-- dump date   	20140619_003510
-- class       	Genbank::CDS
-- table       	cds_note
-- id	note
YP_784539.1	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_784544.1	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_784545.1	forms a complex with SecY and SecG; SecYEG forms a putative protein-conducting channel to which secA binds and translocates targeted polypeptides across the cytoplasmic membrane, a process driven by ATP and a proton-motive force
YP_784546.1	Modulates Rho-dependent transcription termination
YP_784547.1	binds directly to 23S ribosomal RNA
YP_784548.1	in Escherichia coli and Methanococcus, this protein autoregulates expression; the binding site in the mRNA mimics the binding site in the 23S rRNA
YP_784549.1	binds the two ribosomal protein L7/L12 dimers and anchors them to the large ribosomal subunit
YP_784550.1	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_784551.1	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_784552.1	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_784553.1	Weakly similar to Chromobacterium violaceum serine/threonine kinase SWALL:Q7NRD4 (EMBL:AE016923)
YP_784558.1	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_784559.1	binds directly to 16S rRNA where it nucleates assembly of the head domain of the 30S subunit
YP_784560.1	EF-G; promotes GTP-dependent translocation of the ribosome during translation; many organisms have multiple copies of this gene
YP_784561.1	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_784562.1	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_784563.1	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_784564.1	L4 is important during the early stages of 50S assembly; it initially binds near the 5' end of the 23S rRNA
YP_784565.1	binds third domain of 23S rRNA and protein L29; part of exit tunnel
YP_784566.1	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_784567.1	protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA
YP_784568.1	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_784569.1	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_784570.1	located in the peptidyl transferase center and may be involved in peptidyl transferase activity; similar to archaeal L10e
YP_784571.1	one of the stabilizing components for the large ribosomal subunit
YP_784572.1	primary binding protein; helps mediate assembly; involved in translation fidelity
YP_784573.1	Weakly similar to Rhodococcus globerulus biphenyl-2,3-diol 1,2-dioxygenase ii bphc2 SWALL:BHC2_RHOGO (SWALL:P47232)
YP_784582.1	binds to the 23S rRNA between the centers for peptidyl transferase and GTPase
YP_784583.1	assembly initiator protein; binds to 5' end of 23S rRNA and nucleates assembly of the 50S; surrounds polypeptide exit tunnel
YP_784584.1	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_784585.1	located in the peptidyl transferase center and involved in assembly of 30S ribosome subunit; similar to what is observed with proteins L31 and L33, some proteins in this family contain CXXC motifs that are involved in zinc binding; if two copies are present in a genome, then the duplicated copy appears to have lost the zinc-binding motif and is instead regulated by zinc; the proteins in this group do not appear to have the zinc-binding motif
YP_784586.1	binds directly to 16S rRNA central domain where it helps coordinate assembly of the platform of the 30S subunit
YP_784587.1	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_784588.1	binds 5S rRNA along with protein L5 and L25
YP_784589.1	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_784590.1	L30 binds domain II of the 23S rRNA and the 5S rRNA; similar to eukaryotic protein L7
YP_784591.1	late assembly protein
YP_784592.1	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_784593.1	stimulates the activities of the other two initiation factors, IF-2 and IF-3
YP_784594.1	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_784595.1	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_784596.1	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_784597.1	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_784598.1	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_784599.1	is a component of the macrolide binding site in the peptidyl transferase center
YP_784603.1	catalyzes the formation of porphobilinogen from 5-aminolevulinate
YP_784604.1	binds guanine nucleotides; in Escherichia coli depletion results in defective cell division and filamentation; in Bacillus subtilis this gene is essential
YP_784611.1	catalyzes the formation of shikimate 3-phosphate from shikimate in aromatic amino acid biosynthesis
YP_784612.1	catalyzes the formation of 3-dehydroquinate from 3-deoxy-arabino-heptulonate 7-phosphate; functions in aromatic amino acid biosynthesis
YP_784613.1	dGTPase family type 2 subfamily; presumably hydrolyzes dGTP to deoxyguanosine and triphosphate
YP_784643.1	catalyzes the formation of malate from glyoxylate and acetyl-CoA
YP_784644.1	Similar to several exported proteins from bordetellae. It appears to be unique to the bordetellae. There are no similarities to protein from other organisms.
YP_784645.1	catalyzes the conversion of 4-Hydroxybenzoate into 3-octaprenyl-4-hydroxybenzoate, as part of the ubiquinone biosynthesis pathway
YP_784653.1	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_784659.1	Similar to the N-terminus of fhaS in B. bronchiseptica
YP_784665.1	Unique to Bordetellae
YP_784666.1	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_784676.1	lipoyl/octanoyltransferase; catalyzes the transfer of the lipoyl/octanoyl moiety of lipoyl/octanoyl-ACP onto lipoate-dependent enzymes like pyruvate dehydrogenase and the glycine cleavage system H protein
YP_784677.1	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_784680.1	heat shock protein involved in degradation of misfolded proteins
YP_784681.1	heat shock protein involved in degradation of misfolded proteins
YP_784691.1	site-specific tyrosine recombinase which cuts and rejoins DNA molecules; binds cooperatively to specific DNA consensus sites; forms a heterotetrameric complex with XerC; XerCD exhibit similar sequences; essential to convert chromosome dimers to monomers during cell division and functions during plasmid segregation; cell division protein FtsK may regulate the XerCD complex; enzyme from Streptococcus group has unusual active site motifs
YP_784693.1	involved in lysine biosynthesis; DAP epimerase; produces DL-diaminopimelate from LL-diaminopimelate
YP_784695.1	Acylates the intermediate (KDO)2-lipid IVA to form (KDO)2-(lauroyl)-lipid IVA
YP_784696.1	catalyzes the formation of S-adenosylmethionine from methionine and ATP; methionine adenosyltransferase
YP_784699.1	catalyzes the formation of L-homocysteine from S-adenosyl-L-homocysteine
YP_784707.1	catalyzes the addition and repair of the 3'-terminal CCA sequence in tRNA; these proteins belong to the CCA-adding enzyme subfamily 2 which does not have phosphohydrolase activity
YP_784710.1	Excises uracil residues from the DNA which can arise as a result of misincorporation of dUMP residues by DNA polymerase or due to deamination of cytosine
YP_784711.1	enables the cleavage of the glycosidic bond in both 5'-methylthioadenosine and S-adenosylhomocysteine
YP_784728.1	specific inhibitor of chromosomal initiation of replication in vitro; binds the three 13-mers in the origin (oriC) to block initiation of replication; also controls genes involved in arginine transport
YP_784735.1	catalyzes the formation of acetoacetate and acetyl-CoA from 3-hydroxy-3-methylglutaryl-CoA
YP_784740.1	cleaves off formyl group from N-terminal methionine residues of newly synthesized proteins; binds iron(2+)
YP_784741.1	modifies the free amino group of the aminoacyl moiety of methionyl-tRNA(fMet) which is important in translation initiation; inactivation of this gene in Escherichia coli severely impairs growth
YP_784746.1	catalyzes the methylthiolation of an aspartic acid residue of the S12 protein of the 30S ribosomal subunit
YP_784760.1	activates fatty acids by binding to coenzyme A
YP_784770.1	involved in potassium uptake; found to be peripherally associated with the inner membrane in Escherichia coli; contains an NAD-binding domain
YP_784772.1	ATP-dependent; carboxylate-amine ligase with weak glutamate--cysteine ligase activity
YP_784777.1	catalyzes the NAD(P)H-dependent reduction of glycerol 3-phosphate to glycerone phosphate
YP_784778.1	molecular chaperone that is required for the normal export of envelope proteins out of the cell cytoplasm; in Escherichia coli this proteins forms a homotetramer in the cytoplasm and delivers proteins to be exported to SecA
YP_784781.1	2,3-bisphosphoglycerate-dependent; catalyzes the interconversion of 2-phosphoglycerate to 3-phosphoglycerate
YP_784789.1	required for the synthesis of the hydromethylpyrimidine moiety of thiamine
YP_784794.1	catalyzes the formation of glutamate 5-phosphate from glutamate in proline biosynthesis
YP_784795.1	essential GTPase; exhibits high exchange rate for GTP/GDP; associates with 50S ribosomal subunit; involved in regulation of chromosomal replication
YP_784796.1	involved in the peptidyltransferase reaction during translation
YP_784801.1	catalyzes the formation of acetoacetate from 3-hydroxybutyrate
YP_784802.1	converts acetoacetate to acetone and carbon dioxide
YP_784834.1	catalyzes the formation of glutamate-1-semialdehyde from glutamyl-tRNA(Glu) and NADPH; the second step of the pathway is catalyzed by glutamate-1-semialdehyde aminomutase which results in the formation of 5-aminolevulinic acid; functions in porphyrin (tetrapyrroles) biosynthesis; the crystal structure showed a C-terminal dimerization domain that appears to be absent in Chlamydial proteins
YP_784835.1	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_784838.1	catalyzes the formation of 2-octaprenylphenol from 3-octaprenyl-4-hydroxybenzoate
YP_784844.1	unknown function; YciI from Haemophilus influenzae presents crystal structure similarity to a muconolactone isomerase, but does not seem to catalyze any of the predicted reactions based on sequence and structure similarity
YP_784850.1	converts (S)-3-hydroxybutanoyl-CoA to 3-acetoacetyl-CoA
YP_784851.1	; One of 11 fimbrial subunits.
YP_784852.1	One of 11 fimbrial subunits.
YP_784853.1	; One of 11 fimbrial subunits.
YP_784854.1	One of 11 fimbrial subunits.
YP_784855.1	catalyzes the dehydration of 2,3-dihydroxy-3-methylbutanoate to 3-methyl-2-oxobutanoate in valine and isoleucine biosynthesis
YP_784858.1	catalyzes the formation of oxaloacetate from phosphoenolpyruvate
YP_784859.1	One of 11 fimbrial subunits
YP_784875.1	Weakly similarity limited to the listed proteins
YP_784890.1	This CDS does not exhibit a typical prokaryotic lipoprotein signal peptide as is lacking a charged amino acid (K or R) in the first 7 residues.; Also similar to BAV3189 (36.6 38d)
YP_784926.1	Required for efficient pilin antigenic variation
YP_784929.1	Also similar to the C-terminal region of Escherichia coli exodeoxyribonuclease VIII, recE; length 866 aa; id=37.4; ungapped id=41.1; E()=1.5e-25; 278 aa overlap; query 14-280 aa; subject 597-860 aa
YP_784981.1	molecular chaperone
YP_784989.1	tRNA (guanine-N(7)-)-methyltransferase; catalyzes the formation of N(7)-methylguanine at position 46 (m7G46) in tRNA by transferring the methyl residue from S-adenosyl-L-methionine
YP_784992.1	catalyzes the formation of L-proline from L-ornithine
YP_784994.1	catalyzes the formation of L-ornithine from N(2)-acetyl-L-ornithine
YP_784998.1	One of 11 fimbrial subunits
YP_785000.1	inner membrane enzyme; removes 1-phosphate groups from a number of lipid A precursors which provides a point of attachment for to moieties such as phosphoethanolamine which is attached by HP0022
YP_785001.1	attaches phosphoethanolamine to lipid A at the 1 position of the disaccharide backbone in contrast to other gram-negative bacteria
YP_785002.1	This CDS is also similar to its adjacent CDS,BAV0470, 36.875 38dentity (39.0730ngapped) in 160 aa overlap
YP_785003.1	This CDS is also similar to its adjacent CDS,BAV0469, 36.875 38dentity (39.0730ngapped) in 160 aa overlap
YP_785005.1	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_785006.1	This CDS seems to be present in the Bordetellae only
YP_785010.1	Catalyzes the formation of dUTP from dCTP in thymidylate biosynthesis
YP_785021.1	Catalyzes the first of the two reduction steps in the elongation cycle of fatty acid synthesis
YP_785024.1	catalyzes the transfer of a methylene carbon from the methylamine-loaded GcvH protein to tetrahydrofolate, causing the release of ammonia and the generation of reduced GcvH protein
YP_785025.1	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_785026.1	acts in conjunction with GvcH to form H-protein-S-aminomethyldihydrolipoyllysine from glycine
YP_785028.1	This CDS is also similar to its adjacent CDS,BAV0496, 35.041 38dentity (36.0760ngapped) in 488 aa overlap.
YP_785029.1	This CDS is also similar to its adjacent CDS,BAV0495, 35.041 38dentity (36.0760ngapped) in 488 aa overlap.
YP_785030.1	This CDS is also similar to BAV0502, 31.846 identity (32.84538ngapped) in 493 aa overlap.
YP_785035.1	This CDS is also similar to BAV0497, 31.846 identity (32.84538ngapped) in 493 aa overlap.
