-- dump date 20140619_053349 -- class Genbank::CDS -- table cds_note -- id note YP_001595780.1 identified by match to protein family HMM PF00589 YP_001595782.1 identified by match to protein family HMM PF05660 YP_001595783.1 identified by glimmer; putative YP_001595784.1 identified by glimmer; putative YP_001595785.1 identified by glimmer; putative YP_001595786.1 identified by glimmer; putative YP_001595787.1 identified by match to protein family HMM PF00646 YP_001595788.1 identified by glimmer; putative YP_001595789.1 identified by similarity to SP:P26688 YP_001595790.1 identified by glimmer; putative YP_001595791.1 identified by glimmer; putative YP_001595792.1 identified by glimmer; putative YP_001595793.1 identified by glimmer; putative YP_001595794.1 identified by glimmer; putative YP_001595795.1 identified by glimmer; putative YP_001595796.1 identified by glimmer; putative YP_001595797.1 identified by glimmer; putative YP_001595798.1 identified by glimmer; putative YP_001595799.1 identified by glimmer; putative YP_001595800.1 identified by match to protein family HMM PF01381 YP_001595801.1 identified by match to protein family HMM PF06296 YP_001595802.1 identified by glimmer; putative YP_001595804.1 identified by match to protein family HMM PF02592 YP_001595805.1 identified by glimmer; putative YP_001595806.1 identified by glimmer; putative YP_001595807.1 identified by match to protein family HMM PF00132 YP_001595808.1 identified by match to protein family HMM PF02195; match to protein family HMM TIGR00180 YP_001595809.1 identified by glimmer; putative YP_001595810.1 identified by match to protein family HMM PF01656 YP_001595811.1 identified by match to protein family HMM PF02195; match to protein family HMM TIGR00180 YP_001595812.1 identified by match to protein family HMM PF01051 YP_001595814.1 identified by match to protein family HMM PF01381; match to protein family HMM TIGR02612 YP_001595815.1 identified by glimmer; putative YP_001595816.1 identified by glimmer; putative YP_001595817.1 identified by glimmer; putative YP_001595821.1 identified by glimmer; putative YP_001595822.1 identified by match to protein family HMM PF00877 YP_001595823.1 identified by glimmer; putative YP_001595901.1 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_001595902.1 identified by match to protein family HMM PF00712; match to protein family HMM PF02767; match to protein family HMM PF02768; match to protein family HMM TIGR00663 YP_001595903.1 identified by match to protein family HMM PF02463; match to protein family HMM TIGR00611 YP_001595904.1 identified by glimmer; putative YP_001595905.1 identified by match to protein family HMM PF00204; match to protein family HMM PF00986; match to protein family HMM PF01751; match to protein family HMM PF02518; match to protein family HMM TIGR01059 YP_001595906.1 identified by match to protein family HMM PF01548; match to protein family HMM PF02371 YP_001595907.1 identified by glimmer; putative YP_001595908.1 identified by match to protein family HMM PF02602 YP_001595910.1 identified by match to protein family HMM PF01487; match to protein family HMM TIGR01093 YP_001595911.1 transformation of porphobilinogen to hydroxymethylbilane in porphyrin biosynthesis YP_001595912.1 identified by match to protein family HMM PF01553 YP_001595913.1 identified by glimmer; putative YP_001595915.1 identified by match to protein family HMM PF01817 YP_001595916.1 catalyzes the formation of thymidine 5'-phosphate from thymidine YP_001595917.1 identified by glimmer; putative YP_001595918.1 identified by match to protein family HMM PF07690 YP_001595919.1 identified by match to protein family HMM PF07690 YP_001595920.1 identified by match to protein family HMM PF01925 YP_001595922.1 identified by glimmer; putative YP_001595923.1 identified by glimmer; putative YP_001595924.1 identified by match to protein family HMM PF00083; match to protein family HMM PF07690 YP_001595927.1 unwinds DNA duplexes with 3' to 5' polarity with respect to the bound strand and initiates unwinding most effectively when a single-stranded region is present; involved in the post-incision events of nucleotide excision repair and methyl-directed mismatch repair. YP_001595928.1 identified by glimmer; putative YP_001595929.1 identified by glimmer; putative YP_001595930.1 identified by glimmer; putative YP_001595931.1 identified by glimmer; putative YP_001595932.1 identified by match to protein family HMM PF00579; match to protein family HMM TIGR00233 YP_001595933.1 catalyzes the transfer of a methyl group from 5-methyltetrahydrofolate to homocysteine to form methionine YP_001595934.1 identified by match to protein family HMM PF02219; match to protein family HMM TIGR00676 YP_001595935.1 identified by glimmer; putative YP_001595937.1 identified by glimmer; putative YP_001595939.1 identified by match to protein family HMM PF00529; match to protein family HMM TIGR01843 YP_001595940.1 identified by match to protein family HMM PF00005 YP_001595942.1 identified by glimmer; putative YP_001595943.1 identified by glimmer; putative YP_001595944.1 identified by glimmer; putative YP_001595945.1 identified by glimmer; putative YP_001595946.1 identified by glimmer; putative YP_001595947.1 catalyzes the formation of L-homocysteine from S-adenosyl-L-homocysteine YP_001595948.1 catalyzes the formation of S-adenosylmethionine from methionine and ATP; methionine adenosyltransferase YP_001595949.1 identified by glimmer; putative YP_001595950.1 identified by glimmer; putative YP_001595951.1 identified by glimmer; putative YP_001595952.1 identified by match to protein family HMM PF01053; match to protein family HMM PF01212 YP_001595953.1 identified by match to protein family HMM PF00291 YP_001595954.1 identified by match to protein family HMM PF04380 YP_001595956.1 identified by match to protein family HMM PF00324 YP_001595957.1 identified by glimmer; putative YP_001595958.1 identified by match to protein family HMM PF03109; match to protein family HMM TIGR01982 YP_001595959.1 identified by match to protein family HMM PF06843 YP_001595960.1 identified by match to protein family HMM PF01209; match to protein family HMM PF08241; match to protein family HMM PF08242; match to protein family HMM TIGR01934 YP_001595961.1 identified by glimmer; putative YP_001595963.1 identified by glimmer; putative YP_001595964.1 heat shock protein involved in degradation of misfolded proteins YP_001595965.1 heat shock protein involved in degradation of misfolded proteins YP_001595966.1 identified by glimmer; putative YP_001595967.1 identified by glimmer; putative YP_001595968.1 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_001595969.1 identified by glimmer; putative YP_001595970.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00486 YP_001595971.1 identified by match to protein family HMM PF00512; match to protein family HMM PF00672; match to protein family HMM PF02518 YP_001595972.1 identified by match to protein family HMM PF01075 YP_001595973.1 identified by glimmer; putative YP_001595974.1 identified by match to protein family HMM PF01300; match to protein family HMM TIGR00057 YP_001595975.1 identified by match to protein family HMM PF00731; match to protein family HMM TIGR01162 YP_001595976.1 identified by glimmer; putative YP_001595977.1 catalyzes the ATP-dependent breakage of single-stranded DNA followed by passage and rejoining; maintains net negative superhelicity YP_001595978.1 identified by match to protein family HMM PF04361 YP_001595979.1 identified by match to protein family HMM PF02481; match to protein family HMM TIGR00732 YP_001595980.1 identified by glimmer; putative YP_001595981.1 identified by match to protein family HMM PF00551; match to protein family HMM PF02911; match to protein family HMM TIGR00460 YP_001595982.1 Converts the D-glycero-beta-D-manno-heptose 1,7-bisphosphate intermediate into D-glycero-beta-D-manno-heptose 1-phosphate YP_001595983.1 catalyzes the hydrolysis of acylphosphate YP_001595984.1 identified by glimmer; putative YP_001595985.1 identified by match to protein family HMM PF02677 YP_001595986.1 identified by match to protein family HMM PF00186 YP_001595987.1 hydrolyzes P(1),P(4)-bis(5'-adenosyl) tetraphosphate to form 2 ADP YP_001595988.1 identified by match to protein family HMM PF01343 YP_001595989.1 identified by glimmer; putative YP_001595990.1 identified by glimmer; putative YP_001595991.1 identified by glimmer; putative YP_001595992.1 identified by match to protein family HMM PF00582 YP_001595993.1 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_001595994.1 identified by match to protein family HMM PF04166; match to protein family HMM TIGR00557 YP_001595995.1 identified by match to protein family HMM PF00639; match to protein family HMM PF09312 YP_001595996.1 identified by match to protein family HMM PF04453 YP_001595997.1 identified by match to protein family HMM PF01636 YP_001595998.1 identified by match to protein family HMM PF00483 YP_001595999.1 identified by match to protein family HMM PF02230 YP_001596000.1 identified by glimmer; putative YP_001596001.1 identified by glimmer; putative YP_001596002.1 involved in lysine biosynthesis; DAP epimerase; produces DL-diaminopimelate from LL-diaminopimelate YP_001596003.1 identified by match to protein family HMM PF01258; match to protein family HMM TIGR02420 YP_001596004.1 identified by match to protein family HMM PF02152; match to protein family HMM TIGR00526 YP_001596005.1 identified by match to protein family HMM PF07690; match to protein family HMM TIGR00710 YP_001596006.1 identified by glimmer; putative YP_001596007.1 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_001596008.1 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_001596009.1 identified by match to protein family HMM PF05175; match to protein family HMM TIGR00536; match to protein family HMM TIGR03387 YP_001596010.1 identified by glimmer; putative YP_001596011.1 identified by glimmer; putative YP_001596012.1 identified by match to protein family HMM PF01548; match to protein family HMM PF02371 YP_001596013.1 identified by glimmer; putative YP_001596014.1 identified by glimmer; putative YP_001596015.1 identified by match to protein family HMM TIGR02449 YP_001596016.1 identified by match to protein family HMM PF05164 YP_001596017.1 identified by match to protein family HMM PF01812; match to protein family HMM TIGR02727 YP_001596019.1 identified by match to protein family HMM PF00581 YP_001596020.1 identified by glimmer; putative YP_001596021.1 decatenates newly replicated chromosomal DNA and relaxes positive and negative DNA supercoiling YP_001596022.1 identified by match to protein family HMM PF00534; match to protein family HMM PF04413 YP_001596023.1 identified by match to protein family HMM PF00226 YP_001596024.1 identified by glimmer; putative YP_001596025.1 identified by glimmer; putative YP_001596026.1 identified by glimmer; putative YP_001596027.1 identified by glimmer; putative YP_001596028.1 identified by match to protein family HMM PF02321; match to protein family HMM PF05036; match to protein family HMM TIGR01844 YP_001596029.1 identified by match to protein family HMM PF01040; match to protein family HMM TIGR01474 YP_001596030.1 identified by match to protein family HMM PF04345 YP_001596031.1 identified by match to protein family HMM PF03734 YP_001596032.1 identified by glimmer; putative YP_001596033.1 identified by glimmer; putative YP_001596034.1 identified by glimmer; putative YP_001596035.1 identified by match to protein family HMM PF00529 YP_001596036.1 identified by match to protein family HMM PF00005 YP_001596038.1 identified by glimmer; putative YP_001596039.1 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_001596040.1 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_001596041.1 identified by glimmer; putative YP_001596042.1 identified by match to protein family HMM PF01548; match to protein family HMM PF02371 YP_001596044.1 identified by glimmer; putative YP_001596046.1 identified by match to protein family HMM PF00557; match to protein family HMM PF01321 YP_001596047.1 identified by match to protein family HMM PF01266; match to protein family HMM PF01494; match to protein family HMM TIGR01984; match to protein family HMM TIGR01988 YP_001596048.1 identified by match to protein family HMM PF01494; match to protein family HMM TIGR01988 YP_001596049.1 identified by glimmer; putative YP_001596050.1 identified by glimmer; putative YP_001596051.1 catalyzes the formation of prolyl-tRNA(Pro) from proline and tRNA(Pro) YP_001596053.1 identified by match to protein family HMM PF00884 YP_001596054.1 identified by match to protein family HMM PF08085 YP_001596055.1 identified by match to protein family HMM PF04909 YP_001596056.1 identified by match to protein family HMM PF00884 YP_001596057.1 identified by match to protein family HMM PF06519; match to protein family HMM TIGR02794 YP_001596058.1 identified by match to protein family HMM PF04052; match to protein family HMM PF07676; match to protein family HMM TIGR02800 YP_001596059.1 identified by match to protein family HMM PF00691 YP_001596060.1 identified by match to protein family HMM PF07719; match to protein family HMM TIGR02795 YP_001596061.1 identified by match to protein family HMM PF04055 YP_001596062.1 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 TIGR03346 YP_001596063.1 identified by match to protein family HMM PF01699; match to protein family HMM TIGR00367 YP_001596064.1 identified by match to protein family HMM PF00614 YP_001596066.1 identified by match to protein family HMM PF01066; match to protein family HMM TIGR00473 YP_001596067.1 identified by match to protein family HMM PF01729; match to protein family HMM PF02749; match to protein family HMM TIGR00078 YP_001596068.1 identified by glimmer; putative YP_001596069.1 identified by match to protein family HMM PF00300; match to protein family HMM TIGR00249 YP_001596071.1 identified by match to protein family HMM PF00890; match to protein family HMM PF01266; match to protein family HMM PF02910; match to protein family HMM PF07992; match to protein family HMM TIGR00551 YP_001596072.1 identified by glimmer; putative YP_001596073.1 identified by match to protein family HMM PF01546; match to protein family HMM PF07687 YP_001596074.1 identified by glimmer; putative YP_001596075.1 identified by match to protein family HMM PF00005 YP_001596076.1 identified by match to protein family HMM PF00528 YP_001596077.1 identified by match to protein family HMM PF03180; match to protein family HMM TIGR00363 YP_001596078.1 identified by glimmer; putative YP_001596079.1 catalyzes the formation of 2-amino-3-oxobutanoate from acetyl-CoA and glycine YP_001596080.1 converts threonine and NAD to 1,2-amino-3-oxobutanoate and NADH; functions in threonine catabolism YP_001596081.1 identified by glimmer; putative YP_001596082.1 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_001596083.1 MraZ; UPF0040; crystal structure shows similarity to AbrB YP_001596084.1 identified by match to protein family HMM PF01795; match to protein family HMM TIGR00006 YP_001596085.1 identified by match to protein family HMM PF04999; match to protein family HMM TIGR02209 YP_001596086.1 identified by match to protein family HMM PF00905; match to protein family HMM PF03717 YP_001596087.1 identified by glimmer; putative YP_001596088.1 identified by glimmer; putative YP_001596089.1 identified by glimmer; putative YP_001596090.1 identified by glimmer; putative YP_001596091.1 identified by glimmer; putative YP_001596092.1 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_001596093.1 identified by match to protein family HMM PF01225; match to protein family HMM PF02875; match to protein family HMM PF08245; match to protein family HMM TIGR01143 YP_001596094.1 First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan YP_001596095.1 identified by glimmer; putative YP_001596096.1 identified by glimmer; putative YP_001596097.1 identified by glimmer; putative YP_001596098.1 identified by glimmer; putative YP_001596099.1 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_001596100.1 identified by match to protein family HMM PF01098; match to protein family HMM TIGR02614 YP_001596101.1 identified by glimmer; putative YP_001596102.1 identified by glimmer; putative YP_001596103.1 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_001596104.1 Catalyzes the formation of UDP-N-acetylmuramoyl-L-alanine from UDP-N-acetylmuramate and L-alanine in peptidoglycan synthesis YP_001596105.1 catalyzes the reduction of UDP-N-acetylglucosamine enolpyruvate to form UDP-N-acetylmuramate in peptidoglycan biosynthesis YP_001596106.1 identified by match to protein family HMM PF03799; match to protein family HMM PF08478 YP_001596107.1 identified by match to protein family HMM PF00484 YP_001596108.1 identified by match to protein family HMM PF02491; match to protein family HMM TIGR01174 YP_001596109.1 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_001596110.1 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_001596111.1 identified by glimmer; putative YP_001596112.1 identified by glimmer; putative YP_001596113.1 identified by glimmer; putative YP_001596114.1 identified by glimmer; putative YP_001596115.1 identified by match to protein family HMM PF00023 YP_001596116.1 identified by glimmer; putative YP_001596117.1 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_001596118.1 identified by match to protein family HMM PF00293 YP_001596119.1 identified by match to protein family HMM PF07072 YP_001596120.1 catalyzes the NADPH-dependent reduction of 7-cyano-7-deazaguanine (preQ0) to 7-aminomethyl-7-deazaguanine (preQ1) in queuosine biosynthesis YP_001596121.1 catalyzes the phosphorylation of the 3'-hydroxyl group of dephosphocoenzyme A to form coenzyme A; involved in coenzyme A biosynthesis YP_001596122.1 identified by match to protein family HMM PF01478; match to protein family HMM PF06750 YP_001596123.1 identified by match to protein family HMM PF00482 YP_001596124.1 identified by match to protein family HMM PF00437; match to protein family HMM PF05157 YP_001596125.1 identified by match to protein family HMM PF07963; match to protein family HMM TIGR02532 YP_001596127.1 identified by match to protein family HMM TIGR02563 