-- dump date   	20140619_131219
-- class       	Genbank::CDS
-- table       	cds_note
-- id	note
YP_000006.1	type II topoisomerase; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_000011.1	outermembrane lipoprotein; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_000021.1	contains alpha integrin like repeat domains; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_000023.1	flagellar motor switch protein; One of three proteins involved in switching the direction of the flagellar rotation
YP_000038.1	internal repeat sequences detected; contains TPR domain as detected by pfam-hmmr
YP_000043.1	methyl-accepting chemotaxis transmembrane protein; aerotaxis receptor
YP_000048.1	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_000050.1	OmpA-like; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_000058.1	MATE; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_000065.1	Catalyzes the formation of dUTP from dCTP in thymidylate biosynthesis
YP_000074.1	involved in lysine biosynthesis; DAP epimerase; produces DL-diaminopimelate from LL-diaminopimelate
YP_000087.1	internal repeat sequences detected; contains PBS lyase HEAT-like repeat as detected by pfam-hmmr
YP_000093.1	leucyltransferase; phenylalanyltransferse; functions in the N-end rule pathway; transfers Leu, Phe, Met, from aminoacyl-tRNAs to N-terminal of proteins with Arg or Lys
YP_000099.1	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_000107.1	internal repeat sequences detected; contains internal repeats as detected by prospero
YP_000109.1	with HisF IGPS catalyzes the conversion of phosphoribulosyl-formimino-5-aminoimidazole-4-carboxamide ribonucleotide phosphate and glutamine to imidazole-glycerol phosphate, 5-aminoimidazol-4-carboxamide ribonucleotide, and glutamate in histidine biosynthesis; the HisH subunit provides the glutamine amidotransferase activity that produces the ammonia necessary to HisF for the synthesis of imidazole-glycerol phosphate and 5-aminoimidazol-4-carboxamide ribonucleotide
YP_000121.1	internal repeat sequences detected; contains TPR domain as detected by pfam-hmmr
YP_000126.1	binds guanine nucleotides; in Escherichia coli depletion results in defective cell division and filamentation; in Bacillus subtilis this gene is essential
YP_000136.1	catalyzes the formation of chorismate from 5-O-(1-carboxyvinyl)-3-phosphoshikimate in aromatic amino acid biosynthesis
YP_000144.2	transaminase C; catalyzes transamination of alanine, valine, and 2-aminobutyrate with their respective 2-keto acids; also catalyzes terminal step in valine biosynthesis
YP_000147.1	in Escherichia coli transcription of this gene is enhanced by polyamines
YP_000151.1	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_000154.1	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_000182.1	OmpA-like; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_000207.1	PEP carboxykinase; PEP carboxylase; PEPCK; catalyzes the phosphorylation and decarboxylation of oxaloacetate to form phosphoenolpyruvate using ATP
YP_000209.1	internal repeat sequences detected; contains internal repeats as detected by prospero
YP_000212.1	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_000230.1	internal repeat sequences detected; contains internal repeats as detected by prospero
YP_000231.1	internal repeat sequences detected; contains internal repeats as detected by prospero
YP_000261.1	contains LysM domain; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_000262.1	EF-G; promotes GTP-dependent translocation of the ribosome during translation; many organisms have multiple copies of this gene
YP_000267.2	catalyzes the formation of decaprenylphosphoryl-5-phosphoribose from phosphoribose diphosphate and decaprenyl phosphate
YP_000273.1	geranyltranstransferase
YP_000287.1	forms a junction between the M-ring and FlgB during the flagella biosynthesis
YP_000288.1	with FlgF and B makes up the proximal portion of the flagellar basal body rod
YP_000289.1	with FlgF and C makes up the proximal portion of the flagellar basal body rod
YP_000292.1	internal repeat sequences detected; contains TPR domain as detected by pfam-hmmr
YP_000299.1	acts in conjunction with GvcH to form H-protein-S-aminomethyldihydrolipoyllysine from glycine
YP_000300.1	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_000301.2	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_000305.2	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_000314.1	internal repeat sequences detected; contains internal repeats as detected by prospero
YP_000315.1	contains TPR domains; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_000316.1	internal repeat sequences detected; contains internal repeats as detected by prospero
YP_000319.1	internal repeat sequences detected; contains internal repeats as detected by prospero
YP_000327.1	internal repeat sequences detected; contains TPR domain as detected by pfam-hmmr
YP_000343.1	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_000346.1	catalyzes a two-step reaction, first charging a tryptophan molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA
YP_000362.1	internal repeat sequences detected; contains Ankyryn repeat as detected by pfam-hmmr
YP_000369.1	catalyzes the interconversion of 2-phosphoglycerate and 3-phosphoglycerate
YP_000382.1	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; in Rhizobia and Ralstonia is involved in PHB biosynthesis
YP_000389.1	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_000390.1	Regulates rRNA biosynthesis by transcriptional antitermination
YP_000391.1	internal repeat sequences detected; contains TPR domain as detected by pfam-hmmr
YP_000392.1	internal repeat sequences detected; contains internal repeats as detected by prospero
YP_000412.1	An essential enzyme in the nonmevalonate pathway of isopentenyl diphosphate and dimethylallyl diphosphate biosynthesis
YP_000414.1	catalyzes the formation of 5-phospho-alpha-D-ribose 1-phosphate from D-ribose 5-phosphate and ATP
YP_000415.1	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_000416.1	Enables the recycling of peptidyl-tRNAs produced at termination of translation
YP_000422.1	catalyzes the formation of spermidine from putrescine and S-adenosylmethioninamine
YP_000430.1	Catalyzes the first step in hexosamine metabolism, converting fructose-6P into glucosamine-6P using glutamine as a nitrogen source
YP_000432.1	binds directly to the 16S rRNA and is involved in post-translational inhibition of arginine and ornithine decarboxylase
YP_000448.1	Big; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_000449.1	Big; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_000454.1	recognizes the termination signals UGA and UAA during protein translation a specificity which is dependent on amino acid residues residing in loops of the L-shaped tRNA-like molecule of RF2; in some organisms control of PrfB protein levels is maintained through a +1 ribosomal frameshifting mechanism; this protein is similar to release factor 1
YP_000456.1	catalyzes the formation of N(1)-(5-phospho-D-ribosyl)glycinamide from 5-phospho-D-ribosylamine and glycine in purine biosynthesis
YP_000457.1	valine--tRNA ligase; ValRS; converts valine ATP and tRNA(Val) to AMP PPi and valyl-tRNA(Val); class-I aminoacyl-tRNA synthetase type 1 subfamily; has a posttransfer editing process to hydrolyze mischarged Thr-tRNA(Val) which is done by the editing domain
