in the large subunit YP_001398782.1 identified by match to protein family HMM PF00580 YP_001398786.1 identified by glimmer; putative YP_001398787.1 identified by match to protein family HMM PF00034; match to protein family HMM TIGR00782 YP_001398788.1 identified by match to protein family HMM TIGR02736 YP_001398789.1 CcoO; FixO YP_001398790.1 CcoN; FixN YP_001398791.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00486 YP_001398793.1 catalyzes production of carbamoyl phosphate from bicarbonate and glutamine in pyrimidine and arginine biosynthesis pathways; forms an octamer composed of four CarAB dimers YP_001398794.1 identified by match to protein family HMM PF04368 YP_001398797.1 catalyzes the formation of N6-(1,2,-dicarboxyethyl)-AMP from L-aspartate, inosine monophosphate and GTP in AMP biosynthesis YP_001398798.1 identified by match to protein family HMM PF04143 YP_001398799.1 identified by match to protein family HMM PF01206 YP_001398800.1 identified by match to protein family HMM PF02384; match to protein family HMM TIGR00497 YP_001398801.1 identified by match to protein family HMM PF01420 YP_001398802.1 identified by match to protein family HMM PF01420 YP_001398803.1 identified by match to protein family HMM PF04313; match to protein family HMM PF04851; match to protein family HMM TIGR00348 YP_001398804.1 identified by match to protein family HMM PF00474; match to protein family HMM TIGR00813; match to protein family HMM TIGR02121 YP_001398805.1 identified by match to protein family HMM PF00171; match to protein family HMM PF01619 YP_001398806.1 identified by match to protein family HMM PF01206 YP_001398807.1 identified by match to protein family HMM PF00015 YP_001398809.1 involved in the production or activity of formate dehydrogenase-H which is active when nitrate is not present during anaerobic growth YP_001398810.1 identified by match to protein family HMM TIGR01583 YP_001398811.1 identified by match to protein family HMM PF00037 YP_001398812.1 identified by match to protein family HMM TIGR01409 YP_001398814.1 identified by match to protein family HMM PF00278; match to protein family HMM TIGR01047 YP_001398815.1 identified by match to protein family HMM PF00394; match to protein family HMM PF07731 YP_001398816.1 identified by match to protein family HMM PF02597 YP_001398817.1 identified by match to protein family HMM PF02391 YP_001398818.1 identified by match to protein family HMM PF00994; match to protein family HMM PF03453; match to protein family HMM PF03454; match to protein family HMM TIGR00177 YP_001398819.1 identified by match to protein family HMM TIGR01573 YP_001398820.1 identified by match to protein family HMM TIGR00287 YP_001398821.1 identified by match to protein family HMM TIGR01865 YP_001398822.1 identified by glimmer; putative YP_001398823.1 catalyzes the formation of 1-(5-phosphoribosyl)-5-aminoimidazole from 2-(formamido)-N1-(5-phosphoribosyl)acetamidine and ATP in purine biosynthesis YP_001398824.1 catalyzes the phosphorylation of the 3'-hydroxyl group of dephosphocoenzyme A to form coenzyme A; involved in coenzyme A biosynthesis YP_001398825.1 involved in lysine biosynthesis; DAP epimerase; produces DL-diaminopimelate from LL-diaminopimelate YP_001398828.1 catalyzes the formation of D-fructose 6-phosphate from D-glucose 6-phosphate YP_001398829.1 identified by match to protein family HMM PF00483; match to protein family HMM TIGR01099 YP_001398830.1 Acs; catalyzes the conversion of acetate and CoA to acetyl-CoA YP_001398831.1 identified by match to protein family HMM PF00005 YP_001398832.1 identified by match to protein family HMM PF00528 YP_001398834.1 identified by glimmer; putative YP_001398835.1 identified by match to protein family HMM PF03746 YP_001398836.1 identified by match to protein family HMM PF02682; match to protein family HMM TIGR00370 YP_001398837.1 identified by match to protein family HMM PF02626; match to protein family HMM TIGR00724 YP_001398838.1 identified by match to protein family HMM PF00892 YP_001398839.1 identified by match to protein family HMM PF02525 YP_001398840.1 identified by match to protein family HMM PF08212 YP_001398841.1 identified by match to protein family HMM PF00107; match to protein family HMM PF08240 YP_001398843.1 identified by glimmer; putative YP_001398844.1 identified by match to protein family HMM PF01420 YP_001398845.1 identified by match to protein family HMM PF02661 YP_001398846.1 identified by match to protein family HMM PF00015; match to protein family HMM PF02743 YP_001398848.1 identified by match to protein