YP_001596128.1 identified by match to protein family HMM TIGR02566 YP_001596129.1 identified by glimmer; putative YP_001596130.1 Acyl carrier proteins are involved in the biosynthetic pathways of fatty acids, phospholipids, lipopolysaccharides, and oligosaccharides; this ACP may be involved in the biosynthesis of lipopeptide antibiotics YP_001596131.1 identified by similarity to GB:AAO17441.1 YP_001596132.1 identified by glimmer; putative YP_001596133.1 identified by glimmer; putative YP_001596135.1 identified by match to protein family HMM PF00089 YP_001596136.1 identified by match to protein family HMM PF00528; match to protein family HMM PF02790; match to protein family HMM PF04069 YP_001596137.1 identified by match to protein family HMM PF00005 YP_001596138.1 catalyzes hydrolysis of 1,6-anhydro bond of anyhydro-N-acetylmuramic acid (anhMurNAc) and phosphorylates anhMurNAc to produce N-acetyl-muramate-6-phosphate; involved in murein recycling YP_001596139.1 identified by match to protein family HMM PF01476; match to protein family HMM PF01551 YP_001596140.1 catalyzes the formation of tyrosyl-tRNA(Tyr) from tyrosine and tRNA(Tyr) YP_001596141.1 identified by glimmer; putative YP_001596142.1 identified by similarity to GB:CAJ30044.1 YP_001596143.1 crystal structure of protein from Xanthomonas shows pentameric toroidal structure; physiological function is unknown YP_001596144.1 identified by similarity to GB:AAO89742.1; match to protein family HMM PF00961 YP_001596145.1 identified by glimmer; putative YP_001596146.1 identified by glimmer; putative YP_001596148.1 identified by match to protein family HMM PF03313; match to protein family HMM PF03315; match to protein family HMM TIGR00720 YP_001596149.1 identified by match to protein family HMM PF07690 YP_001596150.1 identified by glimmer; putative YP_001596151.1 identified by match to protein family HMM PF04357 YP_001596152.1 identified by match to protein family HMM PF01103 YP_001596153.1 identified by glimmer; putative YP_001596154.1 catalyzes the formation of (R)-4'-phosphopantothenate in coenzyme A biosynthesis YP_001596155.1 identified by match to protein family HMM PF01263 YP_001596156.1 identified by match to protein family HMM PF00023 YP_001596157.1 Charges one glutamine molecule and pairs it to its corresponding RNA trinucleotide during protein translation YP_001596158.1 identified by glimmer; putative YP_001596160.1 identified by glimmer; putative YP_001596161.1 identified by glimmer; putative YP_001596162.1 identified by glimmer; putative YP_001596163.1 identified by match to protein family HMM PF01027 YP_001596164.1 identified by match to protein family HMM PF01654 YP_001596165.1 identified by glimmer; putative YP_001596166.1 identified by match to protein family HMM PF01648; match to protein family HMM TIGR00556 YP_001596167.1 identified by glimmer; putative YP_001596168.1 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_001596169.1 identified by match to protein family HMM PF00584; match to protein family HMM TIGR00964 YP_001596170.1 identified by match to protein family HMM PF00467; match to protein family HMM PF02357; match to protein family HMM TIGR00922 YP_001596171.1 binds directly to 23S ribosomal RNA YP_001596172.1 in Escherichia coli and Methanococcus, this protein autoregulates expression; the binding site in the mRNA mimics the binding site in the 23S rRNA YP_001596173.1 binds the two ribosomal protein L7/L12 dimers and anchors them to the large ribosomal subunit YP_001596174.1 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_001596175.1 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates; beta subunit is part of the catalytic core which binds with a sigma factor to produce the holoenzyme YP_001596176.1 identified by glimmer; putative YP_001596177.1 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Subunit beta' binds to sigma factor allowing it to bind to the -10 region of the promoter YP_001596178.1 identified by glimmer; putative YP_001596179.1 identified by match to protein family HMM PF01548; match to protein family HMM PF02371 YP_001596180.1 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_001596181.1 binds directly to 16S rRNA where it nucleates assembly of the head domain of the 30S subunit YP_001596182.1 EF-G; promotes GTP-dependent translocation of the ribosome during translation; many organisms have multiple copies of this gene YP_001596183.1 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_001596184.1 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_001596185.1 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_001596186.1 L4 is important during the early stages of 50S assembly; it initially binds near the 5' end of the 23S rRNA YP_001596187.1 binds third domain of 23S rRNA and protein L29; part of exit tunnel YP_001596188.1 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_001596189.1 protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA YP_001596190.1 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_001596191.1 identified by match to protein family HMM PF00189; match to protein family HMM PF00417; match to protein family HMM PF07650; match to protein family HMM TIGR01009 YP_001596192.1 located in the peptidyl transferase center and may be involved in peptidyl transferase activity; similar to archaeal L10e YP_001596193.1 one of the stabilizing components for the large ribosomal subunit YP_001596194.1 primary binding protein; helps mediate assembly; involved in translation fidelity YP_001596195.1 binds to the 23S rRNA between the centers for peptidyl transferase and GTPase YP_001596196.1 assembly initiator protein; binds to 5' end of 23S rRNA and nucleates assembly of the 50S; surrounds polypeptide exit tunnel YP_001596197.1 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_001596198.1 identified by match to protein family HMM PF00253 YP_001596199.1 binds directly to 16S rRNA central domain where it helps coordinate assembly of the platform of the 30S subunit YP_001596200.1 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_001596201.1 binds 5S rRNA along with protein L5 and L25 YP_001596202.1 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_001596203.1 L30 binds domain II of the 23S rRNA and the 5S rRNA; similar to eukaryotic protein L7 YP_001596204.1 late assembly protein YP_001596205.1 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_001596206.1 smallest protein in the large subunit; similar to what is found with protein L31 and L33 several bacterial genomes contain paralogs which may be regulated by zinc; the protein from Thermus thermophilus has a zinc-binding motif and contains a bound zinc ion; the proteins in this group have the motif YP_001596207.1 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_001596208.1 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_001596209.1 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_001596210.1 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_001596211.1 is a component of the macrolide binding site in the peptidyl transferase center YP_001596212.1 identified by match to protein family HMM PF07690; match to protein family HMM TIGR01272 YP_001596213.1 identified by glimmer; putative YP_001596214.1 identified by glimmer; putative YP_001596215.1 identified by glimmer; putative YP_001596216.1 identified by glimmer; putative YP_001596217.1 enzyme from Treponema denticola exhibits NADH-dependent trans-2-enoyl-CoA reductase activity YP_001596218.1 identified by match to protein family HMM PF00436; match to protein family HMM TIGR00621 YP_001596219.1 identified by match to protein family HMM PF07690 YP_001596220.1 identified by glimmer; putative YP_001596221.1 identified by glimmer; putative YP_001596222.1 identified by match to protein family HMM PF00005; match to protein family HMM TIGR00630 YP_001596223.1 identified by glimmer; putative YP_001596224.1 catalyzes the formation of coproporphyrinogen from uroporphyrinogen III YP_001596225.1 identified by match to protein family HMM PF00070; match to protein family HMM PF07992 YP_001596226.1 identified by glimmer; putative YP_001596227.1 identified by glimmer; putative YP_001596228.1 identified by match to protein family HMM PF01914; match to protein family HMM TIGR00427 YP_001596229.1 identified by match to protein family HMM PF02274 YP_001596230.1 identified by match to protein family HMM PF00817 YP_001596231.1 identified by match to protein family HMM PF00199 YP_001596233.1 identified by glimmer; putative YP_001596234.1 identified by match to protein family HMM PF05973 YP_001596236.1 identified by match to protein family HMM PF01743; match to protein family HMM TIGR01942 YP_001596237.1 identified by match to protein family HMM PF01288; match to protein family HMM TIGR01498 YP_001596238.1 Catalyzes the conversion of ATP and pantetheine 4'-phosphate to diphosphate and 3'-dephospho-coA YP_001596239.1 identified by match to protein family HMM PF00037 YP_001596240.1 identified by match to protein family HMM PF00471; match to protein family HMM TIGR01023 YP_001596241.1 required for 70S ribosome assembly YP_001596242.1 identified by glimmer; putative YP_001596243.1 catalyzes the formation of dUMP from dUTP YP_001596244.1 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_001596245.1 involved in fifth step of pyrimidine biosynthesis; converts orotidine 5'-phosphate and diphosphate to orotate and 5-phospho-alpha-D-ribose 1-diphosphate YP_001596246.1 identified by match to protein family HMM PF03372; match to protein family HMM TIGR00195; match to protein family HMM TIGR00633 YP_001596247.1 identified by match to protein family HMM PF01177; match to protein family HMM TIGR00067 YP_001596248.1 RNase PH; tRNA nucleotidyltransferase; forms hexamers in Bacillus subtilis; phosphoroltic 3'-5' exoribonuclease; involved in maturation of tRNA precursors and removes terminal nucleotides near CCA acceptor arms of mature tRNAs YP_001596249.1 identified by match to protein family HMM PF03755; match to protein family HMM PF08340; match to protein family HMM TIGR00255 YP_001596250.1 Essential for recycling GMP and indirectly, cGMP YP_001596251.1 identified by match to protein family HMM PF01192; match to protein family HMM TIGR00690 YP_001596252.1 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_001596253.1 identified by match to protein family HMM PF01042; match to protein family HMM TIGR00004 YP_001596254.1 catalyzes branch migration in Holliday junction intermediates YP_001596255.1 identified by glimmer; putative YP_001596256.1 identified by match to protein family HMM PF01389 YP_001596257.1 identified by glimmer; putative YP_001596258.1 identified by glimmer; putative YP_001596259.1 molecular chaperone YP_001596260.1 identified by glimmer; putative YP_001596261.1 identified by similarity to GB:AAM03442.1 YP_001596262.1 catalyzes the formation of 5,10-methenyltetrahydrofolate from 5,10-methylenetetrahydrofolate and subsequent formation of 10-formyltetrahydrofolate from 5,10-methenyltetrahydrofolate YP_001596263.1 identified by match to protein family HMM PF01464; match to protein family HMM PF01476 YP_001596264.1 identified by glimmer; putative YP_001596265.1 identified by match to protein family HMM PF00753; match to protein family HMM TIGR03413 YP_001596266.1 identified by match to protein family HMM PF08241 YP_001596267.1 An endonuclease that specifically degrades the RNA strand of RNA-DNA hybrids YP_001596268.1 identified by match to protein family HMM PF00929; match to protein family HMM TIGR00573; match to protein family HMM TIGR01406 YP_001596269.1 identified by match to protein family HMM PF03734 YP_001596270.1 identified by glimmer; putative YP_001596271.1 identified by match to protein family HMM TIGR03349 YP_001596273.1 identified by match to protein family HMM PF00550 YP_001596274.1 identified by match to protein family HMM PF00501 YP_001596275.1 identified by glimmer; putative YP_001596276.1 catalyzes the formation of N(1)-(5-phospho-D-ribosyl)glycinamide from 5-phospho-D-ribosylamine and glycine in purine biosynthesis YP_001596277.1 identified by glimmer; putative YP_001596278.1 required for the synthesis of the hydromethylpyrimidine moiety of thiamine YP_001596279.1 identified by match to protein family HMM PF01266; match to protein family HMM TIGR02352 YP_001596280.1 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_001596281.1 identified by match to protein family HMM PF02581; match to protein family HMM PF08543; match to protein family HMM TIGR00097; match to protein family HMM TIGR00693 YP_001596282.1 identified by match to protein family HMM PF03767 YP_001596283.1 involved in de novo purine biosynthesis YP_001596284.1 identified by match to protein family HMM PF02954 YP_001596285.1 identified by match to protein family HMM PF01433; match to protein family HMM TIGR02414 YP_001596286.1 identified by glimmer; putative YP_001596287.1 identified by match to protein family HMM PF00365; match to protein family HMM TIGR02482 YP_001596288.1 identified by glimmer; putative YP_001596289.1 identified by glimmer; putative YP_001596290.1 identified by glimmer; putative YP_001596291.1 identified by match to protein family HMM PF01261; match to protein family HMM TIGR02630 YP_001596292.1 identified by match to protein family HMM PF00083; match to protein family HMM PF07690; match to protein family HMM TIGR00879 YP_001596293.1 identified by match to protein family HMM PF00702; match to protein family HMM TIGR01449; match to protein family HMM TIGR01509; match to protein family HMM TIGR01549 YP_001596294.1 Involved in ubiquinone biosynthesis YP_001596295.1 identified by match to protein family HMM PF01627 YP_001596296.1 identified by match to protein family HMM PF01545; match to protein family HMM TIGR01297 YP_001596297.1 SohB; periplasmic protein; member of the peptidase S49 family YP_001596298.1 identified by match to protein family HMM PF00324 YP_001596299.1 identified by glimmer; putative YP_001596300.1 identified by glimmer; putative YP_001596302.1 identified by glimmer; putative YP_001596303.1 identified by match to protein family HMM PF01546; match to protein family HMM PF07687; match to protein family HMM TIGR01891 YP_001596305.1 identified by match to protein family HMM PF00083; match to protein family HMM PF07690 YP_001596306.1 identified by match to protein family HMM PF00512; match to protein family HMM PF02518 YP_001596307.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00486 YP_001596308.1 identified by match to protein family HMM PF07995 YP_001596309.1 identified by glimmer; putative YP_001596310.1 identified by match to protein family HMM PF05433 YP_001596311.1 identified by glimmer; putative YP_001596312.1 identified by glimmer; putative YP_001596313.1 identified by match to protein family HMM PF01575 YP_001596314.1 identified by glimmer; putative YP_001596315.1 identified by glimmer; putative YP_001596316.1 identified by glimmer; putative YP_001596317.1 identified by glimmer; putative YP_001596318.1 identified by glimmer; putative YP_001596320.1 identified by match to protein family HMM PF01471; match to protein family HMM PF01510 YP_001596321.1 identified by glimmer; putative YP_001596322.1 identified by match to protein family HMM PF04229 YP_001596323.1 identified by match to protein family HMM PF00348 YP_001596324.1 identified by match to protein family HMM PF03352; match to protein family HMM TIGR00624 YP_001596325.1 identified by match to protein family HMM PF01548; match to protein family HMM PF02371 YP_001596326.1 identified by glimmer; putative YP_001596327.1 identified by match to protein family HMM PF00829; match to protein family HMM TIGR00061 YP_001596328.1 involved in the peptidyltransferase reaction during translation YP_001596329.1 essential GTPase; exhibits high exchange rate for GTP/GDP; associates with 50S ribosomal subunit; involved in regulation of chromosomal replication YP_001596330.1 identified by glimmer; putative YP_001596331.1 binds directly to the 16S rRNA and is involved in post-translational inhibition of arginine and ornithine decarboxylase YP_001596332.1 identified by glimmer; putative YP_001596333.1 identified by match to protein family HMM PF01554; match to protein family HMM PF03023; match to protein family HMM TIGR01695 YP_001596334.1 identified by match to protein family HMM PF01687; match to protein family HMM PF06574; match to protein family HMM TIGR00083 YP_001596335.1 identified by glimmer; putative YP_001596336.1 identified by glimmer; putative YP_001596337.1 identified by glimmer; putative YP_001596339.1 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_001596340.1 lipoprotein signal peptidase; integral membrane protein that removes signal peptides from prolipoproteins during lipoprotein biosynthesis YP_001596341.1 identified by glimmer; putative YP_001596342.1 identified by glimmer; putative YP_001596343.1 identified by glimmer; putative YP_001596344.1 identified by similarity to SP:P08077 YP_001596345.1 identified by glimmer; putative YP_001596346.1 identified by glimmer; putative YP_001596348.1 identified by match to protein family HMM PF07963; match to protein family HMM TIGR02532 YP_001596349.1 identified by glimmer; putative YP_001596350.1 identified by match to protein family HMM PF00383 YP_001596351.1 identified by match to protein family HMM PF01063 YP_001596352.1 identified by match to protein family HMM PF01522 YP_001596353.1 identified by glimmer; putative YP_001596354.1 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_001596355.1 identified by match to protein family HMM PF02569; match to protein family HMM TIGR00018 YP_001596356.1 catalyzes the formation of tetrahydrofolate and 2-dehydropantoate from 5,10-methylenetetrahydrofolate and 3-methyl-2-oxobutanoate YP_001596357.1 identified by glimmer; putative YP_001596358.1 identified by match to protein family HMM PF00324 YP_001596359.1 identified by match to protein family HMM PF06945 YP_001596360.1 identified by match to protein family HMM PF00472 YP_001596361.1 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_001596362.1 identified by match to protein family HMM PF01571; match to protein family HMM TIGR03317 YP_001596363.1 identified by match to protein family HMM PF07690 YP_001596365.1 identified by glimmer; putative YP_001596366.1 