Log of Annotation Updates

36 annotation updates returned
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Date Locus Tag Strain Description Submitter
Jan 10, 2008 PA0785 Pseudomonas aeruginosa PAO1 New gene name: azoR (Existing value: blank). New product name: azobenzene reductase, AzoR (Existing value: probable acyl carrier protein phosphodiesterase). New product name confidence: Class 1 (Existing value: Class 3). New evidence reference (PMID): 17904577. New structure feature: In solution, exists as a homotetramer composed of two functional dimers.. New EC number: 1.7.1.6. New homology: 32% identity and 67% similarity to the azoreductases from E. coli and S. typhimurium. New homology: 30% identity and 63% similarity to azoreductase from E. faecalis. Isaac Westwood, University of Oxford, United Kingdom
Jan 10, 2008 PA0156 Pseudomonas aeruginosa PAO1 New gene name: triA (Existing value: blank). New product name: Resistance-Nodulation-Cell Division (RND) triclosan efflux membrane fusion protein, TriA (Existing value: probable Resistance-Nodulation-Cell Division (RND) efflux membrane fusion protein precursor). New product name confidence: Class 1 (Existing value: Class 3). New PseudoCAP function class: Antibiotic resistance and susceptibility. New PseudoCAP function class: Membrane Proteins. New evidence reference (PMID): 17720796. Herbert P. Schweizer, Colorado State University, USA
Jan 10, 2008 PA0157 Pseudomonas aeruginosa PAO1 New gene name: triB (Existing value: blank). New product name: Resistance-Nodulation-Cell Division (RND) triclosan efflux membrane fusion protein, TriB (Existing value: probable Resistance-Nodulation-Cell Division (RND) efflux membrane fusion protein precursor). New product name confidence: Class 1 (Existing value: Class 3). New PseudoCAP function class: Antibiotic resistance and susceptibility. New PseudoCAP function class: Membrane Proteins. New evidence reference (PMID): 17720796. Herbert P. Schweizer, Colorado State University, USA
Jan 10, 2008 PA0158 Pseudomonas aeruginosa PAO1 New evidence reference (PMID): 17720796. New gene name: triC (Existing value: blank). New product name confidence: Class 1 (Existing value: Class 3). New PseudoCAP function class: Antibiotic resistance and susceptibility. New product name: Resistance-Nodulation-Cell Division (RND) triclosan efflux transporter, TriC (Existing value: probable Resistance-Nodulation-Cell Division (RND) efflux transporter). Herbert P. Schweizer, Colorado State University, USA
Jan 10, 2008 PA2231 Pseudomonas aeruginosa PAO1 New product name: PslA (Existing value: probable glycosyl transferase). Deleting product name: probable glycosyl transferase. New product name confidence: Class 1 (Existing value: Class 3). New PseudoCAP function class: Cell wall / LPS / capsule. New evidence reference (PMID): 15231778. New evidence reference (PMID): 16085831. Joerg Overhage, University of British Columbia, Canada
Jan 10, 2008 PA1423 Pseudomonas aeruginosa PAO1 New gene name: bdlA (Existing value: blank). New product name: BdlA (Existing value: probable chemotaxis transducer). Deleting product name: probable chemotaxis transducer. New product name confidence: Class 1 (Existing value: Class 3). New PseudoCAP function class: Chemotaxis. New PseudoCAP function class: Cell wall / LPS / capsule. New evidence reference (PMID): 17050921. New structure feature: MCP (methyl-accepting chemotaxis protein) domain and two PAS (Per-Arnt-Sint) domains. New pathway: nutrient-induced dispersion. New comment: Deletion of bdlA impairs nutrient-induced dispersion . New alternate gene name: biofilm dispersion locus A. Karin Sauer, Binghamton University, USA
Jan 10, 2008 PA3064 Pseudomonas aeruginosa PAO1 New product name: PelA (Existing value: hypothetical protein). New product name confidence: Class 1 (Existing value: Class 4). New evidence reference (PMID): 15758243. Deleting function class: Hypothetical, unclassified, unknown. New PseudoCAP function class: Cell wall / LPS / capsule. Allain Filloux, Laboratoire d'Ingenierie des Systemes Macromoleculaires, Marseille cedex, France
