-- dump date   	20140619_233903
-- class       	Genbank::CDS
-- table       	cds_note
-- id	note
YP_003038817.1	C-terminus is similar to colicin and pyocin
YP_003038902.1	Superoxide dismutases (SODs) () catalyse the conversion of superoxide radicals to molecular oxygen. Their function is to destroy the radicals that are normally produced within cells and are toxic to biological systems
YP_003038916.1	penicillin-binding protein
YP_003038938.1	phosphate transporter
YP_003038939.1	Universal stress protein B
YP_003038944.1	The universal stress protein UspA is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. UspA enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general stress endurance activity.
YP_003038954.1	similar to penicillin-binding protein
YP_003038955.1	similar to penicillin binding protein, beta lactamase precursor
YP_003038956.1	similar to penicillin binding protein, beta lactamase
YP_003038957.1	similar to penicillin binding protein, beta lactamase
YP_003038980.1	similarities with putative methyltransferase
YP_003038985.1	MFS transporters are single-polypeptide secondary carriers capable only of transporting small solutes in response to chemiosmotic ion gradients
YP_003038990.1	iron(II) transport system (feo) which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this transport system and may play a role in the transport of ferrous iron.
YP_003038991.1	iron(II) transport system (feo) which may make an important contribution to the iron supply of the cell under anaerobic conditions.
YP_003038994.1	GreB promotes transcription elongation by stimulating an endogenous, endonucleolytic transcript cleavage activity of the RNA polymerase, allowing RNA transcription to continue past template-encoded arresting sites.
YP_003038998.1	MFS transporters are single-polypeptide secondary carriers capable only of transporting small solutes in response to chemiosmotic ion gradients
YP_003039021.1	carbon starvation protein CstA is a predicted membrane protein. It has been suggested that CstA is involved in peptide utilization.
YP_003039022.1	deleted EC_number 3.3.2.3
YP_003039038.1	Periplasmic chaperones assist pili assembly by binding to the subunits, thereby preventing premature aggregation
YP_003039042.1	Periplasmic chaperones assist pili assembly by binding to the subunits, thereby preventing premature aggregation; similar to pilli chaperone
YP_003039043.1	Periplasmic chaperones assist pili assembly by binding to the subunits, thereby preventing premature aggregation
YP_003039114.1	This entry represents a conserved region within several bacterial proteins that resemble ImcF, which has been proposed to be involved in cell surface reorganisation, resulting in increased adherence to epithelial cells and increased conjugation frequency.
YP_003039136.1	This entry consists of bacterial antibiotic resistance proteins, which confer resistance to various aminoglycosides they include:- aminoglycoside 3'-phosphotransferase or kanamycin kinase / neomycin-kanamycin phosphotransferase and streptomycin 3''-kinase or streptomycin 3''-phosphotransferase. The aminoglycoside phosphotransferases inactivate aminoglycoside antibiotics via phosphorylation; similar to unknown protein yihe of escherichia coli
YP_003039168.1	chaperone
YP_003039218.1	similar to multidrug resistance proteins
YP_003039240.1	similar to unknown protein yjag of escherichia coli
YP_003039263.1	similarities with isobutylamine n-hydroxylase and putative oxidoreductase
YP_003039271.1	probable transcriptional regulator protein
YP_003039277.1	had-superfamily hydrolase subfamily ia, variant 1 and 3
YP_003039280.1	upf0271 protein plu4304
YP_003039282.1	similar to hemolysin secretion/activation protein
YP_003039290.1	putative pyocin r2_pp, tail length determination protein; otthump00000017444 (fragment)
YP_003039291.1	similar to antibiotic synthetases - bacitracin synthetase 1 (ba1) [includes: atp-dependent isoleucin adenylase (ilea) (isoleucine activase); atp-dependent cystein adenylase (cysa) (cysteine activase); atp-dependent leucine adenylas (leua) (leucine activase); atp-dependent glutamate adenylase (glua (glutamate activase); atp-dependent isoleucine adenylase (ilea (isoleucine activase); glutamate racemase
YP_003039292.1	nvolved in the biosynthesis of a polyketide antibiotic; polyketide antibiotic synthase enzyme systems
YP_003039293.1	similar to antibiotic synthetase - gramicidin s synthetase 2
YP_003039294.1	post translational modification
YP_003039445.1	Secretion of virulence factors in Gram-negative bacteria involves transportation of the protein across two membranes to reach the cell exterior
YP_003039489.1	D15 is a highly conserved antigen that is protective in animal models and it may be a useful component of a universal subunit vaccine against Haemophilus infection and disease
YP_003039500.1	This family represents a bacterial outer membrane lipoprotein that is necessary for signalling by the Cpx pathway. This pathway responds to cell envelope disturbances and increases the expression of periplasmic protein folding and degradation factors. While the molecular function of the NlpE protein is unknown, it may be involved in detecting bacterial adhesion to abiotic surfaces.
YP_003039522.1	cell division protein
YP_003039526.1	may be involved in the stress response
YP_003039537.1	fucose operon activator
YP_003039551.1	orf42
YP_003039553.1	orf43
YP_003039561.1	type 1 fimbriae regulatory protein
YP_003039562.1	fimbriae major subunit precursor
YP_003039563.1	fimbrial regulatory protein
YP_003039564.1	outer membrane fimbrial usher protein
YP_003039565.1	fimbrial chaperone
YP_003039567.1	fimbriae subunit
YP_003039568.1	fimbrial-like protein
YP_003039569.1	Members of this family of bacterial proteins are involved in regulation of length and mediation of adhesion of fimbriae. Fimbriae (also called pili), are polar filaments radiating from the surface of the bacterium to a length of 0.5-1.5 micrometers, that enable bacteria to colonize the epithelium of specific host organs. Fimbriae are also responsible to promote virulence
YP_003039574.1	similar to phosphoglycolate phosphatase
YP_003039582.1	filamentation induced by camp protein fic
YP_003039583.1	similar to putative lipoprotein
YP_003039584.1	similar to putative lipoprotein
YP_003039585.1	similar to putative lipoprotein
YP_003039586.1	Characterised members of the Multi Antimicrobial Extrusion (MATE) family function as drug/sodium antiporters. These proteins mediate resistance to a wide range of cationic dyes, fluroquinolones, aminoglycosides and other structurally diverse antibodies and drugs.
