-- dump date 20140619_143904 -- class Genbank::CDS -- table cds_note -- id note YP_001938700.1 cccA-like YP_001938718.1 ccmA-like YP_001938745.1 Catalyzes the formation of dUTP from dCTP in thymidylate biosynthesis YP_001938753.1 acrA-like YP_001938781.1 emrA-like YP_001938782.1 acrA-like YP_001938784.1 acrA-like YP_001938843.1 catalyzes the formation of chorismate from 5-O-(1-carboxyvinyl)-3-phosphoshikimate in aromatic amino acid biosynthesis YP_001938868.1 The point of entry for the majority of electrons that traverse the respiratory chain eventually resulting in the reduction of oxygen YP_001938917.1 catalyzes the transfer of a methyl group from 5-methyltetrahydrofolate to homocysteine to form methionine YP_001938921.1 catalyzes the formation of D-glucono-1,5-lactone 6-phosphate from D-glucose 6-phosphate YP_001938940.1 catalyzes the formation of oxalozcetate and L-glutamate from L-aspartate and 2-oxoglutarate YP_001938947.1 shows similarity to CbiX(S) YP_001939035.1 binds to the ribosome on the universally-conserved alpha-sarcin loop YP_001939036.1 related to aryl-alcohol dehydrogenase YP_001939044.1 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 YP_001939065.1 ccmA-like YP_001939082.1 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_001939107.1 lpd-like YP_001939185.1 acrA-like YP_001939238.1 links inner and outer membranes YP_001939263.1 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_001939294.1 Catalyzes the reduction of nucleoside 5'-triphosphates to 2'-deoxynucleoside 5'-triphosphates YP_001939301.1 sigma54 homolog YP_001939324.1 catalyzes the formation of L-homocysteine from S-adenosyl-L-homocysteine YP_001939332.1 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_001939333.1 binds directly to 16S rRNA where it nucleates assembly of the head domain of the 30S subunit YP_001939339.1 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_001939343.1 located in the peptidyl transferase center and may be involved in peptidyl transferase activity; similar to archaeal L10e YP_001939347.1 assembly initiator protein; binds to 5' end of 23S rRNA and nucleates assembly of the 50S; surrounds polypeptide exit tunnel YP_001939378.1 catalyzes the formation of nicotinamide adenine dinucleotide (NAD) from nicotinic acid adenine dinucleotide (NAAD) using either ammonia or glutamine as the amide donor and ATP; ammonia-utilizing enzymes include the ones from Bacillus and Escherichia coli while glutamine-utilizing enzymes include the Mycobacterial one; forms homodimers YP_001939419.1 involved in the de novo synthesis of pyridoxine (Vitamin B6) YP_001939441.1 in Escherichia coli BM108, a mutation that results in lack of L33 synthesis had no effect on ribosome synthesis or function; there are paralogous genes in several bacterial genomes, and a CXXC motif for zinc binding and an upstream regulation region of the paralog lacking this motif that are regulated by zinc similar to other ribosomal proteins like L31; the proteins in this group lack the CXXC motif YP_001939450.1 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_001939457.1 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_001939458.1 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_001939465.1 BacA; phosphatase activity in Escherichia coli not kinase; involved in bacitracin resistance as bacitracin supposedly sequesters undecaprenyl disphosphate which reduces the pool of lipid carrier available to the cell YP_001939471.1 long form of enzyme; catalyzes the formation of N'-5'-phosphoribosyl-ATP from phosphoribosyl pyrophosphate; crucial role in histidine biosynthesis; forms active dimers and inactive hexamers which is dependent on concentration of substrates and inhibitors YP_001939492.1 produces ATP from ADP in the presence of a proton gradient across the membrane; the beta chain is a regulatory subunit YP_001939495.1 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_001939498.1 produces ATP from ADP in the presence of a proton gradient across the membrane. The alpha chain is a catalytic subunit YP_001939540.1 PEP carboxykinase; PEP carboxylase; PEPCK; catalyzes the phosphorylation and decarboxylation of oxaloacetate to form phosphoenolpyruvate using ATP YP_001939552.1 emrA-like YP_001939592.1 catalyzes the formation of 2-oxoglutarate from isocitrate YP_001939607.1 catalyzes the formation of 2-dehydro-3-deoxy-D-octonate 8-phosphate from phosphoenolpyruvate and D-arabinose 5-phosphate in LPS biosynthesis YP_001939608.2 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_001939663.1 ccmA-like YP_001939667.1 required for 70S ribosome assembly YP_001939730.1 Catalyzes the rate-limiting step in dNTP synthesis YP_001939732.1 related to nicotinamidase YP_001939756.1 links inner and outer membranes YP_001939765.1 catalyzes the formation of porphobilinogen from 5-aminolevulinate YP_001939771.1 catalyzes the reversible formation of D-erythrose 4-phosphate and D-fructose 6-phosphate from