identified by glimmer; putative YP_001596367.1 identified by glimmer; putative YP_001596368.1 identified by glimmer; putative YP_001596369.1 identified by glimmer; putative YP_001596370.1 identified by glimmer; putative YP_001596371.1 identified by match to protein family HMM PF01035; match to protein family HMM TIGR00589 YP_001596372.1 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_001596373.1 methylates guanosine-37 in various tRNAs; uses S-adenosyl-L-methionine to transfer methyl group to tRNA YP_001596374.1 Essential for efficient processing of 16S rRNA YP_001596375.1 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_001596376.1 identified by glimmer; putative YP_001596377.1 identified by match to protein family HMM PF01548; match to protein family HMM PF02371 YP_001596378.1 identified by glimmer; putative YP_001596379.1 identified by glimmer; putative YP_001596380.1 identified by match to protein family HMM PF00023 YP_001596381.1 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_001596382.1 identified by match to protein family HMM PF01578 YP_001596383.1 identified by match to protein family HMM PF00571; match to protein family HMM PF01595; match to protein family HMM PF03471 YP_001596385.1 essential enzyme that recycles AMP in active cells; converts ATP and AMP to two molecules of ADP YP_001596386.1 identified by match to protein family HMM PF00085 YP_001596389.1 identified by match to protein family HMM PF00999 YP_001596391.1 E1 component; part of pyruvate dehydrogenase; forms a complex with DlaT and LpdC YP_001596392.1 identified by match to protein family HMM PF00198; match to protein family HMM PF00364; match to protein family HMM PF02817 YP_001596393.1 identified by match to protein family HMM PF00070; match to protein family HMM PF01134; match to protein family HMM PF02852; match to protein family HMM PF07992; match to protein family HMM TIGR01350 YP_001596395.1 identified by match to protein family HMM PF08241; match to protein family HMM PF08242 YP_001596396.1 catalyzes the bidirectional exonucleolytic cleavage of DNA YP_001596398.1 identified by match to protein family HMM PF00156 YP_001596399.1 identified by glimmer; putative YP_001596401.1 identified by match to protein family HMM PF00270; match to protein family HMM PF00271; match to protein family HMM PF00570; match to protein family HMM TIGR00614; match to protein family HMM TIGR01389 YP_001596402.1 identified by glimmer; putative YP_001596403.1 identified by match to protein family HMM PF00216 YP_001596404.1 identified by glimmer; putative YP_001596405.1 identified by glimmer; putative YP_001596406.1 identified by glimmer; putative YP_001596407.1 identified by glimmer; putative YP_001596408.1 identified by glimmer; putative YP_001596409.1 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_001596410.1 regulates arginine biosynthesis when complexed with arginine by binding at site that overlap the promotors of the arginine biosynthesis genes YP_001596411.1 identified by match to protein family HMM PF00005 YP_001596412.1 identified by match to protein family HMM PF00497 YP_001596413.1 identified by match to protein family HMM PF00528; match to protein family HMM TIGR01726 YP_001596414.1 identified by match to protein family HMM PF00528; match to protein family HMM TIGR01726 YP_001596416.1 identified by match to protein family HMM PF00575; match to protein family HMM TIGR00757 YP_001596417.1 identified by match to protein family HMM PF00849; match to protein family HMM PF01479; match to protein family HMM TIGR00005 YP_001596418.1 identified by match to protein family HMM PF00149 YP_001596419.1 identified by match to protein family HMM PF02253 YP_001596420.1 identified by match to protein family HMM PF02811 YP_001596421.1 some L32 proteins have zinc finger motifs consisting of CXXC while others do not YP_001596422.1 involved in acylation of glycerol-3-phosphate to form 1-acyl-glycerol-3 phosphate for use in phospholipid biosynthesis; functions with PlsY YP_001596423.1 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_001596424.1 identified by match to protein family HMM PF00698; match to protein family HMM TIGR00128 YP_001596425.1 identified by match to protein family HMM PF00106; match to protein family HMM PF01370; match to protein family HMM PF08659; match to protein family HMM TIGR01830 YP_001596426.1 carries the fatty acid chain in fatty acid biosynthesis YP_001596427.1 identified by match to protein family HMM PF00109; match to protein family HMM PF02801; match to protein family HMM TIGR03150 YP_001596428.1 identified by match to protein family HMM PF02618; match to protein family HMM TIGR00247 YP_001596429.1 identified by match to protein family HMM PF02223; match to protein family HMM TIGR00041 YP_001596430.1 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_001596431.1 identified by match to protein family HMM PF01026; match to protein family HMM TIGR00010 YP_001596432.1 identified by glimmer; putative YP_001596433.1 identified by glimmer; putative YP_001596434.1 identified by match to protein family HMM PF01548; match to protein family HMM PF02371 YP_001596435.1 identified by match to protein family HMM PF00120; match to protein family HMM PF03951 YP_001596436.1 identified by match to protein family HMM PF00854; match to protein family HMM PF07690; match to protein family HMM TIGR00924 YP_001596437.1 identified by match to protein family HMM PF00583 YP_001596438.1 identified by match to protein family HMM PF01368; match to protein family HMM PF02272; match to protein family HMM TIGR00644 YP_001596439.1 identified by glimmer; putative YP_001596441.1 identified by glimmer; putative YP_001596442.1 When complexed with L-tryptophan it binds the operator region of the trp operon and prevents the initiation of transcription YP_001596443.1 identified by glimmer; putative YP_001596446.1 identified by match to protein family HMM PF07690 YP_001596447.1 identified by glimmer; putative YP_001596448.1 identified by match to protein family HMM PF00155 YP_001596449.1 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_001596450.1 identified by match to protein family HMM PF09335 YP_001596451.1 identified by match to protein family HMM PF00682 YP_001596452.1 Catalyzes the hydrolytic cleavage of a carbon-halogen bond in N-ethylammeline YP_001596453.1 identified by glimmer; putative YP_001596454.1 identified by glimmer; putative YP_001596455.1 identified by match to protein family HMM PF01548; match to protein family HMM PF02371 YP_001596456.1 identified by match to protein family HMM PF00521; match to protein family HMM PF03989; match to protein family HMM TIGR01063 YP_001596457.1 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_001596458.1 catalyzes the formation of 5-O-(1-carboxyvinyl)-3-phosphoshikimate from phosphoenolpyruvate and 3-phosphoshikimate in tryptophan biosynthesis YP_001596459.1 Catalyzes the formation of (d)CDP from ATP and (d)CMP YP_001596460.1 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_001596461.1 identified by glimmer; putative YP_001596462.1 identified by match to protein family HMM PF00515 YP_001596463.1 type 1 subfamily; involved in last step of pyrimidine biosynthesis; converts orotidine 5'-phosphate to UMP and carbon dioxide; OMP decarboxylase; OMPDCase; OMPdecase YP_001596464.1 identified by match to protein family HMM TIGR00426 YP_001596465.1 identified by glimmer; putative YP_001596466.1 identified by match to protein family HMM PF00953 YP_001596467.1 identified by glimmer; putative YP_001596468.1 identified by match to protein family HMM PF05036; match to protein family HMM PF08238 YP_001596469.1 identified by glimmer; putative YP_001596470.1 identified by match to protein family HMM PF00854; match to protein family HMM PF07690; match to protein family HMM TIGR00924 YP_001596471.1 identified by match to protein family HMM PF02463; match to protein family HMM TIGR02168 YP_001596472.1 identified by match to protein family HMM PF04354; match to protein family HMM TIGR02205 YP_001596473.1 identified by match to protein family HMM PF00533; match to protein family HMM PF01653; match to protein family HMM PF03119; match to protein family HMM PF03120; match to protein family HMM TIGR00575 YP_001596474.1 identified by glimmer; putative YP_001596475.1 identified by glimmer; putative YP_001596476.1 identified by match to protein family HMM PF04011 YP_001596477.1 putative metalloprotease YP_001596478.1 identified by match to protein family HMM PF00515; match to protein family HMM PF07719; match to protein family HMM PF07721; match to protein family HMM PF08241; match to protein family HMM PF08242 YP_001596479.1 identified by match to protein family HMM TIGR02282 YP_001596480.1 identified by match to protein family HMM PF01098; match to protein family HMM TIGR02210 YP_001596481.1 identified by match to protein family HMM PF00905; match to protein family HMM PF03717; match to protein family HMM TIGR03423 YP_001596482.1 identified by match to protein family HMM PF02410; match to protein family HMM TIGR00090 YP_001596483.1 identified by match to protein family HMM PF01548; match to protein family HMM PF02371 YP_001596484.1 identified by glimmer; putative YP_001596485.1 identified by glimmer; putative YP_001596486.1 identified by match to protein family HMM PF01467; match to protein family HMM TIGR00125; match to protein family HMM TIGR00482 YP_001596487.1 identified by match to protein family HMM PF06144; match to protein family HMM TIGR01128 YP_001596489.1 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_001596490.1 identified by glimmer; putative YP_001596491.1 identified by glimmer; putative YP_001596493.1 identified by match to protein family HMM PF00795; match to protein family HMM TIGR00546 YP_001596494.1 identified by match to protein family HMM PF00571; match to protein family HMM PF03471 YP_001596495.1 identified by match to protein family HMM PF07690 YP_001596496.1 identified by match to protein family HMM PF02130; match to protein family HMM TIGR00043 YP_001596497.1 identified by match to protein family HMM PF02562 YP_001596498.1 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_001596499.1 identified by match to protein family HMM PF00324 YP_001596500.1 identified by match to protein family HMM PF00883 YP_001596501.1 functions in fatty acid oxidation; converts acyl-CoA and FAD to FADH2 and delta2-enoyl-CoA YP_001596502.1 identified by glimmer; putative YP_001596503.1 Catalyzes the synthesis of acetoacetyl coenzyme A from two molecules of acetyl coenzyme A. It can also act as a thiolase, catalyzing the reverse reaction and generating two-carbon units from the four-carbon product of fatty acid oxidation YP_001596504.1 identified by match to protein family HMM PF00378; match to protein family HMM PF00725; match to protein family HMM PF02737 YP_001596506.1 identified by match to protein family HMM PF00535 YP_001596509.1 identified by match to protein family HMM PF00037 YP_001596510.1 identified by match to protein family HMM PF01722 YP_001596511.1 identified by match to protein family HMM PF00462; match to protein family HMM TIGR00365 YP_001596512.1 identified by glimmer; putative YP_001596513.1 identified by glimmer; putative YP_001596515.1 identified by match to protein family HMM PF00581 YP_001596516.1 3 different subfamilies; catalyzes the formation of quinolinate from iminoaspartate and dihydroxyacetone phosphate YP_001596518.1 identified by glimmer; putative YP_001596520.1 identified by glimmer; putative YP_001596521.1 identified by match to protein family HMM PF00753 YP_001596522.1 identified by glimmer; putative YP_001596523.1 identified by match to protein family HMM PF04055; match to protein family HMM PF06969; match to protein family HMM TIGR00539 YP_001596524.1 identified by match to protein family HMM PF00459; match to protein family HMM TIGR01331 YP_001596525.1 identified by match to protein family HMM PF01548; match to protein family HMM PF02371 YP_001596526.1 identified by glimmer; putative YP_001596527.1 identified by glimmer; putative YP_001596528.1 identified by glimmer; putative YP_001596529.1 identified by glimmer; putative YP_001596530.1 identified by glimmer; putative YP_001596531.1 identified by glimmer; putative YP_001596532.1 identified by match to protein family HMM PF00288; match to protein family HMM PF00293; match to protein family HMM PF08544; match to protein family HMM TIGR01240; match to protein family HMM TIGR02150 YP_001596533.1 identified by match to protein family HMM PF00288; match to protein family HMM PF08544; match to protein family HMM TIGR00549 YP_001596534.1 identified by match to protein family HMM PF00288; match to protein family HMM TIGR00549 YP_001596535.1 identified by match to protein family HMM PF00368 YP_001596536.1 identified by match to protein family HMM PF01103; match to protein family HMM PF07244; match to protein family HMM TIGR03303 YP_001596537.1 identified by match to protein family HMM PF03938 YP_001596538.1 adds the O-linked and N-linked 3(R)-hydroxy fatty acids to the glucosamine disaccharide during lipid A biosynthesis YP_001596539.1 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_001596540.1 catalyzes the addition of (R)-3-hydroxytetradecanoyl to the glucosamine disaccharide in lipid A biosynthesis YP_001596543.1 identified by match to protein family HMM PF01757 YP_001596544.1 identified by glimmer; putative YP_001596545.1 identified by glimmer; putative YP_001596546.1 identified by match to protein family HMM PF01548; match to protein family HMM PF02371 YP_001596547.1 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_001596548.1 identified by match to protein family HMM PF01408 YP_001596549.1 identified by match to protein family HMM PF00383 YP_001596550.1 identified by glimmer; putative YP_001596551.1 identified by glimmer; putative YP_001596552.1 identified by glimmer; putative YP_001596553.1 identified by glimmer; putative YP_001596554.1 identified by glimmer; putative YP_001596555.1 identified by match to protein family HMM PF00719 YP_001596556.1 proline utilization protein A; multifunctional protein that functions in proline catabolism in the first two enzymatic steps resulting in the conversion of proline to glutamate; in Escherichia coli this protein self regulates transcription via a DNA-binding domain at the N-terminus but the proteins from this group do not and in addition appear to have a truncated C-terminal domain YP_001596557.1 identified by match to protein family HMM PF00254; match to protein family HMM PF01346 YP_001596558.1 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_001596560.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00512; match to protein family HMM PF00989; match to protein family HMM PF02518; match to protein family HMM PF08447; match to protein family HMM PF08448; match to protein family HMM TIGR00229 YP_001596561.1 identified by match to protein family HMM PF00892 YP_001596562.1 identified by glimmer; putative YP_001596563.1 identified by match to protein family HMM PF00198; match to protein family HMM PF00364; match to protein family HMM PF02817 YP_001596564.1 identified by match to protein family HMM PF02779; match to protein family HMM PF02780 YP_001596565.1 identified by match to protein family HMM PF00676; match to protein family HMM TIGR03181 YP_001596566.1 identified by match to protein family HMM PF00208; match to protein family HMM PF02812 YP_001596567.1 identified by match to protein family HMM PF03009 YP_001596568.1 identified by match to protein family HMM PF00383; match to protein family HMM PF01872; match to protein family HMM TIGR00326 YP_001596570.1 identified by match to protein family HMM PF02604; match to protein family HMM TIGR01552 YP_001596571.1 identified by glimmer; putative YP_001596572.1 catalyzes the formation of riboflavin from 6,7-dimethyl-8-(1-D-ribityl)lumazine YP_001596573.1 identified by match to protein family HMM PF00925; match to protein family HMM PF00926; match to protein family HMM TIGR00505; match to protein family HMM TIGR00506 YP_001596574.1 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_001596575.1 identified by match to protein family HMM PF01594 YP_001596576.1 identified by glimmer; putative YP_001596577.1 identified by glimmer; putative YP_001596578.1 identified by glimmer; putative YP_001596579.1 identified by glimmer; putative YP_001596580.1 identified by glimmer; putative YP_001596581.1 identified by glimmer; putative YP_001596582.1 identified by match to protein family HMM PF02575; match to protein family HMM TIGR00103 YP_001596583.1 involved in a recombinational process of DNA repair, independent of the recBC complex YP_001596584.1 identified by glimmer; putative YP_001596585.1 identified by match to protein family HMM PF00004; match to protein family HMM TIGR02397 YP_001596587.1 identified by glimmer; putative YP_001596588.1 identified by match to protein family HMM PF01609 YP_001596589.1 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_001596590.1 catalyzes the formation of N-succinyl-2-amino-6-ketopimelate from succinyl-CoA and tetrahydrodipicolinate in the lysine biosynthetic pathway YP_001596591.1 identified by glimmer; putative YP_001596592.1 identified by glimmer; putative YP_001596593.1 identified by match to protein family HMM PF00270; match to protein family HMM PF00271 YP_001596594.1 identified by match to protein family HMM PF00483; match to protein family HMM PF01050; match to protein family HMM PF07883; match to protein family HMM TIGR01479 YP_001596595.1 identified by match to protein family HMM PF08645; match to protein family HMM TIGR01656; match to protein family HMM TIGR01662 YP_001596597.1 similar to novel fructose-6-phosphate aldolase from Escherichia coli; enzyme from Methanocaldococcus janaschii shows transaldolase activity YP_001596598.1 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 YP_001596599.1 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_001596600.1 identified by match to protein family HMM PF00294; match to protein family HMM PF01467; match to protein family HMM TIGR00125 YP_001596601.1 identified by match to protein family HMM PF01408; match to protein family HMM PF02894 YP_001596602.1 identified by match to protein family HMM PF00984; match to protein family HMM PF03720; match to protein family HMM PF03721 YP_001596603.1 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 YP_001596604.1 identified by match to protein family HMM PF08241; match to protein family HMM PF08242 YP_001596605.1 identified by match to protein family HMM TIGR01444 YP_001596607.1 identified by glimmer; putative YP_001596608.1 identified by match to protein family HMM PF02780 YP_001596610.1 identified by match to protein family HMM PF01370 YP_001596611.1 identified by match to protein family HMM PF01370; match to protein family HMM TIGR01472 YP_001596612.1 identified by match to protein family HMM PF00535 YP_001596613.1 identified by match to protein family HMM PF08421; match to protein family HMM PF08484 YP_001596614.1 identified by match to protein family HMM PF02779; match to protein family HMM PF02780 YP_001596615.1 identified by match to protein family HMM PF00676 YP_001596616.1 identified by match to protein family HMM PF00535 YP_001596617.1 identified by glimmer; putative YP_001596618.1 identified by match to protein family HMM PF01041; match to protein family HMM PF01053; match to protein family HMM PF01212 YP_001596619.1 identified by match to protein family HMM PF01041 YP_001596620.1 identified by glimmer; putative YP_001596621.1 identified by glimmer; putative YP_001596622.1 in Rhizobium meliloti this protein is involved in the synthesis of nodulation factors that are active on the roots of alfalfa; catalyzes formation of activated sulfate intermediate; converts ATP and sulfate to diphosphate and adenylylsulfate and then ATP and adenylyl sulfate to ADP and 3'-phosphoadenylyl sulfate; the activated intermediate is transferred to the nodulation factors by NodH; may interact with NodP and NodQ; similar to the CysD and CysN proteins from Escherichia coli involved in cysteine biosynthesis YP_001596623.1 identified by match to protein family HMM PF00459; match to protein family HMM TIGR01331 YP_001596624.1 identified by match to protein family HMM PF00106 YP_001596625.1 identified by match to protein family HMM PF01061 YP_001596626.1 identified by match to protein family HMM PF00005 YP_001596627.1 identified by glimmer; putative YP_001596629.1 identified by glimmer; putative YP_001596630.1 identified by glimmer; putative YP_001596631.