YP_003039587.1	similarities with molybdopterin and thiamine biosynthesis protein
YP_003039592.1	probable 60s ribosomal protein c1687.06c
YP_003039596.1	similarities with lysine-tRNA ligase LysS
YP_003039597.1	similarities with lysine-trna ligase lyss
YP_003039598.1	The MFS transporters are single-polypeptide secondary carriers capable only of transporting small solutes in response to chemiosmotic ion gradients.
YP_003039605.1	conserved hypothetical protein
YP_003039608.1	Beta-lactamases are enzymes which catalyse the hydrolysis of an amide bond in the beta-lactam ring of antibiotics belonging to the penicillin/cephalosporin family.
YP_003039621.1	putative membrane protein
YP_003039622.1	similar to putative membrane protein
YP_003039623.1	similar to putative membrane protein
YP_003039624.1	putative membrane protein
YP_003039625.1	similar to hcp protein
YP_003039636.1	Bacterial cells remove plasmid-free segregants by the use of toxin/antitoxin systems, where cells that lack plasmids cannot produce the antitoxin required for survival. Several of the toxin components have similar structures, which consists of an SH3-like barrel fold, and contains an inserted beta-sheet subdomain and a C-terminal helix, despite often low sequence identities. Toxins that have this structural fold include CcdB from Escherichia coli, a topoisomerase poison that interferes with DNA gyrase activity , PemK-like YdcE from Bacillus subtilis, Kid toxin (Kis antitoxin) from the E. coli R1 plasmid , and the MazF toxin (MazE antitoxin) from E. coli.
YP_003039637.1	similar to transcription regulator
YP_003039651.1	The large number of penicillin binding proteins, which are represented in this group of sequences, are responsible for the final stages of peptidoglycan biosynthesis for cell wall formation. The proteins synthesise cross-linked peptidoglycan from lipid intermediates, and contain a penicillin-sensitive transpeptidase carboxy-terminal domain.
YP_003039652.1	Pyocins are polypeptide toxins produced by, and active against, bacteria.
YP_003039653.1	similar to pyocin s3 immunity protein
YP_003039654.1	similar to pyocin s3 immunity protein
YP_003039661.1	similarities with hemolysin
YP_003039720.1	This domain is found in many multi-domain enzymes which synthesize peptide antibiotics.
YP_003039743.1	This highly divergent repeat occurs in number of proteins implicated in cell aggregation.
YP_003039752.1	polyunsaturated fatty acid synthase pfac
YP_003039765.1	Multidrug resistance proteins are molecular pumps that participate in a low energy shock adaptive response in some bacteria. They mediate cellular resistance to toxicants such as cycloheximide (CYH), 4-nitroquinoline N-oxide (4-NQO), cadmium, and hydrogen peroxide in yeast.
YP_003039807.1	phosphopantetheinyl transferase
YP_003039810.1	The PapD-like superfamily of periplasmic chaperones directs the assembly of over 30 diverse adhesive surface organelles that mediate the attachment of many different pathogenic bacteria to host tissues, a critical early step in the development of disease. PapD, the prototypical chaperone, is necessary for the assembly of P pili.
YP_003039811.1	phfs protein
YP_003039828.1	Bacterial luciferase is a flavin monooxygenase that catalyses the oxidation of long-chain aldehydes and releases energy in the form of visible light, and which uses flavin as a substrate rather than a cofactor
YP_003039831.1	lumazine protein (LumP) (gene luxL). LumP is a protein that modulates the colour of the bioluminescence emission of bacterial luciferase.
YP_003039865.1	'cold shock' proteins are thought to help the cell to survive in temperatures lower than optimum growth temperature
YP_003039898.1	The type III secretion system of Gram-negative bacteria is used to transport virulence factors from the pathogen directly into the host cell and is only triggered when the bacterium comes into close contact with the host. Effector proteins secreted by the type III system do not possess a secretion signal, and are considered unique because of this. Yersinia spp. secrete effector proteins called YopB and YopD that facilitate the spread of other translocated proteins through the type III needle and the host cell cytoplasm . Both are believed to act as pore translocases, forming apertures in the host cell membrane and allowing the bacterium easy access to its cytoplasm.
YP_003039899.1	conserved hypothetical protein
YP_003039900.1	conserved hypothetical protein
YP_003039902.1	In many Gram-negative bacteria, a key indicator of pathogenic potential is the possession of a specialised type III secretion system, which is utilised to deliver virulence effector proteins directly into the host cell cytosol. Many of the proteins secreted from such systems require small cytosolic chaperones to maintain the secreted substrates in a secretion-competent state.
YP_003039906.1	Holins act against the host cell membrane to allow lytic enzymes of the phage to reach the bacterial cell wall.
YP_003039908.1	Many bacteriophages with Gram-negative hosts contain two auxiliary lysis genes Rz and Rz1. Both of these genes are required for host cell lysis if the outer membrane is stabilized by millimolar concentrations of divalent cations, but are otherwise uneccessary. The Rz protein is believed to posses endopeptidase activity, while Rz1 encodes a prolipoprotein which, after cleavage by a signal peptidase, is located in the outer membrane.
