contact us| site map | view my clipboard
Add this annotation to your clipboard
               PA0504               
Key to diagram


View in GBrowse: 16 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 bioD  Alternate Gene Names
Locus tag PA0504 (View 9 updates) Submit an Update GenBank Identifier (GI) 15595701 (Precomputed BLAST results at BLINK )
Genomic location 563549 - 564235 (+) 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 dethiobiotin synthase (Class 2  Explanation of Product Name Confidence)
Alternate Product Names DTBS, DTB synthetase, dethiobiotin synthetase
Subcellular localization
Cytoplasmic (Class 3Explanation of Localization Confidence)
Alternate Annotations and Cross-References
TIGR NTL03PA00505
Systomonas PA0504
RefSeq NP_249195.1
GI 15595701
KEGG PA0504
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
bioB biotin synthase
bioF 8-amino-7-oxononanoate synthase
PA0502 probable biotin biosynthesis protein bioH
PA0503 probable biotin synthesis protein BioC
bioD dethiobiotin synthase
Evidence Computationally Predicted
PubMed 18988623
Cross-Reference DOOR-13212
Genomic Context
Genomic context Explanation of Genomic Context Field - bioBFHCD gene cluster
Function Classification / Gene Ontology (GO)
PseudoCAP Function Class Biosynthesis of cofactors, prosthetic groups and carriers
GO Accession GO Term Evidence
Molecular Function
GO:0004141 dethiobiotin synthase activity IEA
Biological Process
GO:0051188 cofactor biosynthetic process ISS
GO:0009102 biotin biosynthetic process IEA
Cellular Component
COG PredictionExplanation of COG predictions
Accession Description Category
COG0132 BioD, Dethiobiotin synthetase [Coenzyme metabolism]. Coenzyme metabolism
Pathways
Pathways Explanation of Pathways Field
Name Database Xref
Biotin metabolism PseudoCAP
biotin biosynthesis II PseudoCyc BIOTIN-SYNTHESIS-II-PWY
Biotin metabolism KEGG pae00780 Computationally Generated
Metabolic pathways KEGG pae01100 Computationally Generated
Reactions
EC Number 6.3.3.3
Homology
BLINK Precomputed BLAST results at BLINK
Homologs Explanation of Homologs Field 62% similar to DETHIOBIOTIN SYNTHETASE [Serratia marcescens]
Structure Features
Structure Features Explanation of Structure Features Field PD02561: DETHIOBIOTIN SYNTHETASE SYNTHASE DTB DTBS BIOTIN BIOSYNTHESIS LIGASE MAGNESIUM ATP-BINDING
PFAM predictions Explanation of PFAM predictions
Accession Domain Start Stop E-value Release No.
PF01656 CbiA, CobQ/CobB/MinD/ParA nucleotide binding domain. 4 201 2e-14 23.0
 
Microarray Expression Data
NCBI GEO Link
Upstream 500 BP Region ACGCCGAGAGGCTGCCGTTGCGCGACGGCAGTTGCGACCTGCTGTTCTCCAGCCTGGCCATCCAGTGGTGCGCCGACCTCCCGGCGGTCCTGGCCGAGGC GCGGCGGGTCCTGCGGCCGGGCGGCGTGCTGGCGTTCAGCAGCCTGTGCGTCGGTACCCTGGGCGAGTTGCGCGACAGTTGGCGGGTGGTGGACGGCTTC GTCCACGTCAATCGCTTCCGCGCCTTCGCCGACTACCTGCAACACGCGGCCGGCAGCGGCCTGCTGCCGCTGACCCTGCGCCACGAGGACCGGCTCCTGC ATTTCCCCGACCTGCGCAGCCTGACCCACGAACTCAAGGCGCTGGGCGCGCACAACCTCAACCCCGGGCGGCCCGACGGCCTGACCGGGCGCCAGCGCAT CCGCGCGCTGGTCGCCGCCTACGAGCGTTTCCGCCAGCCCGAGGGGCTGCCCGCTACCTACCGCGTCGTCTTCGGCGTGCTGCGCAAGGATTCCTGAACC