YP_785037.1	catalyzes the formation of pyruvate and beta-alanine from L-alanine and 3-oxopropanoate
YP_785040.1	ThyA; catalyzes formation of dTMP and 7,8-dihydrofolate from 5,10-methylenetetrahydrofolate and dUMP; involved in deoxyribonucleotide biosynthesis; there are 2 copies in some Bacilli, one of which appears to be phage-derived
YP_785052.1	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_785061.1	An oxygenase that acts to open the ring of homogentisate formingmaleylacetoacetate as part of the catabolism of L-tyrosine and L-phenylalanine
YP_785066.1	Involved in base excision repair of DNA damaged by oxidation or by mutagenic agents. Acts as DNA glycosylase that recognizes and removes damaged bases
YP_785068.1	Incorporates lipoproteins in the outer membrane after they are released by the LolA protein
YP_785069.1	An essential enzyme in the nonmevalonate pathway of isopentenyl diphosphate and dimethylallyl diphosphate biosynthesis
YP_785070.1	catalyzes the formation of 5-phospho-alpha-D-ribose 1-phosphate from D-ribose 5-phosphate and ATP
YP_785071.1	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_785072.1	Enables the recycling of peptidyl-tRNAs produced at termination of translation
YP_785073.1	. Seems to be unique to the Bordetellae.
YP_785074.1	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_785082.1	Partial CDS. Seems to be truncated at the N-terminus
YP_785096.1	Catalyzes the conversion of ATP and pantetheine 4'-phosphate to diphosphate and 3'-dephospho-coA
YP_785102.1	bifunctional enzyme DHBP synthase/GTP cyclohydrolase II-like protein; functions in riboflavin synthesis
YP_785103.1	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_785104.1	Regulates rRNA biosynthesis by transcriptional antitermination
YP_785105.1	catalyzes the formation of thiamine diphosphate from thiamine phosphate ant ATP
YP_785108.1	type 2 subfamily; involved in last step of pyrimidine biosynthesis; converts orotidine 5'-phosphate to UMP and carbon dioxide; OMP decarboxylase; OMPDCase; OMPdecase
YP_785111.1	serum resistance protein
YP_785112.1	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_785113.1	10 kDa chaperonin; Cpn10; GroES; forms homoheptameric ring; binds to one or both ends of the GroEL double barrel in the presence of adenine nucleotides capping it; folding of unfolded substrates initiates in a GroEL-substrate bound and capped by GroES; release of the folded substrate is dependent on ATP binding and hydrolysis in the trans ring
YP_785130.1	catalyzes the formation of 2-keto-4-hydroxypentanoic acid from 2-hydroxypentadienoic acid
YP_785131.1	catalyzes the formation of acetyl-CoA from acetalaldehyde
YP_785157.1	Catalyzes the conversion of citrate to isocitrate
YP_785171.1	Almost identical to BAV2830 (98.8 38d)
YP_785181.1	transports degraded pectin products into the bacterial cell
YP_785183.1	Also similar to BAV2168, (48.318 38d.)
YP_785203.1	exhibits an RNA-dependent ATPase activity, specifically stimulated by bacterial 23S rRNA
YP_785209.1	catalyzes the hydrolytic cleavage of imides that range from linear to heterocyclic and that include hydantoins, dihydropyrimidines, and phthalimides
YP_785223.1	4-alpha-hydroxytetrahydrobiopterin dehydratase activity; catalyzes the formation of (6R)-6-(L-erythro-1,2-dihydroxypropyl)-7, 8-dihydro-6H-pterin from (6R)-6-(L-erythro-1,2-dihydroxypropyl)-5,6,7, 8-tetrahydro-4a-hydroxypterin; functions in recycling tetrahydrobiopterin (BH4) in phenylalanine hydroxylase reaction
YP_785229.1	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_785231.1	catalyzes the formation of phosphoenolpyruvate from pyruvate
YP_785233.1	cleaves off formyl group from N-terminal methionine residues of newly synthesized proteins; binds iron(2+)
YP_785236.1	catalyzes the oxidation of tricarballylate to cis-aconitate; FAD-dependent; required for the utilization of tricarballylate as a carbon and energy source by S. enterica
YP_785240.1	Converts the D-glycero-beta-D-manno-heptose 1,7-bisphosphate intermediate into D-glycero-beta-D-manno-heptose 1-phosphate
YP_785242.1	glycine--tRNA ligase alpha chain; GlyRS; class II aminoacyl tRNA synthetase; tetramer of alpha(2)beta(2); catalyzes a two-step reaction; first charging a glycine molecule by linking its carboxyl group to the alpha-phosphate of ATP; second by transfer of the aminoacyl-adenylate to its tRNA
YP_785243.1	Catalyzes the reversible hydration of unsaturated fatty acyl-CoA to beta-hydroxyacyl-CoA
YP_785247.1	Partial CDS. Truncated at the N-terminal region
YP_785256.1	catalyzes the formation of 1-(5-phosphoribosyl)-5-aminoimidazole from 2-(formamido)-N1-(5-phosphoribosyl)acetamidine and ATP in purine biosynthesis
YP_785257.1	IPP transferase; isopentenyltransferase; involved in tRNA modification; in Escherichia coli this enzyme catalyzes the addition of a delta2-isopentenyl group from dimethylallyl diphosphate to the N6-nitrogen of adenosine adjacent to the anticodon of tRNA species that read codons starting with uracil; further tRNA modifications may occur; mutations in miaA result in defects in translation efficiency and fidelity
YP_785258.1	This protein is involved in the repair of mismatches in DNA. It is required for dam-dependent methyl-directed DNA mismatch repair. Promotes the formation of a stable complex between two or more DNA-binding proteins in an ATP-dependent manner without itself being part of a final effector complex
YP_785262.1	malate dehydrogenase; catalyzes the oxidation of malate to oxaloacetate
YP_785266.1	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_785279.1	catalyzes the transamination of the branched-chain amino acids to their respective alpha-keto acids
YP_785295.1	catalyzes the reduction of N-acetyl-5-glutamyl phosphate to N-acetyl-L-glutamate 5-semialdehyde in arginine biosynthesis
YP_785305.1	catalyzes the formation of inosine from adenosine
YP_785322.1	putative nucleotide binding property based on structural studies of Haemophilus influenzae crystallized protein in PDB Accession Number 1IN0 and NMR studies of Escherichia coli YajQ; the YajQ protein from Pseudomonas synringae appears to play a role in activation of bateriophage phi6 segment L transcription
YP_785333.1	catalyzes the hydrolysis of allophanate
YP_785344.1	involved in the production or activity of formate dehydrogenase-H which is active when nitrate is not present during anaerobic growth
YP_785347.1	catalyzes the oxidation of formate to carbon dioxide and hydrogen using NAD or NADP as the acceptor
YP_785349.1	together with moaC, is involved in the conversion of a guanosine derivative (GXP) into molybdopterin precursor Z
YP_785353.1	molybdopterin converting factor subunit 2
YP_785361.1	Seems to be unique to Bordetellae. Similar to members of a family of exported proteins in the Bordetellae.
YP_785364.1	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_785368.1	Transfers the fatty acyl group on membrane lipoproteins
YP_785370.1	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_785371.1	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_785373.1	Exchanges the guanine residue with 7-aminomethyl-7-deazaguanine in tRNAs with GU(N) anticodons (tRNA-Asp, -Asn, -His and -Tyr)
YP_785374.1	Synthesizes oQ from preQ1 in a single S-adenosylmethionine-requiring step
YP_785376.1	Catalyzes the formation of uracil and 5-phospho-alpha-D-ribosy 1-diphosphate from UMP and diphosphate
YP_785387.1	. Seems to be unique to Bordetellae
YP_785388.1	NADP-dependent; catalyzes the oxidative decarboxylation of malate to form pyruvate; decarboxylates oxaloacetate
YP_785391.1	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_785392.1	catalyzes the formation of ribose 5-phosphate and xylulose 5-phosphate from sedoheptulose 7-phosphate and glyceraldehyde 3-phosphate; can transfer ketol groups between several groups; in Escherichia coli there are two tkt genes, tktA expressed during exponential growth and the tktB during stationary phase
YP_785394.1	Converts 3-phospho-D-glycerate to 3-phospho-D-glyceroyl phosphate during the glycolysis pathway
YP_785396.1	Catalyzes a key regulatory step in fatty acid biosynthesis
YP_785397.1	AckA utilizes acetate and can acetylate CheY which increases signal strength during flagellar rotation; utilizes magnesium and ATP; also involved in conversion of acetate to aceyl-CoA
YP_785398.1	catalyzes the formation of acetyl phosphate from acetyl-CoA and phosphate; can also act with other short-chain acyl-CoAs
YP_785410.1	stimulates the activities of the other two initiation factors, IF-2 and IF-3
YP_785417.1	class II aldolase; catalyzes the reversible aldol condensation of dihydroxyacetonephosphate and glyceraldehyde 3-phosphate in the Calvin cycle, glycolysis and gluconeogenesis
YP_785418.1	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_785420.1	With PurE catalyzes the conversion of aminoimidazole ribonucleotide to carboxyaminoimidazole ribonucleotide in the de novo purine nucleotide biosynthetic pathway
YP_785426.1	thiamine-pyrophosphate requiring enzyme
YP_785429.1	also similar to BAV1880 (52.585 38d.)
YP_785431.1	site-specific tyrosine recombinase which cuts and rejoins DNA molecules; binds cooperatively to specific DNA consensus sites; forms a heterotetrameric complex with XerC; XerCD exhibit similar sequences; essential to convert chromosome dimers to monomers during cell division and functions during plasmid segregation; XerD specifically exchanges the bottom strands; cell division protein FtsK may regulate the XerCD complex; enzyme from Streptococcus group has unusual active site motifs
YP_785441.1	catalyzes the DNA-template-directed extension of the 3'-end of a DNA strand; the tau chain serves as a scaffold to help in the dimerizaton of the alpha,epsilon and theta core complex; the gamma chain seems to interact with the delta and delta' subunits to transfer the beta subunit on the DNA
YP_785443.1	involved in a recombinational process of DNA repair, independent of the recBC complex
YP_785445.1	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_785446.1	catalyzes production of carbamoyl phosphate from bicarbonate and glutamine in pyrimidine and arginine biosynthesis pathways; forms an octamer composed of four CarAB dimers
YP_785460.1	catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
YP_785463.1	catalyzes the reversible transfer of the terminal phosphate of ATP to form a long chain polyphosphate
YP_785467.1	ATP-binding protein; PstABCS is an ATP dependent phosphate uptake system which is responsible for inorganic phosphate uptake during phosphate starvation
YP_785476.1	catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate in leucine biosynthesis
YP_785481.1	; Also similar to BAV3254 (29.2 38d)
YP_785485.1	Also similar to BAV2005 (31.566 38d), BAV2030 (44.724 38d), BAV2366 (36.170 0d)
YP_785512.1	An insertion within codon 40 in this gene results in a mutant strain that does not produce dermonecrotic toxin and has decreased rate of attachment to turkey trachea, in vivo and in vitro.
YP_785514.1	; Also similar to BAV3111 (54.6 38d.)
YP_785515.1	Also similar to BAV3110 (44.3 38d.)
YP_785533.1	with MdtO and MdtP is involved in resistance to puromycin, acriflavine and tetraphenylarsonium chloride
YP_785538.1	protein involved in resistance to different drugs (tetracycline, chloramphenicol, beta-lactams, and quinolones); part of the multiple antibiotic resistance (mar) locus, which is composed by the genes marC and marRAB; unknown function
YP_785540.1	catalyzes the conversion of citrate to isocitrate
YP_785541.1	catalyzes the S-adenosylmethionine-dependent transmethylation of thiopurine compounds; may be involved in selenium cycling by forming dimethylselenide and/or dimethyldiselenide
YP_785542.1	Seems to be unique to Bordetellae.
YP_785545.1	Similar to N-terminal region of Escherichia coli chemotaxis protein methyltransferase cheR SWALL:CHER_ECOLI (SWALL:P07364) (286 aa) fasta scores: E(): 1.8e-11, 33.46 id in 257 aa
YP_785548.1	regulates chemotaxis by demethylation of methyl-accepting chemotaxis proteins
YP_785566.1	The point of entry for the majority of electrons that traverse the respiratory chain eventually resulting in the reduction of oxygen
YP_785567.1	Catalyzes the transfer of electrons from NADH to quinone
YP_785568.1	Catalyzes the transfer of electrons from NADH to quinone
YP_785569.1	Catalyzes the transfer of electrons from NADH to quinone
YP_785571.1	Catalyzes the transfer of electrons from NADH to ubiquinone
YP_785572.1	Catalyzes the transfer of electrons from NADH to quinone
YP_785573.1	Catalyzes the transfer of electrons from NADH to quinone
YP_785575.1	Catalyzes the transfer of electrons from NADH to quinone
YP_785577.1	Catalyzes the transfer of electrons from NADH to quinone
YP_785578.1	Catalyzes the transfer of electrons from NADH to quinone
YP_785582.1	catalyzes the conversion of 4-diphosphocytidyl-2-C-methyl-D-erythritol 2-phosphate into 2-C-methyl-D-erythritol 2,4-cyclodiphosphate
YP_785583.1	4-diphosphocytidyl-2C-methyl-D-erythritol synthase; MEP cytidylyltransferase; MCT; catalyzes the formation of 4-diphosphocytidyl-2-C-methyl-D-erythritol from CTP and 2-C-methyl-D-erythritol 4-phosphate; involved in isoprenoid and isopentenyl-PP biosynthesis; forms homodimers
YP_785589.1	part of two-component system EnvZ/OmpR; regulates transcription of outer membrane porin genes ompC/F; under high osmolarity EnvZ functions as kinase/phosphotransferase and phosphorylates OmpR; the result is increased expression of ompC and repression of ompF; also functions in regulation of other genes; forms dimers upon phosphorylation
YP_785597.1	Also similar to BAV3311 (37.6 38d).