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00196; match to protein family HMM PF08281 YP_001596632.1 identified by match to protein family HMM PF00083; match to protein family HMM PF07690 YP_001596634.1 identified by match to protein family HMM PF07992 YP_001596635.1 identified by glimmer; putative YP_001596636.1 identified by glimmer; putative YP_001596637.1 identified by match to protein family HMM PF00491; match to protein family HMM TIGR01230 YP_001596638.1 transforms a conserved lysine residue of initiation factor 5A into deoxyhypusine YP_001596639.1 identified by match to protein family HMM PF00278; match to protein family HMM PF02784 YP_001596640.1 identified by glimmer; putative YP_001596641.1 identified by match to protein family HMM PF01520 YP_001596642.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00512; match to protein family HMM PF02518; match to protein family HMM PF08447; match to protein family HMM TIGR00229 YP_001596643.1 This protein is involved in the repair of mismatches in DNA. It is required for dam-dependent methyl-directed DNA mismatch repair. Promotes the formation of a stable complex between two or more DNA-binding proteins in an ATP-dependent manner without itself being part of a final effector complex YP_001596644.1 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_001596645.1 identified by glimmer; putative YP_001596646.1 identified by match to protein family HMM PF01548; match to protein family HMM PF02371 YP_001596647.1 identified by glimmer; putative YP_001596648.1 identified by match to protein family HMM PF03734 YP_001596649.1 identified by match to protein family HMM PF06041 YP_001596650.1 identified by match to protein family HMM PF08850 YP_001596651.1 hydrolyzes the terminal non-reducing N-acetyl-D-hexosamine residues in N-acetyl-beta-D-hexosaminides YP_001596652.1 identified by match to protein family HMM PF01548; match to protein family HMM PF02371 YP_001596653.1 identified by glimmer; putative YP_001596654.1 identified by glimmer; putative YP_001596655.1 identified by match to protein family HMM PF00924 YP_001596656.1 Catalyzes the salvage synthesis of inosine-5'-monophosphate (IMP) and guanosine-5'-monophosphate (GMP) from the purine bases hypoxanthine and guanine, respectively YP_001596658.1 identified by match to protein family HMM PF01702; match to protein family HMM TIGR00430; match to protein family HMM TIGR00449 YP_001596659.1 identified by glimmer; putative YP_001596660.1 identified by match to protein family HMM PF07681 YP_001596661.1 identified by match to protein family HMM PF00211 YP_001596662.1 identified by match to protein family HMM PF07695 YP_001596664.1 TtcA; YdaO; catalyzes the thiolation of cytosine 32 in specific tRNAs YP_001596665.1 identified by match to protein family HMM PF02834; match to protein family HMM TIGR02258 YP_001596667.1 identified by glimmer; putative YP_001596668.1 identified by glimmer; putative YP_001596669.1 identified by match to protein family HMM PF02616 YP_001596670.1 identified by match to protein family HMM PF04079; match to protein family HMM TIGR00281 YP_001596671.1 identified by match to protein family HMM PF00849; match to protein family HMM PF01479; match to protein family HMM TIGR00093 YP_001596672.1 identified by match to protein family HMM PF08014; match to protein family HMM TIGR02421 YP_001596673.1 This protein performs the mismatch recognition step during the DNA repair process YP_001596674.1 identified by match to protein family HMM PF02464; match to protein family HMM TIGR00199 YP_001596675.1 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_001596676.1 identified by match to protein family HMM PF02631 YP_001596677.1 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_001596678.1 identified by match to protein family HMM PF00696; match to protein family HMM PF01842; match to protein family HMM TIGR00657 YP_001596679.1 affects carbohydrate metabolism; has regulatory role in many processes YP_001596680.1 identified by glimmer; putative YP_001596681.1 identified by glimmer; putative YP_001596682.1 identified by glimmer; putative YP_001596683.1 identified by glimmer; putative YP_001596684.1 identified by glimmer; putative YP_001596685.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00196 YP_001596686.1 identified by glimmer; putative YP_001596687.1 identified by glimmer; putative YP_001596688.1 identified by match to protein family HMM PF00116; match to protein family HMM PF06481 YP_001596689.1 identified by match to protein family HMM PF00115; match to protein family HMM TIGR02843 YP_001596690.1 identified by match to protein family HMM PF00510; match to protein family HMM TIGR02842 YP_001596691.1 identified by glimmer; putative YP_001596693.1 catalyzes the formation of 5-phospho-alpha-D-ribose 1-diphosphate and nicotinate from nicotinate D-ribonucleotide and diphosphate YP_001596694.1 identified by match to protein family HMM PF01066; match to protein family HMM TIGR00560 YP_001596695.1 identified by glimmer; putative YP_001596696.1 identified by glimmer; putative YP_001596697.1 identified by match to protein family HMM PF00959 YP_001596699.1 identified by match to protein family HMM PF05872 YP_001596700.1 identified by match to protein family HMM PF01909 YP_001596701.1 identified by glimmer; putative YP_001596702.1 identified by glimmer; putative YP_001596703.1 identified by glimmer; putative YP_001596704.1 identified by glimmer; putative YP_001596705.1 identified by glimmer; putative YP_001596706.1 identified by glimmer; putative YP_001596707.1 identified by glimmer; putative YP_001596708.1 identified by match to protein family HMM PF02641 YP_001596709.1 identified by match to protein family HMM PF00202; match to protein family HMM TIGR00508 YP_001596710.1 identified by match to protein family HMM PF04055; match to protein family HMM PF06968; match to protein family HMM TIGR00433 YP_001596711.1 identified by match to protein family HMM PF00155; match to protein family HMM PF00202 YP_001596712.1 identified by match to protein family HMM PF00561 YP_001596713.1 identified by match to protein family HMM PF08241; match to protein family HMM TIGR02072 YP_001596714.1 identified by match to protein family HMM PF02237; match to protein family HMM PF03099; match to protein family HMM PF08279; match to protein family HMM TIGR00121 YP_001596715.1 identified by match to protein family HMM PF02687; match to protein family HMM TIGR02212 YP_001596716.1 identified by match to protein family HMM PF00005; match to protein family HMM TIGR02211 YP_001596717.1 identified by match to protein family HMM PF01926; match to protein family HMM TIGR00231; match to protein family HMM TIGR03156 YP_001596718.1 catalyzes the formation of N6-(1,2,-dicarboxyethyl)-AMP from L-aspartate, inosine monophosphate and GTP in AMP biosynthesis YP_001596720.1 converts protoheme IX and farnesyl diphosphate to heme O YP_001596721.1 identified by match to protein family HMM PF02790 YP_001596722.1 cleaves off formyl group from N-terminal methionine residues of newly synthesized proteins; binds iron(2+) YP_001596723.1 identified by glimmer; putative YP_001596724.1 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_001596725.1 identified by match to protein family HMM PF03330; match to protein family HMM PF05036; match to protein family HMM TIGR00413 YP_001596726.1 identified by match to protein family HMM PF00588; match to protein family HMM PF08032; match to protein family HMM TIGR00186 YP_001596727.1 identified by glimmer; putative YP_001596728.1 identified by match to protein family HMM PF01210; match to protein family HMM PF02153 YP_001596729.1 identified by match to protein family HMM PF00800; match to protein family HMM PF01817; match to protein family HMM TIGR01807 YP_001596730.1 catalyzes the formation of 3-deoxy-D-arabino-hept-2-ulosonate 7 phosphate from phosphoenolpyruvate and D-erythrose 4-phosphate, phenylalanine sensitive YP_001596733.1 identified by glimmer; putative YP_001596734.1 identified by glimmer; putative YP_001596735.1 identified by match to protein family HMM PF00289; match to protein family HMM PF00364; match to protein family HMM PF02222; match to protein family HMM PF02785; match to protein family HMM PF02786; match to protein family HMM PF08443 YP_001596736.1 identified by match to protein family HMM PF00378 YP_001596737.1 identified by match to protein family HMM PF01039 YP_001596738.1 identified by match to protein family HMM PF00108; match to protein family HMM PF02803; match to protein family HMM TIGR01930 YP_001596739.1 identified by match to protein family HMM PF00441; match to protein family HMM PF02770; match to protein family HMM PF02771; match to protein family HMM PF08028 YP_001596741.1 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_001596742.1 identified by glimmer; putative YP_001596743.1 identified by glimmer; putative YP_001596745.1 identified by match to protein family HMM PF08173; match to protein family HMM TIGR02106 YP_001596746.1 identified by match to protein family HMM PF02322; match to protein family HMM TIGR00203 YP_001596747.1 identified by match to protein family HMM PF01654 YP_001596748.1 identified by glimmer; putative YP_001596749.1 identified by glimmer; putative YP_001596750.1 identified by glimmer; putative YP_001596751.1 identified by match to protein family HMM PF00578; match to protein family HMM PF08534 YP_001596752.1 identified by match to protein family HMM PF00106 YP_001596753.1 identified by glimmer; putative YP_001596754.1 identified by match to protein family HMM PF01381; match to protein family HMM PF07883 YP_001596756.1 identified by glimmer; putative YP_001596757.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00196 YP_001596758.1 identified by match to protein family HMM PF00324 YP_001596759.1 identified by glimmer; putative YP_001596761.1 identified by glimmer; putative YP_001596762.1 identified by match to protein family HMM PF05012; match to protein family HMM TIGR01550 YP_001596763.1 identified by glimmer; putative YP_001596764.1 identified by glimmer; putative YP_001596765.1 identified by match to protein family HMM PF00581 YP_001596766.1 identified by glimmer; putative YP_001596767.1 identified by match to protein family HMM PF04362 YP_001596768.1 identified by match to protein family HMM PF00633; match to protein family HMM PF00730; match to protein family HMM TIGR01084 YP_001596769.1 identified by match to protein family HMM PF05170 YP_001596772.1 identified by match to protein family HMM PF00076 YP_001596773.1 identified by match to protein family HMM PF00005 YP_001596774.1 identified by match to protein family HMM PF01061 YP_001596775.1 identified by match to protein family HMM PF00370; match to protein family HMM PF02782; match to protein family HMM TIGR01311 YP_001596776.1 in Escherichia coli this homodimeric enzyme is expressed under aerobic conditions; anaerobic expression is repressed by the arcAB system; converts sn-glycerol-3-phosphate and ubiquinone-8 to dihydroxy acetone phosphate and ubiquinol-8; associates with the cytoplasmic membrane YP_001596777.1 responsible for recognizing base lesions in the genome and initiating base excision DNA repair YP_001596778.1 identified by match to protein family HMM PF00106; match to protein family HMM PF08659 YP_001596779.1 identified by match to protein family HMM PF01243; match to protein family HMM TIGR00558 YP_001596780.1 identified by match to protein family HMM PF03446; match to protein family HMM TIGR01692 YP_001596781.1 identified by match to protein family HMM TIGR02283 YP_001596782.1 identified by match to protein family HMM PF01596 YP_001596783.1 identified by match to protein family HMM PF01594 YP_001596784.1 identified by match to protein family HMM PF07690 YP_001596785.1 identified by match to protein family HMM PF00487 YP_001596786.1 identified by match to protein family HMM PF01734 YP_001596787.1 identified by match to protein family HMM PF03372 YP_001596789.1 identified by glimmer; putative YP_001596790.1 identified by match to protein family HMM PF03061; match to protein family HMM TIGR00369 YP_001596791.1 functions in propionate metabolism; involved in isomerization of (2S,3S)-methylcitrate to (2R,3S)-methylisocitrate; also encodes minor aconitase or dehydratase activity; aconitase C YP_001596792.1 identified by glimmer; putative YP_001596793.1 identified by match to protein family HMM PF01548; match to protein family HMM PF02371 YP_001596794.1 identified by glimmer; putative YP_001596795.1 identified by glimmer; putative YP_001596796.1 identified by glimmer; putative YP_001596797.1 identified by match to protein family HMM PF01300; match to protein family HMM TIGR00057 YP_001596798.1 Involved in cell division; probably involved in intracellular septation YP_001596799.1 identified by match to protein family HMM PF01722; match to protein family HMM PF03795 YP_001596800.1 identified by match to protein family HMM PF07690 YP_001596801.1 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_001596802.1 identified by match to protein family HMM PF01207; match to protein family HMM TIGR00742 YP_001596803.1 identified by glimmer; putative YP_001596804.1 identified by similarity to GB:ABG65421.1 YP_001596805.1 identified by glimmer; putative YP_001596806.1 identified by glimmer; putative YP_001596808.1 identified by match to protein family HMM PF00086 YP_001596809.1 Catalyzes first step of the de novo purine nucleotide biosynthetic pathway YP_001596810.1 identified by match to protein family HMM PF02674 YP_001596811.1 identified by match to protein family HMM PF05036 YP_001596812.1 identified by match to protein family HMM PF08245; match to protein family HMM TIGR01499 YP_001596813.1 identified by match to protein family HMM TIGR00515 YP_001596814.1 mediates pseudouridylation (positions 38, 39, 40) at the tRNA anticodon region which contributes to the structural stability YP_001596815.1 identified by glimmer; putative YP_001596816.1 identified by match to protein family HMM PF00753 YP_001596818.1 identified by match to protein family HMM PF02600 YP_001596819.1 identified by match to protein family HMM PF02441; match to protein family HMM PF04127; match to protein family HMM TIGR00521 YP_001596820.1 identified by glimmer; putative YP_001596821.1 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_001596822.1 identified by glimmer; putative YP_001596823.1 identified by glimmer; putative YP_001596824.1 identified by glimmer; putative YP_001596825.1 identified by glimmer; putative YP_001596826.1 identified by glimmer; putative YP_001596827.1 identified by glimmer; putative YP_001596828.1 identified by glimmer; putative YP_001596829.1 identified by glimmer; putative YP_001596830.1 identified by match to protein family HMM PF00581; match to protein family HMM PF00899; match to protein family HMM PF05237 YP_001596831.1 identified by glimmer; putative YP_001596832.1 identified by match to protein family HMM PF01118; match to protein family HMM PF02774; match to protein family HMM TIGR01296 YP_001596833.1 catalyzes the formation of chorismate from 5-O-(1-carboxyvinyl)-3-phosphoshikimate in aromatic amino acid biosynthesis YP_001596834.1 identified by glimmer; putative YP_001596835.1 identified by match to protein family HMM PF01713 YP_001596836.1 functions in pyrimidine salvage; pyrimidine ribonucleoside kinase; phosphorylates nucleosides or dinucleosides to make UMP or CMP using ATP or GTP as the donor YP_001596837.1 identified by match to protein family HMM PF03937 YP_001596838.1 identified by match to protein family HMM PF00842; match to protein family HMM PF01168; match to protein family HMM TIGR00492 YP_001596839.1 identified by match to protein family HMM PF00772; match to protein family HMM PF03796; match to protein family HMM TIGR00665; match to protein family HMM TIGR01443; match to protein family HMM TIGR01445 YP_001596840.1 in Escherichia coli this protein is wrapped around the base of the L1 stalk YP_001596842.1 binds as a