YP_003039913.1	responsible for potassium tellurite resistance
YP_003039928.1	This family contains a number of integral membrane proteins including the TerC protein. TerC has been implicated in resistance to tellurium, and may be involved in efflux of tellurium ions.
YP_003039944.1	The large number of penicillin binding proteins, which are represented in this group of sequences, are responsible for the final stages of peptidoglycan biosynthesis for cell wall formation.
YP_003039945.1	Peptidoglycan biosynthesis
YP_003039946.1	Peptidoglycan biosynthesis
YP_003039947.1	peptidoglycan synthesis
YP_003039949.1	FtsW is an integral membrane protein with ten transmembrane segments [1]. In general, it is one of two paralogs involved in peptidoglycan biosynthesis, the other being RodA, and is essential for cell division
YP_003039950.1	Peptidoglycan biosynthesis
YP_003039951.1	Peptidoglycan biosynthesis
YP_003039982.1	similarities with probable acetyltransferase gnat family
YP_003039983.1	similar to putative heme-binding protein of yersinia pestis
YP_003039990.1	similar to putative ligase ygfa of escherichia coli
YP_003039995.1	probable monooxygenase
YP_003039999.1	hemolysin activation/secretion protein
YP_003040000.1	hemagglutinin/hemolysin-related protein
YP_003040002.1	similar to hemagglutinin/hemolysin-related protein
YP_003040035.1	similar to uncharacterized low-complexity pentapeptide repeat precursor
YP_003040036.1	antibiotic synthase modules and related proteins
YP_003040049.1	chaperone folding
YP_003040052.1	similar to pyocin s3 immunity protein and to photorhabdus luminescen proteins
YP_003040053.1	putative colicin
YP_003040054.1	Pyocins are polypeptide toxins produced by, and active against, bacteria. S-type pyocins cause cell death by DNA breakdown due to endonuclease activity.
YP_003040055.1	This family includes bacterial colicin and pyocin immunity proteins , . These immunity proteins can bind specifically to the DNase-type colicins and pyocins and inhibit their bactericidal activity.
YP_003040056.1	Bacteriocins are protein antibiotics that kill bacteria closely related to the producing species. Colicins are a subgroup of bacteriocins that are produced by and target . The lethal action of most colicins is exerted either by formation of a pore in the cytoplasmic membrane of the target cell, or by an enzymatic nuclease digestion mechanism. Most colicins are able to translocate the outer membrane by a two-receptor system, where one receptor is used for the initial binding and the second for translocation. The initial binding is to cell surface receptors such as the porins OmpF, FepA, BtuB, Cir and FhuA; colicins have been classified according which receptors they bind to. The presence of specific periplasmic proteins, such as TolA, TolB, TolC, or TonB, are required for translocation across the membrane
YP_003040057.1	This family includes bacterial colicin and pyocin immunity proteins , . These immunity proteins can bind specifically to the DNase-type colicins and pyocins and inhibit their bactericidal activity.
YP_003040058.1	similar to pyocin s3 immunity protein and to photorhabdus luminescen proteins
YP_003040059.1	similar to pyocin S3 immunity protein
YP_003040070.1	transcriptional activators which activates catabolism of propionate.
YP_003040078.1	putative outer membrane copper receptor protein
YP_003040080.1	multidrug resistance protein
YP_003040081.1	similar to transferrin-binding protein tfba homolog
YP_003040083.1	This entry represents the TonB-dependent outer membrane haem/haemoglobin receptor/transporter found in bacteria which live in contact with animals (which contain haemoglobin or other haem-bearing globins) or legumes (which contain leghaemoglobin).
YP_003040085.1	similar to hypothetical acetyltransferase yjab of escherichia coli
YP_003040090.1	similarities with fimbrial protein
YP_003040092.1	similar to putative acetyl transferase
YP_003040094.1	cell filamentation protein
YP_003040101.1	transcriptional regulator
YP_003040102.1	transcriptional regulator
YP_003040131.1	hemolysin protein
YP_003040169.1	similar to phenazine antibiotic biosynthesis protein
YP_003040170.1	similar to phenazine antibiotic biosynthesis protein
YP_003040180.1	RTX secretion protein
YP_003040181.1	RTX transport protein
YP_003040207.1	similarities with rhodanese-like protein sseb of escherichia coli
YP_003040218.1	penicillin-binding protein
YP_003040251.1	membrane proteins of uncertain function that are involved in toluene catabolism
YP_003040299.1	similar to unknown protein yfcd of escherichia coli
YP_003040308.1	similar to hypothetical sugar kinase ydev of escherichia coli
YP_003040310.1	A number of the members of this family have been designated adhesins, filamentous haemagglutinins, heme/hemopexin-binding protein, etc.
YP_003040313.1	putative hemolysin
YP_003040315.1	Putative adhesin/hemagglutinin
YP_003040320.1	similar to putative adhesin from Y.pestis
YP_003040323.1	similar to hemolysin secretion/activation protein
YP_003040326.1	Haemolysin and related toxins are secreted across both the cytoplasmic and outer membranes of Gram-negative bacteria in a process which proceeds without a periplasmic intermediate.
YP_003040328.1	similar to proteins involved in antibiotic biosynthesis
YP_003040330.1	hemolysin/hemagglutinin-like protein HecA precursor
YP_003040331.1	hemagglutinin-like protein
YP_003040333.1	putative hemolysin activator/exporter
YP_003040340.1	similar to unknown protein of photorhabdus
YP_003040341.1	similar to unknown protein of photorhabdus
YP_003040342.1	similar to unknown protein of photorhabdus
YP_003040396.1	RcsB is a member of the two-component regulatory system rcsB/rcsC, which regulates the expression of genes involved in colanic acid capsule synthesis.