YP_785599.1	this stereospecific enzymes reduces the R isomer of methionine sulfoxide while MsrA reduces the S form; provides protection against oxidative stress
YP_785607.1	Also similar to BAV1803 (49.7 38d.).
YP_785615.1	Involved in the electron transport chain
YP_785619.1	catalyzes the formation of nictonate and 5-phospho-alpha-D-ribose 1-diphosphate from nicotinate D-ribonucleotide and diphosphate
YP_785624.1	catalyzes the formation of L-ornithine from N(2)-acetyl-L-ornithine
YP_785625.1	catalyzes the formation of L-tryptophan from L-serine and 1-(indol-3-yl)glycerol 3-phosphate
YP_785626.1	catalyzes the formation of indole and glyceraldehyde 3-phosphate from indoleglycerol phosphate in tryptophan biosynthesis
YP_785627.1	catalyzes the carboxylation of acetyl-CoA to malonyl-CoA; forms a tetramer of AccA2D2 subunits
YP_785634.1	in Escherichia coli this periplasmic enzyme was found to encode the periplasmic catalytic subunit of an oxidoreductase; sulfite oxidase activity not demonstrated; requires inner membrane anchor protein YedZ
YP_785635.1	in Escherichia coli this inner membrane protein was found to anchor the periplasmic catalytic oxidoreductase YedY; sulfite oxidase activity not demonstrated; contains heme
YP_785638.1	Maf; overexpression in Bacillus subtilis inhibits septation in the dividing cell
YP_785640.1	some L32 proteins have zinc finger motifs consisting of CXXC while others do not
YP_785641.1	involved in acylation of glycerol-3-phosphate to form 1-acyl-glycerol-3 phosphate for use in phospholipid biosynthesis; functions with PlsY
YP_785642.1	FabH; beta-ketoacyl-acyl carrier protein synthase III; catalyzes the condensation of acetyl-CoA with malonyl-ACP to initiate cycles of fatty acid elongation; differs from 3-oxoacyl-(acyl carrier protein) synthase I and II in that it utilizes CoA thioesters as primers rather than acyl-ACPs
YP_785644.1	Catalyzes the first of the two reduction steps in the elongation cycle of fatty acid synthesis
YP_785645.1	carries the fatty acid chain in fatty acid biosynthesis
YP_785646.1	FabF; beta-ketoacyl-ACP synthase II, KASII; catalyzes a condensation reaction in fatty acid biosynthesis: addition of an acyl acceptor of two carbons from malonyl-ACP; required for the elongation of short-chain unsaturated acyl-ACP
YP_785648.1	Member of the extracytoplasmic function sigma factors which are active under specific conditions; binds with the catalytic core of RNA polymerase to produce the holoenzyme and directs bacterial core RNA polymerase to specific promoter elements to initiate transcription; this sigma factor is involved in heat shock and oxidative stress response
YP_785652.1	binds to the ribosome on the universally-conserved alpha-sarcin loop
YP_785654.1	cytoplasmic enzyme involved in processing rRNA and some mRNAs; substrates typically have dsRNA regions; forms a homodimer; have N-terminal nuclease and C-terminal RNA-binding domains; requires magnesium as preferred ion for activity
YP_785655.1	Era; Escherichia coli Ras-like protein; Bex; Bacillus Era-complementing segment; essential protein in Escherichia coli that is involved in many cellular processes; GTPase; binds the cell membrane through apparent C-terminal domain; mutants are arrested during the cell cycle; Streptococcus pneumoniae Era binds to RNA and Escherichia coli Era binds 16S rRNA and 30S ribosome
YP_785660.1	catalyzes the removal of N-terminal amino acids preferably leucine from various peptides
YP_785668.1	catalyzes the formation of propionyl-CoA using propionate as a substrate; PrpE from Ralstonia solanacearum can produce acetyl-, propionyl-, butyryl- and acrylyl-coenzyme A, and Salmonella enterica produces propionyl- and butyryl-coenzyme A; not expressed in Escherichia coli when grown on propionate/minimal media; ATP-dependent
YP_785671.1	Acs; catalyzes the conversion of acetate and CoA to acetyl-CoA
YP_785687.1	CTP synthase; cytidine triphosphate synthetase; catalyzes the ATP-dependent amination of UTP to CTP with either L-glutamine or ammonia as the source of nitrogen; in Escherichia coli this enzyme forms a homotetramer
YP_785688.1	enolase; catalyzes the formation of phosphoenolpyruvate from 2-phospho-D-glycerate in glycolysis
YP_785689.1	forms a complex with FtsL and FtsQ; colocalizes to the septal region of the dividing cell; membrane protein
YP_785690.1	seems to be unique to the bordetellae.  to other organisms.
YP_785696.1	Also similar to BAV3351 (55.3 38d.).
YP_785697.1	Seems to be unique to the bordetellae.  to other proteins in the database
YP_785700.1	catalyzes the synthesis of 2-methylcitrate from propionyl-CoA and oxaloacetate; also catalyzes the condensation of oxaloacetate with acetyl-CoA but with a lower specificity
YP_785701.1	catalyzes the formation of pyruvate and succinate from 2-methylisocitrate
YP_785702.1	catalyzes the oxidation of malate to oxaloacetate
YP_785706.1	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_785707.1	part of four member succinate dehydrogenase enzyme complex that forms a trimeric complex (trimer of tetramers); SdhA/B are the catalytic subcomplex and can exhibit succinate dehydrogenase activity in the absence of SdhC/D which are the membrane components and form cytochrome b556; SdhC binds ubiquinone; oxidizes succinate to fumarate while reducing ubiquinone to ubiquinol; the catalytic subunits are similar to fumarate reductase
YP_785709.1	type II enzyme; in Escherichia coli this enzyme forms a trimer of dimers which is allosterically inhibited by NADH and competitively inhibited by alpha-ketoglutarate; allosteric inhibition is lost when Cys206 is chemically modified which also affects hexamer formation; forms oxaloacetate and acetyl-CoA and water from citrate and coenzyme A; functions in TCA cycle, glyoxylate cycle and respiration; enzyme from Helicobacter pylori is not inhibited by NADH
YP_785714.1	catalyzes the degradation of phosphonoacetaldehyde to acetaldehyde and phosphate
YP_785720.1	Similar to C-terminal regions of several CDSs
YP_785721.1	; Partial CDS. Similar to the C-terminal regions of severals including bordetellae  transcriptional regulators
YP_785722.1	NADP-dependent; catalyzes the oxidative decarboxylation of malate to form pyruvate; decarboxylates oxaloacetate
YP_785723.1	paralogs to the E1 component of pyruvate dehydrogenase subunit E1
YP_785725.1	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_785726.1	component of 2-oxoglutarate dehydrogenase complex; catalyzes the transfer of succinyl coenzyme A to form succinyl CoA as part of the conversion of 2-oxoglutarate to succinyl-CoA
YP_785727.1	E3 component of 2-oxoglutarate dehydrogenase complex; catalyzes the oxidation of dihydrolipoamide to lipoamide
YP_785735.1	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_785739.1	Partial CDS. Similar to Fha-family adhesins of B. bronchiseptica
YP_785744.1	catalyzes the first of the two reduction steps in the elongation cycle of fatty acid synthesis
YP_785754.1	catalyze the formation of cyanophycin which may act to store excess nitrogen
YP_785755.1	catalyze the formation of cyanophycin which may act to store excess nitrogen
YP_785783.1	Similar to the C-terminal half of Escherichia coli 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase [includes: 2-hydroxyhepta-2,4-diene-1,7-dioate isomerase hpaG SWALL:HPAG_ECOLI (SWALL:Q46978) (429 aa) fasta scores: E(): 1.6e-44, 58.85 38d in 209 aa
YP_785784.1	; Similar to the N-terminal half of Escherichia coli 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase [includes: 2-hydroxyhepta-2,4-diene-1,7-dioate isomerase HpaG SWALL:HPAG_ECOLI (SWALL:Q46978) (429 aa) fasta scores: E(): 1.5e-22, 36.71 38d in 207 aa
YP_785786.1	Also similar to BAV1268, BAV1921, BAV0553, BAV1913,BAV3018 and BAV1097
YP_785787.1	Also similar to BAV1267, BAV1921, BAV0553, BAV1913,BAV3018 and BAV1097
YP_785807.1	Required for efficient pilin antigenic variation
YP_785838.1	encodes major structural protein, as shown by N-terminal sequencing of purified protein in L. Temple's lab
YP_785844.1	No significant database similarities
YP_785857.1	N-terminus similar to phage tail proteins, such as Burkholderia cenocepacia phage BcepB1A  tail fiber protein; C-terminus similar to glycine-rich proteins, such as Epstein-Barr virus; ebna-1 nuclear protein; bkrf1 and Mycobacterium tuberculosis H37Rv; pe-pgrs family protein; pe_pgrs13
YP_785867.1	Involved in ubiquinone biosynthesis
YP_785868.1	Previously sequenced as Bordetella avium outer membrane protein a precursor ompA SWALL:OMPA_BORAV (SWALL:Q05146) (194 aa) fasta scores: E(): 1.7e-71, 100 id in 194 aa
YP_785869.1	negatively supercoils closed circular double-stranded DNA
YP_785870.1	catalyzes the formation of 3-phosphonooxypyruvate and glutamate from O-phospho-L-serine and 2-oxoglutarate; required both in major phosphorylated pathway of serine biosynthesis and in the biosynthesis of pyridoxine
YP_785874.1	catalyzes the formation of 5-O-(1-carboxyvinyl)-3-phosphoshikimate from phosphoenolpyruvate and 3-phosphoshikimate in tryptophan biosynthesis
YP_785875.1	Catalyzes the formation of (d)CDP from ATP and (d)CMP
YP_785876.1	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_785880.1	Similar to N-terminal half of Escherichia coli bifunctional protein HldE [includes: D-beta-d-heptose 7-phosphate kinase (EC 2.7.1.-); d-beta-d- heptose 1-phosphate adenosyltransferase (EC 2.7.7.-)] HldE SWALL:HLDE_ECOLI (SWALL:P76658) (477 aa) fasta scores: E(): 5.6e-48, 54.09 38d in 305 aa
YP_785883.1	catalyzes the formation of cysteine from 3-O-acetyl-L-serine and hydrogen sulfide
YP_785886.1	Also similar to- BAV3265 (81.9)
YP_785887.1	Also similar to BAV3266 (81.9)
YP_785895.1	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_785898.1	EngC; RsgA; CpgA; circularly permuted GTPase; ribosome small subunit-dependent GTPase A; has the pattern G4-G1-G3 as opposed to other GTPases; interacts strongly with 30S ribosome which stimulates GTPase activity
YP_785900.1	3'-5' exoribonuclease specific for small oligoribonuclotides
YP_785902.1	with PaaBCDE catalyzes the hydroxylation of phenylacetyl-CoA
YP_785903.1	with PaaBCDE catalyzes the hydroxylation of phenylacetyl-CoA; involved in phenylacetate degradation
YP_785908.1	Catalyzes the reversible hydration of unsaturated fatty acyl-CoA to beta-hydroxyacyl-CoA
YP_785915.1	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_785916.1	IF-3 has several functions that are required and promote translation initiation including; preventing association of 70S by binding to 30S; monitoring codon-anticodon interactions by promoting disassociation of fMet-tRNA(fMet) from initiation complexes formed on leaderless mRNAs or incorrectly bound noninitiatior tRNAs and complexes with noncanonical start sites; stimulates codon-anticodon interactions at P-site; involved in moving mRNA to the P-site; and in recycling subunits
YP_785917.1	catalyzes the second step in the glutathione biosynthesis pathway, where it synthesizes ATP + gamma-L-glutamyl-L-cysteine + glycine = ADP + phosphate + glutathione
YP_785922.1	catalyzes the formation of L-proline from L-ornithine
YP_785924.1	catalyzes the formation of dUMP from dUTP
YP_785928.1	alpha-aspartyl dipeptidase; catalyzes the hydrolysis of dipeptides with an N-terminal aspartate residue; belongs to peptidase S51 family
YP_785931.1	catalyzes the conjugation of cysteine to 4'-phosphopantothenate to form 4-phosphopantothenoylcysteine, which is then decarboxylated to form 4'-phosphopantotheine
YP_785932.1	lipoprotein signal peptidase; integral membrane protein that removes signal peptides from prolipoproteins during lipoprotein biosynthesis
YP_785933.1	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_785934.1	catalyzes the formation of FMN from riboflavin and the formation of FAD from FMN; in Bacillus the ribC gene has both flavokinase and FAD synthetase activities
YP_785935.1	glycinamide ribonucleotide transformylase; GAR Tfase; catalyzes the synthesis of 5'-phosphoribosylformylglycinamide from 5'-phosphoribosylglycinamide and 10-formyltetrahydrofolate; PurN requires formyl folate for the reaction unlike PurT which uses formate
YP_785941.1	involved in methylation of ribosomal protein L3
YP_785942.1	dapE-encoded N-succinyl-L,L-diaminopimelic acid desuccinylase (DapE), catalyzes the hydrolysis of N-succinyl-L,Ldiaminopimelate L,L-SDAP to L,L-diaminopimelate and succinate. It is a metalloprotease containing dinuclear active sites. Its structure is similar to the carboxypeptidase G2 from Pseudomonas sp. strain RS-16 and the aminopeptidase from Aeromonas proteolytica.
