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               PA0228               
Key to diagram


View in GBrowse: 15 putative orthologs View metabolic pathways using PseudoCyc Acknowledgements for this annotation
Gene Information
Strain Pseudomonas aeruginosa PAO1 (Tax ID: 208964) Replicon Chromosome(5651 genes, 6264404 bp) [ RefSeq ]
Gene name pcaF  Alternate Gene Names
Locus tag PA0228 (View 6 updates) Submit an Update GenBank Identifier (GI) 15595425 (Precomputed BLAST results at BLINK )
Genomic location 257108 - 258313 (+) Feature type CDS 
Transposon Mutant Available?Transposon mutant library help Yes (View in GBrowse) Pseudomonas Ortholog Group Explanation of Orthologous Groups
Product Information
Product Name beta-ketoadipyl CoA thiolase PcaF (Class 2  Explanation of Product Name Confidence)
Alternate Product Names
Subcellular localization
Cytoplasmic (Class 2Explanation of Localization Confidence)
Cytoplasmic (Class 3Explanation of Localization Confidence)
Alternate Annotations and Cross-References
TIGR NTL03PA00229
Systomonas PA0228
RefSeq NP_248919.1
GI 15595425
KEGG PA0228
GBrowse Click here for a GBrowse View of this and other annotations.
PseudoCyc Click here to view metabolic pathways in PseudoCyc.
Operons/Regulons
Type operon
Genes
GeneProduct
PA0226 probable CoA transferase, subunit A
PA0227 probable CoA transferase, subunit B
pcaF beta-ketoadipyl CoA thiolase PcaF
Evidence Computationally Predicted
PubMed 18988623
Cross-Reference DOOR-13150
Genomic Context
Genomic context Explanation of Genomic Context Field - Organization of pca genes appears to be somewhat different than in P. putida.
Function Classification / Gene Ontology (GO)
PseudoCAP Function Class Fatty acid and phospholipid metabolism
Carbon compound catabolism
GO Accession GO Term Evidence
Molecular Function
Biological Process
GO:0044248 cellular catabolic process ISS
GO:0015978 carbon utilization by utilization of organic compounds ISS
GO:0044255 cellular lipid metabolic process ISS
Cellular Component
COG PredictionExplanation of COG predictions
Accession Description Category
COG0183 PaaJ, Acetyl-CoA acetyltransferase [Lipid metabolism]. Lipid metabolism
Pathways
Pathways Explanation of Pathways Field
Name Database Xref
Aromatic compound catabolism PseudoCAP
protocatechuate degradation, ortho-cleavage PseudoCyc PROTOCATECHUATE-ORTHO-CLEAVAGE-PWY
catechol degradation, ortho-cleavage PseudoCyc CATECHOL-ORTHO-CLEAVAGE-PWY
Benzoate degradation via hydroxylation KEGG pae00362 Computationally Generated
Reactions
EC Number 2.3.1.174
Homology
BLINK Precomputed BLAST results at BLINK
Homologs Explanation of Homologs Field 91% similar to PcaF [Pseudomonas putida]
Most Similar Human Homolog
ENSP00000285093, Percent Identity: 42.36%, E-Value: 2e-76, Ensembl Release: 56.
Description: 3-ketoacyl-CoA thiolase, mitochondrial
Structure Features
Structure Features Explanation of Structure Features Field BL00098: Thiolases acyl-enzyme intermediate proteins
PFAM predictions Explanation of PFAM predictions
Accession Domain Start Stop E-value Release No.
PF00108 Thiolase_N, Thiolase, N-terminal domain. 4 269 3e-78 23.0
PF02803 Thiolase_C, Thiolase, C-terminal domain. 276 400 2e-42 23.0
 
Microarray Expression Data
NCBI GEO Link
Upstream 500 BP Region ATCGACGTCGGCTTCCTCGGCGCGGCCCAGGTCGACCGCTTCGGCAACATCAACACCACCGTGATCGGCGACTACCGCCAGCCCAAGGTGCGCCTGCCGG GAGCCGGCGGCGCGCCGGAAATCGCCGGCAGCGCCAAGGAAGTACTGATCATCCTCAAGCAGTCGCACCGCACCTTCGTCGACAAGCTGGCCTTCGTCAC CTCGGTCGGCCATGGCGAGGGCGGCGACTCGCGCCAGCGCCTGGGCCTGCCGGGCAAGGGGCCGGTGGCGATCATCACCGACCTGTGCATCATGGAGCCG GAAGCCGGCAGCAACGAGTTCGTGGTCACTTCGCTGCATCCGGGCGTGACCCGCGAGCAGGTGGTCGAGGCCACCGGCTGGGCGATCCGCTTCGCCGAGC GGGTCGCCGAGACGCCCGCGCCGAGCGAGGTCGAACTCGCCGCGCTGCGCGACCTCGAGGCGCGCACCGCGGCCGCCCATGGACAGAAGGGGAGCGACGA

BLAST search against this genome or other genomes in database
Need more than 500 BP? Try our sequence retrieval tool or view intergenic regions in GBrowse.