YP_003040457.1	Virulence protein Hcp1 from Pseudomonas aeruginosa. Hcp1 appears to be part of a protein secretion apparatus that is required for virulence.
YP_003040477.1	Surface-exposed bacterial proteins, similar to YadA, an adhesin from Yersinia
YP_003040505.1	Multidrug resistance proteins are molecular pumps that participate in a low energy shock adaptive response in some bacteria.
YP_003040601.1	Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk. These pathways have been adapted to respond to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals and antibiotics
YP_003040602.1	The Escherichia coli acrA and acrB genes encode a multi-drug efflux system that is believed to protect the bacterium against hydrophobic inhibitors. E. coli AcrB is a transporter that is energized by proton-motive force and that shows the widest substrate specificity among all known multidrug pumps, ranging from most of the currently used antibiotics, disinfectants, dyes, and detergents to simple solvents.
YP_003040603.1	The Escherichia coli acrA and acrB genes encode a multi-drug efflux system that is believed to protect the bacterium against hydrophobic inhibitors. E. coli AcrB is a transporter that is energized by proton-motive force and that shows the widest substrate specificity among all known multidrug pumps, ranging from most of the currently used antibiotics, disinfectants, dyes, and detergents to simple solvents.
YP_003040604.1	The Escherichia coli acrA and acrB genes encode a multi-drug efflux system that is believed to protect the bacterium against hydrophobic inhibitors. E. coli AcrB is a transporter that is energized by proton-motive force and that shows the widest substrate specificity among all known multidrug pumps, ranging from most of the currently used antibiotics, disinfectants, dyes, and detergents to simple solvents.
YP_003040711.1	unknown EC_number=2.6.1.n1
YP_003040712.1	unknown EC_number=2.7.8.n1
YP_003040713.1	unknown EC_number=1.1.1.n1
YP_003040784.1	The psp operon is induced by a number of stress conditions, including heat shock, ethanol and filamentous phage infection.
YP_003040785.1	pspA appears to maintain the proton motive force under stress conditions that include over expression of certain phage secretins, heat shock, ethanol and protein export defects.
YP_003040801.1	Members of this family which have been characterised, belong to the small multidrug resistance (Smr) protein family and are integral membrane proteins. They confer resistance to a wide range of toxic compounds by removing them for the cells.
YP_003040905.1	lectin
YP_003040925.1	cytotoxic necrotizing factor proteins alter host cell actin cytoskeleton and promote bacterial invasion of the blood-brain barrier endothelial cells. CNF1 belongs to a unique group of large cytotoxins that cause constitutive activation of Rho guanosine triphosphatases (GTPases), which are key regulators of the actin cytoskeleton
YP_003041006.1	Entomopoxviruses are a class of insect viruses whose virions are embedded in cytoplasmic occlusion bodies. The major component of these protective complexes is a protein called spheroidin/spindolin. Intermolecular disulphide bonds have been shown to play major roles in the formation and structure of these viral occlusion bodies some of which are spindle body proteins.
YP_003041054.1	similar to syringomycin synthetase
YP_003041057.1	syringopeptin synthetase
YP_003041080.1	putative conserved hypothetical phage tail region protein
YP_003041100.1	members of this family are similar to the galactophilic lectin-1 expressed by P. aeruginosa ((PA-IL, ). Lectins recognising specific carbohydrates found on the surface of host cells are known to be involved in the initiation of infections by this organism.
YP_003041124.1	filamentous haemagglutinin/hemolysin family of adhesins
YP_003041128.1	plasmid stability-like protein
YP_003041129.1	Prevent host death - Addiction modules prevent plasmid curing by killing the host cell as the longer-lived killing protein persists while the gene for the shorter-lived antidote is lost.
YP_003041130.1	Beta-lactamase catalyses the opening and hydrolysis of the beta-lactam ring of beta-lactam antibiotics such as penicillins and cephalosporins
YP_003041132.1	It has been suggested that the internally repeated domain of haemolysin may be involved in Ca-mediated binding to erythrocytes.
YP_003041138.1	similar to hmwp2 protein of yersinia enterocolitica
YP_003041143.1	similar to oxalate decarboxylase
YP_003041160.1	toxin secretion
YP_003041204.1	similar to unknown protein ydce of escherichia coli
YP_003041208.1	similar to E.coli protein ydaa (putative universal stress protein)
YP_003041236.1	similar to acyl carrier protein
YP_003041237.1	similar to 3-oxoacyl-[acyl-carrier-protein] synthase
YP_003041242.1	involved in regulation of length and mediation of adhesion of fimbriae
YP_003041243.1	Periplasmic chaperones assist pili assembly by binding to the subunits, thereby preventing premature aggregation
YP_003041245.1	involved in regulation of length and mediation of adhesion of fimbriae
YP_003041265.1	involved in cell division
YP_003041266.1	involved in cell division
YP_003041267.1	involved in cell division
YP_003041276.1	similarities with hemolysin
YP_003041277.1	multidrug resistance protein
YP_003041278.1	multidrug resistance protein
YP_003041282.1	similarities with vgrg and vgre proteins
YP_003041285.1	ferritin related protein
YP_003041288.1	ferritin related protein
YP_003041292.1	Thioesterase domains often occur integrated in or associated with peptide synthetases which are involved in the non-ribosomal synthesis of peptide antibiotics; thioesterase ii
YP_003041320.1	This repeat composes the C-terminal part of the bacteriophage T4 baseplate protein Gp5. This region of the protein forms a needle like projection from the baseplate that is presumed to puncture the bacterial cell membrane.