YP_000462.1	SPase I; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_000473.1	internal repeat sequences detected; contains MORN repeat as detected by pfam-hmmr
YP_000479.1	contains internal repeat sequence; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_000481.1	internal repeat sequences detected
YP_000501.1	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_000507.1	molecular chaperone; 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_000508.1	heat shock protein 70; 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_000509.1	molecular chaperone; 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_000512.1	penicillin-binding protein 3
YP_000514.1	internal repeat sequences detected; contains internal repeats as detected by prospero
YP_000521.1	OmpA-like; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_000528.1	transmembrane; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_000533.1	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_000536.1	response regulator hybrid protein
YP_000537.1	alpha/beta hydrolase fold family; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_000547.1	hypothetical protein; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_000560.1	protease modulator
YP_000565.1	TrpG; with TrpE catalyzes the formation of anthranilate and glutamate from chorismate and glutamine; TrpG provides the glutamine amidotransferase activity
YP_000576.1	OmpA-like; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_000578.1	catalyzes the formation of 2-dehydropantoate from (R)-pantoate
YP_000591.1	degT family; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_000593.1	internal repeat sequences detected; contains TPR domain as detected by pfam-hmmr
YP_000594.1	catalyzes the conversion of 4-diphosphocytidyl-2-C-methyl-D-erythritol 2-phosphate into 2-C-methyl-D-erythritol 2,4-cyclodiphosphate
YP_000607.1	with MotA forms the ion channels that couple flagellar rotation to proton/sodium motive force across the membrane and forms the stator elements of the rotary flagellar machine
YP_000609.1	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_000625.1	EAL domain; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_000641.1	sphingomyelinase C precursor
YP_000652.1	restriction system
YP_000658.1	internal repeat sequences detected; contains internal repeats as detected by prospero
YP_000663.1	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_000665.1	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_000703.1	catalyzes the reversible transfer of the terminal phosphate of ATP to form a long chain polyphosphate
YP_000707.1	filament cap protein; involved in flagellin assembly
YP_000727.1	preprotein translocase subunit; forms a complex with SecY and SecG; SecYEG forms a  protein-conducting channel to which secA binds and translocates targeted polypeptides across the cytoplasmic membrane, a process driven by ATP and a proton-motive force
YP_000729.1	binds directly to 23S ribosomal RNA
YP_000730.1	in Escherichia coli and Methanococcus, this protein autoregulates expression; the binding site in the mRNA mimics the binding site in the 23S rRNA
YP_000731.1	binds the two ribosomal protein L7/L12 dimers and anchors them to the large ribosomal subunit
YP_000732.1	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_000733.1	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_000734.1	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_000735.1	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_000736.1	binds directly to 16S rRNA where it nucleates assembly of the head domain of the 30S subunit
YP_000741.1	in Escherichia coli this protein is one of the earliest assembly proteins in the large subunit
YP_000742.1	forms a direct contact with the tRNA during translation
YP_000743.1	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_000744.1	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_000768.1	contains N-terminal domain of unknown function fused to transcription elongation factor; GreA is necessary for efficient RNA polymerization through arresting sites; cleaves the nascent transcript and allows resumption of transcription elongation
YP_000777.1	catalyzes the formation of 4-methyl-5-(2-phosphoethyl)-thiazole and ADP from 4-methyl-5-(2-hydroxyethyl)-thiazole and ATP
YP_000802.1	rhs; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_000805.1	internal repeat sequences detected; contains Leucine rich repeat as detected by pfam-hmmr
YP_000806.1	internal repeat sequences detected; contains Leucine rich repeat as detected by pfam-hmmr
YP_000807.1	contains leucine-rich repeats; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_000808.1	internal repeat sequences detected; contains Leucine rich repeat as detected by pfam-hmmr
YP_000819.1	catalyzes the formation of dihydrodipicolinate from L-aspartate 4-semialdehyde and pyruvate in lysine and diaminopimelate biosynthesis
YP_000820.1	catalyzes the reduction of 2,3-dihydrodipicolinate to 2,3,4,5-tetrahydrodipicolinate in lysine and diaminopimelate biosynthesis
YP_000823.1	Acps
YP_000827.1	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_000828.1	EF-Ts; 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_000829.1	Catalyzes the phosphorylation of UMP to UDP
YP_000830.1	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_000831.1	catalyzes the formation of undecaprenyl pyrophosphate from isopentenyl pyrophosphate
YP_000833.1	catalyzes the NADP-dependent rearrangement and reduction of 1-deoxy-D-xylulose-5-phosphate (DXP) to 2-C-methyl-D-erythritol 4-phosphate
YP_000835.1	catalyzes the formation of prolyl-tRNA(Pro) from proline and tRNA(Pro)
YP_000836.1	catalyzes the formation of L-tryptophan from L-serine and 1-(indol-3-yl)glycerol 3-phosphate
YP_000837.1	catalyzes the formation of indole and glyceraldehyde 3-phosphate from indoleglycerol phosphate in tryptophan biosynthesis
YP_000840.1	catalyzes the formation of 1-deoxy-D-xylulose 5-phosphate from pyruvate and D-glyceraldehyde 3-phosphate
YP_000845.1	internal repeat sequences detected; contains Beta-propeller repeat as detected by pfam-hmmr
YP_000875.1	outer membrance lipoprotein; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_000926.1	contains phosphoesterase domain; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_000927.1	internal repeat sequences detected; contains MORN repeat as detected by pfam-hmmr
YP_000928.1	internal repeat sequences detected; contains internal repeats as detected by prospero
YP_000933.1	flavin-binding family; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_000942.1	internal repeat sequences detected; contains NHL repeat as detected by pfam-hmmr
YP_000946.1	methylamine utilization protein
YP_000947.1	contains porin activity; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_000948.1	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_000956.1	DMT; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_000964.1	catalyzes the hydrolysis of ATP coupled with the exchange of hydrogen and potassium ions
YP_000965.1	One of the components of the high-affinity ATP-driven potassium transport (or KDP) system, which catalyzes the hydrolysis of ATP coupled with the exchange of hydrogen and potassium ions
YP_000970.1	EAL domain; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_000976.1	lipoprotein
YP_000978.1	Exchanges the guanine residue with 7-aminomethyl-7-deazaguanine in tRNAs with GU(N) anticodons (tRNA-Asp, -Asn, -His and -Tyr)
YP_000985.1	ABC transporter, nickel-binding periplasmic protein precursor