family HMM PF00361 YP_001398849.1 identified by match to protein family HMM PF00361; match to protein family HMM TIGR01972 YP_001398850.1 Catalyzes the transfer of electrons from NADH to ubiquinone YP_001398851.1 identified by match to protein family HMM PF00420 YP_001398852.1 Catalyzes the transfer of electrons from NADH to quinone YP_001398853.1 Catalyzes the transfer of electrons from NADH to quinone YP_001398854.1 Catalyzes the transfer of electrons from NADH to quinone YP_001398855.1 Catalyzes the transfer of electrons from NADH to ubiquinone YP_001398856.1 identified by glimmer; putative YP_001398858.1 Catalyzes the transfer of electrons from NADH to quinone YP_001398859.1 Catalyzes the transfer of electrons from NADH to ubiquinone YP_001398860.1 The point of entry for the majority of electrons that traverse the respiratory chain eventually resulting in the reduction of oxygen YP_001398861.1 Catalyzes the transfer of electrons from NADH to ubiquinone YP_001398862.1 identified by match to protein family HMM PF00005 YP_001398863.1 identified by match to protein family HMM PF00005 YP_001398864.1 identified by match to protein family HMM PF00528 YP_001398865.1 identified by match to protein family HMM PF00528 YP_001398866.1 identified by match to protein family HMM PF00496 YP_001398867.1 identified by match to protein family HMM PF00037; match to protein family HMM PF01565; match to protein family HMM PF02913 YP_001398868.1 identified by match to protein family HMM PF00042 YP_001398869.1 efflux pump for the antibacterial peptide microcin J25 YP_001398870.1 identified by glimmer; putative YP_001398871.1 stimulates the activities of the other two initiation factors, IF-2 and IF-3 YP_001398872.1 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_001398873.1 located on the platform of the 30S subunit, it bridges several disparate RNA helices of the 16S rRNA; forms part of the Shine-Dalgarno cleft in the 70S ribosome; interacts with S7 and S18 and IF-3 YP_001398874.1 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_001398875.1 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_001398876.1 is a component of the macrolide binding site in the peptidyl transferase center YP_001398877.1 long form of enzyme; catalyzes the formation of N'-5'-phosphoribosyl-ATP from phosphoribosyl pyrophosphate; crucial role in histidine biosynthesis; forms active dimers and inactive hexamers which is dependent on concentration of substrates and inhibitors YP_001398878.1 catalyzes the oxidation of L-histidinol to L-histidinaldehyde and then to L-histidine in histidine biosynthesis; functions as a dimer YP_001398879.1 catalyzes the formation of 3-(imidazol-4-yl)-2-oxopropyl phosphate from D-ethythro-1-(imidazol-4-yl)glycerol 3-phosphate and histidinol from histidinol phosphate YP_001398880.1 identified by glimmer; putative YP_001398881.1 identified by match to protein family HMM PF01555 YP_001398882.1 with HisF IGPS catalyzes the conversion of phosphoribulosyl-formimino-5-aminoimidazole-4-carboxamide ribonucleotide phosphate and glutamine to imidazole-glycerol phosphate, 5-aminoimidazol-4-carboxamide ribonucleotide, and glutamate in histidine biosynthesis; the HisH subunit provides the glutamine amidotransferase activity that produces the ammonia necessary to HisF for the synthesis of imidazole-glycerol phosphate and 5-aminoimidazol-4-carboxamide ribonucleotide YP_001398883.1 catalyzes the formation of 5-(5-phospho-1-deoxyribulos-1-ylamino)methylideneamino-l- (5-phosphoribosyl)imidazole-4-carboxamide from 1-(5-phosphoribosyl)-5-[(5- phosphoribosylamino)methylideneamino] imidazole-4-carboxamide YP_001398884.1 catalyzes the conversion of 5-[(5-phospho-1-deoxyribulos-1-ylamino)methylideneamino]- 1-(5-phosphoribosyl)imidazole-4-carboxamideand glutamine to imidazole-glycerol phosphate, 5-aminoimidazol-4-carboxamideribonucleotide and glutamate; the HisF subunit acts as a cyclase YP_001398885.1 catalyzes the formation of 1-(5-phosphoribosyl)-AMP from 1-(5-phosphoribosyl)-ATP and the subsequent formation of 1-(5-phosphoribosyl)-5-((5- phosphoribosylamino)methylideneamino)imidazole-4- carboxamide from 1-(5-phosphoribosyl)-AMP in histidine biosynthesis YP_001398887.1 identified by match to protein family HMM PF01883 YP_001398888.1 bifunctional enzyme involved in formation of 4-diphosphocytidyl-2-C-methyl-D-erythritol from CTP and 2-C-methyl-D-erythritol 4-phosphate and 2-C-methyl-D-erythritol 2,4-cyclodiphosphate and CMP from 4-diphosphocytidyl-2-C-methyl-D-erythritol 2-phosphate; involved in isoprenoid and isopentenyl-PP