YP_003041337.1	The sequencing of a number of pathogenic bacterial genomes has led to novel virulence proteins being discovered that are yet to be biochemically characterised. One example is the MviN family of proteins, first described in Salmonella , and conserved across a wide variety of pathogens in both animals and plants. Further work on these proteins of as yet unknown function has revealed they are integral membrane molecules, and are part of an operon essential in at least one species.
YP_003041339.1	multidrug resistance protein - MFS transporters are single-polypeptide secondary carriers capable only of transporting small solutes in response to chemiosmotic ion gradients
YP_003041345.1	LuxE is an acyl-protein synthetase found in bioluminescent bacteria. LuxE catalyses the formation of an acyl-protein thiolester from a fatty acid and a protein. This is the second step in the bioluminescent fatty acid reduction system, which converts tetradecanoic acid to the aldehyde substrate of the luciferase-catalysed bioluminescence reaction
YP_003041346.1	bioluminescence operon
YP_003041347.1	The enzyme responsible for bioluminescence in motile Gram-negative luminous bacteria is bacterial luciferase, which catalyses the oxidation of reduced riboflavin phosphate (FMNH2) and a long chain fatty aldehyde with the emission of blue green light (490 nm).
YP_003041348.1	catalyse the first step in the bioluminescent fatty acid reductase system.
YP_003041349.1	bioluminesence
YP_003041350.1	pyocin s3 immunity protein
YP_003041351.1	Pyocins are polypeptide toxins produced by, and active against, bacteria. S-type pyocins cause cell death by DNA breakdown due to endonuclease activity.
YP_003041353.1	pyocin s3
YP_003041354.1	pyocin s3
YP_003041355.1	Pyocins are polypeptide toxins produced by, and active against, bacteria.
YP_003041366.1	Intimin is a bacterial cell-adhesion molecule that mediates the intimate bacterial host-cell interaction.
YP_003041373.1	bacterial adhesion mediation molecule intimin targets the translocated intimin receptor, Tir. Tir is secreted by the bacteria and is embedded in the target cell's plasma membrane . This facilitates bacterial cell attachment to the host.
YP_003041396.1	osmotic adaptation
YP_003041407.1	luxr family transcriptional regulator
YP_003041410.1	luxr family transcriptional regulator
YP_003041411.1	luxr family transcriptional regulator
YP_003041412.1	luxr family transcriptional regulator
YP_003041416.1	Bacteria such as harbor a plasmid that carries the gene for Aryldialkylphosphatase (). This enzyme has attracted interest because of its potential use in the detoxification of chemical waste and warfare agents and its ability to degrade agricultural pesticides such as parathion.
YP_003041417.1	similar to unknown protein yhfx of e.coli
YP_003041418.1	similar to unknown protein yhfy of escherichia coli
YP_003041432.1	similar to yersinia pestis murine toxin
YP_003041439.1	Flavodoxins are electron-transfer proteins that function in various electron transport systems. They bind one FMN molecule, which serves as a redox-active prosthetic group and are functionally interchangeable with ferredoxins.
YP_003041443.1	rna polymerase sigma factor for flagellar operon
YP_003041445.1	flagellar hook-associated protein
YP_003041446.1	flagellar protein
YP_003041449.1	flagellar hook-basal body complex
YP_003041451.1	flagellar motor switch protein
YP_003041454.1	It is a membrane-associated protein that affects chemotactic events, mutations in FliJ result in failure to respond to chemotactic stimuli; flagellar protein flij
YP_003041456.1	FliL protein controls the rotational direction of the flagella during chemotaxis . FliL is a cytoplasmic membrane protein associated with the basal body.
YP_003041457.1	flagellar motor switch protein
YP_003041458.1	flagellar biosynthesis, component of motor switch and energizing enabling rotation and determining its direction
YP_003041460.1	flagellar biosynthetic protein
YP_003041461.1	flagellar biosynthetic protein
YP_003041462.1	flagellar biosynthetic protein
YP_003041476.1	flagellar hook-associated protein hook-filament junction)
YP_003041478.1	The N-terminal region of this protein acts directly in flagellar rod assembly, while the C-terminal region is a flagellum-specific muramidase (peptidoglycan hydrolase) required for formation of the outer membrane L ring.
YP_003041479.1	flagellar p-ring precursor
YP_003041480.1	flagellar l-ring protein precursor
YP_003041481.1	flagellar basal-body distal rod protein)
YP_003041482.1	flagellar basal-body proximal rod
YP_003041483.1	flagellar hook protein
YP_003041484.1	basal-body rod modification protein
YP_003041485.1	flagellar basal-body rod
YP_003041486.1	flagellar basal-body rod
YP_003041487.1	flagella basal body p-ring formation
YP_003041488.1	negative regulator of flagellin synthesis
YP_003041489.1	flagellar biosynthesis protein
YP_003041501.1	flagellar biosynthetic protein
YP_003041503.1	pyocin s3 immunity protein
YP_003041504.1	pyocin s3 immunity protein
YP_003041506.1	involved in the biosynthesis of a polyketide antibiotic
YP_003041507.1	similarities with dihydrolipoamide acyltransferase an succinyltransferase
YP_003041510.1	antibiotic synthesis; syringomycin synthetase
YP_003041511.1	the region plays an important role in metal-tetracycline transport; it perhaps acts as a gate that opens on the charge-charge interaction between Asp66 and the metal-tetracycline.
YP_003041512.1	This domain is found in many multi-domain enzymes which synthesize peptide antibiotics.