heterodimer with protein S6 to the central domain of the 16S rRNA; helps stabilize the platform of the 30S subunit YP_001596843.1 binds cooperatively with S18 to the S15-16S complex, allowing platform assembly to continue with S11 and S21 YP_001596845.1 identified by glimmer; putative YP_001596846.1 identified by glimmer; putative YP_001596847.1 identified by match to protein family HMM PF04430 YP_001596848.1 identified by match to protein family HMM PF00795; match to protein family HMM PF02540; match to protein family HMM TIGR00552 YP_001596849.1 transfers the gamma-phosphate of ATP to the 4' position of a tetraacyldisaccharide 1-phosphate intermediate to form tetraacyldisaccharide 1,4'-bis-phosphate YP_001596850.1 identified by match to protein family HMM PF00005; match to protein family HMM PF00664; match to protein family HMM TIGR02203 YP_001596851.1 catalyzes the formation of methylglyoxal from glycerone phosphate YP_001596852.1 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_001596853.1 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_001596855.1 identified by match to protein family HMM PF00483; match to protein family HMM TIGR01099 YP_001596856.1 identified by match to protein family HMM PF00342 YP_001596857.1 identified by match to protein family HMM PF00106; match to protein family HMM PF08659 YP_001596858.1 identified by match to protein family HMM PF00984; match to protein family HMM PF03720; match to protein family HMM PF03721; match to protein family HMM TIGR03026 YP_001596859.1 identified by match to protein family HMM PF00984; match to protein family HMM PF03720; match to protein family HMM PF03721; match to protein family HMM TIGR03026 YP_001596860.1 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 PF04321; match to protein family HMM PF07993 YP_001596861.1 identified by match to protein family HMM PF00534 YP_001596862.1 identified by match to protein family HMM PF02350; match to protein family HMM TIGR00236 YP_001596863.1 identified by match to protein family HMM PF00534 YP_001596864.1 identified by match to protein family HMM PF00310; match to protein family HMM PF00733; match to protein family HMM TIGR01536 YP_001596865.1 identified by match to protein family HMM PF00534 YP_001596866.1 identified by match to protein family HMM PF00534 YP_001596868.1 identified by match to protein family HMM PF04055 YP_001596869.1 identified by glimmer; putative YP_001596870.1 identified by match to protein family HMM PF08241; match to protein family HMM PF08242 YP_001596871.1 identified by match to protein family HMM PF00005 YP_001596873.1 identified by match to protein family HMM PF00310; match to protein family HMM PF00733; match to protein family HMM TIGR01536 YP_001596874.1 identified by match to protein family HMM PF01041 YP_001596875.1 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_001596876.1 identified by match to protein family HMM PF00132; match to protein family HMM PF01408; match to protein family HMM PF02894 YP_001596878.1 identified by match to protein family HMM PF02357; match to protein family HMM TIGR01955 YP_001596879.1 identified by match to protein family HMM PF00266; match to protein family HMM PF01041; match to protein family HMM PF01053; match to protein family HMM PF01212 YP_001596880.1 Catalyzes two discrete reactions in the de novo synthesis of purines: the cleavage of adenylosuccinate and succinylaminoimidazole carboxamide ribotide YP_001596881.1 malic enzyme; oxaloacetate-decarboxylating; NAD-dependent; catalyzes the formation of pyruvate form malate YP_001596882.1 identified by match to protein family HMM PF02661 YP_001596883.1 identified by glimmer; putative YP_001596884.1 identified by match to protein family HMM PF00043; match to protein family HMM PF02798 YP_001596885.1 identified by match to protein family HMM PF00440 YP_001596887.1 identified by glimmer; putative YP_001596888.1 identified by glimmer; putative YP_001596889.1 identified by match to protein family HMM PF01554; match to protein family HMM TIGR00797 YP_001596890.1 stimulates the release of release factors 1 and 2 from the ribosome after hydrolysis of the ester bond in peptidyl-tRNA has occurred; GDP/GTP-binding protein YP_001596891.1 identified by match to protein family HMM PF03739 YP_001596892.1 identified by match to protein family HMM PF03739 YP_001596893.1 identified by match to protein family HMM PF00133; match to protein family HMM PF08264; match to protein family HMM PF09334; match to protein family HMM TIGR00422 YP_001596894.1 identified by match to protein family HMM PF00144 YP_001596895.1 identified by match to protein family HMM PF00873 YP_001596896.1 identified by match to protein family HMM PF00364; match to protein family HMM PF00529; match to protein family HMM TIGR01730 YP_001596897.1 identified by glimmer; putative YP_001596898.1 identified by match to protein family HMM PF00583; match to protein family HMM TIGR01575 YP_001596899.1 identified by glimmer; putative YP_001596900.1 identified by match to protein family HMM PF00529 YP_001596901.1 identified by match to protein family HMM PF07690; match to protein family HMM TIGR00711 YP_001596902.1 identified by match to protein family HMM PF01230 YP_001596903.1 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_001596906.1 identified by match to protein family HMM PF07690 YP_001596908.1 identified by glimmer; putative YP_001596909.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00512; match to protein family HMM PF02518; match to protein family HMM PF08448; match to protein family HMM TIGR00229 YP_001596910.1 identified by match to protein family HMM PF00106; match to protein family HMM PF00109; match to protein family HMM PF00550; match to protein family HMM PF00698; match to protein family HMM PF02801; match to protein family HMM PF08659 YP_001596911.1 identified by match to protein family HMM PF00501; match to protein family HMM TIGR01733 YP_001596912.1 identified by match to protein family HMM PF02515 YP_001596913.1 identified by glimmer; putative YP_001596915.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00196 YP_001596916.1 identified by glimmer; putative YP_001596918.1 identified by match to protein family HMM PF00005 YP_001596919.1 identified by match to protein family HMM PF00392 YP_001596920.1 identified by match to protein family HMM PF04024 YP_001596921.1 identified by match to protein family HMM PF00903 YP_001596922.1 identified by match to protein family HMM PF00285; match to protein family HMM TIGR01800 YP_001596923.1 catalyzes the formation of pyruvate and succinate from 2-methylisocitrate YP_001596924.1 identified by match to protein family HMM PF00117 YP_001596925.1 identified by glimmer; putative YP_001596926.1 AcsA; in Sinorhizobium meliloti this enzyme is required for acetoacetate activation; similar to acetyl-CoA synthase YP_001596927.1 identified by glimmer; putative YP_001596928.1 identified by glimmer; putative YP_001596929.1 identified by glimmer; putative YP_001596930.1 identified by match to protein family HMM PF00072 YP_001596931.1 identified by match to protein family HMM TIGR03302 YP_001596932.1 identified by match to protein family HMM PF00849; match to protein family HMM PF01479; match to protein family HMM TIGR00005 YP_001596933.1 identified by match to protein family HMM PF02578; match to protein family HMM TIGR00726 YP_001596934.1 identified by match to protein family HMM PF00089; match to protein family HMM PF00595; match to protein family HMM TIGR02037 YP_001596935.1 identified by match to protein family HMM PF00873 YP_001596936.1 identified by glimmer; putative YP_001596937.1 identified by glimmer; putative YP_001596938.1 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_001596939.1 identified by match to protein family HMM PF00571; match to protein family HMM PF01380; match to protein family HMM TIGR00393 YP_001596940.1 identified by match to protein family HMM TIGR01662; match to protein family HMM TIGR01670 YP_001596941.1 identified by match to protein family HMM PF06835 YP_001596942.1 identified by match to protein family HMM PF03968; match to protein family HMM TIGR03002 YP_001596943.1 identified by match to protein family HMM PF00005 YP_001596944.1 identified by match to protein family HMM PF02482; match to protein family HMM TIGR00741 YP_001596945.1 catalyzes the phosphorylation of the phosphocarrier protein HPr of the bacterial phosphotransferase system YP_001596946.1 identified by match to protein family HMM PF00381; match to protein family HMM TIGR01003 YP_001596947.1 identified by match to protein family HMM PF01523 YP_001596948.1 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_001596949.1 binds and unfolds substrates as part of the ClpXP protease YP_001596950.1 hydrolyzes proteins to small peptides; with the ATPase subunits ClpA or ClpX, ClpP degrades specific substrates YP_001596951.1 Tig; RopA; peptidyl-prolyl cis/trans isomerase; promotes folding of newly synthesized proteins; binds ribosomal 50S subunit; forms a homodimer YP_001596952.1 identified by glimmer; putative YP_001596953.1 identified by match to protein family HMM PF01048 YP_001596954.1 identified by glimmer; putative YP_001596955.1 identified by glimmer; putative YP_001596956.1 identified by glimmer; putative YP_001596957.1 identified by glimmer; putative YP_001596959.1 identified by match to protein family HMM PF02470 YP_001596960.1 identified by match to protein family HMM PF00005 YP_001596961.1 identified by match to protein family HMM PF02405; match to protein family HMM TIGR00056 YP_001596962.1 identified by glimmer; putative YP_001596963.1 identified by match to protein family HMM PF02367; match to protein family HMM TIGR00150 YP_001596964.1 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_001596965.1 identified by match to protein family HMM PF01548; match to protein family HMM PF02371 YP_001596966.1 identified by glimmer; putative YP_001596967.1 identified by match to protein family HMM PF00575; match to protein family HMM PF00773; match to protein family HMM PF08206; match to protein family HMM TIGR00358; match to protein family HMM TIGR02063 YP_001596969.1 identified by match to protein family HMM PF00873 YP_001596970.1 identified by glimmer; putative YP_001596971.1 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_001596972.1 identified by glimmer; putative YP_001596973.1 identified by match to protein family HMM PF00717; match to protein family HMM TIGR02227 YP_001596974.1 identified by glimmer; putative YP_001596975.1 identified by glimmer; putative YP_001596976.1 identified by glimmer; putative YP_001596977.1 identified by glimmer; putative YP_001596978.1 identified by glimmer; putative YP_001596979.1 identified by glimmer; putative YP_001596980.1 identified by glimmer; putative YP_001596981.1 identified by glimmer; putative YP_001596982.1 identified by glimmer; putative YP_001596983.1 identified by match to protein family HMM PF01541 YP_001596984.1 identified by glimmer; putative YP_001596985.1 identified by match to protein family HMM PF01548; match to protein family HMM PF02371 YP_001596986.1 identified by glimmer; putative YP_001596987.1 identified by match to protein family HMM PF01262; match to protein family HMM PF05222; match to protein family HMM TIGR00518 YP_001596988.1 identified by match to protein family HMM PF00766; match to protein family HMM PF01012 YP_001596989.1 identified by match to protein family HMM PF01012 YP_001596990.1 identified by match to protein family HMM PF01738 YP_001596991.1 identified by match to protein family HMM PF01266; match to protein family HMM PF05187 YP_001596992.1 identified by glimmer; putative YP_001596993.1 identified by glimmer; putative YP_001596994.1 identified by match to protein family HMM PF03734 YP_001596995.1 identified by glimmer; putative YP_001596996.1 identified by match to protein family HMM PF00226; match to protein family HMM PF01556 YP_001596999.1 identified by glimmer; putative YP_001597000.1 identified by match to protein family HMM PF01592 YP_001597001.1 identified by match to protein family HMM PF00266; match to protein family HMM PF01212 YP_001597002.1 identified by match to protein family HMM PF03169; match to protein family HMM TIGR00728; match to protein family HMM TIGR00733 YP_001597003.1 identified by match to protein family HMM PF00588; match to protein family HMM TIGR00050 YP_001597004.1 identified by match to protein family HMM PF00459 YP_001597005.1 identified by glimmer; putative YP_001597006.1 identified by glimmer; putative YP_001597007.1 identified by match to protein family HMM PF08238 YP_001597009.1 identified by match to protein family HMM PF03734 YP_001597010.1 identified by glimmer; putative YP_001597011.1 identified by glimmer; putative YP_001597012.1 identified by glimmer; putative YP_001597013.1 identified by glimmer; putative YP_001597014.1 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_001597015.1 identified by match to protein family HMM PF02355; match to protein family HMM PF07549; match to protein family HMM TIGR00916; match to protein family HMM TIGR01129 YP_001597016.1 identified by match to protein family HMM PF02699; match to protein family HMM TIGR00739 YP_001597017.1 identified by glimmer; putative YP_001597018.1 identified by glimmer; putative YP_001597019.1 identified by match to protein family HMM PF01548; match to protein family HMM PF02371 YP_001597020.1 identified by glimmer; putative YP_001597021.1 catalyzes a sulfuration reaction to synthesize 2-thiouridine at the U34 position of tRNAs YP_001597022.1 identified by match to protein family HMM PF00270; match to protein family HMM PF00271; match to protein family HMM PF02559; match to protein family HMM PF03461; match to protein family HMM PF04851; match to protein family HMM TIGR00580 YP_001597023.1 identified by glimmer; putative YP_001597024.1 identified by match to protein family HMM PF00702 YP_001597025.2 catalyzes the formation of 1-(2-carboxyphenylamino)-1-deoxy-D-ribulose 5-phosphate from N-(5-phospho-beta-D-ribosyl)-anthranilate; catalyzes the formation of L-tryptophan from L-serine and 1-(indol-3-yl)glycerol 3-phosphate YP_001597026.1 catalyzes the formation of indole and glyceraldehyde 3-phosphate from indoleglycerol phosphate in tryptophan biosynthesis YP_001597028.1 identified by match to protein family HMM PF01222 YP_001597029.1 identified by match to protein family HMM PF00515; match to protein family HMM PF07719 YP_001597030.1 identified by match to protein family HMM PF07690 YP_001597031.1 identified by glimmer; putative YP_001597032.1 identified by glimmer; putative YP_001597034.1 identified by match to protein family HMM PF00069 YP_001597035.1 identified by match to protein family HMM PF00011 YP_001597036.1 identified by match to protein family HMM PF04070 YP_001597037.1 identified by match to protein family HMM PF01894; match to protein family HMM TIGR00149 YP_001597038.1 identified by glimmer; putative YP_001597039.1 identified by glimmer; putative YP_001597040.1 identified by glimmer; putative YP_001597041.1 identified by match to protein family HMM PF07690; match to protein family HMM TIGR00710 YP_001597042.1 Required for the synthesis of the thiazole moiety YP_001597043.1 identified by match to protein family HMM PF00266 YP_001597044.1 identified by match to protein family HMM PF00076 YP_001597045.1 identified by match to protein family HMM PF01553 YP_001597046.1 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_001597047.1 identified by glimmer; putative YP_001597048.1 identified by match to protein family HMM PF01548; match to protein family HMM PF02371 YP_001597049.1 identified by glimmer; putative YP_001597051.1 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_001597052.1 identified by match to protein family HMM PF00004 YP_001597053.1 identified by match to protein family HMM PF03548; match to protein family HMM TIGR00547 YP_001597054.1 identified by match to protein family HMM PF01580 YP_001597055.1 identified by match to protein family HMM PF00070; match to protein family HMM PF07992; match to protein family HMM TIGR01292 YP_001597056.1 identified by glimmer; putative YP_001597057.1 stimulates the activities of the other two initiation factors, IF-2 and IF-3 YP_001597058.1 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_001597059.1 identified by glimmer; putative YP_001597060.1 identified by match to protein family HMM PF00180; match to protein family HMM TIGR00183 YP_001597061.1 Synthesizes oQ from preQ1 in a single S-adenosylmethionine-requiring step YP_001597063.1 identified by match to protein family HMM PF01645 YP_001597064.1 identified by match to protein family HMM PF01222 YP_001597065.1 identified by glimmer; putative YP_001597066.1 identified by match to protein family HMM PF07690 YP_001597067.1 identified by glimmer; putative YP_001597068.1 identified by match to protein family HMM PF01548; match to protein family HMM PF02371 YP_001597069.1 identified by glimmer; putative YP_001597070.1 identified by glimmer; putative YP_001597071.1 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_001597073.1 catalyzes the formation of dihydrodipicolinate from L-aspartate 4-semialdehyde and pyruvate in lysine and diaminopimelate biosynthesis YP_001597074.1 identified by match to protein family HMM PF00294 YP_001597075.1 identified by match to protein family HMM PF02646 YP_001597077.1 catalyzes the cleavage of carbon-halogen bonds in aliphatic compounds forming a primary alcohol and a halide YP_001597078.1 identified by match to protein family HMM PF05088 YP_001597079.