DNA Sequence ATGAGCCGCGAGGTATTCATCTGCGATGCCGTGCGCACGCCGATCGGCCGTTTCGGCGGCAGTCTTTCCGCGGTGCGCGCCGACGACCTCGCGGCGGTGC CGCTGAAGGCCCTGGTCGAGCGCAACCCGGGGGTCGACTGGTCGGCGTTGGACGAGGTGTTCCTCGGCTGCGCCAACCAGGCCGGCGAGGACAACCGTAA CGTGGCGCGCATGGCGCTGCTGCTGGCCGGTTTGCCGGAGAGCGTGCCCGGCGTCACCCTCAACCGCCTCTGCGCCTCGGGGATGGACGCCATCGGCACG GCGTTCCGCGCCATCGCCTGCGGCGAGATGGAGCTGGCCATCGCCGGCGGCGTCGAGTCGATGTCGCGCGCGCCGTACGTGATGGGCAAGGCCGATAGCG CCTTCGGTCGCGGCCAGAAGATCGAGGACACCACCATCGGCTGGCGCTTCGTCAATCCGCTGATGAAGGAGCAGTACGGCATCGACCCGATGCCGCAGAC CGCCGACAACGTCGCCGACGACTATCGCGTGTCGCGTGCCGACCAGGATGCCTTCGCCCTGCGCAGCCAGCAGCGCGCCGGCAGGGCGCAGGAGGCCGGT TTCTTCGCCGAGGAAATCGTCCCGGTGACGATTCGCGGGCGCAAGGGCGACACCCTGGTCGAGCACGACGAGCATCCGCGTCCCGACACCACCCTGGAGG CGCTGGCCCGGCTCAAGCCGGTCAACGGGCCGGAGAAGACCGTCACCGCCGGCAACGCGTCCGGGGTCAACGACGGCGCCGCCGCGCTGGTCCTGGCCTC CGCCGAGGCAGTGGAGAAGCACGGCCTGACTCCGCGCGCGCGGGTGCTGGGCATGGCCAGCGCCGGCGTCGCCCCACGGATCATGGGCATCGGCCCGGTG CCGGCGGTGCGCAAGCTGCTGCGGCGCCTGGACCTGGCGATCGACGCCTTCGACGTGATCGAACTCAACGAAGCCTTCGCCAGCCAGGGCCTGGCCTGCC TGCGCGAACTGGGCGTGGCCGACGACAGTGAGAAGGTCAACCCGAACGGCGGTGCCATCGCCCTCGGCCACCCGCTGGGGATGAGCGGTGCGCGGCTGGT CCTCACCGCGCTCCATCAACTTGAGAAGAGCGGCGGCCGGCGCGGCCTGGCGACCATGTGCGTAGGCGTCGGCCAAGGCCTGGCGCTGGCCATCGAGCGG GTCTGA

BLAST search against this genome or other genomes in database

Downstream 500 BP region Click here to view the nucleotide sequence of the region 500 BP downstream of this gene.
Protein Sequence MSREVFICDAVRTPIGRFGGSLSAVRADDLAAVPLKALVERNPGVDWSALDEVFLGCANQAGEDNRNVARMALLLAGLPESVPGVTLNRLCASGMDAIGT AFRAIACGEMELAIAGGVESMSRAPYVMGKADSAFGRGQKIEDTTIGWRFVNPLMKEQYGIDPMPQTADNVADDYRVSRADQDAFALRSQQRAGRAQEAG FFAEEIVPVTIRGRKGDTLVEHDEHPRPDTTLEALARLKPVNGPEKTVTAGNASGVNDGAAALVLASAEAVEKHGLTPRARVLGMASAGVAPRIMGIGPV PAVRKLLRRLDLAIDAFDVIELNEAFASQGLACLRELGVADDSEKVNPNGGAIALGHPLGMSGARLVLTALHQLEKSGGRRGLATMCVGVGQGLALAIER V

BLAST search against this genome or other genomes in database
View precomputed BLAST results against all genomes at NCBI BLINK
SNPs NOTE: This feature is currently open to beta-testing. We welcome feedback on how to improve this new resource. Please send any comments to pseudocap-mail@sfu.ca.

Showing SNPs occurring in PA0228 gene of Pseudomonas aeruginosa PAO1, Chromosome (257108 to 258313 bp)


Displaying the first five SNPs out of a total of 75 found in all isolate strains ( View all 75 )
Strain Type Mutation Description Effect Details GBrowse
DNA Protein
Pseudomonas aeruginosa PA7 Transversion g.257149G>T
Silent
CCG(Pro) -> CCT(Pro) 		SNP-222386 View
Pseudomonas aeruginosa PA7 Transition g.257155C>T
Silent
GGC(Gly) -> GGT(Gly) 		SNP-222387 View
Pseudomonas aeruginosa PA7 Transition g.257158T>C
Silent
CGT(Arg) -> CGC(Arg) 		SNP-222388 View
Pseudomonas aeruginosa PA7 Transition g.257173T>C
Silent
CTT(Leu) -> CTC(Leu) 		SNP-222389 View
Pseudomonas aeruginosa PA7 Transversion g.257174T>G p.Ser23Ala
 Missense
TCC(Ser) -> GCC(Ala) 		SNP-222390 View
Select to view SNPs in a specific strain
SNP Map
PubMed Identification of the pcaRKF gene cluster from Pseudomonas putida: involvement in chemotaxis, biodegradation, and transport of 4-hydroxybenzoate.
Harwood CS, Nichols NN, Kim MK, Ditty JL, Parales RE.
J Bacteriol. 1994 Nov;176(21):6479-88.
PMID: 7961399
 


We thank Cystic Fibrosis Foundation Therapeutics, Inc. for critical funding support for the Pseudomonas Genome Database. When acknowledging use of the database, please cite the article by Winsor et al. (2009; PMID:18978025) and not the web site URL. Thank you!

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