Jan 10, 2008 PA3063 Pseudomonas aeruginosa PAO1 New product name: PelB (Existing value: hypothetical protein). New product name confidence: Class 1 (Existing value: Class 4). New evidence reference (PMID): 15758243. Deleting function class: Hypothetical, unclassified, unknown. New PseudoCAP function class: Cell wall / LPS / capsule. Allain Filloux, Laboratoire d'Ingenierie des Systemes Macromoleculaires, Marseille cedex, France
Jan 10, 2008 PA3062 Pseudomonas aeruginosa PAO1 New product name: PelC (Existing value: hypothetical protein). New product name confidence: Class 1 (Existing value: Class 4). New evidence reference (PMID): 15758243. New evidence reference (PMID): 17524545. New subcellular localization: Outer membrane (Existing value: Unknown). New subcellular localization confidence: Class 1 (Existing value: Class 3). New PseudoCAP function class: Cell wall / LPS / capsule. Deleting function class: Hypothetical, unclassified, unknown. Allain Filloux, Laboratoire d'Ingenierie des Systemes Macromoleculaires, Marseille cedex, France
Jan 10, 2008 PA3061 Pseudomonas aeruginosa PAO1 New product name: PelD (Existing value: hypothetical protein). New product name confidence: Class 1 (Existing value: Class 4). New evidence reference (PMID): 15758243. Deleting function class: Hypothetical, unclassified, unknown. New PseudoCAP function class: Cell wall / LPS / capsule. New evidence reference (PMID): 17824927. New structure feature: RxxD motif (required for pellicle synthesis). New structure feature: c-di-GMP binding site. Allain Filloux, Laboratoire d'Ingenierie des Systemes Macromoleculaires, Marseille cedex, France
Jan 10, 2008 PA3060 Pseudomonas aeruginosa PAO1 New product name: PelE (Existing value: hypothetical protein). New product name confidence: Class 1 (Existing value: Class 4). New evidence reference (PMID): 15758243. Deleting function class: Hypothetical, unclassified, unknown. New PseudoCAP function class: Cell wall / LPS / capsule. Allain Filloux, Laboratoire d'Ingenierie des Systemes Macromoleculaires, Marseille cedex, France
Jan 10, 2008 PA3059 Pseudomonas aeruginosa PAO1 New evidence reference (PMID): 15758243. Deleting function class: Hypothetical, unclassified, unknown. New PseudoCAP function class: Cell wall / LPS / capsule. New product name confidence: Class 1 (Existing value: Class 4). New product name: PelF (Existing value: hypothetical protein). New comment: PelF is a putative glycosyltransferase from the GT4 family. Allain Filloux, Laboratoire d'Ingenierie des Systemes Macromoleculaires, Marseille cedex, France
Jan 10, 2008 PA3058 Pseudomonas aeruginosa PAO1 New product name: PelG (Existing value: hypothetical protein). New product name confidence: Class 1 (Existing value: Class 4). Deleting function class: Hypothetical, unclassified, unknown. New PseudoCAP function class: Cell wall / LPS / capsule. New evidence reference (PMID): 15758243. New comment: PelG is a putative member of the PST family (Polysaccharide transporter). Allain Filloux, Laboratoire d'Ingenierie des Systemes Macromoleculaires, Marseille cedex, France
Jan 10, 2008 PA1919 Pseudomonas aeruginosa PAO1 New gene name: nrdG (Existing value: blank). New product name confidence: Class 2 (Existing value: Class 3). New PseudoCAP function class: Nucleotide biosynthesis and metabolism. New evidence reference (PMID): 15722359. New evidence reference (PMID): 15522085. New EC number: 1.17.4.2. New pathway: Purine metabolism. New product name: class III (anaerobic) ribonucleoside-triphosphate reductase activating protein, 'activase', NrdG (Existing value: probable radical-activating enzyme). Ilya Borovok, Tel Aviv University, Tel Aviv, Israel.
Jan 10, 2008 PA1920 Pseudomonas aeruginosa PAO1 New pathway: Pyrimidine metabolism. New pathway: Purine metabolism. New gene name: nrdD (Existing value: blank). New product name: class III (anaerobic) ribonucleoside-triphosphate reductase subunit, NrdD (Existing value: conserved hypothetical protein). New product name confidence: Class 2 (Existing value: Class 4). New PseudoCAP function class: Nucleotide biosynthesis and metabolism. New evidence reference (PMID): 15722359. New evidence reference (PMID): 15522086. New EC number: 1.17.4.2. Ilya Borovok, Tel Aviv University, Tel Aviv, Israel.