YP_003041514.1	chemotaxis
YP_003041515.1	chemotaxis
YP_003041516.1	chemotaxis
YP_003041517.1	chemotaxis
YP_003041518.1	chemotaxis
YP_003041519.1	chemotaxis
YP_003041520.1	chemotaxis
YP_003041521.1	chemotaxis
YP_003041522.1	chemotaxis
YP_003041523.1	The bacterial protein motA is required for the rotation of the flagellar motor. This protein probably forms a transmembrane proton channel used to energize the flagellar rotary motor.
YP_003041525.1	This family consists of several bacterial flagellar transcriptional activator (FlhD) proteins
YP_003041529.1	'cold shock' proteins are thought to help the cell to survive in temperatures lower than optimum growth temperature
YP_003041550.1	similar to myo-inositol catabolism iolb of bacillus subtilis
YP_003041576.1	ccumulation of SulA causes rapid cessation of cell division and the appearance of long, non-septate filaments.
YP_003041587.1	similar to probable iron-sulfur protein ycbx of escherichia coli
YP_003041601.1	similar to putative exported protein ycbk of escherichia coli
YP_003041602.1	putative carboxypeptidase
YP_003041604.1	similar to putative monooxygenase
YP_003041609.1	involved in a general secretion pathway (GSP) for the export of proteins (also called the type II pathway) , have been found to be evolutionary related. These are proteins of about 400 amino acids that are highly hydrophobic and which are thought to be integral protein of the inner membrane.
YP_003041612.1	similar to pilo
YP_003041613.1	outer membrane pore proteins for type II secretion, type III secretion, and type IV pilus formation. Proteins in this entry appear to be secretins for pilus formation, although they are quite different from PilQ. Members include the PilN lipoprotein of the plasmid R64 thin pilus, a type IV pilus
YP_003041617.1	The bifunctional enzyme prepilin peptidase (PilD) from Pseudomonas aeruginosa is a key determinant in both type-IV pilus biogenesis and extracellular protein secretion, in its roles as a leader peptidase and methyl transferase (MTase). It is responsible for endopeptidic cleavage of the unique leader peptides that characterise type-IV pilin precursors, as well as proteins with homologous leader sequences that are essential components of the general secretion pathway found in a variety of Gram-negative pathogens.
YP_003041618.1	most often found at the N-terminus of pilins and other proteins involved in secretion
YP_003041640.1	similar to photopexin a/b
YP_003041642.1	similar to antitoxin yefm
YP_003041644.1	chromosome partition protein
YP_003041645.1	proteins involved in the segregation and condensation of prokaryotic chromosomes
YP_003041655.1	This family includes bacterial colicin and pyocin immunity proteins . These immunity proteins can bind specifically to the DNase-type colicins and pyocins and inhibit their bactericidal activity.
YP_003041656.1	pyocins cause breakdown of chromosomal DNA and complete inhibition of lipid synthesis in sensitive cells
YP_003041657.1	similar to pyocin s2 and s1; Similar to central portion of Escherichia coli O6:K15:H31 (strain 536/UPEC) putative colicin. UniProt:Q0TLM8 (EMBL:CP000247) (593 aa) fasta scores: E()=0.0037, 51.923 38d in 52 aa, and to central portion of Photorhabdus luminescens subsp. laumondii similar to pyocin s2 and s1. UniProt:Q7N5Q1 (EMBL:BX571865) (562 aa) fasta scores: E()=8.1e-29, 72.174 38d in 115 aa
YP_003041663.1	similar to putative acetyltransferase
YP_003041674.1	chaperone
YP_003041675.1	cell division protein
YP_003041687.1	similar to putative surface protein ybje of escherichia coli
YP_003041693.1	similar to putative sensory transduction regulator ybjn of escherichi coli
YP_003041701.1	present in the penicillin-binding protein family of beta-lactamases, which constitute the most common bacterial resistance mechanism against beta-lactam antibiotics . Beta-lactamases appear to have evolved from DD-transpeptidases, which are penicillin-binding proteins involved in cell wall biosynthesis, and as such are one of the main targets of beta-lactam antibiotics
YP_003041718.1	similarities with spermidine acetyltransferase
YP_003041728.1	putative antibiotic resistance
YP_003041743.1	similar to probable membrane protein ybif of escherichia coli
YP_003041744.1	dps is a DNA-binding protein, synthesized during prolonged starvation, that seems to protect DNA from oxidative damage.
YP_003041766.1	similar to unknown protein ybhk of escherichia coli
YP_003041774.1	similar to putative phosphatase ybha of escherichia coli
YP_003041786.1	similar to pirA
YP_003041787.1	similar to unknown protein ybgf of escherichia coli
YP_003041813.1	Chitinases of family 19 (also known as classes IA or I and IB or II) are enzymes from plants that function in the defense against fungal and insect pathogens by destroying their chitin-containing cell wall.
YP_003041839.1	Contains RHS domain and YD repeats.These repeats appear in general to be involved in binding carbohydrate
YP_003041841.1	similar to putative esterase/lipase
YP_003041844.1	Photorhabdus luminescens subsp. laumondii complete genome; segment 11/17
YP_003041845.1	glycine-proline rich protein
YP_003041850.1	similar to aliphatic amidase
YP_003041851.1	A number of the members of this family have been designated adhesins, filamentous haemagglutinins, heme/hemopexin-binding protein
YP_003041853.1	This highly divergent repeat occurs in number of proteins implicated in cell aggregation
YP_003041855.1	hemagglutinin-like secreted protein
YP_003041856.1	This highly divergent repeat occurs in number of proteins implicated in cell aggregation
YP_003041857.1	The RTX (repeats in toxin) family of cytolytic toxins belong to the Type I secretion system, and are important virulence factors in Gram-negative bacteria.