YP_000998.1	internal repeat sequences detected; contains TPR domain as detected by pfam-hmmr
YP_001010.1	SphN-like protein
YP_001012.1	internal repeat sequences detected; contains Ankyrin repeat as detected by pfam-hmmr
YP_001021.1	internal repeat sequences detected; contains leucine-rich repeat as detected by pfam-hmmr
YP_001027.1	internal repeat sequences detected; contains DUF477 domain as detected by pfam-hmmr
YP_001033.1	transfers the N-acyl diglyceride moiety to the prospective N-terminal cysteine in prolipoprotein
YP_001035.2	polynucleotide adenyltransferase
YP_001037.1	internal repeat sequences detected; contains DUF583 domain as detected by pfam-hmmr
YP_001053.1	internal repeat sequences detected; contains internal repeats as detected by prospero
YP_001058.1	methylamine utilization protein
YP_001067.1	contains leucine-rich repeats; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_001068.1	internal repeat sequences detected; contains Leucine rich repeat as detected by pfam-hmmr
YP_001071.1	catalyzes the dehydration of 2,3-dihydroxy-3-methylbutanoate to 3-methyl-2-oxobutanoate in valine and isoleucine biosynthesis
YP_001074.1	P or Q; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_001081.1	protease; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_001082.1	HtrA-like; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_001089.1	internal repeat sequences detected; contains Kelch motif as detected by pfam-hmmr
YP_001093.1	catalyzes the formation of 1-(5-phosphoribosyl)-5-aminoimidazole from 2-(formamido)-N1-(5-phosphoribosyl)acetamidine and ATP in purine biosynthesis
YP_001104.2	AcuC/AphA family; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_001112.1	DNA repair protein; 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_001145.1	IF-2B
YP_001146.1	contains rhomboid domain; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_001150.1	contains leucine rich-repeats; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_001152.1	internal repeat sequences detected; contains internal repeats as detected by prospero
YP_001158.1	hook protein; the hook connects flagellar basal body to the flagellar filament
YP_001165.1	catalyzes the formation of L-citrulline from carbamoyl phosphate and L-ornithine in arginine biosynthesis and degradation
YP_001179.1	internal repeat sequences detected; contains internal repeats as detected by prospero
YP_001186.1	internal repeat sequences detected; contains DUF789 domain as detected by pfam-hmmr
YP_001187.1	internal repeat sequences detected; contains internal repeats as detected by prospero
YP_001191.1	internal repeat sequences detected; contains TPR domain as detected by pfam-hmmr
YP_001202.1	SPase I
YP_001206.2	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_001208.1	produces ATP from ADP in the presence of a proton gradient across the membrane; subunit B is part of the membrane proton channel
YP_001209.1	produces ATP from ADP in the presence of a proton gradient across the membrane; the delta subunit is part of the catalytic core of the ATP synthase complex
YP_001210.2	produces ATP from ADP in the presence of a proton gradient across the membrane; the alpha chain is a catalytic subunit
YP_001211.1	produces ATP from ADP in the presence of a proton gradient across the membrane; the gamma chain is a regulatory subunit
YP_001212.1	Produces ATP from ADP in the presence of a proton gradient across the membrane. The beta chain is a regulatory subunit
YP_001213.1	produces ATP from ADP in the presence of a proton gradient across the membrane; the epsilon subunit is part of the catalytic core of the ATP synthase complex
YP_001214.1	internal repeat sequences detected; contains Poly_export domain as detected by pfam-hmmr
YP_001215.1	internal repeat sequences detected; contains MHC_I C-terminus domain as detected by pfam-hmmr
YP_001227.1	rod shape-determining protein; functions in MreBCD complex in some organisms
YP_001228.1	rod shape-determining protein; 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_001229.1	rod shape-determining protein
YP_001231.1	rod shape-determining protein
YP_001248.1	RF-3
YP_001274.1	catalyzes the phosphorylation of N-acetyl-L-glutamate to form N-acetyl-L-glutamate 5-phosphate
YP_001290.1	distal rod protein; makes up the distal portion of the flagellar basal body rod
YP_001293.1	part of the basal body which consists of four rings L, P, S, and M mounted on a central rod; Vibrio parahaemolyticus, Yersinia, Bradyrhizobium and other bacteria have two copies of this and other flagellar genes; the V. parahaemolyticus protein is associated with the polar flagella and the Bradyrhizobium protein is associated with the thick flagellum
YP_001299.1	chaperonin; 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_001300.1	heat shock protein; 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_001316.1	lipoprotein; major outer membrance protein; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_001318.2	methionine adenosyltransferase; catalyzes the formation of S-adenosylmethionine from methionine and ATP; methionine adenosyltransferase
YP_001336.1	FliP, with proteins FliQ and FliR, forms the core of the central channel in the flagella export apparatus
YP_001339.1	membrane protein responsible for substrate specificity switching from rod/hook-type export to filament-type export
YP_001341.1	Positive regulator of class III flagellar genes
YP_001342.1	MinD
YP_001344.1	involved in the initiation of sporulation and glycogen biosynthesis
YP_001353.1	flagellar protein
YP_001354.1	type III secretory pathway ATPase
YP_001355.1	flagellar protein; the MS-ring anchors the flagellum to the cytoplasmic membrane; part of the flagellar basal body which consists of four rings L, P, S, and M mounted on a central rod
YP_001357.1	binds to and inhibits the function of flagella specific ATPase FliI
YP_001371.1	internal repeat sequences detected; contains TPR domain as detected by pfam-hmmr
YP_001373.1	with IlvI catalyzes the formation of 2-acetolactate from pyruvate, the small subunit is required for full activity and valine sensitivity; E.coli produces 3 isoenzymes of acetolactate synthase which differ in specificity to substrates, valine sensitivity and affinity for cofactors; also known as acetolactate synthase 3 small subunit
YP_001378.1	trigger factor
YP_001379.1	hydrolyzes proteins to small peptides; with the ATPase subunits ClpA or ClpX, ClpP degrades specific substrates
YP_001380.1	ATP-binding specificity subunit; binds and unfolds substrates as part of the ClpXP protease
YP_001384.1	catalyzes the phosphorylation of protein substrates at serine and threonine residues in vitro; specific substrate in vivo has not been identified yet; plays a role in long-term cell survival and expression of surface appendages
YP_001398.1	internal repeat sequences detected; contains internal repeats as detected by prospero
YP_001408.1	alpha/beta hydrolase fold family; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_001414.1	catalyzes the oxidation of L-histidinol to L-histidinaldehyde and then to L-histidine in histidine biosynthesis; functions as a dimer
YP_001415.1	catalyzes the formation of (R)-pantothenate from pantoate and beta-alanine