YP_785943.1	catalyzes the formation of N-succinyl-2-amino-6-ketopimelate from succinyl-CoA and tetrahydrodipicolinate in the lysine biosynthetic pathway
YP_785944.1	catalyzes the formation of succinyldiaminopimelate from N-succinyl-2-amino-6-ketopimelate
YP_785954.1	hypothetical gene not on same strand as others in the region
YP_785961.1	outside B. bronchiseptica
YP_785974.1	hypothetical gene located on opposite strand from others in this region
YP_785976.1	Similar to the N-terminal region of Bacteriophage T4 DNA packaging protein gp17 17 SWALL:VG17_BPT4 (SWALL:P17312) (610 aa) fasta scores: E(): 7.7, 25 38d in 124 aa
YP_785978.1	hypothetical gene located on opposite strand from others in this region
YP_786002.1	; besides other Bordetellae
YP_786008.1	except other Bordetellae. Similar to N-terminal region of the Bordetellae proteins
YP_786016.1	Similar only to exported proteins in Bordetellae
YP_786017.1	outside the Bordetellae
YP_786018.1	Also similar to BAV2327, BAV1494, BAV2092 and BAV3424.
YP_786020.1	Also similar to BAV1492, BAV2327, BAV2092 and BAV3424.
YP_786022.1	Tig; RopA; peptidyl-prolyl cis/trans isomerase; promotes folding of newly synthesized proteins; binds ribosomal 50S subunit; forms a homodimer
YP_786023.1	hydrolyzes proteins to small peptides; with the ATPase subunits ClpA or ClpX, ClpP degrades specific substrates
YP_786024.1	binds and unfolds substrates as part of the ClpXP protease
YP_786029.1	Represses a number of genes involved in the response to DNA damage
YP_786030.1	catalyzes the formation of L-glutamate and an aromatic oxo acid from an aromatic amino acid and 2-oxoglutarate
YP_786031.1	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_786034.1	catalyzes the removal of elemental sulfur from cysteine to produce alanine; involved in NAD biosynthesis
YP_786037.1	J-type co-chaperone that regulates the ATPase and peptide-binding activity of Hsc66 chaperone; may function in biogenesis of iron-sulfur proteins
YP_786038.1	involved in the maturation of iron-sulfur cluster-containing proteins
YP_786041.1	Similar over its C-terminal region to many methylglyoxal synthases including Escherichia coli,Escherichia coli O157:H7, and Shigella flexneri methylglyoxal synthase mgsA SWALL:MGSA_ECOLI (SWALL:P37066) (152 aa) fasta scores: E(): 0.03, 32.57 38d in 132 aa
YP_786043.1	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_786045.1	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_786057.1	Also similar to BAV2744 (79.68 38d)
YP_786066.1	23S rRNA m2A2503 methyltransferase; methylates the C2 position of the A2530 nucleotide in 23S rRNA; may be involved in antibiotic resistance
YP_786071.1	necessary for efficient RNA polymerase transcription elongation past template-encoded arresting sites; arresting sites in DNA have the property of trapping a certain fraction of elongating RNA polymerases that pass through, resulting in locked ternary complexes. Cleavage of the nascent transcript by cleavage factors such as GreA or GreB allows the resumption of elongation from the new 3'terminus
YP_786072.1	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_786075.1	Similar to fhaS and fhaL of B. bronchiseptica. It is also located at the same position as B. bronchiseptica fhaS
YP_786088.1	Also weakly similar to Escherichia coli L-lysine 6-monooxygenase iucD SWALL:IUCD_ECOLI (SWALL:P11295) (425 aa) fasta scores: E(): 0.19, 24.13 38d in 290 aa
YP_786092.1	contains glutamine-hydrolyzing domain and glutamine amidotransferase; GMP-binding domain; functions to produce GMP from XMP in the IMP pathway
YP_786096.1	Similar over its N-terminal region to Hydrogenophaga pseudoflava carbon monoxide dehydrogenase small chain cutS SWALL:DCMS_HYDPS (SWALL:P19915) (163 aa) fasta scores: E(): 3.5e-22, 46.52 38d in 144 aa
YP_786115.1	catalyzes the formation of tetrahydropteroyl-L-glutamate and methionine from L-homocysteine and 5-methyltetrahydropteroyltri-L-glutamate
YP_786117.1	Partial CDS. Similar to C-terminal regions of two Bordetella autotransporters
YP_786122.1	catalyzes the formation of pyridoxal 5'-phosphate from pyridoxal
YP_786133.1	outside the bordetellae
YP_786137.1	Partial CDS. Similar to the N-terminus of several dehydrogenases
YP_786140.1	catalyzes the formation of 3-deoxy-D-arabino-hept-2-ulosonate 7 phosphate from phosphoenolpyruvate and D-erythrose 4-phosphate, tyrosine sensitive
YP_786142.1	catalyzes the reduction of 2 glutathione to glutathione disulfide; maintains high levels of reduced glutathione in the cytosol; involved in redox regulation and oxidative defense
YP_786146.1	catalyzes the phosphorylation and decarboxylation of oxaloacetate to form phosphoenolpyruvate using GTP
YP_786155.1	catalyzes the formation of arginine from (N-L-arginino)succinate
YP_786157.1	NH(3)-dependent; 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_786159.1	; Also similar to the adjacent pseudogene, BAV1640,(~50 identity).
YP_786178.1	catalyzes the formation of 5,10-methenyltetrahydrofolate from 5,10-methylenetetrahydrofolate and subsequent formation of 10-formyltetrahydrofolate from 5,10-methenyltetrahydrofolate
YP_786181.1	E1 component; part of pyruvate dehydrogenase; forms a complex with DlaT and LpdC
YP_786188.1	with FlhC is involved in the activation of class 2 flagellar genes and is involved in the regulation of a number of other genetic systems
YP_786189.1	With FlhD is involved in the activation of class 2 flagellar genes and as well as a number of other genetic systems
YP_786190.1	With MotB forms the ion channels that couple flagellar rotation to proton/sodium motive force across the membrane and forms the stator elements of the rotary flagellar machine
YP_786191.1	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_786197.1	regulates chemotaxis by demethylation of methyl-accepting chemotaxis proteins
YP_786199.1	cytosolic phosphatase which functions in the chemotaxis signal transduction complex by controlling the level of phosphorylated CheY through dephosphorylation
YP_786200.1	membrane protein responsible for substrate specificity switching from rod/hook-type export to filament-type export
YP_786201.1	membrane protein involved in the flagellar export apparatus
YP_786202.1	positive regulator of class III flagellar genes
YP_786205.1	required for the assembly of the flagellar basal body P-ring
YP_786206.1	with FlgF and C makes up the proximal portion of the flagellar basal body rod; Vibrio parahaemolyticus protein is associated with the polar flagella
YP_786207.1	with FlgF and B makes up the proximal portion of the flagellar basal body rod
YP_786208.1	acts as a scaffold for the assembly of hook proteins onto the flagellar basal body rod
YP_786210.1	FlgF, with FlgB and C, makes up the proximal portion of the flagellar basal body rod
YP_786211.1	makes up the distal portion of the flagellar basal body rod
YP_786212.1	part of the basal body which consists of four rings L, P, S, and M mounted on a central rod
YP_786213.1	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_786214.1	Flagellum-specific muramidase which hydrolyzes the peptidoglycan layer to assemble the rod structure in the periplasmic space
YP_786215.1	with FlgL acts as a hook filament junction protein to join the flagellar filament to the hook
YP_786219.1	No similarity to any protein in the database except for Bordetella bronchiseptica  lipoprotein
YP_786224.1	FliP, with proteins FliQ and FliR, forms the core of the central channel in the flagella export apparatus
YP_786232.1	binds to and inhibits the function of flagella specific ATPase FliI
YP_786233.1	One of three proteins involved in switching the direction of the flagellar rotation
YP_786234.1	the MS-ring anchors the flagellum to the cytoplasmic membrane; part of the flagellar basal body which consists of four rings L, P, S, and M mounted on a central rod
YP_786246.1	Catalyzes first step of the de novo purine nucleotide biosynthetic pathway
YP_786250.1	catalyzes the uridylylation or deuridylylation of the PII nitrogen regulatory protein
YP_786252.1	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_786253.1	EF-Ts; functions during elongation stage of protein translation; forms a dimer; associates with EF-Tu-GDP complex and promotes exchange of GDP to GTP resulting in regeneration of the active form of EF-Tu
YP_786254.1	Catalyzes the phosphorylation of UMP to UDP
YP_786255.1	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_786256.1	catalyzes the formation of undecaprenyl pyrophosphate from isopentenyl pyrophosphate
YP_786258.1	catalyzes the NADP-dependent rearrangement and reduction of 1-deoxy-D-xylulose-5-phosphate (DXP) to 2-C-methyl-D-erythritol 4-phosphate
YP_786262.1	adds the O-linked and N-linked 3(R)-hydroxy fatty acids to the glucosamine disaccharide during lipid A biosynthesis
YP_786263.1	in Pseudomonas aeruginosa this enzyme is a trimer of dimers; essential for membrane formation; performs third step of type II fatty acid biosynthesis; catalyzes dehydration of (3R)-hydroxyacyl-ACP to trans-2-acyl-ACP
YP_786264.1	catalyzes the addition of (R)-3-hydroxytetradecanoyl to the glucosamine disaccharide in lipid A biosynthesis
YP_786265.1	catalyzes the formation of lipid A disaccharide from UDP-2,3-diacylglucosamine and 2,3-diacylglucosamine-1-phosphate, lipid A disaccharide is a precursor of lipid A that anchors LPS to the OM
YP_786266.1	RNH2; RNase HII; binds manganese; endonuclease which specifically degrades the RNA of RNA-DNA hybrids
YP_786270.1	catalyzes the formation of phosphoenolpyruvate from pyruvate
YP_786274.1	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_786279.1	Also similar to BAV2903 (35.2 38d)
YP_786283.1	catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to thymidine monophosphate (dTMP) to form thymidine diphosphate (dTDP)
YP_786287.1	No similarity outside the bordetellae
YP_786294.1	One of 11 fimbrial subunits
YP_786295.1	One of 11 fimbrial subunits
YP_786305.1	catalyzes the formation of catechol from salicylate
YP_786307.1	Its C-terminal region is similar to the C-terminal region of Pseudomonas putida regulator MorA.
YP_786316.1	Partial CDS. Similar to the N-terminus of Bordetella parapertussis hypothetical protein, Rhizobium meliloti hypothetical protein, and to Ruegeria sp. PR1b rc119
YP_786321.1	; Also similar to BAV1084 (49.7 38d.).
YP_786329.1	No similarity outside the bordetellae
YP_786330.1	No similarity outside the bordetellae
YP_786345.1	No significant similarity outside the bordetellae
YP_786373.1	Fep; Cbt; Cbr; FeuB; FepA; PfeA; IroN; BfeA; outer membrane receptor of ferric enterobactin and colicins B and D; interacts with the TonB-ExbBD complex which catalyzes the translocation of the siderophore to the periplasmic space
YP_786375.1	No similarity outside the bordetellae
YP_786377.1	No similarity outside the bordetellae
YP_786382.1	; Similar to the C-terminal regions of several autotransporters
YP_786386.1	Similar to exported proteins within the bordetellae only
YP_786388.1	; No significant similarity outside the bordetellae
YP_786397.1	also similar to BAV0902 (52.585 38d.)
YP_786398.1	; No similarity outside of the bordetellae
YP_786399.1	catalyzes the decarboxylation of phosphatidyl-L-serine to phosphatidylethanoleamine
YP_786409.1	Part of the ABC transporter complexes LivFGHMJ and LivFGHMK involved in the high-affinity transport of branched-chain amino acids; LivFGHMK is specific for the transport of leucine, while LivFGHMJ is a transporter for leucine, isoleucine, and valine
YP_786410.1	Part of the ABC transporter complex LivFGHMJ and LivFGHMK involved in the high-affinity transport of branched-chain amino acids; LivFGHMK is specific for the transport of leucine, while LivFGHMJ is a transporter for leucine, isoleucine, and valine
YP_786412.1	Also similar to BAV1903 (59.299 38d).
YP_786419.1	part of the UgpABCE glycerol-3-phosphate uptake system
YP_786420.1	Also similar to BAV1895 (59.299 38d).