Jan 10, 2008 PA4057 Pseudomonas aeruginosa PAO1 New gene name: nrdR (Existing value: blank). New product name: NrdR (Existing value: conserved hypothetical protein). New product name confidence: Class 2 (Existing value: Class 4). New PseudoCAP function class: Transcriptional regulators. New PseudoCAP function class: Nucleotide biosynthesis and metabolism. New evidence reference (PMID): 15722359. New evidence reference (PMID): 15522084. Ilya Borovok, Tel Aviv University, Tel Aviv, Israel.
Jan 10, 2008 PA5496 Pseudomonas aeruginosa PAO1 New pathway: Pyrimidine metabolism. New pathway: Purine metabolism. New product name: class II (cobalamin-dependent) ribonucleotide-diphosphate reductase subunit, NrdJb (Existing value: NrdJb). Ilya Borovok, Tel Aviv University, Tel Aviv, Israel.
Jan 10, 2008 PA5497 Pseudomonas aeruginosa PAO1 New product name: class II (cobalamin-dependent) ribonucleotide-diphosphate reductase subunit, NrdJa (Existing value: NrdJa). New pathway: Purine metabolism. New pathway: Pyrimidine metabolism. Ilya Borovok, Tel Aviv University, Tel Aviv, Israel.
Jan 10, 2008 PA5380 Pseudomonas aeruginosa PAO1 New pathway: glycine betaine catabolism. New product name confidence: Class 1 (Existing value: Class 3). New evidence reference (PMID): 17951379. New gene name: gbdR (Existing value: blank). New product name: GbdR (Existing value: probable transcriptional regulator). Matthew Wargo and Deborah Hogan, Dartmouth Medical School, USA
Jan 10, 2008 PA5410 Pseudomonas aeruginosa PAO1 New alternate product name: glycine betaine catabolism protein. New gene name: gbcA (Existing value: blank). New product name: GbcA (Existing value: probable ring hydroxylating dioxygenase, alpha-subunit). New product name confidence: Class 1 (Existing value: Class 3). New PseudoCAP function class: Amino acid biosynthesis and metabolism. New evidence reference (PMID): 17951379. New pathway: glycine betaine catabolism. New comment: Strains with deletions in gbcA are unable to grow on choline or glycine betaine but are able to grow on dimethylglycine. NMR analysis shows buildup of labeled glycine betaine when gbcA mutants are given labeled choline. Matthew Wargo and Deborah Hogan, Dartmouth Medical School, USA
Jan 10, 2008 PA5411 Pseudomonas aeruginosa PAO1 New alternate product name: glycine betaine catabolism protein. New gene name: gbcB (Existing value: blank). New product name: GbcB (Existing value: probable ferredoxin). New product name confidence: Class 1 (Existing value: Class 3). New PseudoCAP function class: Amino acid biosynthesis and metabolism. New evidence reference (PMID): 17951379. New comment: Strains with deletions in gbcB are unable to grow on choline or glycine betaine but are able to grow on dimethylglycine. NMR analysis shows buildup of labeled glycine betaine when gbcB mutants are given labeled choline. Presumed to function with GbcA (PA5410).. New pathway: glycine betaine catabolism. Matthew Wargo and Deborah Hogan, Dartmouth Medical School, USA
Jan 10, 2008 PA5398 Pseudomonas aeruginosa PAO1 New comment: Strains with deletions in dgcA are unable to grow on choline, glycine betaine, or dimethylglcycine but are able to utilize sarcosine. NMR analysis shows buildup of labeled dimethylglycine when dgcA mutants are given labeled choline. Presumed to function with DgcB (PA5399). New gene name: dgcA (Existing value: blank). New product name confidence: Class 1 (Existing value: Class 3). New PseudoCAP function class: Amino acid biosynthesis and metabolism. New evidence reference (PMID): 17951379. New product name: DgcA, Dimethylglycine catabolism (Existing value: probable FMN oxidoreductase). Matthew Wargo and Deborah Hogan, Dartmouth Medical School, USA