YP_001417.1	inner membrance lipoprotein; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_001421.1	allows the formation of correctly charged Asn-tRNA(Asn) or Gln-tRNA(Gln) through the transamidation of misacylated Asp-tRNA(Asn) or Glu-tRNA(Gln) in organisms which lack either or both of asparaginyl-tRNA or glutaminyl-tRNA synthetases; reaction takes place in the presence of glutamine and ATP through an activated phospho-Asp-tRNA(Asn) or phospho-Glu-tRNA; some Mycoplasma proteins contain an N-terminal fusion to an unknown domain
YP_001422.1	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_001423.1	catalyzes the conversion of 5-[(5-phospho-1-deoxyribulos-1-ylamino)methylideneamino]- 1-(5-phosphoribosyl)imidazole-4-carboxamideand glutamine to imidazole-glycerol phosphate, 5-aminoimidazol-4-carboxamideribonucleotide and glutamate; the HisF subunit acts as a cyclase
YP_001428.1	RCC1
YP_001454.1	gliding motility protein
YP_001455.1	gliding motility protein
YP_001461.1	MAP
YP_001462.1	internal repeat sequences detected; contains DUF350 domain as detected by pfam-hmmr
YP_001465.1	contains leucine-rich repeats; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_001466.1	internal repeat sequences detected; contains Leucine rich repeat as detected by pfam-hmmr
YP_001467.1	transmembrane; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_001468.1	internal repeat sequences detected; contains Leucine rich repeat as detected by pfam-hmmr
YP_001469.1	iron-regulated; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_001471.1	PDF; cleaves off formyl group from N-terminal methionine residues of newly synthesized proteins; binds iron(2+)
YP_001499.1	CTP synthase; CTP synthase; cytidine triphosphate synthetase; catalyzes the ATP-dependent amination of UTP to CTP with either L-glutamine or ammonia as the source of nitrogen; in Escherichia coli this enzyme forms a homotetramer
YP_001500.1	catalyzes the formation of 2-dehydro-3-deoxy-D-octonate 8-phosphate from phosphoenolpyruvate and D-arabinose 5-phosphate in LPS biosynthesis
YP_001502.1	internal repeat sequences detected; contains internal repeats as detected by prospero
YP_001505.1	catalyzes the phosphorylation of the phosphocarrier protein HPr of the bacterial phosphotransferase system
YP_001508.1	sigma 54 activator
YP_001514.2	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_001515.1	contains KH domain; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_001516.1	Essential for efficient processing of 16S rRNA
YP_001517.1	methylates guanosine-37 in various tRNAs; uses S-adenosyl-L-methionine to transfer methyl group to tRNA; Chlamydial proteins show a C-terminal extension of unknown function
YP_001518.1	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_001525.1	ATPase with chaperone activity
YP_001537.1	cell division protein
YP_001546.1	Catalyzes the rate-limiting step in dNTP synthesis
YP_001548.1	catalyzes the bidirectional exonucleolytic cleavage of DNA
YP_001549.1	bidirectionally degrades single-stranded DNA into large acid-insoluble oligonucleotides
YP_001556.1	Enables the recycling of peptidyl-tRNAs produced at termination of translation
YP_001558.1	heat shock protein involved in degradation of misfolded proteins
YP_001559.1	heat shock protein involved in degradation of misfolded proteins
YP_001568.1	UbiA prenyltransferase family catalyzes the transfer of a prenyl group to various acceptors with hydrophobic ring structures in the biosynthesis of respiratory quinones, hemes, chlorophylls, vitamin E, and shikonin
YP_001571.1	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_001576.1	Catalyzes the first of the two reduction steps in the elongation cycle of fatty acid synthesis
YP_001591.1	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_001593.1	internal repeat sequences detected; contains DUF124 domain as detected by pfam-hmmr
YP_001594.1	internal repeat sequences detected; contains DUF124 domain as detected by pfam-hmmr
YP_001601.1	lipoprotein; Qlp42
YP_001604.1	catalyzes the radical-mediated insertion of two sulfur atoms into an ACP ACP bound to an octanoyl group to produce a lipoyl group
YP_001608.1	similar to novel fructose-6-phosphate aldolase from Escherichia coli; enzyme from Methanocaldococcus janaschii shows transaldolase activity
YP_001611.1	bifunctional purine biosynthesis protein; involved in de novo purine biosynthesis
YP_001613.1	flagellar protein
YP_001618.1	dedA family; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_001620.1	internal repeat sequences detected; contains internal repeats as detected by prospero
YP_001621.1	internal repeat sequences detected; contains internal repeats as detected by prospero
YP_001635.1	internal repeat sequences detected; contains internal repeats as detected by prospero
YP_001650.1	catalyzes the formation of tyrosyl-tRNA(Tyr) from tyrosine and tRNA(Tyr)
YP_001656.1	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_001659.1	catalyzes the formation of D-fructose 6-phosphate from fructose-1,6-bisphosphate
YP_001667.1	internal repeat sequences detected; contains internal repeats as detected by prospero
YP_001669.1	The UvrABC repair system catalyzes the recognition and processing of DNA lesions. UvrA is an ATPase and a DNA-binding protein. A damage recognition complex composed of 2 uvrA and 2 uvrB subunits scans DNA for abnormalities. When the presence of a lesion has been verified by uvrB, the uvrA molecules dissociate
YP_001678.1	catalyzes the formation of 2-isopropylmalate from acetyl-CoA and 2-oxoisovalerate in leucine biosynthesis
YP_001697.1	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_001698.1	catalyzes the reduction of N-acetyl-5-glutamyl phosphate to N-acetyl-L-glutamate 5-semialdehyde in arginine biosynthesis and the reduction of N-acetyl-gamma-aminoadipyl-phosphate to N-acetyl-L-aminoadipate-semialdehyde in lysine biosynthesis; involved in both the arginine and lysine biosynthetic pathways; lysine is produced via the AAA pathway, lysine from alpha-aminoadipate
YP_001708.1	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_001712.1	required for 70S ribosome assembly
YP_001719.1	catalyzes the formation of N-acetyl-l-glutamate 5-semialdehyde from 2-oxoglutarate and N(2)-acetyl-L-ornithine
YP_001720.1	catalyzes the oxidation of 3-isopropylmalate to 3-carboxy-4-methyl-2-oxopentanoate in leucine biosynthesis
YP_001726.1	This protein performs the mismatch recognition step during the DNA repair process
YP_001733.2	catalyzes the oxidation of malate to oxaloacetate
YP_001745.1	signal peptide peptidase
YP_001754.1	Catalyzes the oxidation of dihydrolipoamide to lipoamide
YP_001772.1	catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate in leucine biosynthesis; forms a heterodimer of LeuC/D
YP_001773.1	dehydratase component, catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate
YP_001776.1	catalyzes the isomerization of sedoheptulose 7-phosphate to D-glycero-D-manno-heptose 7-phosphate
YP_001780.1	contains glutamine-hydrolyzing domain and glutamine amidotransferase; GMP-binding domain; functions to produce GMP from XMP in the IMP pathway
YP_001781.1	NADPH-dependent; catalyzes the reduction of 7-cyano-7-deazaguanine to 7-aminomethyl-7-deazaguanine in queuosine biosynthesis
YP_001785.1	flagellar switch protein; with FliG and FliN makes up the switch complex which is involved in switching the direction of the flagella rotation
YP_001788.1	PPIase
YP_001789.1	catalyzes the formation of arginine from (N-L-arginino)succinate
YP_001794.1	internal repeat sequences detected; contains SPFH domain/Band 7 family as detected by pfam-hmmr
YP_001799.1	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_001802.1	Catalyzes the conversion of acetyl-CoA and L-homoserine to CoA and O-acetyl-L-homoserine