YP_786437.1	catalyzes branch migration in Holliday junction intermediates
YP_786449.1	catalyzes the oxygen-independent formation of protoporphyrinogen-IX from coproporphyrinogen-III
YP_786453.1	RNase PH; tRNA nucleotidyltransferase; forms hexamers in Bacillus subtilis; phosphoroltic 3'-5' exoribonuclease; involved in maturation of tRNA precursors and removes terminal nucleotides near CCA acceptor arms of mature tRNAs
YP_786457.1	functions in protein export; can interact with acidic membrane phospholipids and the SecYEG protein complex; binds to preproteins; binds to ATP and undergoes a conformational change to promote membrane insertion of SecA/bound preprotein; ATP hydrolysis appears to drive release of the preprotein from SecA and deinsertion of SecA from the membrane; additional proteins SecD/F/YajC aid SecA recycling; exists in an equilibrium between monomers and dimers; may possibly form higher order oligomers; in some organisms, there are paralogous proteins that have been found to be nonessential but do function in secretion of a subset of exported proteins
YP_786460.1	; Weakly and partially similar to a wide range of proteins
YP_786468.1	Catalyzes the hydrolysis of AMP to form adenine and ribose 5-phosphate using water as the nucleophile
YP_786471.1	Essential for recycling GMP and indirectly, cGMP
YP_786472.1	Promotes RNA polymerase assembly. Latches the N- and C-terminal regions of the beta' subunit thereby facilitating its interaction with the beta and alpha subunits
YP_786474.1	similar to ATP-binding component of ABC transporters
YP_786475.1	similar to permease component of ABC transporters; mutations impair ability of Escherichia coli to transport and utilize glutamine
YP_786476.1	similar to periplasmic-binding component of ABC transporters
YP_786477.1	A related gene, hagA (BAVXXX) may function to export the B. avium hemagglutinin, HagB; an additional pair of fhaBC/hagAB genes occurs at BAVXXX
YP_786481.1	One of 11  fimbrial subunits
YP_786486.1	hydrolyzes diesters during transport at the inner face of the cytoplasmic membrane to glycerol-3-phosphate and alcohol; induced when cells are starved for inorganic phosphate
YP_786488.1	Catalyzes the oxidation of dihydrolipoamide to lipoamide
YP_786492.1	in Escherichia coli this enzyme catalyzes the SAM-dependent methylation of U1939 in the 23S ribomal RNA; binds an iron-sulfur cluster [4Fe-4S]
YP_786497.1	catalyzes the conversion of a phosphate monoester to an alcohol and a phosphate
YP_786498.1	involved in acylation of glycerol-3-phosphate to form 1-acyl-glycerol-3 phosphate for use in phospholipid biosynthesis; functions with PlsX
YP_786499.1	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_786502.1	Also similar to BAV2379 (40.000 38d.)
YP_786512.1	No similarity outside of the Bordetellae
YP_786513.1	subunit G of antiporter complex involved in resistance to high concentrations of Na+, K+, Li+ and/or alkali
YP_786514.1	subunit F of antiporter complex involved in resistance to high concentrations of Na+, K+, Li+ and/or alkali; in S. meliloti it is known to be involved specifically with K+ transport
YP_786515.1	subunit E of antiporter complex involved in resistance to high concentrations of Na+, K+, Li+ and/or alkali; in S. meliloti it is known to be involved specifically with K+ transport
YP_786516.1	subunit D of antiporter complex involved in resistance to high concentrations of Na+, K+, Li+ and/or alkali; contains an oxidoreductase domain; catalyzes the transfer of electrons from NADH to ubiquinone
YP_786517.1	subunit C of antiporter complex involved in resistance to high concentrations of Na+, K+, Li+ and/or alkali
YP_786518.1	subunit A of antiporter complex involved in resistance to high concentrations of Na+, K+, Li+ and/or alkali; in S. meliloti it is known to be involved with K+
YP_786521.1	catalyzes the oxidative deamination of D-amino acids
YP_786524.1	No similarity outside of the Bordetellae
YP_786542.1	Displays esterase activity toward palmitoyl-CoA and pNP-butyrate
YP_786545.1	DNA polymerase involved in damage-induced mutagenesis and translesion synthesis. It is not the major replicative DNA polymerase.
YP_786546.1	catalyzes the oxidative deamination of D-amino acids
YP_786548.1	flavohemoprotein; catalyzes the formation of nitrate from nitric oxide; can also catalyze the reduction of dihydropteridine
YP_786550.1	involved in translesion DNA polymerization with beta clamp of polymerase III; belongs to Y family of polymerases; does not contain proofreading function
YP_786552.1	. Seems to be unique to the Bordetellae.
YP_786561.1	. Seems to be unique to the Bordetellae.
YP_786562.1	. Seems to be unique to the Bordetellae.
YP_786571.1	. Seems to be unique to the Bordetellae.
YP_786577.1	Doubtful CDS.
YP_786580.1	Doubtful CDS.
YP_786582.1	This protein is one of the two subunits of integration host factor, a specific DNA-binding protein that functions in genetic recombination as well as in transcriptional and translational control
YP_786583.1	catalyzes a two-step reaction, first charging a phenylalanine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; forms a tetramer of alpha(2)beta(2); binds two magnesium ions per tetramer; type 2 subfamily
YP_786584.1	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_786585.1	binds directly to 23S ribosomal RNA prior to in vitro assembly of the 50S ribosomal subunit
YP_786592.1	Weakly similar to steroid delta-isomerases from Nocardioides simplex and Pseudomonas putida.
YP_786601.1	proline utilization protein A; multifunctional protein that functions in proline catabolism in the first two enzymatic steps resulting in the conversion of proline to glutamate; in Escherichai coli this protein also self-regulates transcription via a DNA-binding domain at the N-terminus; forms dimers and is a peripherally membrane-associated protein
YP_786608.1	involved in the modulation of the specificity of the ClpAP-mediated ATP-dependent protein degradation; binds to the N-terminal domain of the chaperone ClpA
YP_786609.1	Also similar to BAV1492 , BAV1494, BAV2327 and BAV3424.
YP_786611.1	catalyzes the thiolytic cleavage of beta-ketoadipyl-CoA to succinate and acetyl-CoA
YP_786612.1	Partial CDS. Partially similar to peptide methionine sulfoxide reductase, MsrB, from Salmonella typhimurium and S. typhi
YP_786614.1	bidirectionally degrades single-stranded DNA into large acid-insoluble oligonucleotides
YP_786617.1	transfers the gamma-phosphate of ATP to the 4' position of a tetraacyldisaccharide 1-phosphate intermediate to form tetraacyldisaccharide 1,4'-bis-phosphate
YP_786619.1	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_786620.1	essential enzyme that recycles AMP in active cells; converts ATP and AMP to two molecules of ADP
YP_786624.1	binds directly to the 16S rRNA and is involved in post-translational inhibition of arginine and ornithine decarboxylase
YP_786628.1	catalyzes the formation of N-acetyl-l-glutamate 5-semialdehyde from 2-oxoglutarate and N(2)-acetyl-L-ornithine
YP_786629.1	catalyzes the formation of L-citrulline from carbamoyl phosphate and L-ornithine in arginine biosynthesis and degradation
YP_786630.1	catalyzes the formation of arginosuccinate from citrulline and aspartate in arginine biosynthesis
YP_786648.1	Similar to an internal region of the large subunit of ferredoxin-dependent glutamate synthase from many organisms.
YP_786655.1	Gene remnant. Similar to an internal region of Ralstonia solanacearum tyrosine recombinase XerD SWALL:XERD_RALSO (SWALL:Q8XWD0) (308 aa) fasta scores: E(): 9.4, 45.94 38d in 37 aa
YP_786656.1	. Seems to be unique to the Bordetellae.
YP_786659.1	Catalyzes two discrete reactions in the de novo synthesis of purines: the cleavage of adenylosuccinate and succinylaminoimidazole carboxamide ribotide
YP_786662.1	catalyzes a sulfuration reaction to synthesize 2-thiouridine at the U34 position of tRNAs
YP_786663.1	Similar to C-terminal of Escherichia coli NAD(P) transhydrogenase subunit alpha PntA SWALL:PNTA_ECOLI (SWALL:P07001)
YP_786667.1	Also similar to the upstream CDS, BAV2152, (30.947 identity).
YP_786668.1	Also similar to the downstream CDS, BAV2151,(30.947 38dentity).
YP_786669.1	catalyzes the formation of 3-deoxy-D-arabino-hept-2-ulosonate 7 phosphate from phosphoenolpyruvate and D-erythrose 4-phosphate, phenylalanine sensitive
YP_786674.1	catalyzes the formation of D-fructose 6-phosphate from fructose-1,6-bisphosphate
YP_786676.1	catalyzes the formation of L-threonine from O-phospho-L-homoserine
YP_786677.1	catalyzes the formation of L-aspartate 4-semialdehyde from L-homoserine
YP_786682.1	Also similar to BAV0651, (48.318 38d.)
YP_786684.1	unwinds double stranded DNA
YP_786686.1	in Escherichia coli this protein is wrapped around the base of the L1 stalk
YP_786687.1	binds as a heterodimer with protein S6 to the central domain of the 16S rRNA; helps stabilize the platform of the 30S subunit
YP_786688.1	binds single-stranded DNA at the primosome assembly site
YP_786689.1	binds cooperatively with S18 to the S15-16S complex, allowing platform assembly to continue with S11 and S21
YP_786690.1	similar protein in Methanocaldococcus converts GTP to 7,8-dihydro-D-neopterin 2',3'-cyclic phosphate as the first step in methanopterin biosynthesis
YP_786691.1	catalyzes the formation of 1-deoxy-D-xylulose 5-phosphate from pyruvate and D-glyceraldehyde 3-phosphate
YP_786693.1	catalyzes the bidirectional exonucleolytic cleavage of DNA
YP_786698.1	putative metalloprotease
YP_786713.1	Also similar to BAV2548, (67.952 38d.)
YP_786715.1	Also similar to BAV2226 (42.857 38d.)
YP_786716.1	allantoate amidohydrolase and N-carbamoyl-L-amino acid amidohydrolase are very similar; the allantoate amidohydrolase from Escherichia coli forms a dimer and binds zinc ions for catalytic activity and catalyzes the conversion of allantoate to (S)-ureidoglycolate and ammonia; carbamoyl amidohydrolase from Bacillus sp. converts N-carbamoyl amino acids to amino acids, ammonia, and carbon dioxide
YP_786721.1	Gene remnant. Similar to the N-terminal region of Human immunodeficiency virus viral infectivity factor ViF
YP_786723.1	catalyzes the formation of N(1)-(5-phospho-D-ribosyl)glycinamide from 5-phospho-D-ribosylamine and glycine in purine biosynthesis
YP_786724.1	catalyzes the conversion of the propionic acid groups of rings I and III to vinyl groups during heme synthesis
YP_786727.1	SPOUT methyltransferase family protein; crystal structure shows homodimer; in Escherichia coli this protein methylates pseudouridine at position 1915 of the 23S ribosomal RNA
YP_786728.1	Maf; overexpression in Bacillus subtilis inhibits septation in the dividing cell
YP_786732.1	similar to the C-terminal region of Escherichia coli AdA regulatory protein; similar to the C-terminal region of BAV3120, Ada,(45.399 38d.)
YP_786740.1	Also similar to BAV2201 (42.857 38d.)
YP_786747.1	Also similar to BAV2238 (27.027 38d.)
YP_786752.1	Also similar to BAV2233 (27.027 38d.)
YP_786753.1	catalyzes DNA-template-directed extension of the 3'- end of a DNA strand by one nucleotide at a time; main replicative polymerase
YP_786756.1	catalyzes the formation of N-acetyl-L-glutamate from L-glutamate and acetyl-CoA in arginine biosynthesis
YP_786760.1	Catalyzes D-ribose 5-phosphate --> D-ribulose 5-phosphate in the nonoxidative branch of the pentose phosphate pathway
YP_786763.1	responsible for recognizing base lesions in the genome and initiating base excision DNA repair
YP_786769.1	catalyzes the phosphorylation of 3-deoxy-D-manno-octulosonic acid at the 4-OH position
YP_786778.1	catalyzes the formation of 1-(2-carboxyphenylamino)-1-deoxy-D-ribulose 5-phosphate from N-(5-phospho-beta-D-ribosyl)-anthranilate in tryptophan biosynthesis
YP_786779.1	mediates pseudouridylation (positions 38, 39, 40) at the tRNA anticodon region which contributes to the structural stability
YP_786781.1	catalyzes the formation of 4-aspartyl phosphate from aspartate 4-semialdehyde
YP_786782.1	catalyzes the oxidation of 3-isopropylmalate to 3-carboxy-4-methyl-2-oxopentanoate in leucine biosynthesis
YP_786783.1	catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate in leucine biosynthesis; forms a heterodimer of LeuC/D
YP_786784.1	dehydratase component, catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate
YP_786785.1	; Doubtful CDS.