YP_003041860.1	similar to na+/h+ antiporter
YP_003041861.1	similar to galr/laci family transcriptional regulator
YP_003041862.1	similarities with luxr family transcriptional regulator
YP_003041864.1	similar to transcription regulator luxr family
YP_003041865.1	similar to probable transcription regulator
YP_003041866.1	similar to probable transcription regulator
YP_003041897.1	possible Syringopeptin synthetase (phytotoxin)
YP_003041901.1	Part of a two protein operon with prevents-host-death (phd) that forms an addiction module. DOC lacks homology to analogous addiction module post-segregational killing proteins involved in plasmid maintenance. These modules work as a combination of a long lived poison (e.g. this protein) and a more abundant but shorter lived antidote.
YP_003041902.1	similar to E.coli prevent host death protein.Part of a two protein operon with prevents-host-death (phd) that forms an addiction module. DOC lacks homology to analogous addiction module post-segregational killing proteins involved in plasmid maintenance. These modules work as a combination of a long lived poison and a more abundant but shorter lived antidote (e.g. this protein)
YP_003041903.1	The RTX (repeats in toxin) family of cytolytic toxins belong to the Type I secretion system, and are important virulence factors in Gram-negative bacteria.
YP_003041909.1	toxin secretion abc transporter protein, hlyb family; similar to unknown protein vc1446 of vibrio cholerae
YP_003041911.1	similar to unknown protein ybfe of escherichia coli
YP_003041914.1	Chitobiases degrade chitin
YP_003041921.1	transcriptional regulator
YP_003041938.1	similar to unknown bacteriophage protein
YP_003041953.1	Holins act against the host cell membrane to allow lytic enzymes of the phage to reach the bacterial cell wall.
YP_003041954.1	Antiterminator proteins control gene expression by recognising control signals near the promoter and preventing transcriptional termination which would otherwise occur at sites that may be a long way downstream
YP_003041955.1	NinG is involved in recombination
YP_003041992.1	The large number of penicillin binding proteins, which are represented in this group of sequences, are responsible for the final stages of peptidoglycan biosynthesis for cell wall formation.
YP_003041995.1	Penicillin-binding protein 5 functions as a D-alanyl-D-alanine carboxypeptidase. Its precise function is unknown; it may mediate interactions with other cell wall-synthesising enzymes, thus allowing the protein to be recruited to areas of active cell wall synthesis. It may also function as a linker domain that positions the active site in the catalytic domain closer to the peptidoglycan layer, to allow it to interact with cell wall peptides
YP_003042000.1	cold shock-like protein
YP_003042007.1	Functionally, this transport system is involved in osmoregulation. Under conditions of stress, the organism recruits this transport system to accumulate glycine betaine and other solutes which offer osmo-protection.
YP_003042008.1	Bacterial binding protein-dependent transport systems , are multicomponent systems typically composed of a periplasmic substrate-binding protein, one or two reciprocally homologous integral inner-membrane proteins and one or two peripheral membrane ATP-binding proteins that couple energy to the active transport system. The integral inner-membrane proteins translocate the substrate across the membrane.
YP_003042009.1	involved in bacterial osmoregulation
YP_003042013.1	transcriptional repressor
YP_003042014.1	emrA and emrB confer resistance to carbonylcyanide m-chlorophenylhydrazone, nalidixic acid, and a number of other toxic compounds.
YP_003042015.1	emrA and emrB confer resistance to carbonylcyanide m-chlorophenylhydrazone, nalidixic acid, and a number of other toxic compounds.
YP_003042020.1	The proteins are thought to protect cells from stress by controlling the aggregation and denaturation of vital cellular structures.
YP_003042167.1	Similarities with C-terminal region of insecticial toxin
YP_003042340.1	The Fic (filamentation induced by cAMP) protein is involved in the synthesis of PAB or folate. It would appear that the Fic protein and cAMP are involved in a regulatory mechanism of cell division via folate metabolism and in these organisims cell division could be controlled by coordination of cAMP, Fic and Fts proteins.
YP_003042344.1	Fe transport
YP_003042345.1	Fe transport
YP_003042361.1	TolC outer membrane protein, which is required for proper expression of outer membrane protein genes
YP_003042383.1	Bacitracin resistance protein (BacA) may confer resistance to bacitracin by phosphorylation of undecaprenol
YP_003042457.1	This family contains a number of integral membrane proteins including the TerC protein. TerC has been implicated in resistance to tellurium, and may be involved in efflux of tellurium ions.
YP_003042471.1	similar to unknown protein yrap of escherichia coli
YP_003042480.1	SspB is encoded in an operon whose synthesis is stimulated by carbon, amino acid, and phosphate starvation.
YP_003042481.1	stringent starvation protein regulator
YP_003042522.1	PmbA facilitates the secretion of microcin B17 (MccB17) the by completing its maturation . Microcin B17 (MccB17) is a peptide antibiotic produced by E. coli strains harbouring plasmid pMccB17.
YP_003042526.1	This group of peptidases belong to MEROPS peptidase family U62 (clan U-). The type example is microcin-processing peptidase 1 from Escherichia coli, which is the product of the gene PmbA. It has been suggests that the pmbA gene product acts to inhibit the interaction between the letD protein and the A subunit of DNA gyrase. The letA (ccdA) and letD (ccdB) genes of the F plasmid, located just outside the sequence essential for F-plasmid replication, contribute to stable maintenance of the plasmid in E. coli cells. The letD gene product acts to inhibit partitioning of chromosomal DNA and cell division by inhibiting DNA gyrase activity, whereas the letA gene product acts to reverse the inhibitory activity of the letD gene product.
YP_003042530.1	Maf is a putative inhibitor of septum formation in eukaryotes, bacteria, and archaea.