YP_001804.1	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_001805.1	internal repeat sequences detected; contains internal repeats as detected by prospero
YP_001815.1	First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan
YP_001819.1	HIT family; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_001844.1	part of a two-component regulatory system with CreB or PhoB; involved in catabolic regulation
YP_001847.1	catalyzes the oxidative decarboxylation of pyruvate with concomitant acetylation of a lipoic acid-containing dihydrolipoamide acyltransferase within the complex. The pyruvate dehydrogenase complex catalyzes the overall conversion of pyruvate to acetyl-CoA and CO(2); it contains multiple copies of three enzymatic components: pyruvate dehydrogenase (E1), dihydrolipoamide acetyltransferase (E2) and lipoamide dehydrogenase
YP_001859.1	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_001863.1	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_001867.1	EAL domain; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_001872.1	glycosyltransferase
YP_001876.1	Conjugates Arg from its aminoacyl-tRNA to the N-termini of proteins containing an N-terminal aspartate or glutamate
YP_001889.1	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_001899.1	enolase; catalyzes the formation of phosphoenolpyruvate from 2-phospho-D-glycerate in glycolysis
YP_001900.1	internal repeat sequences detected; contains internal repeats as detected by prospero
YP_001922.1	internal repeat sequences detected; contains MORN repeat as detected by pfam-hmmr
YP_001923.1	internal repeat sequences detected; contains internal repeats as detected by prospero
YP_001929.1	contains TPR and novel repeat domains; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_001930.1	transmembrane protein; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_001931.2	catalyzes the formation of 3-phosphonooxypyruvate from 3-phospho-D-glycerate in serine biosynthesis; can also reduce alpha ketoglutarate to form 2-hydroxyglutarate
YP_001937.1	alpha/beta hydrolase fold family; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_001941.1	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_001942.1	catalyzes the reversible formation of fumarate and ubiquinol from succinate and ubiquinone
YP_001949.1	elongation factor; binds to the ribosome on the universally-conserved alpha-sarcin loop
YP_001954.1	internal repeat sequences detected; contains Helix-turn-helix domain as detected by pfam-hmmr
YP_001955.1	heat shock protein
YP_001961.1	internal repeat sequences detected; contains FTH domain as detected by pfam-hmmr
YP_001963.1	catalyzes a two-step reaction, first charging an asparagine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA
YP_001964.1	catalyzes the formation of 5,10-methenyltetrahydrofolate from 5,10-methylenetetrahydrofolate and subsequent formation of 10-formyltetrahydrofolate from 5,10-methenyltetrahydrofolate
YP_001966.1	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_001982.1	rhs; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_001985.1	internal repeat sequences detected; contains Kelch motif as detected by pfam-hmmr
YP_002001.1	internal repeat sequences detected; contains internal repeats as detected by prospero
YP_002008.1	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_002017.1	internal repeat sequences detected; contains internal repeats as detected by prospero
YP_002020.1	SPaseI
YP_002025.1	Converts 3-phospho-D-glycerate to 3-phospho-D-glyceroyl phosphate during the glycolysis pathway
YP_002028.1	Reversibly isomerizes the ketone sugar dihydroxyacetone phosphate to the aldehyde sugar glyceraldehyde-3-phosphate
YP_002033.1	internal repeat sequences detected; contains Beta-propeller repeat as detected by pfam-hmmr
YP_002035.1	competence/damage-inducible protein
YP_002036.1	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_002038.1	DNA repair protein
YP_002042.1	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_002044.1	in Escherichia coli this protein is wrapped around the base of the L1 stalk
YP_002045.2	binds as a heterodimer with protein S6 to the central domain of the 16S rRNA; helps stabilize the platform of the 30S subunit
YP_002047.1	binds cooperatively with S18 to the S15-16S complex, allowing platform assembly to continue with S11 and S21
YP_002052.1	DASS family; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_002064.1	degT family; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_002092.1	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_002110.1	degT family; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_002116.1	unknown protein LPS related rfb locus of L. borgpetersenii; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_002132.1	degT family; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_002133.1	degT family; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_002142.1	internal repeat sequences detected; contains internal repeats as detected by prospero
YP_002145.1	small heat-shock protein
YP_002146.1	small heat-shock protein
YP_002168.1	catalyzes the formation of glycerone phosphate and D-glyceraldehyde 3-phosphate from D-fructose 1,6-bisphosphate
YP_002169.1	internal repeat sequences detected; contains Leucine Rich Repeat as detected by pfam-hmmr
YP_002183.1	involved in the de novo synthesis of pyridoxine (Vitamin B6)
YP_002186.1	quinolinate synthetase b
YP_002189.1	transmembrane protein; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_002194.1	contains alpha integrin like repeat domains; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_002204.1	catalyzes a sulfuration reaction to synthesize 2-thiouridine at the U34 position of tRNAs
YP_002211.1	internal repeat sequences detected; contains internal repeats as detected by prospero
YP_002219.1	H+-PPase; 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_002236.1	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_002239.1	Represses a number of genes involved in the response to DNA damage
YP_002243.1	internal repeat sequences detected; contains TPR domain as detected by pfam-hmmr
YP_002267.1	catalyzes the reaction of glycine with 5,10-methylenetetrahydrofolate to form L-serine and tetrahydrofolate
YP_002274.1	RND superfamily; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_002282.1	Catalyzes a two-step reaction, first charging a glycine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA
YP_002283.1	internal repeat sequences detected; contains internal repeats as detected by prospero
YP_002289.1	GTP-binding protein
YP_002293.1	major facilitator superfamily; MFS; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_002302.1	internal repeat sequences detected; contains internal repeats by prospero
YP_002307.1	contains leucine-rich repeats; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_002318.1	DME family; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_002321.1	lipoprotein signal peptidase; integral membrane protein that removes signal peptides from prolipoproteins during lipoprotein biosynthesis
YP_002332.1	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_002333.1	contains leucine-rich repeats; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_002334.1	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_002348.1	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_002349.1	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_002373.1	involved in acylation of glycerol-3-phosphate to form 1-acyl-glycerol-3 phosphate for use in phospholipid biosynthesis; functions with PlsY