YP_786787.1	catalyzes the formation of chorismate from 5-O-(1-carboxyvinyl)-3-phosphoshikimate in aromatic amino acid biosynthesis
YP_786788.1	; Similar to the C_terminal region of many CDSs including Pseudomonas aeruginosa hypothetical signaling protein pa1727 SWALL:YH27_PSEAE (SWALL:Q9I310) (685 aa) fasta scores: E(): 5e-46, 35.98 38d in 453 aa
YP_786792.1	Similar to over its N-terminal region to Escherichia coli, Escherichia coli O6, and Escherichia coli O157:H7 tRNA processing ribonuclease bn Rbn SWALL:RBN_ECOLI (SWALL:P32146) (290 aa) fasta scores: E(): 1.5e-34, 38.6 38d in 272 aa
YP_786795.1	catalyzes the formation of O-phospho-L-homoserine from L-homoserine
YP_786808.1	Also similar to BAV2317 (44.186 38d.)
YP_786814.1	transformation of porphobilinogen to hydroxymethylbilane in porphyrin biosynthesis
YP_786817.1	Catalyzes the only substrate-level phosphorylation in the TCA cycle
YP_786818.1	catalyzes the interconversion of succinyl-CoA and succinate
YP_786820.1	catalyzes the transfer of a methyl group from 5-methyltetrahydrofolate to homocysteine to form methionine
YP_786822.1	binds RecA and inhibits RecA-mediated DNA strand exchange and ATP hydrolysis and coprotease activities
YP_786823.1	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_786827.1	Required for efficient pilin antigenic variation
YP_786828.1	catalyzes the conversion of carbamoyl phosphate and aspartate to form N-carbamoyl aspartate
YP_786830.1	. Seems to be unique to the Bordetellae.
YP_786831.1	Also similar to BAV2294 (44.186 38d.)
YP_786832.1	. Seems to be unique to the Bordetellae.
YP_786835.1	. Seems to be unique to the Bordetellae.
YP_786841.1	Also similar to BAV1492 (80.303 38d.), BAV1494 (70.769 38d.), BAV2092 (62.903 0d.) and BAV3424 (58.730 id.)
YP_786843.1	sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released; this is the primary sigma factor of bacteria
YP_786845.1	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_786847.1	catalyzes the formation of N6-(1,2,-dicarboxyethyl)-AMP from L-aspartate, inosine monophosphate and GTP in AMP biosynthesis
YP_786848.1	May allow the feedback regulation of ATP phosphoribosyltransferase activity by histidine
YP_786852.1	Stimulates the elongation of poly(A) tails
YP_786853.1	catalyzes the formation of L-histidinol phosphate from imidazole-acetol phosphate and glutamate in histidine biosynthesis
YP_786854.1	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_786857.1	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_786858.1	catalyzes the conversion of 2C-methyl-D-erythritol 2,4-cyclodiphosphate into 4-hydroxy-3-methyl-2-en-1-yl diphosphate; involved in isoprenoid synthesis
YP_786861.1	catalyzes the formation of nucleoside triphosphate from ATP and nucleoside diphosphate
YP_786862.1	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_786863.1	methylates guanosine-37 in various tRNAs; uses S-adenosyl-L-methionine to transfer methyl group to tRNA
YP_786864.1	Essential for efficient processing of 16S rRNA
YP_786866.1	binds to lower part of 30S body where it stabilizes two domains; required for efficient assembly of 30S; in Escherichia coli this protein has nuclease activity
YP_786870.1	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_786875.1	. Seems to be unique to the Bordetellae.
YP_786876.1	. Seems to be unique to the Bordetellae.
YP_786880.1	Also similar to BAV2005 (41.809 38d), BAV2030 (36.993 38d), BAV0960 (36.557 0d)
YP_786881.1	catalyzes the formation of 3,6-dideoxy-D-glycero-D-glycero-4-hexulose
YP_786882.1	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_786886.1	N-acetyldiaminobutyrate dehydratase; catalyzes the formation of the osmoprotectant ecotoine from gamma-N-acetyl-alpha,gamma-diaminobutyric acid
YP_786887.1	catalyzes the reversible formation of diaminobutyrate and 2-oxoglutarate from glutamate and L-aspartic beta-semialdehyde
YP_786890.1	decatenates newly replicated chromosomal DNA and relaxes positive and negative DNA supercoiling
YP_786891.1	Unique to the Bordetellae. No other significant database matches.
YP_786892.1	decatenates newly replicated chromosomal DNA and relaxes positive and negative DNA supercoiling
YP_786893.1	Also similar to BAV1986 (40.000 38d.)
YP_786894.1	An RNA-DNA helicase that actively releases nascent mRNAs from paused transcription complexes
YP_786896.1	catalyzes the ATP-dependent addition of AMP to a subunit of glutamine synthetase; also catalyzes the reverse reaction - deadenylation; adenylation/deadenylation of glutamine synthetase subunits is important for the regulation of this enzyme
YP_786902.1	has 3'-5' exonuclease, 5'-3' exonuclease and 5'-3'polymerase activities, primarily functions to fill gaps during DNA replication and repair
YP_786904.1	Similar to the C-terminal region of Bordetellae toxin.
YP_786906.1	catalyzes isomerization of specific uridines in RNA to pseudouridine; responsible for residues in T loops of many tRNAs
YP_786907.1	associates with free 30S ribosomal subunits; essential for efficient processing of 16S rRNA; in Escherichia coli rbfA is induced by cold shock
YP_786908.1	Protects formylmethionyl-tRNA from spontaneous hydrolysis and promotes its binding to the 30S ribosomal subunits during initiation of protein synthesis. Also involved in the hydrolysis of GTP during the formation of the 70S ribosomal complex
YP_786909.1	modifies transcription through interactions with RNA polymerase affecting elongation, readthrough, termination, and antitermination
YP_786910.1	in Streptococcus pneumoniae this gene was found to be essential; structure determination of the Streptococcus protein shows that it is similar to a number of other proteins
YP_786911.1	This CDS is extended at the C-terminus end relative to its Escherichia coli orthologue.
YP_786917.1	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_786919.1	Involved in DNA double-strand break repair and recombination. Promotes the annealing of complementary single-stranded DNA and by simulation of RAD51 recombinase
YP_786922.1	RpmE2; there appears to be two types of ribosomal proteins L31 in bacterial genomes; some contain a CxxC motif while others do not; Bacillus subtilis has both types; the proteins in this cluster do not have the CXXC motif; RpmE is found in exponentially growing Bacilli while YtiA was found after exponential growth; expression of ytiA is controlled by a zinc-specific transcriptional repressor; RpmE contains one zinc ion and a CxxC motif is responsible for this binding; forms an RNP particle along with proteins L5, L18, and L25 and 5S rRNA; found crosslinked to L2 and L25 and EF-G; may be near the peptidyltransferase site of the 50S ribosome
YP_786927.1	Sms; stabilizes the strand-invasion intermediate during the DNA repair; involved in recombination of donor DNA and plays an important role in DNA damage repair after exposure to mutagenic agents
YP_786928.1	. Seems to be unique to the Bordetellae.
YP_786939.1	previously sequenced in Bordetella pertussis as transcriptional regulatory protein Btr
YP_786951.1	Weakly similar to several hypothetical proteins.
YP_786954.1	catalyzes the formation of L-aspartate to iminoaspartate in NAD(+) biosynthesis
YP_786961.1	catalyzes the formation of S-adenosyl-4-methylthionine-2-oxobutanoate and 7,8-diaminononanoate from S-adenosyl-L-methionine and 8-amino-7-oxononanoate
YP_786965.1	catalyzes the NADPH-dependent reduction of 7-cyano-7-deazaguanine (preQ0) to 7-aminomethyl-7-deazaguanine (preQ1) in queuosine biosynthesis
YP_786968.1	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_786969.1	hydrolyzes the terminal non-reducing N-acetyl-D-hexosamine residues in N-acetyl-beta-D-hexosaminides
YP_786970.1	Catalyzes the formation of holo-ACP, which mediates the essential transfer of acyl fatty acid intermediates during the biosynthesis of fatty acids and lipids
YP_786971.1	involved in the de novo synthesis of pyridoxine (Vitamin B6)
YP_786975.1	Partial CDS. Similar to the C-terminal region of many regulators including Rhodobacter sphaeroides DmsR and Escherichia coli aerobic respiration control protein ArcA
YP_786988.1	catalyzes the formation of beta-ketovaleryl-CoA from acetyl-CoA and propionyl-CoA
YP_786993.1	Doubtful CDS.
YP_786997.1	required for 70S ribosome assembly
YP_786998.1	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_787004.1	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_787006.1	required for the assembly and function of the DNAX complex which is required for the assembly of the beta subunit onto primed DNA
YP_787007.1	Catalyzes the phosphorylation of L-glutamate during the proline biosynthesis pathway
YP_787008.1	. Seems to be unique to the Bordetellae.
YP_787010.1	catalyzes the hydrolysis of a monocarboxylic acid amid to form a monocarboxylate and ammonia
YP_787021.1	catalyzes the conversion of citrate to isocitrate and the conversion of 2-methylaconitate to 2-methylisocitrate
YP_787025.1	Catalyzes the conversion of citrate to isocitrate
YP_787029.1	Involved in peptide bond synthesis; alters the affinity of the ribosome for aminoacyl-tRNA
YP_787035.1	Partial CDS. Similar to an internal region of the Bordetellae  response regulators BB1834/BPP2384/BP2004.
YP_787036.1	Partial CDS. Similar to the N-terminal region of the Bordetellae  exported protein BB1833/BPP2383/BP2003.
YP_787038.1	Partial CDS. Similar to the Bordetellae lipoprotein BB1831/BPP2381/BP2001.
YP_787045.1	Partial CDS. truncated at N-terminus
YP_787056.1	Also similar to BAV2199, (67.952 38d.)
YP_787058.1	Also similar to BAV2568 (31.818 38d.) and BAV2857 (27.413 38d.).
YP_787059.1	Modulates the activities of several enzymes which are inactive in their acetylated form
YP_787061.1	; Similar to N-terminal half of Escherichia coli 3-hydroxybutyryl-coa dehydrogenase paaH SWALL:PAAH_ECOLI (SWALL:P76083) (475 aa) fasta scores: E(): 5.4e-15, 30.79 38d in 328 aa
YP_787062.1	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_787066.1	catalyzes the formation of 4-phospho-L-aspartate from L-aspartate and ATP, in Bacillus, lysine sensitive; regulated by response to starvation.
YP_787068.1	catalyzes the carboxylation of acetyl-CoA to malonyl-CoA; forms a tetramer composed of two alpha (AccA) and two beta (AccD) subunits; one of the two catalytic subunits that can form the acetyl CoA carboxylase enzyme together with a carrier protein
YP_787070.1	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_787073.1	catalyzes the formation of 2,3=diacylglucosamine 1-phosphate from UDP-2,3=diacylglucosamine
YP_787074.1	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_787076.1	Also similar to BAV2550 (31.818 38d.) and BAV2857 (38.519 38d.).
YP_787094.1	; Doubtful CDS.
YP_787095.1	This protein performs the mismatch recognition step during the DNA repair process
YP_787099.1	catalyzes the formation of dihydrodipicolinate from L-aspartate 4-semialdehyde and pyruvate in lysine and diaminopimelate biosynthesis
YP_787102.1	. Seems to be unique to the bordetellae.
YP_787104.1	. Seems to be unique to the bordetellae
YP_787119.1	Partially similar to Salmonella typhimurium alanine racemase, catabolic DadX SWALL:ALR2_SALTY (SWALL:P06191) (356 aa).
YP_787120.1	Also similar to BAV2796 (59.1 38d)
YP_787126.1	catalyzes the hydrolysis of 1,4-beta-D-glucosidic linkages in cellulose, lichenin and cereal beta-D-glucans
YP_787127.1	binds the cellulose synthase activator, bis-(3'-5') cyclic diguanylic acid (c-di-GMP)
YP_787128.1	binds the cellulose synthase activator, bis-(3'-5') cyclic diguanylic acid (c-di-GMP)
YP_787135.1	; Weakly similar to the C-terminal region of enterics sucrose operon repressor ScrR SWALL:SCRR_SALTY (SWALL:P37077) (334 aa) fasta scores: E(): 3.1, 30.5 38d in 177 aa
YP_787149.1	; Similar to N-terminus of many polysaccharide biosynthesis proteins
YP_787150.1	capsular polysaccharide biosynthesis acyltransferase
YP_787157.1	Reversibly isomerizes the ketone sugar dihydroxyacetone phosphate to the aldehyde sugar glyceraldehyde-3-phosphate
YP_787159.1	One of 11 fimbrial subunits
YP_787160.1	Doubtful CDS.
YP_787163.1	catalyzes the formation of 2-oxobutanoate from L-threonine
YP_787165.1	catalyzes the hydrolysis of a monocarboxylic acid amid to form a monocarboxylate and ammonia
YP_787167.1	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_787170.1	catalyzes the formation of (R)-2,3-dihydroxy-3-methylbutanoate from (S)-2-hydroxy-2-methyl-3-oxobutanoate in valine and isoleucine biosynthesis
YP_787171.1	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_787172.1	Also similar to BAV3387 (46.528 38d)
YP_787179.1	; Doubtful CDS.
