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               PA0437               
Key to diagram


View in GBrowse: 13 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 codA  Alternate Gene Names
Locus tag PA0437 (View 4 updates) Submit an Update GenBank Identifier (GI) 15595634 (Precomputed BLAST results at BLINK )
Genomic location 490658 - 489387 (-) 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 cytosine deaminase (Class 2  Explanation of Product Name Confidence)
Alternate Product Names
Subcellular localization
Cytoplasmic (Class 1Explanation of Localization Confidence)
Cytoplasmic (Class 3Explanation of Localization Confidence)
Alternate Annotations and Cross-References
TIGR NTL03PA00438
Systomonas PA0437
RefSeq NP_249128.1
GI 15595634
KEGG PA0437
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
codA cytosine deaminase
codB cytosine permease
Evidence Computationally Predicted
PubMed 18988623
Cross-Reference DOOR-13195
Genomic Context
Genomic context Explanation of Genomic Context Field - Part of conserved codBA operon.
Function Classification / Gene Ontology (GO)
PseudoCAP Function Class Nucleotide biosynthesis and metabolism
GO Accession GO Term Evidence
Molecular Function
GO:0004568 chitinase activity ISS
Biological Process
GO:0009117 nucleotide metabolic process ISS
Cellular Component
COG PredictionExplanation of COG predictions
Accession Description Category
COG0402 SsnA, Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]. Nucleotide transport and metabolism / General function prediction only
Pathways
Pathways Explanation of Pathways Field
Name Database Xref
Pyrimidine metabolism PseudoCAP
salvage pathways of pyrimidine ribonucleotides PseudoCyc PWY0-163
Pyrimidine metabolism KEGG pae00240 Computationally Generated
Arginine and proline metabolism KEGG pae00330 Computationally Generated
Metabolic pathways KEGG pae01100 Computationally Generated
Reactions
EC Number 3.5.4.1
Homology
BLINK Precomputed BLAST results at BLINK
Homologs Explanation of Homologs Field 86% similar to E. coli codA gene product.
Structure Features
PFAM predictions Explanation of PFAM predictions
Accession Domain Start Stop E-value Release No.
PF07969 Amidohydro_3, Amidohydrolase family. 47 373 1e-49 23.0
 
Microarray Expression Data
NCBI GEO Link
Upstream 500 BP Region GGCGGCGGTGGGCAAGTCGGACATCTCCGACGTGATGATCGCCCAGGGCCTGCTGATCCCGGCGATCCTGGTCCTCGGCCTGAACATCTGGACCACCAAC GACAACGCGCTGTATGCCTCCGGCCTCGGCTTCGCCAACATCACCGGCCTCTCCAGCCGCTTCCTGGCGATGCTCAACGGCGCCCTCGGCACCCTCGCCG CGCTCTGGCTGTACAACCACTTCGTCGGCTGGCTGACCTTCCTCTCCGCCGCCATCCCGCCCATCGGCGGGGTGATCATCGCCGACTACCTGAGTCGCCG CCGGCGCTACCGCCAGCACCCCTGCGCGGACATCCAGGCGATCAACTGGGCGGCGATCCTCGCCGTCGCTTGCGGCACCGCCGCCGGCCACTGGCTGCCG GGGATAGTGCCGGTCAACGCGGTGCTCGGCGCCGCCATCGCCTACCTGTTGCTCAATCCCCTGCTGAGCCGCAGCCCGAACAAACCAGAAGAGGTCCTCC