YP_002374.1	some L32 proteins have zinc finger motifs consisting of CXXC while others do not
YP_002375.1	short form of enzyme; requires HisZ for function; catalyzes the formation of N'-5'-phosphoribosyl-ATP from phosphoribosyl pyrophosphate; crucial role in histidine biosynthesis; forms heteromultimer of HisG and HisZ
YP_002376.1	internal repeat sequences detected; contains TPR domain as detected by pfam-hmmr
YP_002377.1	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_002378.1	catalyzes the formation of 5-O-(1-carboxyvinyl)-3-phosphoshikimate from phosphoenolpyruvate and 3-phosphoshikimate in tryptophan biosynthesis
YP_002389.1	binds directly to 23S ribosomal RNA prior to in vitro assembly of the 50S ribosomal subunit
YP_002391.1	IF-3; 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_002392.1	internal repeat sequences detected; contains internal repeats as detected by prospero
YP_002393.1	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_002394.1	catalyzes production of carbamoyl phosphate from bicarbonate and glutamine in pyrimidine and arginine biosynthesis pathways; forms an octamer composed of four CarAB dimers
YP_002397.1	chaperone protein; Hsp90 family; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_002402.1	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_002405.1	penicillin-binding protein
YP_002407.1	contains rhomboid domain; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_002408.1	internal repeat sequences detected; contains internal repeats as detected by prospero
YP_002410.1	serine chemoreceptor; mcp-i; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_002412.1	universal stress protein family; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_002414.1	TerC family; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_002436.1	catalyzes the formation of L-histidinol phosphate from imidazole-acetol phosphate and glutamate in histidine biosynthesis
YP_002438.1	associated with chromosome architecture/replication; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_002440.1	internal repeat sequences detected; contains Leucine rich repeat as detected by pfam-hmmr
YP_002444.1	AcsA; in Sinorhizobium meliloti this enzyme is required for acetoacetate activation; similar to acetyl-CoA synthase
YP_002449.1	contains GAF domain; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_002462.1	bifunctional protein; identified by sequence similarity; ORF located using Blastx/Glimmer; RibA
YP_002463.1	catalyzes the formation of riboflavin from 6,7-dimethyl-8-(1-D-ribityl)lumazine
YP_002464.1	riboflavin biosynthesis protein (deaminase/reductase)
YP_002465.1	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_002466.1	part of the preprotein secretory system; when complexed with proteins SecF and YajC, SecDFyajC stimulates the proton motive force-driven protein translocation, and appears to be required for the release of mature proteins from the extracytoplasmic side of the membrane
YP_002469.1	Catalyzes the conversion of N-(5-phospho-D-ribosyl)-anthranilate and diphosphate to anthranilate and 5-phospho-alpha-D-ribose 1-diphosphate
YP_002491.1	histidyl-tRNA synthetase class II core domain
YP_002492.1	catalyzes the formation of N6-(1,2,-dicarboxyethyl)-AMP from L-aspartate, inosine monophosphate and GTP in AMP biosynthesis
YP_002495.1	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_002497.1	catalyzes the interconversion of succinyl-CoA and succinate
YP_002514.1	major facilitator superfamily; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_002540.1	bifunctional enzyme; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_002543.1	penicillin-binding protein
YP_002554.1	sphingomyelinase
YP_002555.1	sphingomyelinase
YP_002559.1	transcription termination factor; An RNA-DNA helicase that actively releases nascent mRNAs from paused transcription complexes
YP_002560.1	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_002561.1	internal repeat sequences detected; contains Pentapeptide repeats (8 copies) by pfam-hmmr
YP_002563.1	internal repeat sequences detected; contains TPR domain as detected by pfam-hmmr
YP_002569.1	penicillin-binding protein; transmembrane protein; identified by sequence similarity; ORF located using Blastx/Glimmer; peptidoglycan synthetase
YP_002588.1	GNAT family; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_002600.1	internal repeat sequences detected; contains internal repeats as detected by prospero
YP_002601.1	required for the synthesis of the hydromethylpyrimidine moiety of thiamine
YP_002623.1	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_002626.1	GTPase; 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_002627.1	transcription termination factor; modifies transcription through interactions with RNA polymerase affecting elongation, readthrough, termination, and antitermination
YP_002650.1	internal repeat sequences detected; contains NHL repeat as detected by pfam-hmmr
YP_002651.1	internal repeat sequences detected; contains TPR domain as detected by pfam-hmmr
YP_002653.1	catalyzes the formation of methylglyoxal from glycerone phosphate
YP_002662.1	The point of entry for the majority of electrons that traverse the respiratory chain eventually resulting in the reduction of oxygen
YP_002679.1	contains leucine-rich repeats; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_002684.1	valine sensitive; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_002685.1	antioxidant activity; thioredoxin-dependent thiol peroxidase; forms homodimers in solution; shows substrate specificity to alkyl hydroperoxides; periplasmic protein
YP_002690.1	Catalyzes the phosphorylation of L-glutamate during the proline biosynthesis pathway
YP_002691.1	catalyzes the formation of glutamate 5-phosphate from glutamate in proline biosynthesis
YP_002692.1	essential GTPase; exhibits high exchange rate for GTP/GDP; associates with 50S ribosomal subunit; involved in regulation of chromosomal replication
YP_002693.1	involved in the peptidyltransferase reaction during translation
YP_002697.1	internal repeat sequences detected; contains 3-demethylubiquinone-9 3-methyltransferase domain as detected by pfam-hmmr
YP_002702.1	23S rRNA m2A2503 methyltransferase; methylates the C2 position of the A2530 nucleotide in 23S rRNA; may be involved in antibiotic resistance
YP_002703.1	involved in tryptophan biosynthesis; amino acid biosynthesis; converts 1-(2-carboxyphenylamino)-1-deoxy-D-ribulose 5-phosphate to C(1)-(3-indolyl)-glycerol 3-phosphat
YP_002709.1	type III; catalyzes the formation of (R)-4'-phosphopantothenate from (R)-pantothenate in coenzyme A biosynthesis; type III pantothenate kinases are not subject to feedback inhibition from coenzyme A and have a high Km for ATP
YP_002717.1	this stereospecific enzymes reduces the R isomer of methionine sulfoxide while MsrA reduces the S form; provides protection against oxidative stress
YP_002728.1	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_002748.1	SpoU family; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_002755.1	catalyzes the transfer of the carbamoyl moiety from carbamoyl phosphate to L- aspartate in pyrimidine biosynthesis
YP_002757.1	catalyzes the interconversion of tetrahydrodipicolinate and L,L-diaminopimelate in lysine biosynthesis