YP_003042533.1	the gene products localise close to the cell surface, forming filamentous helical structures. Many homologues have been found in diverse bacterial groups, suggesting a common ancestor . The crystal structure of MreB from Thermotoga maritima has been resolved using X-ray crystallography . It consists of 19 beta-strands and 15 alpha- helices, and shows remarkable structural similarity to eukaryotic actin. MreB crystals also contain proto-filaments, with individual proteins assembling into polymers like F-actin, in the same orientation. It is hypothesised therefore, that MreB was the forerunner of actin in early eukaryotes.
YP_003042545.1	The MFS transporters are single-polypeptide secondary carriers capable only of transporting small solutes in response to chemiosmotic ion gradients
YP_003042547.1	This family contains insecticidal toxins produced by Bacillus species of bacteria. During spore formation the bacteria produce crystals of this protein. When an insect ingests these proteins they are activated by proteolytic cleavage. The N-terminus is cleaved in all of the proteins and a C-terminal extension is cleaved in some members. Once activated the endotoxin binds to the gut epithelium and causes cell lysis by the formation of cation-selective channels, which leads to death. The activated toxin is composed of three distinct domains: an N-terminal helical bundle domain involved in membrane insertion and pore formation; a beta-sheet domain involved in receptor binding; and a C-terminal beta-sandwich domain that interacts with the N-terminal domain to form a channel , . This entry represents the conserved N-terminal domain.
YP_003042562.1	putative multidrug-efflux transporter
YP_003042582.1	Members of this family which have been characterized, belong to the small multidrug resistance (Smr) protein family and are integral membrane proteins. They confer resistance to a wide range of toxic compounds by removing them for the cells. The efflux is coupled to an influx of protons.
YP_003042609.1	similar to toxic ion resistance protein
YP_003042612.1	putative invasin
YP_003042616.1	Most of the bacterial outer membrane proteins in this group are porin-like integral membrane proteins
YP_003042622.1	putative fha-family protein
YP_003042673.1	putative peptidase
YP_003042674.1	This family contains integral membrane proteins that are related to Drosophila rhomboid protein . Members of this family are found in archaea, bacteria and eukaryotes. Analysis suggests that Rhomboid-1 is a novel intramembrane serine protease that directly cleaves the membrane-anchored TGF-alpha-like growth factor Spitz, allowing it to activate the Drosophila EGF receptor
YP_003042675.1	Photopexin AB
YP_003042688.1	In Gram-negative bacteria the biogenesis of fimbriae (or pili
YP_003042689.1	fimbrial protein
YP_003042690.1	found in flagellar protein J (), which has been shown to hydrolyse peptidoglycan
YP_003042730.1	similar to pyocin s3 immunity protein
YP_003042731.1	This family includes bacterial colicin and pyocin immunity proteins. These immunity proteins can bind specifically to the DNase-type colicins and pyocins and inhibit their bactericidal activity.
YP_003042732.1	Bacteriocins are protein antibiotics that kill bacteria closely related to the producing species. Colicins are a subgroup of bacteriocins that are produced by and target Escherichia coli. The lethal action of most colicins is exerted either by formation of a pore in the cytoplasmic membrane of the target cell, or by an enzymatic nuclease digestion mechanism.
YP_003042733.1	Pyocins are polypeptide toxins produced by, and active against, bacteria. S-type pyocins cause cell death by DNA breakdown due to endonuclease activity
YP_003042751.1	similar to lactate oxidase
YP_003042775.1	similar to adenine-specific methylase yhdj
YP_003042811.1	Beta-lactamase catalyses the opening and hydrolysis of the beta-lactam ring of beta-lactam antibiotics such as penicillins and cephalosporins
YP_003042819.1	similar to extracellular solute-binding protein-amino acid abc transporter
YP_003042869.1	penicillin-binding protein
YP_003042936.1	antitoxin of the YoeB-YefM toxin-antitoxin system
YP_003042942.1	Drug resistance/sensitivity to chloramphenicol
YP_003042988.1	emrA confers resistance to carbonylcyanide m-chlorophenylhydrazone, nalidixic acid, and a number of other toxic compounds.
YP_003042989.1	emrB confers resistance to carbonylcyanide m-chlorophenylhydrazone, nalidixic acid, and a number of other toxic compounds.
YP_003043047.1	BFR and ferritin are a family of iron-storage proteins found in both eukaryotes and bacteria . Common to both ferritins and BFRs is a capacity to store large quantities of iron within their hollow interior, in the form of a hydrated ferric oxide mineral containing variable amounts of phosphate anion.
YP_003043048.1	iron storage regulator
YP_003043069.1	tcda2
YP_003043073.1	met regulon regulatory protein
YP_003043076.1	transcriptional repressor
YP_003043082.1	similar to unknown protein yiiu of escherichia coli
YP_003043086.1	Multidrug resistance proteins are molecular pumps that participate in a low energy shock adaptive response in some bacteria. They mediate cellular resistance to toxicants
YP_003043096.1	yacb-transcriptional repressor
YP_003043097.1	Plasmids may be maintained stably in bacterial populations through the action of addiction modules, in which a toxin and antidote are encoded in a cassette on the plasmid. In any daughter cell that lacks the plasmid, the toxin persists and is lethal after the antidote protein is depleted. Toxin/antitoxin pairs are also found on main chromosomes, and likely represent selfish DNA. Sequences in the seed for this alignment all were found adjacent to toxin genes. Several toxin/antitoxin pairs may occur in a single species. RelE and RelB form a toxin-antitoxin system; RelE represses translation, probably through binding ribosomes , . RelB stably binds RelE, presumably deactivating it.
YP_003043143.1	polysaccharide biosynthesis protein
YP_003043209.1	MFS transporters are single-polypeptide secondary carriers capable only of transporting small solutes in response to chemiosmotic ion gradients