YP_787181.1	. Seems to be unique to the bordetellae.
YP_787183.1	. Seems to be unique to the bordetellae.
YP_787184.1	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_787185.1	Also similar to BAV2688 (55.511 38d).
YP_787187.1	Also similar to BAV2686 (55.511 38d).
YP_787188.1	Partial CDS. Similar to the C-terminal region of many transposases.
YP_787192.1	participates with LolB in the incorporation of lipoprotein into the outer membrane
YP_787206.1	; Also similar to BAV0110 (37.847 38d), BAV2594 (30.241 38d)
YP_787211.1	. Seems to be unique to the bordetellae.
YP_787213.1	chaperone Hsp40; co-chaperone with DnaK; Participates actively in the response to hyperosmotic and heat shock by preventing the aggregation of stress-denatured proteins and by disaggregating proteins, also in an autonomous, dnaK-independent fashion
YP_787214.1	heat shock protein 70; assists in folding of nascent polypeptide chains; refolding of misfolded proteins; utilizes ATPase activity to help fold; co-chaperones are DnaJ and GrpE; multiple copies in some bacteria
YP_787216.1	with DnaK and DnaJ acts in response to hyperosmotic and heat shock by preventing the aggregation of stress-denatured proteins; may act as a thermosensor
YP_787218.1	protoheme ferro-lyase; catalyzes the insertion of a ferrous ion into protoporphyrin IX to form protoheme; involved in protoheme biosynthesis; in some organisms this protein is membrane-associated while in others it is cytosolic
YP_787219.1	Negative regulator of class I heat shock genes (grpE-dnaK-dnaJ and groELS operons). Prevents heat-shock induction of these operons
YP_787220.1	catalyzes the phosphorylation of NAD to NADP
YP_787224.1	catalyzes the reduction of 2,3-dihydrodipicolinate to 2,3,4,5-tetrahydrodipicolinate in lysine and diaminopimelate biosynthesis
YP_787225.1	catalyzes the reduction of UDP-N-acetylglucosamine enolpyruvate to form UDP-N-acetylmuramate in peptidoglycan biosynthesis
YP_787226.1	Involved in disulfide bond formation
YP_787230.1	Catalyzes the conversion of citrate to isocitrate
YP_787242.1	Also similar to BAV1531 (79.68 38d)
YP_787249.1	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_787250.1	Conjugates Arg from its aminoacyl-tRNA to the N-termini of proteins containing an N-terminal aspartate or glutamate
YP_787251.1	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_787266.1	Also similar to BAV3245 (27.7 38d).
YP_787271.1	Also similar to BAV3230 (29.3 38d)
YP_787274.1	involved in de novo purine biosynthesis
YP_787275.1	endonuclease; resolves Holliday structures; forms a complex of RuvABC; the junction binding protein RuvA forms a hexameric ring along with the RuvB helicase and catalyzes branch migration; RuvC then interacts with RuvAB to resolve the Holliday junction by nicking DNA strands of like polarity
YP_787276.1	plays an essential role in ATP-dependent branch migration of the Holliday junction
YP_787278.1	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_787280.1	. Seems to be unique to the bordetellae.
YP_787285.1	catalyzes a two-step reaction, first charging a glutamine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA
YP_787286.1	blocks the formation of polar Z-ring septums
YP_787288.1	works in conjunction with MinC and MinD to enable cell division at the midpoint of the long axis of the cell
YP_787291.1	ChvD; in Agrobacterium tumefaciens, mutations in both Walker boxes were found to affect virulence
YP_787292.1	catalyzes the formation of glutamate from glutamine
YP_787294.1	Also similar to BAV2620 (59.184 38d)
YP_787295.1	Also similar to BAV2621 (80.679 38d)
YP_787297.1	. Seems to be unique to the bordetellae.
YP_787305.1	. Seems to be unique to the bordetellae.
YP_787307.1	catalyzes the formation of 4-amino-4-deoxychorismate from chorismate and glutamine
YP_787314.1	Higly similar to BAV2824, HagA (53.4 38d). Also similar to the bordetellae FhaC
YP_787315.1	Nearly identical copy of BAV2825, HagB, (96 38d.); no mutants isolated.; similar to the N-terminal 1050 residues of the bordetellae FhaB
YP_787316.1	produces formate from formyl-tetrahydrofolate which is the major source of formate for PurT in de novo purine nucleotide biosynthesis; has a role in one-carbon metabolism; forms a homohexamer; activated by methionine and inhibited by glycine
YP_787320.1	Virulence locus as shown in labs of L. Temple and P. Orndorff; both hagA and hagB required for virulence and hemagglutination of guinea pig erythrocytes; Also highly similar to BAV2818, HagA2, (53.4 38d)
YP_787321.1	HagB is essential for virulence as shown in labs of L. Temple and P. Orndorff; both hagA and hagB required for virulence and hemagglutination of guinea pig erythrocytes; Nearly identical copy of 2819, HagB2, (96 38d.); similar to the N-terminal 1050 residues of the bordetellae FhaB
YP_787322.1	; Also similar to BAV2865 (58.2 38d.)
YP_787326.1	Almost identical to BAV0639 (98.8 38d)
YP_787335.1	Depolymerizes alginate by cleaving the beta-1,4 glycosidic bond: may enhance the production of alginate by controlling the length of the polymer chain during export
YP_787338.1	. Seems to be unique to the bordetellae.
YP_787342.1	Shown to be expressed in lab of L. Temple
YP_787347.1	catalyzes the formation of 2-dehydro-3-deoxy-D-octonate 8-phosphate from phosphoenolpyruvate and D-arabinose 5-phosphate in LPS biosynthesis
YP_787348.1	Also similar to BAV3166 (55.8 38d.)
YP_787353.1	Also similar to BAV2550 (27.413 38d 0d.) and BAV2568 (38.519 38d.).
YP_787355.1	Also similar to several including BAV3418 (55.4 id.) and BAV2890 (50.7 38d)
YP_787360.1	catalyzes the transfer of palmitate to lipid A
YP_787361.1	Also similar to BAV2826 (58.2 38d.)
YP_787365.1	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_787369.1	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_787370.1	GTPase; similar structure to tubulin; forms ring-shaped polymers at the site of cell division; other proteins such as FtsA, ZipA, and ZapA, interact with and regulate FtsZ function
YP_787373.1	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_787374.1	Catalyzes the formation of UDP-N-acetylmuramoyl-L-alanine from UDP-N-acetylmuramate and L-alanine in peptidoglycan synthesis
YP_787375.1	UDP-N-acetylglucosamine--N-acetylmuramyl- (pentapeptide) pyrophosphoryl-undecaprenol N-acetylglucosamine transferase; involved in cell wall formation; inner membrane-associated; last step of peptidoglycan synthesis
YP_787377.1	UDP-N-acetylmuramoylalanine--D-glutamate ligase; involved in peptidoglycan biosynthesis; cytoplasmic; catalyzes the addition of glutamate to the nucleotide precursor UDP-N-acetylmuramoyl-L-alanine during cell wall formation
YP_787378.1	First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan
YP_787383.1	MraZ; UPF0040; crystal structure shows similarity to AbrB
YP_787385.1	catalyzes the formation of N-carbamoyl-L-aspartate from (S)-dihydroorotate in pyrimidine biosynthesis
YP_787391.1	this stereospecific enzymes reduces the S isomer of methionine sulfoxide while MsrB reduces the R form; provides protection against oxidative stress
YP_787393.1	transfers the N-acyl diglyceride moiety to the prospective N-terminal cysteine in prolipoprotein
YP_787396.1	; . Seems to be unique to the bordetellae.
YP_787398.1	Also similar to BAV1760 (35.2 38d)
YP_787404.1	hydrolyzes diadenosine polyphosphate
YP_787405.1	catalyzes the formation of prolyl-tRNA(Pro) from proline and tRNA(Pro)
YP_787410.1	forms dimers; may be involved in cell envelope integrity; interacts with outer membrane proteins and with the C-terminal domain of inner membrane protein TolA
YP_787414.1	EF-G; promotes GTP-dependent translocation of the ribosome during translation; many organisms have multiple copies of this gene
YP_787426.1	3'-5' exonuclease of DNA polymerase III
YP_787429.1	An endonuclease that specifically degrades the RNA strand of RNA-DNA hybrids
YP_787433.1	Catalyzes a key regulatory step in fatty acid biosynthesis
YP_787436.1	catalyzes the formation of pyridine-2,3-dicarboxylate and 5-phospho-alpha-D-ribose 1-diphosphate from nictinate D-ribonucleotide
YP_787451.1	catalyzes the formation of riboflavin from 6,7-dimethyl-8-(1-D-ribityl)lumazine
YP_787456.1	catalyzes the reaction of glycine with 5,10-methylenetetrahydrofolate to form L-serine and tetrahydrofolate
YP_787458.1	catalyzes the formation of tyrosyl-tRNA(Tyr) from tyrosine and tRNA(Tyr)
YP_787460.1	catalyzes hydrolysis of 1,6-anhydro bond of anyhydro-N-acetylmuramic acid (anhMurNAc) and phosphorylates anhMurNAc to produce N-acetyl-muramate-6-phosphate; involved in murein recycling
YP_787461.1	essential respiratory protein A; may be involved in the transfer of iron-sulfur clusters; essential for growth using oxygen or alternate electron acceptors
YP_787463.1	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_787464.1	forms a direct contact with the tRNA during translation
YP_787465.1	in Escherichia coli this protein is one of the earliest assembly proteins in the large subunit
YP_787472.1	Charges one glutamine molecule and pairs it to its corresponding RNA trinucleotide during protein translation
YP_787474.1	. Seems to be unique to the bordetellae.
YP_787476.1	catalyzes the ferredoxin-dependent oxidative decarboxylation of arylpyruvates
YP_787477.1	Catalyzes the rate-limiting step in dNTP synthesis
YP_787478.1	Catalyzes the rate-limiting step in dNTP synthesis
YP_787484.1	. Seems to be unique to the bordetellae.
YP_787490.1	methylates ribosomal protein L11 at multiple amino acid positions; mutations of these genes in Escherichia coli or Thermus thermophilus has no apparent phenotype
YP_787491.1	an AccC homodimer forms the biotin carboxylase subunit of the acetyl CoA carboxylase, an enzyme that catalyzes the formation of malonyl-CoA, which in turn controls the rate of fatty acid metabolism
YP_787492.1	composes the biotin carboxyl carrier protein subunit of the acetyl-CoA carboxylase complex, the enzyme that catalyzes the carboxylation of acetyl-CoA to malonyl-CoA, which in turn controls the rate of fatty acid metabolism
YP_787493.1	catalyzes the formation of 3-dehydroshikimate from 3-dehydroquinate in chorismate biosynthesis
YP_787499.1	AroE; catalyzes the conversion of shikimate to 3-dehydroshikimate
YP_787500.1	glycosyltransferase; polymerizes glycan strands in the peptidoglycan
YP_787502.1	hydrolyzes P(1),P(4)-bis(5'-adenosyl) tetraphosphate to form 2 ADP
YP_787506.1	similar to RuvC resolvase with substantial differences; NMR structural information suggests this protein is monomeric; unknown cellular function
YP_787510.1	Condenses 4-methyl-5-(beta-hydroxyethyl)-thiazole monophosphate and 4-amino-5-hydroxymethyl pyrimidine pyrophosphate to form thiamine monophosphate
YP_787511.1	Converts (S)-4-amino-5-oxopentanoate to 5-aminolevulinate during the porphyrin biosynthesis pathway
YP_787517.1	Catalyzes the reversible hydration of unsaturated fatty acyl-CoA to beta-hydroxyacyl-CoA
YP_787519.1	catalyzes the conversion of salicylyl-CoA to gentisyl-CoA
YP_787525.1	ABC transporter, ATP-binding protein
YP_787531.1	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_787534.1	One of 11 fimbrial subunits
YP_787540.1	catalyzes the phosphorylation of the 3'-hydroxyl group of dephosphocoenzyme A to form coenzyme A; involved in coenzyme A biosynthesis
YP_787542.1	. Seems to be unique to the bordetellae.
YP_787543.1	catalyzes the formation of (R)-pantothenate from pantoate and beta-alanine
YP_787547.1	Converts glycerol and ADP to glycerol-3-phosphate and ADP
YP_787556.1	catalyzes the conversion of glutamine residues to glutamate on methyl-accepting chemotaxis receptors
YP_787557.1	Catalyzes the ferredoxin-dependent oxidative decarboxylation of arylpyruvates
YP_787561.1	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_787564.1	functions in thiamine (vitamin B1) biosynthesis; in Bacillus subtilis this enzyme catalyzes the formation of thiazole from dehydroxyglycine and 1-deoxy-D-xylulose-5-phosphate and ThiS-thiocarboxylate
YP_787568.1	Similar to the C-terminal region of Escherichia coli bifunctional protein HldE. this region encodes D-beta-D- heptose 1-phosphate adenosyltransferase that is involved in inner core lipopolysaccharide biosynthesis.