YP_002761.1	is a component of the macrolide binding site in the peptidyl transferase center
YP_002762.1	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_002763.1	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_002764.1	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_002765.1	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_002766.1	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_002767.1	stimulates the activities of the other two initiation factors, IF-2 and IF-3
YP_002768.1	essential enzyme that recycles AMP in active cells; converts ATP and AMP to two molecules of ADP
YP_002769.1	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_002770.1	late assembly protein
YP_002771.1	L30 binds domain II of the 23S rRNA and the 5S rRNA; similar to eukaryotic protein L7
YP_002772.1	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_002773.1	binds 5S rRNA along with protein L5 and L25
YP_002774.1	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_002775.1	binds directly to 16S rRNA central domain where it helps coordinate assembly of the platform of the 30S subunit
YP_002776.1	located in the peptidyl transferase center and involved in assembly of 30S ribosome subunit; similar to what is observed with proteins L31 and L33, some proteins in this family contain CXXC motifs that are involved in zinc binding; if two copies are present in a genome, then the duplicated copy appears to have lost the zinc-binding motif and is instead regulated by zinc; the proteins in this group appear to contain the zinc-binding motif
YP_002777.1	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_002778.1	assembly initiator protein; binds to 5' end of 23S rRNA and nucleates assembly of the 50S; surrounds polypeptide exit tunnel
YP_002779.2	binds to the 23S rRNA between the centers for peptidyl transferase and GTPase
YP_002780.1	primary binding protein; helps mediate assembly; involved in translation fidelity
YP_002781.1	one of the stabilizing components for the large ribosomal subunit
YP_002782.1	located in the peptidyl transferase center and may be involved in peptidyl transferase activity; similar to archaeal L10e
YP_002783.1	forms a complex with S10 and S14; binds the lower part of the 30S subunit head and the mRNA in the complete ribosome to position it for translation
YP_002784.1	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_002785.1	protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA
YP_002786.1	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_002787.1	binds third domain of 23S rRNA and protein L29; part of exit tunnel
YP_002788.1	L4 is important during the early stages of 50S assembly; it initially binds near the 5' end of the 23S rRNA
YP_002789.1	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_002790.1	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_002791.1	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_002792.1	EF-G; promotes GTP-dependent translocation of the ribosome during translation; many organisms have multiple copies of this gene
YP_002799.1	four CarB-CarA dimers form the carbamoyl phosphate synthetase holoenzyme that catalyzes the production of carbamoyl phosphate; CarB is responsible for the amidotransferase activity
YP_002812.1	internal repeat sequences detected; contains peptidase family M23/M37 as detected by pfam-hmmr
YP_002815.1	contains leucine-rich repeats; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_002825.1	catalyzes the formation of 4-phospho-L-aspartate from L-aspartate and ATP, in Bacillus, lysine sensitive; regulated by response to starvation.
YP_002844.1	internal repeat sequences detected
YP_002854.1	contains rhomboid domain; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_002855.1	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_002864.1	folylpolyglutamate synthase
YP_002877.1	3 different subfamilies; catalyzes the formation of quinolinate from iminoaspartate and dihydroxyacetone phosphate
YP_002879.1	outer membrane lipoprotein; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_002882.1	cell division protein; 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_002883.1	cell division protein
YP_002884.1	cell division protein
YP_002909.1	dedA family; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_002962.1	internal repeat sequences detected; contains internal repeats as detected by prospero
YP_002963.1	late competence protein
YP_002964.1	involved in translesion DNA polymerization with beta clamp of polymerase III; belongs to Y family of polymerases; does not contain proofreading function
YP_002972.1	outer membrance liopprotein; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_002997.1	catalyzes the phosphorylation of the 3'-hydroxyl group of dephosphocoenzyme A to form coenzyme A; involved in coenzyme A biosynthesis
YP_003004.2	peptidase; protease IV
YP_003007.1	internal repeat sequences detected; contains TPR domain as detected by pfam-hmmr
YP_003014.1	functions in sugar metabolism in glycolysis and the Embden-Meyerhof pathways (EMP) and in gluconeogenesis; catalyzes reversible isomerization of glucose-6-phosphate to fructose-6-phosphate; member of PGI family
YP_003022.1	alpha/beta hydrolase superfamily; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_003029.1	contains EAL domain; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_003037.1	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_003046.1	catalyzes the reduction of UDP-N-acetylglucosamine enolpyruvate to form UDP-N-acetylmuramate in peptidoglycan biosynthesis
YP_003050.1	decarboxylates 4-phosphopantothenoylcysteine to form 4'-phosphopantotheine.
YP_003051.1	contains CBS domains; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_003053.1	catalyzes the NAD(P)H-dependent reduction of glycerol 3-phosphate to glycerone phosphate
YP_003058.1	catalyzes branch migration in Holliday junction intermediates
YP_003062.1	catalyzes the addition of (R)-3-hydroxytetradecanoyl to the glucosamine disaccharide in lipid A biosynthesis
YP_003071.1	catalyzes the formation of tetrahydrofolate and 2-dehydropantoate from 5,10-methylenetetrahydrofolate and 3-methyl-2-oxobutanoate
YP_003076.1	nodulation protein noel
YP_003077.1	drug: Na+ antiporter
YP_003082.1	potassium uptake protein
YP_003084.1	oxidoreductase
YP_003095.1	the Vibrio parahaemolyticus gene VP2867 was found to be a potassium/proton antiporter; can rapidly extrude potassium against a potassium gradient at alkaline pH when cloned and expressed in Escherichia coli
YP_003097.1	GNAT family; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_003115.1	penicillin-binding protein
YP_003126.1	isoleucine patch superfamily; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_003127.2	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_003147.2	functions in degradation of stringent response intracellular messenger ppGpp; in Escherichia coli this gene is co-transcribed with the toxin/antitoxin genes mazEF; activity of MazG is inhibited by MazEF in vitro; ppGpp inhibits mazEF expression; MazG thus works in limiting the toxic activity of the MazF toxin induced during starvation; MazG also interacts with the GTPase protein Era
YP_003151.1	Converts isocitrate to alpha ketoglutarate
YP_003158.1	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_003160.1	internal repeat sequences detected; contains Cysteine rich repeat as detected by pfam-hmmr