Jan 10, 2008 PA5399 Pseudomonas aeruginosa PAO1 New comment: Strains with transposon insertions in dgcB are unable to grow on choline, glycine betaine, or dimethylglcycine but are able to utilize sarcosine. NMR analysis shows buildup of labeled dimethylglycine when dgcB mutants are given labeled choline. Predicted to function with DgcA (PA5398). New product name: DgcB, Dimethylglycine catabolism (Existing value: probable ferredoxin). New gene name: dgcB (Existing value: blank). New pathway: glycine betaine catabolism. New product name confidence: Class 1 (Existing value: Class 3). New PseudoCAP function class: Amino acid biosynthesis and metabolism. New evidence reference (PMID): 17951379. Matthew Wargo and Deborah Hogan, Dartmouth Medical School, USA
Jan 10, 2008 PA5416 Pseudomonas aeruginosa PAO1 New pathway: glycine betaine catabolism. New product name confidence: Class 1 (Existing value: Class 2). New PseudoCAP function class: Amino acid biosynthesis and metabolism. New evidence reference (PMID): 17951379. New comment: Strains with transposon mutants in any of the soxBDAG genes are unable to grow on choline, glycine betaine, dimethylglcycine or sarcosine.. Matthew Wargo and Deborah Hogan, Dartmouth Medical School, USA
Jan 10, 2008 PA5417 Pseudomonas aeruginosa PAO1 New pathway: glycine betaine catabolism. New product name confidence: Class 1 (Existing value: Class 2). New PseudoCAP function class: Amino acid biosynthesis and metabolism. New comment: Strains with transposon mutants in any of the soxBDAG genes are unable to grow on choline, glycine betaine, dimethylglcycine or sarcosine.. New evidence reference (PMID): 17951379. Matthew Wargo and Deborah Hogan, Dartmouth Medical School, USA
Jan 10, 2008 PA5418 Pseudomonas aeruginosa PAO1 New comment: NMR analysis shows buildup of labeled sarcosine when soxA transposon mutants are given labeled choline. New evidence reference (PMID): 17951379. New product name confidence: Class 1 (Existing value: Class 2). New pathway: glycine betaine catabolism. New comment: Strains with transposon mutants in any of the soxBDAG genes are unable to grow on choline, glycine betaine, dimethylglcycine or sarcosine. Matthew Wargo and Deborah Hogan, Dartmouth Medical School, USA
Jan 10, 2008 PA5419 Pseudomonas aeruginosa PAO1 New product name confidence: Class 1 (Existing value: Class 2). New PseudoCAP function class: Amino acid biosynthesis and metabolism. New evidence reference (PMID): 17951379. New comment: Strains with transposon mutants in any of the soxBDAG genes are unable to grow on choline, glycine betaine, dimethylglcycine or sarcosine.. New pathway: glycine betaine catabolism. Matthew Wargo and Deborah Hogan, Dartmouth Medical School, USA
Jan 10, 2008 PA4367 Pseudomonas aeruginosa PAO1 New gene name: bifA (Existing value: blank). New product name: BifA (Existing value: conserved hypothetical protein). New product name confidence: Class 1 (Existing value: Class 4). New subcellular localization confidence: Class 1 (Existing value: Class 3). New subcellular localization: Cytoplasmic membrane (Existing value: Unknown). New PseudoCAP function class: Cell wall / LPS / capsule. New evidence reference (PMID): 17586641. New PseudoCAP function class: Motility & Attachment. George O'Toole, Dartmouth Medical School, USA
Jan 10, 2008 PA3552 Pseudomonas aeruginosa PAO1 New product name: ArnB (Existing value: conserved hypothetical protein). New gene name: arnB (Existing value: conserved hypothetical protein). New alternate gene name: pmrH. New PseudoCAP function class: Adaptation, protection. New PseudoCAP function class: Antibiotic resistance and susceptibility. New PseudoCAP function class: Cell wall/LPS/capsule. Deleting function class: Hypothetical, unclassified, unknown. New evidence reference (PMID): 12704196. New evidence reference (PMID): 12429098. New evidence reference (PMID): 14507375. New genomic context: 8 gene operon controlling polymyxin B and cationic antimicrobial peptide resistance. New product name confidence: Class 2 (Existing value: Class 4). Joseph McPhee, Stony Brook University, USA. Robert E.W. Hancock, University of British Columbia, Canada.
