| Jul 16, 2006 |
PA5485
|
Pseudomonas aeruginosa
PAO1 |
New gene name: ampDh2. New product name: AmpDh2 (changed from conserved hypothetical protein). New product name rating: Class 1. New PseudoCAP function class: Antibiotic resistance and susceptibility. Removed PseudoCAP function class: Hypothetical, unclassified, unknown. New homology: 27% identical to AmpD [Pseudomonas aeruginosa]. New evidence reference (PubMed ID): 16641450.
|
Literature review. Approved by reference author Antonio Oliver, Servicio de Microbiologia, Palma de Mallorca, Spain
|
| Jul 16, 2006 |
PA0807
|
Pseudomonas aeruginosa
PAO1 |
New gene name: ampDh3. New product name: AmpDh3 (changed from conserved hypothetical protein). New product name rating: Class 1. New PseudoCAP function class: Antibiotic resistance and susceptibility. Removed PseudoCAP function class: Hypothetical, unclassified, unknown. New homology: 25% identical to AmpD [Pseudomonas aeruginosa]. New evidence reference (PubMed ID): 16641450.
|
Literature review. Approved by reference author Antonio Oliver, Servicio de Microbiologia, Palma de Mallorca, Spain
|
| Jul 16, 2006 |
PA1024
|
Pseudomonas aeruginosa
PAO1 |
New product name: 2-Nitropropane Dioxygenase (changed from hypothetical protein). New product name rating: Class 1. New pathway: Nitrogen metabolism. New E.C. number: 1.13.11.32. New homology: 23% sequence identity to 2-nitropropane dioxygenase [Neurospora crassa]. New evidence reference (PubMed ID): 16682407.
|
Literature review. Approved by reference author Se Won Suh, Seoul National University, Seoul, Korea.
|
| Jul 16, 2006 |
PA2570
|
Pseudomonas aeruginosa
PAO1 |
New gene name: lecA (changed from pa1L) . New product name: LecA (changed from PA-I galactophilic lectin). New alternate gene name: pa1L. New alternate product name: PA-I galactophilic lectin. New PseudoCAP function class: Cell wall / LPS / capsule. New evidence reference (PubMed ID): 16689730.
|
Literature review. Approved by reference author Steve Diggle, University of Nottingham, Nottingham, UK
|
| Jul 16, 2006 |
PA4501
|
Pseudomonas aeruginosa
PAO1 |
New gene name: opdP (previously blank). Removed alternate gene name of opdP. New product name: Glycine-glutamate dipeptide porin OpdP (previously named probable porin). New product name rating: Class 1 (previous product name rating was Class 3). New subcellular localization confidence: Class 1 (previous localization confidence was Class 2). New evidence reference for subcellular localization (PMID): 16790014 New evidence reference(PMID): 16352820. New PseudoCAP function class:Membrane proteins.
|
Literature review. Approved by reference authors Sandeep Tamber and Bob Hancock, University of British Columbia
|
| Jul 16, 2006 |
PA0755
|
Pseudomonas aeruginosa
PAO1 |
New gene name: opdH (previously blank). Removed alternate gene name of opdH. New product name: cis-aconitate porin OpdH (previously named probable porin). New product name rating: Class 1 (previous product name rating was Class 3). New subcellular localization confidence: Class 1 (previous localization confidence was Class 2). New evidence reference(PMID): 16352820.
|
Sandeep Tamber and Bob Hancock, University of British Columbia
|
| Jul 16, 2006 |
PA2700
|
Pseudomonas aeruginosa
PAO1 |
New gene name: opdB (previously blank). Removed alternate gene name of opdB. New product name: OpdB proline porin (previously named probable porin). New product name rating: Class 1 (previous product name rating was Class 3). New evidence reference(PMID): 16352820.
|
Sandeep Tamber and Bob Hancock, University of British Columbia
|
| Jul 16, 2006 |
PA0162
|
Pseudomonas aeruginosa
PAO1 |
New gene name: opdC (previously blank). Removed alternate gene name of opdC. New product name: histidine porin OpdC (previously named probable porin). New product name rating: Class 1 (previous product name rating was Class 3). New evidence reference(PMID): 16352820.
|
Sandeep Tamber and Bob Hancock, University of British Columbia
|
| Jul 16, 2006 |
PA2113
|
Pseudomonas aeruginosa
PAO1 |
New gene name: opdO (previously blank). Removed alternate gene name of opdO. New product name: pyroglutatmate porin OpdO (previously named probable porin). New product name rating: Class 1 (previous product name rating was Class 3). New PseudoCAP function class: Membrane proteins. New evidence reference(PMID): 16352820.