biosynthesis; binds divalent cations YP_001398889.1 identified by match to protein family HMM PF00072 YP_001398891.1 identified by match to protein family HMM PF04608 YP_001398892.1 binds directly to the 16S rRNA and is involved in post-translational inhibition of arginine and ornithine decarboxylase YP_001398893.1 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_001398894.1 identified by match to protein family HMM PF01243 YP_001398895.1 identified by match to protein family HMM PF00593; match to protein family HMM PF07715 YP_001398896.1 identified by match to protein family HMM PF01032 YP_001398897.1 identified by match to protein family HMM PF00005 YP_001398898.1 identified by match to protein family HMM PF01497 YP_001398899.1 identified by match to protein family HMM PF00083; match to protein family HMM PF07690 YP_001398900.1 identified by match to protein family HMM PF00633; match to protein family HMM PF00730; match to protein family HMM TIGR01084 YP_001398903.1 identified by match to protein family HMM PF03313; match to protein family HMM PF03315; match to protein family HMM TIGR00720 YP_001398906.1 identified by match to protein family HMM PF01618; match to protein family HMM TIGR02805 YP_001398907.1 identified by match to protein family HMM PF02472; match to protein family HMM TIGR02804 YP_001398908.1 identified by glimmer; putative YP_001398911.1 catalyzes the formation of chorismate from 5-O-(1-carboxyvinyl)-3-phosphoshikimate in aromatic amino acid biosynthesis YP_001398912.1 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_001398913.1 An endonuclease that specifically degrades the RNA strand of RNA-DNA hybrids YP_001398914.1 identified by match to protein family HMM PF07719 YP_001398915.1 synthesizes RNA primers at the replication forks YP_001398916.1 identified by match to protein family HMM PF01106 YP_001398918.1 involved in cell wall formation; peptidoglycan synthesis; cytoplasmic enzyme; catalyzes the addition of meso-diaminopimelic acid to the nucleotide precursor UDP-N-aceylmuramoyl-l-alanyl-d-glutamate YP_001398919.1 identified by match to protein family HMM PF02575; match to protein family HMM TIGR00103 YP_001398921.1 identified by match to protein family HMM PF00348 YP_001398922.1 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_001398923.1 identified by match to protein family HMM PF02405; match to protein family HMM TIGR00056 YP_001398924.1 identified by match to protein family HMM PF00005 YP_001398925.1 identified by match to protein family HMM PF02470 YP_001398927.1 catalyzes the removal of N-terminal amino acids from peptides and arylamides; generally Co(II) however activity has been shown for some methionine aminopeptidases with Zn, Fe, or Mn YP_001398928.1 converts L-glutamate to D-glutamate, a component of peptidoglycan YP_001398929.1 exports sodium by using the electrochemical proton gradient to allow protons into the cell; functions in adaptation to high salinity and alkaline pH; activity increases at higher pH; downregulated at acidic pH YP_001398930.1 identified by match to protein family HMM PF06965; match to protein family HMM TIGR00773 YP_001398931.1 identified by glimmer; putative YP_001398932.1 identified by match to protein family HMM PF03239 YP_001398934.1 identified by match to protein family HMM PF04945 YP_001398935.1 identified by match to protein family HMM PF02687 YP_001398936.1 identified by match to protein family HMM PF02687 YP_001398937.1 identified by match to protein family HMM PF00005 YP_001398939.1 identified by match to protein family HMM PF00578; match to protein family HMM PF08534 YP_001398940.1 identified by match to protein family HMM PF08534 YP_001398941.1 identified by match to protein family HMM PF04214 YP_001398942.1 identified by glimmer; putative YP_001398943.1 identified by glimmer; putative YP_001398944.1 identified by match to protein family HMM PF05016; match to protein family HMM TIGR02385 YP_001398945.1 identified by glimmer; putative YP_001398948.1 identified by glimmer; putative YP_001398949.1 catalyzes the formation of a phosphodiester at the site of a single-strand break in duplex DNA YP_001398952.1 enolase; catalyzes the formation of phosphoenolpyruvate from 2-phospho-D-glycerate in glycolysis YP_001398953.1 catalyzes the hydrolysis of ATP in the presence of single-stranded DNA, the ATP-dependent uptake of single-stranded DNA by duplex DNA, and the ATP-dependent hybridization of homologous single-stranded DNAs YP_001398954.1 identified by match to protein family HMM PF02642 YP_001398955.1 with proteins FliP and