Jan 10, 2008 PA3553 Pseudomonas aeruginosa PAO1 New gene name: arnC (Existing value: blank). New product name: ArnC (Existing value: probable glycosyl transferase). New alternate gene name: pmrF. New product name confidence: Class 2 (Existing value: Class 3). New evidence reference (PMID): 15695810. New genomic context: 8 gene operon controlling polymyxin B and cationic antimicrobial peptide resistance. New PseudoCAP function class: Antibiotic resistance and susceptibility. New PseudoCAP function class: Cell wall/LPS/capsule. Joseph McPhee, Stony Brook University, USA. Robert E.W. Hancock, University of British Columbia, Canada.
Jan 10, 2008 PA3554 Pseudomonas aeruginosa PAO1 New genomic context: 8 gene operon controlling polymyxin B and cationic antimicrobial peptide resistance. New gene name: arnA (Existing value: blank). New product name: ArnA (Existing value: conserved hypothetical protein). New alternate product name: PmrI. New product name confidence: Class 2 (Existing value: Class 4). New evidence reference (PMID): 15695810. New evidence reference (PMID): 15809294. New evidence reference (PMID): 12704196. New PseudoCAP function class: Adaptation, protection. New PseudoCAP function class: Antibiotic resistance and susceptibility. New PseudoCAP function class: Cell wall/LPS/capsule. Joseph McPhee, Stony Brook University, USA. Robert E.W. Hancock, University of British Columbia, Canada.
Jan 10, 2008 PA3555 Pseudomonas aeruginosa PAO1 New gene name: arnD (Existing value: blank). New product name: ArnD (Existing value: conserved hypothetical protein). New product name confidence: Class 2 (Existing value: Class 4). New alternate gene name: amrJ. New PseudoCAP function class: Adaptation, protection. New PseudoCAP function class: Antibiotic resistance and susceptibility. New PseudoCAP function class: Cell wall/LPS/capsule. New genomic context: 8 gene operon controlling polymyxin B and cationic antimicrobial peptide resistance. New genomic context: 15695810. Joseph McPhee, Stony Brook University, USA. Robert E.W. Hancock, University of British Columbia, Canada.
Jan 10, 2008 PA3556 Pseudomonas aeruginosa PAO1 New alternate product name: pmrK. New PseudoCAP function class: Adaptation, protection. New genomic context: 8 gene operon controlling polymyxin B and cationic antimicrobial peptide resistance. Joseph McPhee, Stony Brook University, USA. Robert E.W. Hancock, University of British Columbia, Canada.
Jan 10, 2008 PA3557 Pseudomonas aeruginosa PAO1 New genomic context: 8 gene operon controlling polymyxin B and cationic antimicrobial peptide resistance. New gene name: arnE (Existing value: blank). New product name: ArnE (Existing value: conserved hypothetical protein). New product name confidence: Class 2 (Existing value: Class 4). New alternate gene name: pmrL. New PseudoCAP function class: Adaptation, protection. New PseudoCAP function class: Cell wall/LPS/capsule. New evidence reference (PMID): 17928292. Joseph McPhee, Stony Brook University, USA. Robert E.W. Hancock, University of British Columbia, Canada.
Jan 10, 2008 PA3558 Pseudomonas aeruginosa PAO1 New evidence reference (PMID): 17928292. New genomic context: 8 gene operon controlling polymyxin B and cationic antimicrobial peptide resistance. New genomic context: Class 2. New gene name: arnF (Existing value: blank). New product name: ArnF (Existing value: hypothetical protein). New alternate gene name: pmrM. New PseudoCAP function class: Adaptation, protection. New PseudoCAP function class: Cell wall/LPS/capsule. Joseph McPhee, Stony Brook University, USA. Robert E.W. Hancock, University of British Columbia, Canada.
Jan 10, 2008 PA2234 Pseudomonas aeruginosa PAO1 New product name confidence: Class 1 (Existing value: Class 3). New product name: PslD (Existing value: probable exopolysaccharide transporter). Jorg Overhage, University of British Columbia, Canada
36 annotation updates returned