|
Sandeep Tamber and Bob Hancock, University of British Columbia
|
| Jul 16, 2006 |
PA4898
|
Pseudomonas aeruginosa
PAO1 |
New gene name: opdK (previously blank). Removed alternate gene name of opdK. New product name: vanillate porin OpdK (previously named probable porin). New product name rating: Class 1 (previous product name rating was Class 3). New evidence reference(PMID): 16352820.
|
Sandeep Tamber and Bob Hancock, University of British Columbia
|
| Jul 16, 2006 |
PA2505
|
Pseudomonas aeruginosa
PAO1 |
New gene name: opdT (previously blank). New product name: tyrosine porin OpdT (previously named probable porin). New product name rating: Class 1 (previous product name rating was Class 3). New PseudoCAP function class: Membrane proteins. New evidence reference(PMID): 16352820.
|
Sandeep Tamber and Bob Hancock, University of British Columbia
|
| Jul 16, 2006 |
PA4897
|
Pseudomonas aeruginosa
PAO1 |
New comment: transcription induced by vanillate. New evidence reference(PMID): 16352820.
|
Sandeep Tamber and Bob Hancock, University of British Columbia
|
| Jul 16, 2006 |
PA4899
|
Pseudomonas aeruginosa
PAO1 |
New comment: transcription induced by vanillate. New evidence reference(PMID): 16352820.
|
Sandeep Tamber and Bob Hancock, University of British Columbia
|
| Jul 16, 2006 |
PA4900
|
Pseudomonas aeruginosa
PAO1 |
New comment: transcription induced by vanillate. New evidence reference(PMID): 16352820.
|
Sandeep Tamber and Bob Hancock, University of British Columbia
|
| Jul 16, 2006 |
PA4901
|
Pseudomonas aeruginosa
PAO1 |
New comment: transcription induced by vanillate. New evidence reference(PMID): 16352820.
|
Sandeep Tamber and Bob Hancock, University of British Columbia
|
| Jul 16, 2006 |
PA4902
|
Pseudomonas aeruginosa
PAO1 |
New comment: transcription induced by vanillate. New evidence reference(PMID): 16352820.
|
Sandeep Tamber and Bob Hancock, University of British Columbia
|
| Jul 16, 2006 |
PA4903
|
Pseudomonas aeruginosa
PAO1 |
New comment: transcription induced by vanillate. New evidence reference(PMID): 16352820.
|
Sandeep Tamber and Bob Hancock, University of British Columbia
|
| Jul 16, 2006 |
PA5497
|
Pseudomonas aeruginosa
PAO1 |
New gene name: nrdJa. New product name: NrdJa (changed from hypothetical protein). New product name rating: Class 1 (originally Class 4). New PseudoCAP function class: Nucleotide biosynthesis and metabolism. Removed PseudoCAP function class: Hypothetical, unclassified, unknown. New comment: nrdJa and nrdJb are the subunits that form a functional Class II ribonucleotide reductase. New genomic context: part of the nrdJab operon. New evidence reference (PubMed ID): 15722359.
|
Literature review. Approved by reference author Britt-Marie Sjoberg , Stockholm University, Sweden
|
| Jul 16, 2006 |
PA5496
|
Pseudomonas aeruginosa
PAO1 |
New gene name: nrdJb. New product name: NrdJb (changed from hypothetical protein). New product name rating: Class 1 (originally Class 4). New PseudoCAP function class: Nucleotide biosynthesis and metabolism. Removed PseudoCAP function class: Hypothetical, unclassified, unknown. New comment: nrdJa and nrdJb are the subunits that form a functional Class II ribonucleotide reductase. New genomic context: part of the nrdJab operon. New evidence reference (PubMed ID): 15722359.
|
Literature review. Approved by reference author Britt-Marie Sjoberg , Stockholm University, Sweden
|
| Jul 16, 2006 |
PA1156
|
Pseudomonas aeruginosa
PAO1 |
New product name: NrdA, catalytic component of class Ia ribonucleotide reductase . New product name rating: Class 1 (originally Class 2). New evidence reference (PubMed ID): 16829681.