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00486 YP_001597080.1 identified by match to protein family HMM PF00512; match to protein family HMM PF02518 YP_001597082.1 identified by match to protein family HMM PF00580 YP_001597083.1 identified by glimmer; putative YP_001597084.1 identified by match to protein family HMM PF06189 YP_001597086.1 3'-5' exoribonuclease specific for small oligoribonuclotides YP_001597087.1 identified by match to protein family HMM PF01850 YP_001597088.1 identified by match to protein family HMM PF01402 YP_001597089.1 identified by match to protein family HMM PF02660; match to protein family HMM TIGR00023 YP_001597090.1 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_001597091.1 catalyzes the oxidation of malate to oxaloacetate YP_001597092.1 identified by match to protein family HMM PF03349 YP_001597093.1 identified by match to protein family HMM PF01336; match to protein family HMM PF02601; match to protein family HMM TIGR00237 YP_001597094.1 identified by match to protein family HMM PF01548; match to protein family HMM PF02371 YP_001597095.1 identified by glimmer; putative YP_001597096.1 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_001597097.1 identified by glimmer; putative YP_001597099.1 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_001597101.1 identified by glimmer; putative YP_001597102.1 identified by match to protein family HMM PF04055; match to protein family HMM TIGR00048 YP_001597103.1 identified by glimmer; putative YP_001597104.1 identified by match to protein family HMM PF00023 YP_001597105.1 identified by match to protein family HMM PF00348 YP_001597106.1 identified by glimmer; putative YP_001597108.1 catalyzes the formation of nucleoside triphosphate from ATP and nucleoside diphosphate YP_001597109.1 identified by match to protein family HMM PF00999; match to protein family HMM TIGR00831 YP_001597110.1 identified by match to protein family HMM PF01548; match to protein family HMM PF02371 YP_001597111.1 identified by glimmer; putative YP_001597112.1 identified by match to protein family HMM PF01389 YP_001597113.1 identified by match to protein family HMM PF00768; match to protein family HMM PF07943 YP_001597114.1 identified by match to protein family HMM PF04359 YP_001597115.1 identified by glimmer; putative YP_001597116.1 identified by glimmer; putative YP_001597117.1 lipoyl/octanoyltransferase; catalyzes the transfer of the lipoyl/octanoyl moiety of lipoyl/octanoyl-ACP onto lipoate-dependent enzymes like pyruvate dehydrogenase and the glycine cleavage system H protein YP_001597118.1 catalyzes the radical-mediated insertion of two sulfur atoms into an acyl carrier protein (ACP) bound to an octanoyl group to produce a lipoyl group YP_001597119.1 identified by match to protein family HMM PF01569; match to protein family HMM PF09335 YP_001597120.1 identified by match to protein family HMM PF07992 YP_001597121.1 identified by match to protein family HMM PF03061 YP_001597122.1 identified by glimmer; putative YP_001597123.1 identified by glimmer; putative YP_001597124.1 identified by match to protein family HMM PF01548; match to protein family HMM PF02371 YP_001597125.1 identified by glimmer; putative YP_001597126.1 catalyzes the formation of D-fructose 1,6-bisphosphate from D-fructose 6-phosphate in glycolysis YP_001597127.1 identified by glimmer; putative YP_001597128.1 identified by match to protein family HMM PF01188; match to protein family HMM PF02746 YP_001597129.1 identified by match to protein family HMM PF00106 YP_001597130.1 identified by match to protein family HMM PF01081; match to protein family HMM TIGR01182 YP_001597131.1 identified by match to protein family HMM PF00578; match to protein family HMM PF08534 YP_001597132.1 identified by match to protein family HMM PF06055 YP_001597133.1 identified by match to protein family HMM PF01272; match to protein family HMM PF03449; match to protein family HMM TIGR01462 YP_001597134.1 identified by match to protein family HMM PF00289; match to protein family HMM PF02142; match to protein family HMM PF02655; match to protein family HMM PF02786; match to protein family HMM PF02787; match to protein family HMM PF08443; match to protein family HMM TIGR01369 YP_001597135.1 catalyzes production of carbamoyl phosphate from bicarbonate and glutamine in pyrimidine and arginine biosynthesis pathways; forms an octamer composed of four CarAB dimers YP_001597137.1 identified by match to protein family HMM PF07690 YP_001597139.1 identified by glimmer; putative YP_001597140.1 identified by glimmer; putative YP_001597141.1 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_001597142.1 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_001597143.1 identified by match to protein family HMM PF00364 YP_001597144.1 identified by match to protein family HMM PF00023 YP_001597145.1 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_001597146.1 identified by match to protein family HMM PF01850 YP_001597147.1 identified by glimmer; putative YP_001597148.1 catalyzes the phosphorylation of NAD to NADP YP_001597149.1 identified by match to protein family HMM PF02463; match to protein family HMM TIGR00634 YP_001597150.1 identified by glimmer; putative YP_001597151.1 identified by glimmer; putative YP_001597152.1 identified by match to protein family HMM PF01475 YP_001597153.1 identified by match to protein family HMM PF03658 YP_001597154.1 identified by match to protein family HMM PF03364 YP_001597155.1 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_001597156.1 this fusion consists of methionine sulfoxide B reductase at the N-terminus and A at the C-terminus; A and B are stereospecific enzymes that recognize the damaged produces of oxidative stress, S and R epimers of methionine sulfoxide, respectively; a fusion protein of these enzymes with thioredoxin provides protection against oxidative stress in Neisseria gonorrhoeae YP_001597158.1 identified by match to protein family HMM PF01966 YP_001597159.1 identified by glimmer; putative YP_001597160.1 identified by glimmer; putative YP_001597161.1 identified by glimmer; putative YP_001597162.1 identified by glimmer; putative YP_001597163.1 identified by glimmer; putative YP_001597166.1 identified by glimmer; putative YP_001597167.1 identified by glimmer; putative YP_001597168.1 identified by match to protein family HMM PF00376 YP_001597169.1 This protein is one of the two subunits of integration host factor, a specific DNA-binding protein that functions in genetic recombination as well as in transcriptional and translational control YP_001597170.1 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_001597171.1 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_001597172.1 binds directly to 23S ribosomal RNA prior to in vitro assembly of the 50S ribosomal subunit YP_001597173.1 identified by match to protein family HMM PF01632; match to protein family HMM TIGR00001 YP_001597174.1 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_001597175.1 catalyzes a two-step reaction, first charging a threonine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; catalyzes the formation of threonyl-tRNA(Thr) from threonine and tRNA(Thr) YP_001597176.1 identified by match to protein family HMM PF04055 YP_001597177.1 identified by glimmer; putative YP_001597178.1 identified by glimmer; putative YP_001597179.1 identified by match to protein family HMM PF01925 YP_001597181.1 identified by glimmer; putative YP_001597182.1 identified by match to protein family HMM PF01336; match to protein family HMM PF02811; match to protein family HMM PF07733; match to protein family HMM TIGR00594 YP_001597183.1 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_001597184.1 identified by glimmer; putative YP_001597185.1 RNH2; RNase HII; binds manganese; endonuclease which specifically degrades the RNA of RNA-DNA hybrids YP_001597186.1 contains glutamine-hydrolyzing domain and glutamine amidotransferase; GMP-binding domain; functions to produce GMP from XMP in the IMP pathway YP_001597187.1 identified by match to protein family HMM PF00478; match to protein family HMM PF00571; match to protein family HMM TIGR01302 YP_001597188.1 identified by glimmer; putative YP_001597189.1 identified by match to protein family HMM PF00324 YP_001597190.1 identified by glimmer; putative YP_001597191.1 catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate YP_001597192.1 identified by match to protein family HMM PF00809; match to protein family HMM TIGR01496 YP_001597193.1 identified by glimmer; putative YP_001597194.1 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_001597195.1 identified by match to protein family HMM PF01728 YP_001597196.1 identified by match to protein family HMM PF01883; match to protein family HMM TIGR03406 YP_001597197.1 identified by match to protein family HMM PF01521; match to protein family HMM TIGR00049; match to protein family HMM TIGR01997 YP_001597198.1 identified by match to protein family HMM PF01592; match to protein family HMM TIGR01994 YP_001597199.1 identified by match to protein family HMM PF00266; match to protein family HMM TIGR01979 YP_001597200.1 identified by match to protein family HMM PF01458; match to protein family HMM TIGR01981 YP_001597201.1 identified by match to protein family HMM PF00005; match to protein family HMM TIGR01978 YP_001597202.1 with SufCD activates cysteine desulfurase SufS YP_001597203.1 identified by match to protein family HMM PF02082; match to protein family HMM PF08279; match to protein family HMM TIGR00738; match to protein family HMM TIGR02944 YP_001597204.1 identified by match to protein family HMM PF01545; match to protein family HMM TIGR01297 YP_001597205.1 identified by match to protein family HMM PF00929 YP_001597206.1 identified by glimmer; putative YP_001597207.1 identified by glimmer; putative YP_001597208.1 identified by match to protein family HMM PF07671 YP_001597209.1 identified by glimmer; putative YP_001597210.1 identified by glimmer; putative YP_001597211.1 identified by glimmer; putative YP_001597212.1 identified by match to protein family HMM PF00814 YP_001597213.1 identified by match to protein family HMM PF01548; match to protein family HMM PF02371 YP_001597214.1 identified by glimmer; putative YP_001597215.1 identified by glimmer; putative YP_001597216.1 identified by match to protein family HMM PF00425; match to protein family HMM PF04715; match to protein family HMM TIGR00553 YP_001597217.1 identified by match to protein family HMM PF00383 YP_001597218.1 identified by match to protein family HMM PF01842; match to protein family HMM PF02824; match to protein family HMM PF04607; match to protein family HMM TIGR00691 YP_001597219.1 identified by match to protein family HMM PF00595; match to protein family HMM PF02163; match to protein family HMM TIGR00054 YP_001597220.1 identified by glimmer; putative YP_001597221.1 identified by glimmer; putative YP_001597222.1 identified by match to protein family HMM PF00069 YP_001597223.1 identified by glimmer; putative YP_001597224.1 identified by match to protein family HMM PF07681 YP_001597225.1 identified by match to protein family HMM PF01148 YP_001597226.1 identified by match to protein family HMM PF01255; match to protein family HMM TIGR00055 YP_001597227.1 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_001597228.1 Catalyzes the phosphorylation of UMP to UDP YP_001597229.1 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_001597230.1 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_001597231.1 identified by glimmer; putative YP_001597232.1 identified by match to protein family HMM PF00557; match to protein family HMM TIGR00500 YP_001597233.1 identified by match to protein family HMM PF04029 YP_001597235.1 identified by match to protein family HMM PF03734 YP_001597237.1 identified by match to protein family HMM PF00549; match to protein family HMM PF02629; match to protein family HMM TIGR01019 YP_001597238.1 catalyzes the interconversion of succinyl-CoA and succinate YP_001597239.1 identified by match to protein family HMM PF00198; match to protein family HMM PF00364; match to protein family HMM PF02817; match to protein family HMM TIGR01347 YP_001597240.1 SucA; E1 component of the oxoglutarate dehydrogenase complex which catalyzes the formation of succinyl-CoA from 2-oxoglutarate; SucA catalyzes the reaction of 2-oxoglutarate with dihydrolipoamide succinyltransferase-lipoate to form dihydrolipoamide succinyltransferase-succinyldihydrolipoate and carbon dioxide YP_001597241.1 part of four member succinate dehydrogenase enzyme complex that forms a trimeric complex (trimer of tetramers); SdhA/B are the catalytic subcomplex and can exhibit succinate dehydrogenase activity in the absence of SdhC/D which are the membrane components and form cytochrome b556; SdhC binds ubiquinone; oxidizes succinate to fumarate while reducing ubiquinone to ubiquinol; the catalytic subunits are similar to fumarate reductase YP_001597242.1 identified by match to protein family HMM PF00890; match to protein family HMM PF02910; match to protein family HMM TIGR01812; match to protein family HMM TIGR01816 YP_001597243.1 identified by match to protein family HMM TIGR02968 YP_001597244.1 identified by match to protein family HMM PF01127; match to protein family HMM TIGR02970 YP_001597245.1 identified by glimmer; putative YP_001597246.1 identified by glimmer; putative YP_001597247.1 identified by match to protein family HMM PF01548; match to protein family HMM PF02371 YP_001597248.1 identified by match to protein family HMM PF00285; match to protein family HMM TIGR01798 YP_001597249.1 identified by glimmer; putative YP_001597250.1 identified by glimmer; putative YP_001597251.1 identified by glimmer; putative YP_001597253.1 identified by glimmer; putative YP_001597254.1 identified by match to protein family HMM PF02769; match to protein family HMM TIGR01379 YP_001597255.1 identified by match to protein family HMM PF00717 YP_001597256.1 Regulates rRNA biosynthesis by transcriptional antitermination YP_001597257.1 identified by match to protein family HMM PF03477; match to protein family HMM TIGR00244 YP_001597258.1 catalyzes the reaction of glycine with 5,10-methylenetetrahydrofolate to form L-serine and tetrahydrofolate YP_001597259.1 identified by glimmer; putative YP_001597260.1 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_001597261.1 identified by glimmer; putative YP_001597262.1 catalyzes the formation of porphobilinogen from 5-aminolevulinate YP_001597263.1 identified by match to protein family HMM PF05433 YP_001597264.1 identified by glimmer; putative YP_001597265.1 identified by glimmer; putative YP_001597266.1 identified by glimmer; putative YP_001597267.1 identified by match to protein family HMM PF01548; match to protein family HMM PF02371 YP_001597268.1 identified by glimmer; putative YP_001597269.1 identified by glimmer; putative YP_001597271.1 identified by match to protein family HMM PF01548; match to protein family HMM PF02371 YP_001597272.1 identified by glimmer; putative YP_001597273.1 identified by glimmer; putative YP_001597274.1 catalyzes isomerization of specific uridines in RNA to pseudouridine; responsible for residues in T loops of many tRNAs YP_001597275.1 associates with free 30S ribosomal subunits; essential for efficient processing of 16S rRNA; in Escherichia coli rbfA is induced by cold shock YP_001597276.1 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_001597277.1 modifies transcription through interactions with RNA polymerase affecting elongation, readthrough, termination, and antitermination YP_001597278.1 in Streptococcus pneumoniae this gene was found to be essential; structure determination of the Streptococcus protein shows that it is similar to a number of other proteins YP_001597279.1 Catalyzes the transfer of electrons from NADH to quinone YP_001597280.1 identified by match to protein family HMM PF00361; match to protein family HMM TIGR01972 YP_001597281.1 identified by match to protein family HMM PF00361; match to protein family HMM PF00662; match to protein family HMM TIGR01974 YP_001597282.1 identified by match to protein family HMM PF00420 YP_001597283.1 identified by match to protein family HMM PF00499 YP_001597284.1 Catalyzes the transfer of electrons from NADH to quinone YP_001597285.1 identified by match to protein family HMM PF00146 YP_001597286.1 Catalyzes the transfer of electrons from NADH to ubiquinone YP_001597287.1 identified by glimmer; putative YP_001597288.1 identified by match to protein family HMM PF01512; match to protein family HMM TIGR01959 YP_001597289.1 identified by match to protein family HMM PF01257; match to protein family HMM TIGR01958 YP_001597290.1 Catalyzes the transfer of electrons from NADH to quinone YP_001597291.1 identified by match to protein family HMM PF00329; match to protein family HMM TIGR01961 YP_001597292.1 The point of entry for the majority of electrons that traverse the respiratory chain eventually resulting in the reduction of oxygen YP_001597293.1 identified by match to protein family HMM PF00507 YP_001597294.1 identified by match to protein family HMM PF03840; match to protein family HMM TIGR00810 YP_001597295.1 Reversibly isomerizes the ketone sugar dihydroxyacetone phosphate to the aldehyde sugar glyceraldehyde-3-phosphate YP_001597296.1 identified by glimmer; putative YP_001597298.1 identified by glimmer; putative YP_001597299.1 identified by glimmer; putative YP_001597300.1 identified by glimmer; putative YP_001597302.1 identified by glimmer; putative YP_001597303.1 identified by glimmer; putative YP_001597304.1 identified by glimmer; putative YP_001597305.1 identified by match to protein family HMM PF00216 YP_001597306.1 identified by match to protein family HMM PF01878 YP_001597307.1 identified by glimmer; putative YP_001597308.1 identified by match to protein family HMM PF01523 YP_001597309.1 identified by match to protein family HMM TIGR02099 YP_001597310.1 identified by match to protein family HMM PF04093; match to protein family HMM TIGR03426 YP_001597311.1 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_001597312.1 functions in MreBCD complex in some organisms YP_001597313.1 identified by match to protein family HMM TIGR00135 YP_001597314.1 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_001597315.1 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_001597316.1 identified by glimmer; putative YP_001597317.1 identified by match to protein family HMM PF01548; match to protein family HMM PF02371 YP_001597318.1 identified by match to protein family HMM PF00126; match to protein family HMM PF03466 YP_001597319.1 identified by match to protein family HMM PF00578; match to protein family HMM PF08534 YP_001597320.1 identified by match to protein family HMM PF02627; match to protein family HMM TIGR00778 YP_001597321.1 identified by glimmer; putative YP_001597322.1 identified by match to protein family HMM PF01145 YP_001597323.1 identified by match to protein family HMM