YP_003178.1	bifunctional arginine biosynthesis protein ArgJ; functions at the 1st and 5th steps in arginine biosynthesis; involved in synthesis of acetylglutamate from glutamate and acetyl-CoA and ornithine by transacetylation between acetylornithine and glutmate
YP_003206.1	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_003208.1	internal repeat sequences detected; contains internal repeats as detected by prospero
YP_003211.1	internal repeat sequences detected; contains MORN repeat as detected by pfam-hmmr
YP_003215.1	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_003229.1	catalyzes the formation of 2-N(omega)-(L-arginino)succinate from L-citrulline and L-aspartate in arginine biosynthesis, AMP-forming; citrulline-aspartate ligase
YP_003230.1	Catalyzes the conversion of ATP and pantetheine 4'-phosphate to diphosphate and 3'-dephospho-coA
YP_003231.1	catalyzes the formation of nucleoside triphosphate from ATP and nucleoside diphosphate
YP_003233.1	catalyzes the formation of 2-oxoglutarate from isocitrate
YP_003244.1	flagellar motor protein
YP_003250.1	Charges one glutamine molecule and pairs it to its corresponding RNA trinucleotide during protein translation
YP_003255.1	flagellar basal-body rod protein
YP_003261.1	catalyzes the synthesis of alpha-ribazole-5'-phosphate from nicotinate mononucleotide and 5,6-dimethylbenzimidazole
YP_003272.1	hemoprotein; NADPH dependent; with the alpha subunit (a flavoprotein) catalyzes the reduction of sulfite to sulfide
YP_003276.1	with CysN catalyzes the formation of adenylylsulfate from sulfate and ATP
YP_003282.1	hypothetical protein
YP_003292.1	MutS-like; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_003296.1	catalyzes the formation of (R)-2,3-dihydroxy-3-methylbutanoate from (S)-2-hydroxy-2-methyl-3-oxobutanoate in valine and isoleucine biosynthesis
YP_003299.1	flavin-binding family; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_003300.1	phosphodiesterase
YP_003303.1	internal repeat sequences detected; contains internal repeats as detected by prospero
YP_003306.1	iron-binding protein
YP_003307.1	Acs; catalyzes the conversion of acetate and CoA to acetyl-CoA
YP_003308.1	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_003316.1	non-folate utilizing enzyme, catalyzes the production of beta-formyl glycinamide ribonucleotide from formate, ATP, and beta-GAR and a side reaction producing acetyl phosphate and ADP from acetate and ATP; involved in de novo purine biosynthesis
YP_003336.1	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_003351.1	affects carbohydrate metabolism; has regulatory role in many processes
YP_003352.1	binds to flagellin and appears to stabilize flagellin during flagella assembly
YP_003353.1	With FlgK acts as a hook filament junction protein to join the flagellar filament to the hook
YP_003354.1	with FlgL acts as a hook filament junction protein to join the flagellar filament to the hook
YP_003369.1	internal repeat sequences detected; contains internal repeats as detected by prospero
YP_003377.1	recombination protein; involved in a recombinational process of DNA repair, independent of the recBC complex
YP_003380.1	OmpA-like; identified by sequence similarity; ORF located using Blastx/Glimmer
YP_003381.1	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_003391.1	internal repeat sequences detected; contains internal repeats as detected by prospero
YP_003392.1	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_003393.1	catalyzes the transamination of the branched-chain amino acids to their respective alpha-keto acids
YP_003402.1	catalyzes the formation of porphobilinogen from 5-aminolevulinate
YP_003403.1	Converts (S)-4-amino-5-oxopentanoate to 5-aminolevulinate during the porphyrin biosynthesis pathway
YP_003407.1	catalyzes the oxygen-independent formation of protoporphyrinogen-IX from coproporphyrinogen-III
YP_003412.1	chromosome partitioning; identified by sequence similarity; putative; ORF located using Blastx/Glimmer
YP_003413.1	chromosome partitioning; identified by sequence similarity; putative; ORF located using Blastx/Glimmer
YP_003427.1	internal repeat sequences detected; contains internal repeats as detected by prospero
YP_003436.1	molecular chaperone
YP_003447.1	internal repeat sequences detected; contains internal repeats as detected by prospero
YP_003457.1	carries the fatty acid chain in fatty acid biosynthesis
YP_003460.1	catalyzes the formation of 3-dehydroquinate from 3-deoxy-arabino-heptulonate 7-phosphate; functions in aromatic amino acid biosynthesis
YP_003475.1	catalyzes the formation of L-homocysteine from S-adenosyl-L-homocysteine
YP_003477.1	one of two methionine synthases in Escherichia coli; MetH catalyzes a methyl transfer reaction from methyltetrahydrofolate to homocysteine to create methionine; requires zinc for activity
YP_003480.1	catalyzes the formation of fructose 1,6-bisphosphate from fructose 6-phosphate and diphosphate
YP_003482.1	catalyzes the phosphorylation of N-acetyl-L-glutamate to form N-acetyl-L-glutamate 5-phosphate
YP_003498.1	EAL domain; identified by sequence similarity; putative; ORF located using Blastx/Glimmer
YP_003502.1	internal repeat sequences detected; contains TPR domain as detected by pfam-hmmr
YP_003510.1	PMG1
YP_003511.1	CobD; CbiD in Salmonella; converts cobyric acid to cobinamide by the addition of aminopropanol on the F carboxylic group
YP_003513.1	phosphate guanyltransferase
YP_003515.1	responsible for the amidation of carboxylic groups at position A and C of cobyrinic acid or hydrogenobrynic acid
YP_003523.1	Catalyzes the methylation of C-1 in cobalt-precorrin-5 and the subsequent extrusion of acetic acid from the resulting intermediate to form cobalt-precorrin-6A
YP_003532.1	putative metalloprotease
YP_003533.1	catalyzes a salvage reaction resulting in the formation of AMP which is metabolically less costly than a de novo synthesis
YP_003534.1	serine protease
YP_003540.1	major facilitator superfamily; identified by sequence similarity; putative; ORF located using Blastx/Glimmer
YP_003545.1	contains leucine-rich repeats; identified by sequence similarity; putative; ORF located using Blastx/Glimmer
YP_003592.1	BASS family; identified by sequence similarity; putative; ORF located using Blastx/Glimmer
YP_003594.1	internal repeat sequences detected; contains internal repeats as detected by prospero
YP_003596.1	MFS; identified by sequence similarity; putative; ORF located using Blastx/Glimmer
YP_003598.1	MDM; functions in conversion of succinate to propionate
YP_003599.1	functions in transport of arginine/ornithine; inner membrane ATPase that cleaves ATP and phosphorylates two periplasmic proteins that function as two distinct transport systems, the AO (arginine and ornithine) and LAO (lysine, arginine, and ornithine) periplasmic binding proteins
YP_003624.1	Decarboxylation of S-adenosylmethionine provides the aminopropyl moiety required for spermidine biosynthesis from putrescine
YP_003629.1	internal repeat sequences detected; contains internal repeats as detected by prospero
YP_003633.1	Catalyzes the conversion of citrate to isocitrate
YP_003634.1	OmpA-like; identified by sequence similarity; putative; ORF located using Blastx/Glimmer
YP_003650.1	catalyzes the formation of aspartate semialdehyde from aspartyl phosphate
YP_003658.1	chromosome partitioning; identified by sequence similarity; putative; ORF located using Blastx/Glimmer
YP_003659.1	chromosome partitioning; identified by sequence similarity; putative; ORF located using Blastx/Glimmer