|
Britt-Marie Sjoberg, Stockholm University, Sweden
|
| Jul 16, 2006 |
PA1155
|
Pseudomonas aeruginosa
PAO1 |
New product name: NrdB, tyrosyl radical-harboring component of class Ia ribonucleotide reductase. New product name rating: Class 1 (originally Class 2). New evidence reference (PubMed ID): 16829681.
|
Britt-Marie Sjoberg, Stockholm University, Sweden
|
| Jul 16, 2006 |
PA3542
|
Pseudomonas aeruginosa
PAO1 |
New subcellular localization: Periplasmic (previous localization was cytoplasmic membrane). New subcellular localization confidence: Class 1 (previous localization confidence was Class 3 ). New evidence reference (PubMed ID): 16797016.
|
Literature review. Approved by reference author Bernd Rehm, Institute of Molecular BioSciences, New Zealand.
|
| Jul 16, 2006 |
PA1032
|
Pseudomonas aeruginosa
PAO1 |
New gene name: quiP (previously blank). New product name: QuiP (changed from "probable penicillin amidase"). New product name rating: Class 1 (originally Class 3). New PseudoCAP function class: Carbon compound catabolism. New comment: quiP encodes a protein with acyl-HSL acylase activity for long but not short acyl-HSLs. New evidence reference (PubMed ID): 16461666.
|
Literature review. Approved by reference author Jared R. Leadbetter , California Institute of Technology, USA
|
| Jul 16, 2006 |
PA0740
|
Pseudomonas aeruginosa
PAO1 |
New gene name: sdsA1 (previously blank). New product name: SDS hydrolase SdsA1 (changed from probable beta-lactamase). New product name confidence: Class 1 (previously Class 3). New evidence reference: PMID: 16684886. New subcellular localization: Extracellular (previously designated as unknown). New subcellular localization confidence: Class 1 (previously designated Class 3). New structure feature: N-terminal metallo-beta-lactamase-like domain (residues 1-379). New structure feature: alpha-helical dimerization domain (residues 380–520). New structure feature: SdsA1 is a symmetric dimer.
|
Literature review. Approved by reference author Wolf-Dieter Schubert, German Research Centre for Biotechnology (GBF), Germany
|
| Jul 16, 2006 |
PA4293
|
Pseudomonas aeruginosa
PAO1 |
New gene name: pprA (previously blank). New product name: two-component sensor PprA (previously designated "probable two-component sensor"). New product name confidence: Class 1 (Previously class 3). New PseudoCAP function class: Antibiotic resistance and susceptibility. New evidence reference: PMID: 12499175.
|
Literature review. Approved by reference author Shouguang Jin, Department of Molecular Genetics and Microbiology, University of Florida, USA
|
| Jul 16, 2006 |
PA4296
|
Pseudomonas aeruginosa
PAO1 |
New gene name: pprB (previously blank). New product name: two-component response regulator, PprB (previously "probable two-component response regulator"). New product name confidence: Class 1 (Previously class 3). New PseudoCAP function class: Antibiotic resistance and susceptibility. New evidence reference: PMID: 12499175.
|
Literature review. Approved by reference author Shouguang Jin, Department of Molecular Genetics and Microbiology, University of Florida, USA
|
| Jul 16, 2006 |
PA2808
|
Pseudomonas aeruginosa
PAO1 |
New gene name: ptrA (previously blank). New product name: New product name: repressor, PtrA (previously designated as "hypothetical protein"). New product name confidence: Class 1 (Previously class 4). New PseudoCAP function class: Transcriptional regulators. New evidence reference (PMID): 15469505. New comment: Expression of the ptrA gene is activated by CopS (PA2810) and CopR (PA2809) in response to high copper stress.
|
Shouguang Jin, Department of Molecular Genetics and Microbiology, University of Florida, USA
|
| Jul 16, 2006 |
PA2809
|
Pseudomonas aeruginosa
PAO1 |
New gene name: copR (previously blank). New product name: two-component response regulator, CopR (previously designated "probable two-component response regulator"). New product name confidence: Class 1 (Previously class 3). New PseudoCAP function class: Adaptation, Protection. New evidence reference (PMID): 15469505. New comment: Mutation leads to hypersensitivity to copper-mediated toxicity.
|
Shouguang Jin, Department of Molecular Genetics and Microbiology, University of Florida, USA
|
| Jul 16, 2006 |
PA2810
|
Pseudomonas aeruginosa
PAO1 |
New gene name: copS (previously blank). New product name: two-component sensor, CopS (previously designated "probable two-component sensor"). New product name confidence: Class 1 (Previously class 3). New PseudoCAP function class: Adaptation, Protection. New evidence reference (PMID): 15469505. New comment: Mutation leads to hypersensitivity to copper-mediated toxicity.