YP_787570.1	an Escherichia coli mutant results in accumulation of octaprenylphenol and no ubiquinone; functions in the formation of 2-octaprenyl-6-hydroxy-phenol from 2-octaprenylphenol in ubiquinone (coenzyme Q) biosynthesis; similar to eukaryotic proteins that exhibit kinase functions
YP_787584.1	Catalyzes the carbon methylation reaction in the biosynthesis of ubiquinone
YP_787588.1	catalyzes the formation of 3-phosphonooxypyruvate from 3-phospho-D-glycerate in serine biosynthesis; can also reduce alpha ketoglutarate to form 2-hydroxyglutarate
YP_787591.1	Also similar to BAV3298 (28.6 38d).
YP_787592.1	Also similar to BAV3297 (36.8 38d)
YP_787597.1	threonine deaminase; threonine dehydratase; in Escherichia coli, IlvA is part of the isoleucine biosynthetic pathway
YP_787601.1	catalyzes a salvage reaction resulting in the formation of AMP which is metabolically less costly than a de novo synthesis
YP_787605.1	Also similar to BAV0992 (44.3 38d 0d.)
YP_787606.1	Also similar to BAV0991 (54.6 38d.)
YP_787608.1	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_787615.1	similar over its C-terminal region to BAV2217 (45.399 38d.)
YP_787620.1	Involved in nucleotide synthesis and salvage
YP_787625.1	with HmuTU is involved in the transport of hemin
YP_787637.1	the active-site selenocysteine, residue 197, is encoded by an opal stop codon
YP_787641.1	catalyzes the formation of selenocysteinyl-tRNA(Sec) from seryl-tRNA(Sec) and L-selenophosphate in selenoprotein biosynthesis
YP_787643.1	catalyzes the formation of selenophosphate from selenide and ATP
YP_787646.1	involved in tryptophan biosynthesis; amino acid biosynthesis; converts 1-(2-carboxyphenylamino)-1-deoxy-D-ribulose 5-phosphate to C(1)-(3-indolyl)-glycerol 3-phosphate and carbon dioxide and water
YP_787647.1	Catalyzes the conversion of N-(5-phospho-D-ribosyl)-anthranilate and diphosphate to anthranilate and 5-phospho-alpha-D-ribose 1-diphosphate
YP_787648.1	TrpG; with TrpE catalyzes the formation of anthranilate and glutamate from chorismate and glutamine; TrpG provides the glutamine amidotransferase activity
YP_787652.1	catalyzes the phosphorylation of the phosphocarrier protein HPr of the bacterial phosphotransferase system
YP_787658.1	catalyzes the isomerization of sedoheptulose 7-phosphate to D-glycero-D-manno-heptose 7-phosphate
YP_787661.1	Also similar to BAV2852 (55.8 38d.)
YP_787662.1	catalyzes the phosphorylation of N-acetyl-L-glutamate to form N-acetyl-L-glutamate 5-phosphate
YP_787664.1	FtsZ binding protein; synthetically lethal with a defect in the Min system; this protein is the first identified nucleoid occlusion factor which works along with the Min system to properly position the FtsZ ring assembly
YP_787670.1	in some organisms this protein is a transmembrane protein while in others it is periplasmic; involved in some organisms with other components of the MreBCD complex and with penicillin binding proteins in the periplasm or cell wall
YP_787671.1	functions in MreBCD complex in some organisms
YP_787672.1	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_787673.1	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_787674.1	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_787675.1	involved in fifth step of pyrimidine biosynthesis; converts orotidine 5'-phosphate and diphosphate to orotate and 5-phospho-alpha-D-ribose 1-diphosphate
YP_787677.1	converts 2-oxoglutarate to glutamate; in Escherichia coli this enzyme plays a role in glutamate synthesis when the cell is under energy restriction; uses NADPH; forms a homohexamer
YP_787682.1	Catalyzes the conversion of acetyl-CoA and L-homoserine to CoA and O-acetyl-L-homoserine
YP_787683.1	involved in the first step of glutathione biosynthesis
YP_787684.1	This CDS does not exhibit a typical prokaryotic lipoprotein signal peptide.; Also similar to BAV0354 (36.6 38d)
YP_787686.1	Partial CDS. Similar to the C-terminal region of many methyl-accepting chemotaxis proteins.
YP_787687.1	Truncated at N-terminus relative its orthologue in B. bronchiseptica.
YP_787688.1	converts 3-hydroxyadipyl-CoA to beta-ketoadipyl-CoA in phenylacetate degradation
YP_787694.1	Catalyzes the reversible hydration of unsaturated fatty acyl-CoA to beta-hydroxyacyl-CoA
YP_787696.1	. Seems to be unique to the bordetellae.
YP_787706.1	catalyzes the formation of coproporphyrinogen from uroporphyrinogen III
YP_787707.1	. Seems to be unique to the bordetellae.
YP_787708.1	part of catalytic core of ATP synthase; alpha(3)beta(3)gamma(1)delta(1)epsilon(1); involved in producing ATP from ADP in the presence of the proton motive force across the membrane
YP_787709.1	Produces ATP from ADP in the presence of a proton gradient across the membrane. The beta chain is a regulatory subunit
YP_787710.1	Produces ATP from ADP in the presence of a proton gradient across the membrane. The gamma chain is a regulatory subunit
YP_787711.1	produces ATP from ADP in the presence of a proton gradient across the membrane; the alpha chain is a catalytic subunit
YP_787712.1	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_787713.1	Produces ATP from ADP in the presence of a proton gradient across the membrane. Subunit B is part of the membrane proton channel.
YP_787714.1	Produces ATP from ADP in the presence of a proton gradient across the membrane. Subunit C is part of the membrane proton channel F0
YP_787715.1	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_787717.1	Catalyzes the reversible hydration of unsaturated fatty acyl-CoA to beta-hydroxyacyl-CoA
YP_787721.1	TtcA; YdaO; catalyzes the thiolation of cytosine 32 in specific tRNAs
YP_787725.1	Also similar to BAV2773 (29.3 38d)
YP_787727.1	protein associated with Co2+ and Mg2+ efflux
YP_787730.1	with component II, the glutamine amidotransferase, catalyzes the formation of anthranilate from chorismate and glutamine
YP_787733.1	in Escherichia coli this gene is induced by carbon starvation and depends on sigma S and cAMP-CRP; the structure of the Gab protein shows it is a member of non-heme iron (II)-dependent oxygenase superfamily which includes clavamini acid synthases; forms homotetramers in solution
YP_787736.1	catalyzes the formation of 3-methyl-2-oxobutanoate from 2,3,-dihydroxy-3-methylbutanoate
YP_787737.1	Partial CDS. Similar to the C-terminal region of many transporters.
YP_787740.1	; Also similar to BAV2768 (27.7 38d). Seems to be more similar to eukaryotic plasma membrane ATPase.
YP_787749.1	Also similar to BAV0956 (29.2 38d)
YP_787753.1	Similarity to kstd2 is limited to the C-terminus
YP_787759.1	catalyzes the oxidation of tricarballylate to cis-aconitate; FAD-dependent; required for the utilization of tricarballylate as a carbon and energy source by S. enterica
YP_787760.1	Also similar to BAV1364 (81.9)
YP_787761.1	Also similar to BAV1365 (75.4)
YP_787765.1	Catalyzes the first step in hexosamine metabolism, converting fructose-6P into glucosamine-6P using glutamine as a nitrogen source
YP_787775.1	converts protoheme IX and farnesyl diphosphate to heme O
YP_787780.1	binds with the catalytic core of RNA polymerase to produce the holoenzyme; this sigma factor is responsible for the expression of heat shock promoters
YP_787784.1	deleted EC_number 1.2.1.1
YP_787787.1	glutamate synthase is composed of subunits alpha and beta; beta subunit is a flavin adenine dinucleotide-NADPH dependent oxidoreductase; provides electrons to the alpha subunit, which binds L-glutamine and 2-oxoglutarate and forms L-glutamate
YP_787792.1	Also similar to BAV3097 (36.8 38d)
YP_787793.1	Also similar to BAV3096 (28.6 38d).
YP_787794.1	an AccC homodimer forms the biotin carboxylase subunit of the acetyl CoA carboxylase, an enzyme that catalyzes the formation of malonyl-CoA, which in turn controls the rate of fatty acid metabolism
YP_787795.1	Similarity to orthologues limited to C-terminal 73 aa
YP_787796.1	Similar to the N-terminal 120 aa of Emericella nidulans lactam utilization protein LamB SWALL:LAMB_EMENI (SWALL:P38096) (262 aa).
YP_787806.1	Also similar to BAV1074 (37.6 38d).
YP_787807.1	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_787808.1	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_787809.1	catalyzes the oxidation of L-histidinol to L-histidinaldehyde and then to L-histidine in histidine biosynthesis; functions as a dimer
YP_787810.1	catalyzes the formation of L-histidinol phosphate from imidazole-acetol phosphate and glutamate in histidine biosynthesis
YP_787811.1	catalyzes the dehydration of D-erythro-1-(imidazol-4-yl)glycerol 3-phosphate to 3-(imidazol-4-yl)-2-oxopropyl phosphate in histidine biosynthesis
YP_787812.1	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_787813.1	catalyzes the formation of 5-(5-phospho-1-deoxyribulos-1-ylamino)methylideneamino-l- (5-phosphoribosyl)imidazole-4-carboxamide from 1-(5-phosphoribosyl)-5-[(5- phosphoribosylamino)methylideneamino] imidazole-4-carboxamide
YP_787814.1	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_787815.1	PR-AMP cyclohydrolase; functions in histidine biosynthesis from PRPP; converts 1-(5-phosphoribosyl)-AMP to 1-(5-phosphoribosyl)-5-[(5- phosphoribosylamino)methylideneamino]imidazole-4- carboxyamide during the histidine biosynthesis pathway; binds zinc and magnesium; forms homodimers
YP_787816.1	catalyzes the formation of 1-(5-phosphoribosyl)-AMP from 1-(5-phosphoribolsyl)-ATP in histidine biosynthesis
YP_787818.1	TatA; similar to TatE that is found in some proteobacteria; part of system that translocates proteins with a conserved twin arginine motif across the inner membrane; capable of translocating folded substrates typically those with bound cofactors; similar to a protein import system in thylakoid membranes
YP_787823.1	homopentamer; channel that opens in response to pressure or hypoosmotic shock
YP_787840.1	stimulates the release of release factors 1 and 2 from the ribosome after hydrolysis of the ester bond in peptidyl-tRNA has occurred; GDP/GTP-binding protein
YP_787841.1	. Seems to be unique to the bordetellae.
YP_787845.1	. Seems to be unique to the bordetellae.
YP_787846.1	Also similar to BAV1174 (55.3 38d.).
YP_787854.1	. Seems to be unique to the bordetellae.
YP_787856.1	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_787860.1	Previously sequenced as Bordetella avium cystathionine beta-lyase metC SWALL:METC_BORAV (SWALL:Q07703) (395 aa).
YP_787869.1	DapATase; functions in arginine biosynthetic pathway; catalyzes the formation of N-acetyl-L-glutamate 5-semialdehyde from 2-oxoglutarate and N(2)-acetyl-L-ornithine
YP_787873.1	Also similar to BAV2977 (34.9 38d)
YP_787875.1	decatenates replicating daughter chromosomes
YP_787879.1	Involved in the nonphosphorylative, ketogenic oxidation of glucose and oxidizes gluconate to 5-ketogluconate
YP_787880.1	Catalyzes the first of the two reduction steps in the elongation cycle of fatty acid synthesis
YP_787881.1	Also similar to BAV2673 (46.528 38d)
YP_787885.1	DHBP synthase; functions during riboflavin biosynthesis
YP_787888.1	ketopantoate reductase; catalyzes the NADPH reduction of ketopantoate to pantoate; functions in pantothenate (vitamin B5) biosynthesis
YP_787893.1	Catalyzes the deamination of cytosine to uracil and ammonia
YP_787896.1	catalyzes the hydrolysis of acylphosphate
YP_787904.1	negatively supercoils closed circular double-stranded DNA
YP_787905.1	binds the polymerase to DNA and acts as a sliding clamp
YP_787906.1	binds to the dnaA-box as an ATP-bound complex at the origin of replication during the initiation of chromosomal replication; can also affect transcription of multiple genes including itself.
YP_787907.1	in Escherichia coli transcription of this gene is enhanced by polyamines
YP_787908.1	protein component of RNaseP which catalyzes the removal of the 5'-leader sequence from pre-tRNA to produce the mature 5'terminus; this enzyme also cleaves other RNA substrates
YP_787910.1	functions to insert inner membrane proteins into the IM in Escherichia coli; interacts with transmembrane segments; functions in both Sec-dependent and -independent membrane insertion; similar to Oxa1p in mitochondria
YP_787912.1	Also similar to several including BAV2859 (55.4 id.)
YP_787913.1	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_787916.1	NADP-dependent; catalyzes the oxidative decarboxylation of malate to form pyruvate; decarboxylates oxaloacetate
YP_787917.1	catalyzes the transfer of an amino moiety
YP_787918.1	Also similar to BAV1492 , BAV1494, BAV2092 and BAV2327.