FliR forms the core of the central channel in the flagella export apparatus YP_001398956.1 catalyzes the reduction of UDP-N-acetylglucosamine enolpyruvate to form UDP-N-acetylmuramate in peptidoglycan biosynthesis YP_001398957.1 identified by match to protein family HMM PF07719 YP_001398959.1 identified by match to protein family HMM PF00459 YP_001398960.1 identified by match to protein family HMM PF00285; match to protein family HMM TIGR01798 YP_001398961.1 identified by match to protein family HMM PF00999 YP_001398962.1 catalyzes the formation of biotin from dethiobiotin and sulfur YP_001398963.1 catalyzes the ATP-dependent breakage of single-stranded DNA followed by passage and rejoining, maintains net negative superhelicity YP_001398964.1 identified by match to protein family HMM PF07690 YP_001398965.1 identified by match to protein family HMM PF02129; match to protein family HMM PF08530; match to protein family HMM TIGR00976 YP_001398966.1 identified by match to protein family HMM PF07690 YP_001398967.1 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_001398968.1 late assembly protein YP_001398969.1 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_001398970.1 binds 5S rRNA along with protein L5 and L25 YP_001398971.1 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_001398972.1 binds directly to 16S rRNA central domain where it helps coordinate assembly of the platform of the 30S subunit YP_001398973.1 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_001398974.1 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_001398975.1 assembly initiator protein; binds to 5' end of 23S rRNA and nucleates assembly of the 50S; surrounds polypeptide exit tunnel YP_001398976.1 binds to the 23S rRNA between the centers for peptidyl transferase and GTPase YP_001398977.1 primary binding protein; helps mediate assembly; involved in translation fidelity YP_001398978.1 one of the stabilizing components for the large ribosomal subunit YP_001398979.1 located in the peptidyl transferase center and may be involved in peptidyl transferase activity; similar to archaeal L10e YP_001398980.1 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_001398981.1 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_001398982.1 protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA YP_001398983.1 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_001398984.1 binds third domain of 23S rRNA and protein L29; part of exit tunnel YP_001398985.1 L4 is important during the early stages of 50S assembly; it initially binds near the 5' end of the 23S rRNA YP_001398986.1 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_001398987.1 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_001398988.1 identified by match to protein family HMM PF00849; match to protein family HMM PF01479; match to protein family HMM TIGR00093 YP_001398989.1 identified by match to protein family HMM PF00753; match to protein family HMM PF07521; match to protein family HMM TIGR00649 YP_001398990.1 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_001398992.1 23S rRNA m2A2503 methyltransferase; methylates the C2 position of the A2530 nucleotide in 23S rRNA; may be involved in antibiotic resistance YP_001398993.1 identified by match to protein family HMM PF00583 YP_001398994.1 catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate in leucine biosynthesis; forms a heterodimer of LeuC/D YP_001398995.1 dehydratase component, catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate YP_001398996.1 catalyzes the oxidation of 3-isopropylmalate to 3-carboxy-4-methyl-2-oxopentanoate in leucine biosynthesis YP_001398997.1 catalyzes the formation of 2-isopropylmalate from acetyl-CoA and 2-oxoisovalerate in leucine biosynthesis YP_001398998.1 NADPH-dependent; catalyzes the reduction of 7-cyano-7-deazaguanine to 7-aminomethyl-7-deazaguanine in queuosine biosynthesis YP_001398999.1 identified by match to protein family HMM PF07992 YP_001399000.1 identified by match to protein family HMM PF01206 YP_001399001.1 identified by match to protein family HMM PF04143 YP_001399002.1 identified by match to protein family HMM PF01053; match to protein family HMM TIGR01326 YP_001399003.1 the hook connects flagellar basal body to the flagellar filament YP_001399004.1 endonuclease; resolves Holliday structures; forms a complex of RuvABC; the junction binding protein RuvA forms a hexameric ring along with the RuvB helicase and catalyzes branch migration; RuvC then interacts with RuvAB to resolve the Holliday junction by nicking DNA strands of like polarity