|
Shouguang Jin, Department of Molecular Genetics and Microbiology, University of Florida, USA
|
| Jul 16, 2006 |
PA0612
|
Pseudomonas aeruginosa
PAO1 |
New gene name: ptrB (previously blank). New product name: New product name: repressor, PtrB (previously designated as "hypothetical protein"). New product name confidence: Class 1 (Previously class 4). New PseudoCAP function class: Transcriptional regulators. New evidence reference (PMID): 16109947. New comment: Expression of ptrB is repressed by prtR (PA0611). PrtR mediated repression of ptrB is relieved by stresses such as DNA damage.
|
Shouguang Jin, Department of Molecular Genetics and Microbiology, University of Florida, USA
|
| Jul 16, 2006 |
PA4295
|
Pseudomonas aeruginosa
PAO1 |
New gene name: fppA. New product name: Flp prepilin peptidase A, FppA (previously hypothetical protein). New product name confidence: Class 1 (previously Class 4). New evidence reference (PMID): 16788194. New PseudoCAP function class: Motility and attachment. New homology: 45% similarity to OrfB [Actinobacillus actynomycetemcomitans]. New homology: 42% similarity to CpaA [Caulobacter crescentus]. New genomic context: Outside of flp-tad-rcp gene cluster (PA4297-PA4305) required for assembly of Type IVb pilin, Flp.
|
Alain Filloux, Centre National de la Recherche Scientifique, Marseille, France
|
| Jul 16, 2006 |
PA4297
|
Pseudomonas aeruginosa
PAO1 |
New gene name: tadG (previously blank). New product name: TadG (previously hypothetical protein). New product name confidence: Class 2 (previously Class 4). New evidence reference (PMID): 16788194. New evidence reference (PMID): 15837433. New PseudoCAP function class: Motility and attachment. New genomic context: Part of flp-tad-rcp gene cluster (PA4297-PA4305) required for assembly of Type IVb pilin, Flp.
|
Alain Filloux, Centre National de la Recherche Scientifique, Marseille, France
|
| Jul 16, 2006 |
PA4303
|
Pseudomonas aeruginosa
PAO1 |
New gene name: tadZ (previously blank). New product name: TadZ (previously designated hypothetical protein). New product name confidence: Class 2 (previously Class 3). New evidence reference (PMID): 16788194. New evidence reference (PMID): 15837433. New PseudoCAP function class: Motility and attachment. New genomic context: Part of flp-tad-rcp gene cluster (PA4297-PA4305) required for assembly of Type IVb pilin, Flp. New homology: 25% Identity, 38% Similarity to CpaE [Caulobacter crescentus].
|
Alain Filloux, Centre National de la Recherche Scientifique, Marseille, France
|
| Jul 16, 2006 |
PA4306
|
Pseudomonas aeruginosa
PAO1 |
New gene name: flp. New product name: Type IVb pilin, Flp (previously hypothetical protein). New product name confidence: Class 1 (previously Class 4). New subcellular localization: Fimbrial. New subcellular localization confidence: Class 1 (localization experimentally demonstrated in P. aeruginosa). New PseudoCAP function class: Motility and attachment. New evidence reference: PMID: 16788194. New genomic context: This ORF is transcribed in a reverse orientation as compared to flp-tad-rcp gene cluster (PA4297-PA4305) responsible for its assembly.
|
Alain Filloux, Centre National de la Recherche Scientifique, Marseille, France
|
| Jul 16, 2006 |
PA4959
|
Pseudomonas aeruginosa
PAO1 |
New gene name: fimX (previously blank). New product name: FimX (previously designated conserved hypothetical protein).New product name confidence: Class 1 (protein function experimentally demonstrated in P. aeruginosa). Removed alternate gene name: fimX. Removed alternate protein name: FimX. New structure feature: PF00990: GGDEF domain characteristic of diguanylate cyclases. New structure feature: PF00563: EAL domain (characteristic of phosphodiesterases). Remove structure feature: PF00563: Domain of unknown function 2. Remove structure feature: PF00990: Domain of unknown function (weak and partial). New evidence reference: PMID: 16677312. New comment: FimX exhibits phosphodiesterase, but not diguanylate cyclase, activity in vitro.