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 ATGCCGGCGTTCTTCGTCACCGGTACCGACACCGAGATCGGCAAGACCACCATCGCCGCCGGCCTGCTCCACGCGGCCCGGAGTGCCGGCCTGAGCACCG CCGCGGCGAAGCCGGTGGCCTCCGGCTGCGAGCCCACGGCGCAAGGCCTGCGCAATGGCGACGCGTTGGTGTTGCTCGGCCAGTGCTCGCTGGCGCTGGC CTACGAGCAGGTCAACCCGCTGGCCTTCGCACCGGCCATCGCCCCGCACCTGGCGGCGCGCGAGGCTGGCGTCGAACTGAGCGCCGCACGCTTGCACGAG GCGGTGCGCGAGGTGCTGGCGCTACAGGCCGACTTCACCCTGGTGGAGGGCGCCGGCGGATGGCGCGTGCCGTTGCTGGGCCGCGAGAACCTGTCCGACC TGGCGCGCCTGCTGGCGCTGCCGGTGGTGCTGGTGGTCGGCGTGCGCCTGGGCTGTATCAACCATGCGCTGCTCAGCGCCGAGGCGATCCTGGGCGACGG CCTGGCGCTGGCCGGCTGGGTGGCCAACGTCGTCGACCCGGCTACCTCGCGCCTGGAAGAGAACCTGGCGACCCTCGCCGAACGCCTGCCGGCGCCCTGC CTGGGTCGGGTACCGCGCCTGGAGGAAGCCACTCCCGCGGCCGTGGCCGCGCACCTCGACCTGCGGCCCCTGGGTATCGGGCTATAA

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 MPAFFVTGTDTEIGKTTIAAGLLHAARSAGLSTAAAKPVASGCEPTAQGLRNGDALVLLGQCSLALAYEQVNPLAFAPAIAPHLAAREAGVELSAARLHE AVREVLALQADFTLVEGAGGWRVPLLGRENLSDLARLLALPVVLVVGVRLGCINHALLSAEAILGDGLALAGWVANVVDPATSRLEENLATLAERLPAPC LGRVPRLEEATPAAVAAHLDLRPLGIGL

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 PA0504 gene of Pseudomonas aeruginosa PAO1, Chromosome (563549 to 564235 bp)


Displaying the first five SNPs out of a total of 80 found in all isolate strains ( View all 80 )
Strain Type Mutation Description Effect Details GBrowse
DNA Protein
Pseudomonas aeruginosa PA7 Transition g.563560C>T
Silent
TTC(Phe) -> TTT(Phe) 		SNP-191635 View
Pseudomonas aeruginosa PA7 Transversion g.563572T>G
Silent
GGT(Gly) -> GGG(Gly) 		SNP-191636 View
Pseudomonas aeruginosa PA7 Transition g.563578C>T
Silent
GAC(Asp) -> GAT(Asp) 		SNP-191637 View
Pseudomonas aeruginosa PA7 Transition g.563602C>T
Silent
ATC(Ile) -> ATT(Ile) 		SNP-191638 View
Pseudomonas aeruginosa PA14 Transversion g.563630A>C p.Ser28Arg
 Missense
AGT(Ser) -> CGT(Arg) 		SNP-130252 View
Select to view SNPs in a specific strain
SNP Map
PubMed The purification and properties of dethiobiotin synthetase.
Krell K, Eisenberg MA.
J Biol Chem. 1970 Dec 25;245(24):6558-66.
PMID: 4921568
Sequence and crystallization of Escherichia coli dethiobiotin synthetase, the penultimate enzyme of biotin biosynthesis.
Alexeev D, Bury SM, Boys CW, Turner MA, Sawyer L, Ramsey AJ, Baxter HC, Baxter RL.
J Mol Biol. 1994 Jan 14;235(2):774-6.
PMID: 8289297
Crystal structure of an ATP-dependent carboxylase, dethiobiotin synthetase, at 1.65 A resolution.
Huang W, Lindqvist Y, Schneider G, Gibson KJ, Flint D, Lorimer G.
Structure. 1994 May 15;2(5):407-14.
PMID: 8081756
Active site mutants of Escherichia coli dethiobiotin synthetase: effects of mutations on enzyme catalytic and structural properties.
Yang G, Sandalova T, Lohman K, Lindqvist Y, Rendina AR.
Biochemistry. 1997 Apr 22;36(16):4751-60.
PMID: 9125495
 


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!

| What's New | FAQs | Cystic Fibrosis | Pseudomonas aeruginosa | Who is Involved? | Annotation Approach | Get Involved | Supplemental Data | Links to More Analyses | Site Map | Acknowledgements | Contact Us |