sedoheptulose 7-phosphate and D-glyceraldehyde 3-phosphate YP_001939854.1 Catalyzes the oxidation of dihydrolipoamide to lipoamide YP_001939887.1 Required in the synthesis of PPQ, but its exact function is unknown YP_001939907.1 catalyzes the formation of 3-phosphonooxypyruvate from 3-phospho-D-glycerate in serine biosynthesis; can also reduce alpha ketoglutarate to form 2-hydroxyglutarate YP_001939913.1 Catalyzes a reaction in which the CO2 acceptor molecule, RuBP, is generated via the phosphorylation of ribulose 5-phosphate with ATP YP_001939916.1 type III RuBisCO; involved in carbon fixation YP_001939919.1 involved in the peptidyltransferase reaction during translation YP_001939923.1 distantly related to archaeal Holliday junction resolvase YP_001939956.1 stationary phase protein that binds TrpR repressor YP_001939975.1 Catalyzes the reversible two-electron oxidation of formate to carbon dioxide. It allows the assimilation of carbon dioxide and provides energy for growth through oxidative phosphorylation coupled to the reduction of oxygen, nitrate, sulphate or fumarate YP_001940004.1 catalyzes the formation of 3-deoxy-D-arabino-hept-2-ulosonate 7 phosphate from phosphoenolpyruvate and D-erythrose 4-phosphate, phenylalanine sensitive YP_001940006.1 An endonuclease that specifically degrades the RNA strand of RNA-DNA hybrids YP_001940011.1 type II fructose 1,6-bisphosphatae; in Escherichia coli this protein forms a dimer and binds manganese YP_001940082.1 related to nicotinamidase YP_001940091.1 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_001940094.1 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_001940095.1 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 do not have the motif YP_001940113.1 ccmA-like YP_001940177.1 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_001940264.1 necessary for biosynthesis of osmoregulated periplasmic glucans possibly involved in the transfer to the periplasmic space YP_001940267.1 involved in the control of the structural glucose backbone of osmoregulated periplasmic glucans YP_001940268.1 involved in the control of the structural glucose backbone of osmoregulated periplasmic glucans YP_001940274.1 catalyzes the formation of 5,10-methylenetetrahydrofolate from 5-methyltetrahydrofolate and S-adenosyl-L-homocysteine and methionine from S-adenosyl-L-methionine and L-homocysteine; expressed in B. subtilis under methionine starvation conditions YP_001940363.1 pheA-like YP_001940367.1 functions in MreBCD complex in some organisms YP_001940417.1 links inner and outer membranes YP_001940509.1 sigma24 homolog YP_001940528.1 nitrogenase iron protein; nitrogenase component 2; with component 1, an molybdenum-iron protein, catalyzes the fixation of nitrogen to ammonia; nitrogen reductase provides electrons to the nitrogenase complex; in R. etli there are three essentially identical copies of nifH which are actively expressed during symbiosis YP_001940531.1 with CysN catalyzes the formation of adenylylsulfate from sulfate and ATP YP_001940623.1 catalyzes the NADP-dependent rearrangement and reduction of 1-deoxy-D-xylulose-5-phosphate (DXP) to 2-C-methyl-D-erythritol 4-phosphate YP_001940656.1 links inner and outer membranes YP_001940681.1 catalyzes the formation of L-tryptophan from L-serine and 1-(indol-3-yl)glycerol 3-phosphate YP_001940758.1 catalyzes the formation of agmatine from arginine in putrescine and spermidine biosynthesis YP_001940770.1 catalyzes the conversion of 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate into isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP); functions in the nonmevalonate isoprenoid biosynthesis pathway YP_001940782.1 catalyzes the zinc dependent deacetylation of UDP-(3-O-acyl)-N-acetylglucosamine to UDP-3-O-(3-hydroxytetradecanoyl)-glucosamine in the second step of lipid A biosynthesis and catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP in fatty acid biosynthesis YP_001940804.1 emrA-like YP_001940821.1 acts in conjunction with GvcH to form H-protein-S-aminomethyldihydrolipoyllysine from glycine YP_001940827.1 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_001940834.1 related to GcvT YP_001940853.1 links inner and outer membranes YP_001940861.1 pyrophosphate-energized proton pump; pyrophosphate-energized inorganic pyrophosphatase; H+-PPase; can cleave pyrophosphate to two phosphates; can generate a proton motive force and drive pyrophosphate synthesis when PMF is sufficient YP_001940868.1 related to aryl-alcohol dehydrogenase YP_001940975.1 links inner and outer membranes YP_001941053.1 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_001941074.1 Produces ATP from ADP in the presence of a proton gradient across the membrane. The beta chain is a regulatory subunit YP_001941089.1 mutT-like YP_001941090.1 hemolysin III homolog YP_001941101.1 links inner and outer membranes YP_001941105.1 related to the helicase subunit of the Holliday junction resolvase