PF01957 YP_001597324.1 identified by match to protein family HMM PF07690 YP_001597325.1 identified by glimmer; putative YP_001597326.1 identified by glimmer; putative YP_001597327.1 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_001597328.1 identified by match to protein family HMM PF00749; match to protein family HMM TIGR00464 YP_001597329.1 catalyzes the formation of 2,3=diacylglucosamine 1-phosphate from UDP-2,3=diacylglucosamine YP_001597330.1 identified by match to protein family HMM TIGR02607 YP_001597331.1 identified by match to protein family HMM PF05015 YP_001597332.1 identified by glimmer; putative YP_001597333.1 identified by match to protein family HMM PF01609 YP_001597334.1 identified by glimmer; putative YP_001597335.1 identified by glimmer; putative YP_001597336.1 identified by match to protein family HMM PF01548; match to protein family HMM PF02371 YP_001597337.1 identified by glimmer; putative YP_001597338.1 identified by glimmer; putative YP_001597339.1 involved in the de novo synthesis of pyridoxine (Vitamin B6) YP_001597340.1 identified by glimmer; putative YP_001597341.1 identified by similarity to GB:ABH01782.1 YP_001597342.1 identified by glimmer; putative YP_001597343.1 identified by match to protein family HMM PF02565; match to protein family HMM TIGR00613 YP_001597344.1 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_001597345.1 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_001597346.1 identified by match to protein family HMM PF00717; match to protein family HMM TIGR02227 YP_001597347.1 binds to the ribosome on the universally-conserved alpha-sarcin loop YP_001597348.1 identified by match to protein family HMM PF03061; match to protein family HMM TIGR00051 YP_001597349.1 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 TIGR01511; match to protein family HMM TIGR01525 YP_001597351.1 identified by match to protein family HMM PF01171; match to protein family HMM PF09179; match to protein family HMM TIGR02432; match to protein family HMM TIGR02433 YP_001597352.1 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_001597353.1 identified by match to protein family HMM PF02535 YP_001597354.1 identified by match to protein family HMM PF00581 YP_001597355.1 identified by match to protein family HMM PF00106; match to protein family HMM PF08659 YP_001597356.1 identified by glimmer; putative YP_001597357.1 identified by glimmer; putative YP_001597358.1 identified by match to protein family HMM PF00588; match to protein family HMM TIGR00185 YP_001597359.1 catalyzes the NAD(P)H-dependent reduction of glycerol 3-phosphate to glycerone phosphate YP_001597360.1 molecular chaperone that is required for the normal export of envelope proteins out of the cell cytoplasm; in Escherichia coli this proteins forms a homotetramer in the cytoplasm and delivers proteins to be exported to SecA YP_001597361.1 identified by match to protein family HMM PF00462; match to protein family HMM PF05768; match to protein family HMM TIGR02181 YP_001597362.1 identified by match to protein family HMM PF00581 YP_001597363.1 identified by glimmer; putative YP_001597364.1 identified by glimmer; putative YP_001597365.1 identified by glimmer; putative YP_001597366.1 identified by glimmer; putative YP_001597367.1 identified by match to protein family HMM PF00326 YP_001597368.1 identified by match to protein family HMM PF01548; match to protein family HMM PF02371 YP_001597369.1 identified by glimmer; putative YP_001597370.1 identified by glimmer; putative YP_001597371.1 identified by glimmer; putative YP_001597372.1 identified by glimmer; putative YP_001597373.1 catalyzes the interconversion of 2-phosphoglycerate and 3-phosphoglycerate YP_001597374.1 identified by match to protein family HMM PF01551 YP_001597375.1 identified by match to protein family HMM PF00595; match to protein family HMM PF03572; match to protein family HMM TIGR00225 YP_001597376.1 identified by match to protein family HMM PF01490; match to protein family HMM PF03222 YP_001597377.1 identified by glimmer; putative YP_001597378.1 identified by glimmer; putative YP_001597379.1 identified by glimmer; putative YP_001597380.1 identified by glimmer; putative YP_001597381.1 identified by glimmer; putative YP_001597382.1 identified by glimmer; putative YP_001597383.1 ThyA; catalyzes formation of dTMP and 7,8-dihydrofolate from 5,10-methylenetetrahydrofolate and dUMP; involved in deoxyribonucleotide biosynthesis; there are 2 copies in some Bacilli, one of which appears to be phage-derived YP_001597384.1 identified by glimmer; putative YP_001597385.1 transfers the N-acyl diglyceride moiety to the prospective N-terminal cysteine in prolipoprotein YP_001597386.1 identified by match to protein family HMM PF00391; match to protein family HMM PF01590; match to protein family HMM PF02896; match to protein family HMM PF05524; match to protein family HMM TIGR01417 YP_001597387.1 hydrolyzes diadenosine polyphosphate YP_001597388.1 Catalyzes the rate-limiting step in dNTP synthesis YP_001597389.1 Catalyzes the rate-limiting step in dNTP synthesis YP_001597390.1 identified by glimmer; putative YP_001597391.1 identified by match to protein family HMM PF01548; match to protein family HMM PF02371 YP_001597392.1 identified by glimmer; putative YP_001597393.1 identified by match to protein family HMM PF01609 YP_001597394.1 identified by glimmer; putative YP_001597395.1 identified by glimmer; putative YP_001597396.1 identified by glimmer; putative YP_001597397.1 identified by match to protein family HMM TIGR02605 YP_001597398.1 identified by match to protein family HMM PF04367 YP_001597399.1 identified by glimmer; putative YP_001597401.1 identified by glimmer; putative YP_001597402.1 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_001597403.1 identified by match to protein family HMM PF01709; match to protein family HMM TIGR01033 YP_001597404.1 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 YP_001597405.1 plays an essential role in ATP-dependent branch migration of the Holliday junction YP_001597406.1 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_001597407.1 identified by glimmer; putative YP_001597408.1 identified by glimmer; putative YP_001597409.1 identified by match to protein family HMM PF01618; match to protein family HMM TIGR02796 YP_001597410.1 identified by match to protein family HMM PF02472; match to protein family HMM TIGR02801 YP_001597411.1 identified by glimmer; putative YP_001597412.1 identified by match to protein family HMM PF01476; match to protein family HMM PF03734 YP_001597413.1 identified by match to protein family HMM PF03631; match to protein family HMM TIGR00765 YP_001597414.1 identified by match to protein family HMM PF00258; match to protein family HMM TIGR01755 YP_001597415.1 identified by match to protein family HMM PF03969 YP_001597416.1 identified by glimmer; putative YP_001597417.1 identified by match to protein family HMM PF03334; match to protein family HMM TIGR01300 YP_001597418.1 identified by match to protein family HMM PF04066 YP_001597419.1 identified by match to protein family HMM PF01899 YP_001597420.1 identified by match to protein family HMM PF00361 YP_001597421.1 identified by match to protein family HMM PF00420 YP_001597422.1 subunit A of antiporter complex involved in resistance to high concentrations of Na+, K+, Li+ and/or alkali; in S. meliloti it is known to be involved with K+ YP_001597424.1 identified by match to protein family HMM PF00999 YP_001597425.1 identified by glimmer; putative YP_001597426.1 identified by match to protein family HMM PF01548; match to protein family HMM PF02371 YP_001597427.1 identified by glimmer; putative YP_001597428.1 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_001597429.1 identified by match to protein family HMM PF02637 YP_001597430.1 identified by match to protein family HMM PF01751; match to protein family HMM PF01807; match to protein family HMM PF08275; match to protein family HMM PF08278; match to protein family HMM TIGR01391 YP_001597431.1 identified by match to protein family HMM PF00140; match to protein family HMM PF03979; match to protein family HMM PF04539; match to protein family HMM PF04542; match to protein family HMM PF04545; match to protein family HMM PF04546; match to protein family HMM TIGR02393; match to protein family HMM TIGR02937 YP_001597432.1 identified by match to protein family HMM PF02462 YP_001597433.1 identified by match to protein family HMM PF02655; match to protein family HMM PF08443; match to protein family HMM TIGR00768 YP_001597434.1 identified by match to protein family HMM PF04952 YP_001597435.1 identified by glimmer; putative YP_001597436.1 identified by glimmer; putative YP_001597437.1 identified by glimmer; putative YP_001597438.1 identified by match to protein family HMM PF00023 YP_001597439.1 identified by glimmer; putative YP_001597440.1 identified by glimmer; putative YP_001597441.1 identified by glimmer; putative YP_001597442.1 identified by glimmer; putative YP_001597443.1 identified by similarity to GB:ABG84151.1 YP_001597444.1 identified by glimmer; putative YP_001597450.1 identified by match to protein family HMM PF00805; match to protein family HMM PF03743 YP_001597454.1 identified by match to protein family HMM PF00691 YP_001597457.1 identified by match to protein family HMM TIGR02527 YP_001597458.1 identified by glimmer; putative YP_001597459.1 identified by glimmer; putative YP_001597460.1 identified by glimmer; putative YP_001597461.1 identified by glimmer; putative YP_001597463.1 identified by glimmer; putative YP_001597464.1 identified by glimmer; putative YP_001597465.1 identified by glimmer; putative YP_001597466.1 identified by match to protein family HMM PF01548; match to protein family HMM PF02371 YP_001597467.1 identified by glimmer; putative YP_001597472.1 identified by match to protein family HMM PF00437; match to protein family HMM TIGR02524 YP_001597474.1 identified by glimmer; putative YP_001597475.1 identified by match to protein family HMM PF01548; match to protein family HMM PF02371 YP_001597476.1 catalyzes the phosphorylation of D-glycero-D-manno-heptose 7-phosphate to form D,D-heptose-1,7-bisphosphate and catalyzes transfer of ADP to D-glycero-D-manno-heptose 1-phosphate forming ADP-D,D-heptose YP_001597477.1 identified by glimmer; putative YP_001597478.1 identified by match to protein family HMM PF01548; match to protein family HMM PF02371 YP_001597479.1 identified by glimmer; putative YP_001597480.1 identified by glimmer; putative YP_001597481.1 identified by glimmer; putative YP_001597485.1 identified by match to protein family HMM PF01548; match to protein family HMM PF02371 YP_001597486.1 identified by glimmer; putative YP_001597487.1 identified by match to protein family HMM PF00535 YP_001597488.1 identified by glimmer; putative YP_001597489.1 identified by match to protein family HMM PF04932 YP_001597491.1 identified by match to protein family HMM PF01075; match to protein family HMM TIGR02195 YP_001597493.1 identified by glimmer; putative YP_001597494.1 identified by match to protein family HMM PF00571 YP_001597495.1 identified by glimmer; putative YP_001597496.1 identified by glimmer; putative YP_001597497.1 identified by glimmer; putative YP_001597498.1 identified by glimmer; putative YP_001597499.1 identified by match to protein family HMM PF00140; match to protein family HMM PF04539; match to protein family HMM PF04542; match to protein family HMM PF04545; match to protein family HMM TIGR02394; match to protein family HMM TIGR02937 YP_001597500.1 identified by match to protein family HMM PF01476; match to protein family HMM PF01551 YP_001597501.1 catalyzes the conversion of a phosphate monoester to an alcohol and a phosphate YP_001597502.1 identified by match to protein family HMM PF04977 YP_001597503.1 enolase; catalyzes the formation of phosphoenolpyruvate from 2-phospho-D-glycerate in glycolysis YP_001597504.1 catalyzes the formation of 2-dehydro-3-deoxy-D-octonate 8-phosphate from phosphoenolpyruvate and D-arabinose 5-phosphate in LPS biosynthesis YP_001597505.1 identified by match to protein family HMM PF01814 YP_001597506.1 identified by match to protein family HMM PF00583 YP_001597507.1 identified by similarity to GB:AAM30061.1 YP_001597508.1 identified by glimmer; putative YP_001597509.1 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_001597510.1 identified by glimmer; putative YP_001597511.1 identified by glimmer; putative YP_001597512.1 identified by glimmer; putative YP_001597513.1 Catalyzes the formation of dUTP from dCTP in thymidylate biosynthesis YP_001597515.1 identified by match to protein family HMM PF01381 YP_001597516.1 identified by match to protein family HMM PF05973 YP_001597517.1 identified by glimmer; putative YP_001597518.1 identified by glimmer; putative YP_001597519.1 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_001597520.1 identified by match to protein family HMM PF00037; match to protein family HMM PF04060; match to protein family HMM TIGR01944 YP_001597521.1 identified by match to protein family HMM PF00633; match to protein family HMM PF00730; match to protein family HMM TIGR01083 YP_001597523.1 identified by similarity to GB:CAH17132.1 YP_001597524.1 identified by glimmer; putative YP_001597525.1 identified by glimmer; putative YP_001597526.1 catalyzes the formation of N-carbamoyl-L-aspartate from (S)-dihydroorotate in pyrimidine biosynthesis YP_001597527.1 identified by glimmer; putative YP_001597528.1 identified by match to protein family HMM PF00578; match to protein family HMM PF08534 YP_001597529.1 identified by match to protein family HMM PF00081; match to protein family HMM PF02777 YP_001597530.1 catalyzes the reduction of 2,3-dihydrodipicolinate to 2,3,4,5-tetrahydrodipicolinate in lysine and diaminopimelate biosynthesis YP_001597531.1 identified by glimmer; putative YP_001597532.1 identified by glimmer; putative YP_001597533.1 identified by match to protein family HMM PF01541 YP_001597534.1 identified by glimmer; putative YP_001597535.1 acts in conjunction with GvcH to form H-protein-S-aminomethyldihydrolipoyllysine from glycine; forms a heterodimer with subunit 1 to form the P protein YP_001597536.1 acts in conjunction with GvcH to form H-protein-S-aminomethyldihydrolipoyllysine from glycine; forms a heterodimer with subunit 2 to form the P protein YP_001597537.1 part of multienzyme complex composed of H, L, P, and T proteins which catalyzes oxidation of glycine to yield carbon dioxide, ammonia, 5,10-CH2-H4folate and a reduced pyridine nucleotide; protein H is involved in transfer of methylamine group from the P to T protein; covalently bound to a lipoyl cofactor YP_001597538.1 catalyzes the transfer of a methylene carbon from the methylamine-loaded GcvH protein to tetrahydrofolate, causing the release of ammonia and the generation of reduced GcvH protein YP_001597539.1 identified by glimmer; putative YP_001597540.1 identified by glimmer; putative YP_001597541.1 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_001597542.1 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_001597543.1 Catalyzes the conversion of citrate to isocitrate YP_001597545.1 identified by match to protein family HMM PF00441; match to protein family HMM PF00501 YP_001597546.1 identified by match to protein family HMM PF00085 YP_001597547.1 identified by glimmer; putative YP_001597548.1 identified by match to protein family HMM PF00364; match to protein family HMM TIGR00531 YP_001597549.1 identified by match to protein family HMM PF00289; match to protein family HMM PF02785; match to protein family HMM PF02786; match to protein family HMM TIGR00514 YP_001597550.1 catalyzes the formation of L-proline from L-ornithine YP_001597551.1 identified by match to protein family HMM PF04973; match to protein family HMM TIGR01528 YP_001597552.1 catalyzes the conversion of the propionic acid groups of rings I and III to vinyl groups during heme synthesis YP_001597553.1 identified by match to protein family HMM PF00702; match to protein family HMM TIGR01488 YP_001597554.1 identified by match to protein family HMM PF00389; match to protein family HMM PF02826 YP_001597555.1 identified by match to protein family HMM PF00308; match to protein family HMM TIGR03420 YP_001597557.1 catalyzes the formation of 1-(5-phosphoribosyl)-5-aminoimidazole from 2-(formamido)-N1-(5-phosphoribosyl)acetamidine and ATP in purine biosynthesis YP_001597558.1 glycinamide ribonucleotide transformylase; GAR Tfase; catalyzes the synthesis of 5'-phosphoribosylformylglycinamide from 5'-phosphoribosylglycinamide and 10-formyltetrahydrofolate; PurN requires formyl folate for the reaction unlike PurT which uses formate YP_001597559.1 identified by match to protein family HMM PF00216; match to protein family HMM TIGR00988 YP_001597560.1 identified by match to protein family HMM PF00590; match to protein family HMM TIGR00096 YP_001597561.1 identified by glimmer; putative YP_001597563.1 identified by match to protein family HMM PF02021; match to protein family HMM TIGR00252 YP_001597564.1 catalyzes the isomerization of sedoheptulose 7-phosphate to D-glycero-D-manno-heptose 7-phosphate YP_001597565.1 identified by match to protein family HMM PF04972 YP_001597566.1 identified by match to protein family HMM PF02163 YP_001597567.1 identified by match to protein family HMM PF04386 YP_001597568.1 identified by match to protein family HMM PF02798 YP_001597569.1 forms a direct contact with the tRNA during translation YP_001597570.1 in Escherichia coli this protein is one of the earliest assembly proteins in the large subunit YP_001597571.1 identified by glimmer; putative YP_001597572.1 identified by match to protein family HMM PF00216 YP_001597573.1 identified by glimmer; putative YP_001597574.1 identified by glimmer; putative YP_001597576.1 identified by glimmer; putative YP_001597577.1 identified by match to protein family HMM PF07690; match to protein family HMM TIGR00710 YP_001597578.1 identified by match to protein family HMM PF00023 YP_001597579.1 identified by glimmer; putative YP_001597580.1 identified by glimmer; putative YP_001597581.1 identified by match to protein family HMM PF01548; match to protein family HMM PF02371 YP_001597582.1 identified by glimmer; putative YP_001597583.1 identified