|
Literature review. Approved by reference author Barbara Kazmierczak, Yale University, USA
|
| Jul 16, 2006 |
PA4301
|
Pseudomonas aeruginosa
PAO1 |
New gene name: tadB (previously blank). New product name: TadB (previously hypothetical protein). New product name confidence: Class 2 (previously Class 4). New evidence reference (PMID): 16788194. New evidence reference (PMID): 15837433. New PseudoCAP function class: Motility and attachment. New genomic context: Part of flp-tad-rcp gene cluster (PA4297-PA4305) required for assembly of Type IVb pilin, Flp. New homology: 23% Identity, 46% similarity to TadC [Actinobacillus actinomycetemcomitans]. New structure feature: Belongs to the GspF family of proteins
|
Alain Filloux, Centre National de la Recherche Scientifique, Marseille, France
|
| Jul 16, 2006 |
PA4302
|
Pseudomonas aeruginosa
PAO1 |
New gene name: tadA (previously blank). New product name: TadA ATPase (previously designated probable type II secretion system protein). New product name confidence: Class 2 (previously Class 3). New evidence reference (PMID): 16788194. New evidence reference (PMID): 15837433. New PseudoCAP function class: Motility and attachment. New genomic context: Part of flp-tad-rcp gene cluster (PA4297-PA4305) required for assembly of Type IVb pilin, Flp. New homology: 44% Identity, 66% Similarity to TadA [Actinobacillus actinomycetemcomitans]. New structure feature: Belongs to the GspE family of traffic ATPases
|
Alain Filloux, Centre National de la Recherche Scientifique, Marseille, France
|
| Jul 16, 2006 |
PA4300
|
Pseudomonas aeruginosa
PAO1 |
New gene name: tadC (previously blank). New product name: TadC (previously hypothetical protein). New product name confidence: Class 2 (previously Class 4). New evidence reference (PMID): 16788194. New evidence reference (PMID): 15837433. New PseudoCAP function class: Motility and attachment. New genomic context: Part of flp-tad-rcp gene cluster (PA4297-PA4305) required for assembly of Type IVb pilin, Flp. New homology: 21% Identity, 48% similarity to TadC [Actinobacillus actinomycetemcomitans]. New structure feature: Belongs to the GspF family of proteins
|
Alain Filloux, Centre National de la Recherche Scientifique, Marseille, France
|
| Jul 16, 2006 |
PA4304
|
Pseudomonas aeruginosa
PAO1 |
New gene name: rcpA (previously blank). New product name: RcpA (previously probable type II secretion system protein). New product name confidence: Class 2 (previously Class 3). New evidence reference (PMID): 16788194. New evidence reference (PMID): 15837433. New PseudoCAP function class: Motility and attachment. New genomic context: Part of flp-tad-rcp gene cluster (PA4297-PA4305) required for assembly of Type IVb pilin, Flp. New homology: 33% Identity, 50% Similarity to RcpA [Actinobacillus actinomycetemcomitans]. New structure feature: Belongs to the GspA family of secretins.
|
Alain Filloux, Centre National de la Recherche Scientifique, Marseille, France
|
| Jul 16, 2006 |
PA4305
|
Pseudomonas aeruginosa
PAO1 |
New gene name: rcpC (previously blank). New product name: RcpC (previously designated hypothetical protein). New product name confidence: Class 2 (previously Class 3). New evidence reference (PMID): 16788194. New evidence reference (PMID): 15837433. New PseudoCAP function class: Motility and attachment. New genomic context: Part of flp-tad-rcp gene cluster (PA4297-PA4305) required for assembly of Type IVb pilin, Flp. New homology: 26% Identity, 37% similarity to CpaB [Caulobacter crescentus CB15].
|
Alain Filloux, Centre National de la Recherche Scientifique, Marseille, France
|
| Jul 16, 2006 |
PA4299
|
Pseudomonas aeruginosa
PAO1 |
New gene name: tadD (previously blank). New product name: TadD (previously hypothetical protein). New product name confidence: Class 2 (previously Class 4). New evidence reference (PMID): 16788194. New evidence reference (PMID): 15837433. New PseudoCAP function class: Motility and attachment. New genomic context: Part of flp-tad-rcp gene cluster (PA4297-PA4305) required for assembly of Type IVb pilin, Flp.
|
Alain Filloux, Centre National de la Recherche Scientifique, Marseille, France
|