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 ATGCTGATTGACAACCTGCGCCTGCGCGGCCGCGAAGGTCTCTGGCAACTGCGCGTCGCCGATGGCCGTATCGCCGCCCTGGTGCCGATGGAACAGGCCG CCGACGACGCCGGCGAGCGCCTGGACGGCGCCGGCGGTCTTGCCGTGCCGCCGTTCATCGAGCCGCACATCCATCTCGACACCACCCAGACCGCCGGCCA GCCGGAGTGGAACCGCTCCGGCACGCTGTTCGAAGGCATCGAGCGCTGGGCCCAGCGCAAGGCCCTGCTCAGCCACGAGGACGTCAAGCAGCGCGCCTGG CAGACCCTGAAATGGCAGATCGCCAACGGCGTGCAGCACGTGCGCAGCCACGTCGACGTCTCCGACCCGACCCTCACCGCGCTCAAGGCCATGCTCGAGG TGCGCGGCGAAGTGGCGCCCTGGGTCGACCTGCAGATCGTCGCCTTCCCTCAGGAGGGCATTCTCTCCTACCCCAACGGCCTGGAACTGCTGGAGGAGTC GCTGCGCCTGGGCGCCGACGTGGTGGGGGCGATCCCGCATTTCGAATTCACCCGCGAGCTGGGCGTCGAGTCGCTGCACAAGGCCATCGACCTGGCCAAG CGCTACGACCTGCCGGTGGACGTGCATTGCGACGAGATCGACGACGAGCAGTCGCGCTTCCTCGAGACCCTGGCCATGCTCGCCCATCGCGACGGCCTCG GCGCACGGGTCACCGCCAGCCACACCACGGCGATGCACTCCTACAACGGCGCCTACACCTCGCGGCTGTTCCGCCTGCTGAAACTGTCGGGAATCAACTT CGTCGCCAACCCGCTGGTGAACATCCACCTGCAGGGTCGCTTCGACGACTACCCGAAGCGCCGCGGCATCACCCGGGTCAAGGAACTGCTCGGCGCCGGG ATCAACACCTGCTTCGGCCACGACGACGTGTTCGACCCCTGGTACCCGCTGGGCACCGCGAACATGCTGCAGGTGCTGCACATGGGCCTGCACGTGACGC AGATGATGGGCTACGACGAGATCGACGGCGGCCTCGACCTGATCACCCGCAACAGCGCCCGCACCCTCGGCCTGCGGGAATACGGCATCGAGGTCGGCCA TCCGGCCAACCTGCTGGTGCTGCCGGCCCGCGACGGCTTCGACGCGGTGCGCCGGCAGGTCCCGGTGCGCTACTCGATCCGCGGCGGACGGCTGCTCGCC GAGACGGTCCCGGCGCAGACCACGGTGTTCCTCGAACAGGCGGAAGCGGTGGACTTCACCCGCGCCAGCTGA

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 MLIDNLRLRGREGLWQLRVADGRIAALVPMEQAADDAGERLDGAGGLAVPPFIEPHIHLDTTQTAGQPEWNRSGTLFEGIERWAQRKALLSHEDVKQRAW QTLKWQIANGVQHVRSHVDVSDPTLTALKAMLEVRGEVAPWVDLQIVAFPQEGILSYPNGLELLEESLRLGADVVGAIPHFEFTRELGVESLHKAIDLAK RYDLPVDVHCDEIDDEQSRFLETLAMLAHRDGLGARVTASHTTAMHSYNGAYTSRLFRLLKLSGINFVANPLVNIHLQGRFDDYPKRRGITRVKELLGAG INTCFGHDDVFDPWYPLGTANMLQVLHMGLHVTQMMGYDEIDGGLDLITRNSARTLGLREYGIEVGHPANLLVLPARDGFDAVRRQVPVRYSIRGGRLLA ETVPAQTTVFLEQAEAVDFTRAS

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 PA0437 gene of Pseudomonas aeruginosa PAO1, Chromosome (489387 to 490658 bp)


Displaying the first five SNPs out of a total of 40 found in all isolate strains ( View all 40 )
Strain Type Mutation Description Effect Details GBrowse
DNA Protein
Pseudomonas aeruginosa LESB58 Transversion g.489400G>C p.Thr420Ser
 Missense
ACC(Thr) -> AGC(Ser) 		SNP-96588 View
Pseudomonas aeruginosa C3719 Transversion g.489417C>A
Silent
GCG(Ala) -> GCT(Ala) 		SNP-18527 View
Pseudomonas aeruginosa 2192 Transversion g.489417C>A
Silent
GCG(Ala) -> GCT(Ala) 		SNP-67816 View
Pseudomonas aeruginosa PA7 Transversion g.489452C>G p.Val403Leu
 Missense
GTC(Val) -> CTC(Leu) 		SNP-486255 View
Pseudomonas aeruginosa PA7 Transition g.489510C>T
Silent
GTG(Val) -> GTA(Val) 		SNP-486256 View
Select to view SNPs in a specific strain
SNP Map
PubMed Characterization of the Escherichia coli codBA operon encoding cytosine permease and cytosine deaminase.
Danielsen S, Kilstrup M, Barilla K, Jochimsen B, Neuhard J.
Mol Microbiol. 1992 May;6(10):1335-44.
PMID: 1640834
PSORTb 3.0: Improved protein subcellular localization prediction with refined localization subcategories and predictive capabilities for all prokaryotes.
Yu NY, Wagner JR, Laird MR, Melli G, Rey S, Lo R, Dao P, Sahinalp SC, Ester M, Foster LJ, Brinkman FS.
Bioinformatics. 2010 May 13; [Epub ahead of print]
PMID: 20472543
 


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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