by match to protein family HMM PF00072; match to protein family HMM PF00512; match to protein family HMM PF00989; match to protein family HMM PF01627; match to protein family HMM PF02518; match to protein family HMM PF08448; match to protein family HMM TIGR00229 YP_001597584.1 identified by glimmer; putative YP_001597586.1 identified by glimmer; putative YP_001597588.1 identified by match to protein family HMM PF01926; match to protein family HMM PF02421; match to protein family HMM PF07664; match to protein family HMM PF07670; match to protein family HMM TIGR00231; match to protein family HMM TIGR00437 YP_001597589.1 identified by match to protein family HMM PF04023 YP_001597590.1 identified by glimmer; putative YP_001597592.1 identified by glimmer; putative YP_001597593.1 identified by match to protein family HMM PF01548; match to protein family HMM PF02371 YP_001597594.1 identified by glimmer; putative YP_001597595.1 identified by match to protein family HMM PF00005 YP_001597596.1 identified by match to protein family HMM PF00528 YP_001597597.1 binds guanine nucleotides; in Escherichia coli depletion results in defective cell division and filamentation; in Bacillus subtilis this gene is essential YP_001597598.1 identified by glimmer; putative YP_001597599.1 identified by match to protein family HMM PF08238 YP_001597600.1 identified by glimmer; putative YP_001597601.1 identified by glimmer; putative YP_001597602.1 class II aldolase; catalyzes the reversible aldol condensation of dihydroxyacetonephosphate and glyceraldehyde 3-phosphate in the Calvin cycle, glycolysis and gluconeogenesis YP_001597603.1 identified by match to protein family HMM PF01548; match to protein family HMM PF02371 YP_001597604.1 identified by glimmer; putative YP_001597605.1 identified by similarity to RF:XP_001242764.1 YP_001597606.1 identified by match to protein family HMM PF00224; match to protein family HMM PF02887; match to protein family HMM TIGR01064 YP_001597607.1 Converts 3-phospho-D-glycerate to 3-phospho-D-glyceroyl phosphate during the glycolysis pathway YP_001597608.1 identified by match to protein family HMM PF00044; match to protein family HMM PF02800; match to protein family HMM TIGR01534 YP_001597609.1 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_001597610.1 identified by match to protein family HMM PF01548; match to protein family HMM PF02371 YP_001597611.1 identified by glimmer; putative YP_001597613.1 identified by match to protein family HMM PF00310; match to protein family HMM PF01380; match to protein family HMM TIGR01135 YP_001597615.1 identified by match to protein family HMM PF08450 YP_001597616.1 identified by glimmer; putative YP_001597617.1 identified by glimmer; putative YP_001597618.1 identified by match to protein family HMM PF00476; match to protein family HMM PF01367; match to protein family HMM PF01612; match to protein family HMM PF02739; match to protein family HMM TIGR00593 YP_001597619.1 identified by match to protein family HMM PF00324 YP_001597620.1 identified by match to protein family HMM PF03061 YP_001597622.1 identified by glimmer; putative YP_001597623.1 identified by match to protein family HMM PF00583 YP_001597624.1 identified by match to protein family HMM PF02592; match to protein family HMM TIGR00697 YP_001597625.1 identified by glimmer; putative YP_001597626.1 identified by glimmer; putative YP_001597627.1 identified by glimmer; putative YP_001597628.1 identified by match to protein family HMM PF00196 YP_001597629.1 identified by match to protein family HMM PF00196 YP_001597631.1 identified by glimmer; putative YP_001597632.1 identified by glimmer; putative YP_001597634.1 identified by match to protein family HMM PF02321 YP_001597635.1 identified by match to protein family HMM PF00389; match to protein family HMM PF02826 YP_001597636.1 identified by glimmer; putative YP_001597638.1 identified by match to protein family HMM PF00270; match to protein family HMM PF00271; match to protein family HMM PF04851; match to protein family HMM TIGR00595 YP_001597639.1 Involved in peptide bond synthesis; alters the affinity of the ribosome for aminoacyl-tRNA YP_001597640.1 identified by match to protein family HMM PF00152; match to protein family HMM TIGR00462 YP_001597641.1 identified by glimmer; putative YP_001597642.1 identified by glimmer; putative YP_001597643.1 identified by glimmer; putative YP_001597644.1 identified by glimmer; putative YP_001597645.1 identified by match to protein family HMM PF00080 YP_001597646.1 identified by glimmer; putative YP_001597647.1 identified by glimmer; putative YP_001597648.1 catalyzes the decarboxylation of phosphatidyl-L-serine to phosphatidylethanoleamine YP_001597649.1 identified by match to protein family HMM PF01743 YP_001597650.1 identified by match to protein family HMM PF02636 YP_001597651.1 Incorporates lipoproteins in the outer membrane after they are released by the LolA protein YP_001597652.1 identified by similarity to GB:ABE04226.1 YP_001597653.1 catalyzes the formation of 5-phospho-alpha-D-ribose 1-phosphate from D-ribose 5-phosphate and ATP YP_001597654.1 identified by match to protein family HMM PF02366 YP_001597656.1 identified by glimmer; putative YP_001597657.1 identified by match to protein family HMM PF00483; match to protein family HMM TIGR01207 YP_001597658.1 identified by glimmer; putative YP_001597659.1 identified by match to protein family HMM PF01266; match to protein family HMM PF01593 YP_001597660.1 identified by match to protein family HMM PF03447 YP_001597661.1 identified by match to protein family HMM PF01073; match to protein family HMM PF01370 YP_001597662.1 identified by match to protein family HMM PF00908; match to protein family HMM TIGR01221 YP_001597663.1 identified by match to protein family HMM PF01266 YP_001597664.1 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_001597665.1 Enables the recycling of peptidyl-tRNAs produced at termination of translation YP_001597666.1 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_001597667.1 identified by glimmer; putative YP_001597668.1 identified by glimmer; putative YP_001597670.1 identified by glimmer; putative YP_001597671.1 identified by glimmer; putative YP_001597672.1 identified by glimmer; putative YP_001597676.1 identified by match to protein family HMM PF04138 YP_001597677.1 identified by glimmer; putative YP_001597679.1 identified by match to protein family HMM PF00378 YP_001597680.1 identified by match to protein family HMM PF00528 YP_001597681.1 identified by match to protein family HMM PF00528 YP_001597682.1 identified by match to protein family HMM PF04055; match to protein family HMM TIGR00238 YP_001597683.1 identified by glimmer; putative YP_001597684.1 identified by match to protein family HMM PF03703 YP_001597685.1 decatenates newly replicated chromosomal DNA and relaxes positive and negative DNA supercoiling YP_001597686.1 identified by glimmer; putative YP_001597687.1 identified by glimmer; putative YP_001597688.1 identified by glimmer; putative YP_001597690.1 identified by match to protein family HMM PF00834; match to protein family HMM TIGR01163 YP_001597691.1 functions as a co-chaperone with DnaK; involved in regulation of colanic acid capsule; inner membrane protein; dimerized via transmembrane domain; J-like domain is cytoplasmic and can functionally substitute for DnaJ; stimulates synthesis of colanic acid mucoid capsule through the RcsB/C signal transduction system YP_001597692.1 identified by match to protein family HMM PF08886; match to protein family HMM TIGR02049 YP_001597693.1 catalyzes the second step in the glutathione biosynthesis pathway, where it synthesizes ATP + gamma-L-glutamyl-L-cysteine + glycine = ADP + phosphate + glutathione YP_001597694.1 identified by glimmer; putative YP_001597695.1 identified by match to protein family HMM PF04445 YP_001597697.1 essential respiratory protein A; may be involved in the transfer of iron-sulfur clusters; essential for growth using oxygen or alternate electron acceptors YP_001597698.1 identified by match to protein family HMM PF01327 YP_001597699.1 identified by match to protein family HMM PF03653 YP_001597700.1 identified by match to protein family HMM PF00301 YP_001597701.1 Converts (S)-4-amino-5-oxopentanoate to 5-aminolevulinate during the porphyrin biosynthesis pathway YP_001597704.1 identified by glimmer; putative YP_001597705.1 identified by glimmer; putative YP_001597706.1 identified by match to protein family HMM PF00905; match to protein family HMM PF00912; match to protein family HMM TIGR02074 YP_001597707.1 identified by glimmer; putative YP_001597708.1 identified by glimmer; putative YP_001597709.1 identified by glimmer; putative YP_001597710.1 identified by match to protein family HMM PF00263; match to protein family HMM PF03958 YP_001597711.1 identified by match to protein family HMM PF01202 YP_001597712.1 catalyzes the formation of 3-dehydroquinate from 3-deoxy-arabino-heptulonate 7-phosphate; functions in aromatic amino acid biosynthesis YP_001597713.1 identified by glimmer; putative YP_001597714.1 identified by match to protein family HMM PF07690 YP_001597715.1 identified by glimmer; putative YP_001597716.1 identified by match to protein family HMM PF01548; match to protein family HMM PF02371 YP_001597717.1 identified by glimmer; putative YP_001597718.1 identified by match to protein family HMM PF03602; match to protein family HMM TIGR00095 YP_001597719.1 identified by glimmer; putative YP_001597720.1 identified by match to protein family HMM PF00675; match to protein family HMM PF05193 YP_001597721.1 identified by match to protein family HMM PF00675; match to protein family HMM PF05193 YP_001597722.1 identified by match to protein family HMM PF00448; match to protein family HMM PF02881; match to protein family HMM TIGR00064 YP_001597723.1 identified by match to protein family HMM PF00005; match to protein family HMM TIGR02673 YP_001597724.1 identified by match to protein family HMM PF02687 YP_001597725.1 identified by glimmer; putative YP_001597726.1 identified by match to protein family HMM PF00583 YP_001597727.1 binds with the catalytic core of RNA polymerase to produce the holoenzyme; this sigma factor is responsible for the expression of heat shock promoters YP_001597728.1 identified by match to protein family HMM PF01323 YP_001597729.1 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_001597730.1 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_001597731.1 identified by match to protein family HMM PF01029; match to protein family HMM PF01189; match to protein family HMM TIGR00563 YP_001597732.1 identified by match to protein family HMM PF00582 YP_001597733.1 in Escherichia coli transcription of this gene is enhanced by polyamines YP_001597734.1 identified by match to protein family HMM PF00825; match to protein family HMM TIGR00188 YP_001597735.1 identified by match to protein family HMM PF01809; match to protein family HMM TIGR00278 YP_001597736.1 identified by match to protein family HMM PF02096 YP_001597737.1 identified by glimmer; putative YP_001597738.1 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_001597739.1 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_001597740.1 glucose-inhibited division protein B; SAM-dependent methyltransferase; methylates the N7 position of guanosine in position 527 of 16S rRNA YP_001597741.1 identified by match to protein family HMM PF01656 YP_001597742.1 identified by match to protein family HMM PF02195; match to protein family HMM TIGR00180 YP_001597743.1 identified by match to protein family HMM PF00501; match to protein family HMM PF01553 YP_001597744.1 identified by match to protein family HMM PF07690 YP_001597745.1 identified by glimmer; putative YP_001597746.1 identified by glimmer; putative YP_001597747.1 identified by glimmer; putative YP_001597748.1 identified by match to protein family HMM PF02735; match to protein family HMM TIGR02772 YP_001597749.1 identified by match to protein family HMM PF01068; match to protein family HMM PF01896; match to protein family HMM PF04679; match to protein family HMM TIGR02776; match to protein family HMM TIGR02777; match to protein family HMM TIGR02778; match to protein family HMM TIGR02779 YP_001597750.1 identified by glimmer; putative YP_001597751.1 identified by glimmer; putative YP_001597752.1 identified by glimmer; putative YP_001597753.1 identified by glimmer; putative YP_001597754.1 identified by match to protein family HMM PF03899 YP_001597755.1 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_001597756.1 identified by match to protein family HMM PF00137; match to protein family HMM TIGR01260 YP_001597757.1 Produces ATP from ADP in the presence of a proton gradient across the membrane. Subunit B is part of the membrane proton channel. YP_001597758.1 identified by match to protein family HMM PF00213; match to protein family HMM TIGR01145 YP_001597759.1 produces ATP from ADP in the presence of a proton gradient across the membrane; the alpha chain is a catalytic subunit YP_001597760.1 Produces ATP from ADP in the presence of a proton gradient across the membrane. The gamma chain is a regulatory subunit YP_001597761.1 Produces ATP from ADP in the presence of a proton gradient across the membrane. The beta chain is a regulatory subunit YP_001597762.1 identified by glimmer; putative YP_001597763.1 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_001597764.1 identified by match to protein family HMM PF00132; match to protein family HMM PF00483; match to protein family HMM TIGR01173 YP_001597765.1 identified by glimmer; putative YP_001597766.1 identified by glimmer; putative YP_001597767.1 identified by match to protein family HMM PF00005; match to protein family HMM PF02463 YP_001597768.1 identified by glimmer; putative YP_001597769.1 identified by glimmer; putative YP_001597770.1 identified by match to protein family HMM PF01262; match to protein family HMM PF05222 YP_001597772.1 identified by match to protein family HMM PF02233 YP_001597773.1 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_001597774.1 identified by glimmer; putative YP_001597775.1 identified by match to protein family HMM PF01548 YP_001597776.1 identified by match to protein family HMM PF01432 YP_001597777.1 identified by match to protein family HMM PF08541; match to protein family HMM PF08545 YP_001597778.1 catalyzes the dehydration of (3R)-3-hydroxydecanoyl-ACP to 2,3-decenoyl-ACP or 3,4-decenoyl-ACP YP_001597779.1 identified by match to protein family HMM PF07977 YP_001597780.1 identified by match to protein family HMM PF00109; match to protein family HMM PF02801 YP_001597782.1 identified by glimmer; putative YP_001597784.1 identified by match to protein family HMM PF00368 YP_001597785.1 identified by match to protein family HMM PF01553 YP_001597786.1 identified by match to protein family HMM PF01565; match to protein family HMM PF02913 YP_001597787.1 identified by match to protein family HMM PF01553 YP_001597788.1 Catalyzes D-ribose 5-phosphate --> D-ribulose 5-phosphate in the nonoxidative branch of the pentose phosphate pathway YP_001597789.1 identified by glimmer; putative YP_001597790.1 identified by match to protein family HMM PF02599; match to protein family HMM TIGR00202 YP_001597791.1 identified by glimmer; putative YP_001597792.1 identified by glimmer; putative YP_001597793.1 identified by glimmer; putative YP_001597794.1 identified by match to protein family HMM PF00313; match to protein family HMM TIGR00741 YP_001597795.1 identified by glimmer; putative YP_001597796.1 identified by match to protein family HMM PF01791; match to protein family HMM TIGR00126 YP_001597797.1 catalyzes the formation of a purine and ribose phosphate from a purine nucleoside; in E. coli this enzyme functions in xanthosine degradation YP_001597798.1 identified by match to protein family HMM PF01865; match to protein family HMM TIGR00153 YP_001597799.1 identified by match to protein family HMM PF01384 YP_001597800.1 identified by glimmer; putative YP_001597801.1 identified by match to protein family HMM PF01488; match to protein family HMM PF08501; match to protein family HMM TIGR00507 YP_001597802.1 identified by match to protein family HMM PF02113; match to protein family HMM TIGR00666 YP_001597803.1 identified by glimmer; putative YP_001597804.1 identified by glimmer; putative YP_001597805.1 identified by match to protein family HMM PF04365 YP_001597807.1 identified by glimmer; putative YP_001597808.1 identified by match to protein family HMM PF01548; match to protein family HMM PF02371 YP_001597810.1 identified by glimmer; putative YP_001597811.1 identified by glimmer; putative YP_001597812.1 identified by match to protein family HMM PF06508; match to protein family HMM TIGR00364 YP_001597814.1 identified by match to protein family HMM PF07219 YP_001597815.1 identified by match to protein family HMM PF04375 YP_001597816.1 identified by glimmer; putative YP_001597817.1 identified by match to protein family HMM PF02661 YP_001597818.1 identified by match to protein family HMM PF01548; match to protein family HMM PF02371 YP_001597819.1 identified by glimmer; putative YP_001597820.1 An RNA-DNA helicase that actively releases nascent mRNAs from paused transcription complexes YP_001597821.1 identified by match to protein family HMM PF00085; match to protein family HMM TIGR01068 YP_001597822.1 identified by match to protein family HMM PF00209 YP_001597823.1 identified by match to protein family HMM PF02325 YP_001597824.1 identified by match to protein family HMM PF01210; match to protein family HMM PF03807; match to protein family HMM TIGR00112 YP_001597825.1 identified by match to protein family HMM PF01168; match to protein family HMM TIGR00044 YP_001597826.1 PEP carboxykinase; PEP carboxylase; PEPCK; catalyzes the phosphorylation and decarboxylation of oxaloacetate to form phosphoenolpyruvate using ATP YP_001597827.1 identified by glimmer; putative YP_001597828.1 identified by match to protein family HMM PF02622 YP_001597829.1 similar to RuvC resolvase with substantial differences; NMR structural information suggests this protein is monomeric; unknown cellular function YP_001597830.1 catalyzes the transfer of the carbamoyl moiety from carbamoyl phosphate to L- aspartate in pyrimidine biosynthesis