Pseudomonas Genome Database - Annotation for PA0501

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PA0501

Key to diagram

View in GBrowse:

16 putative orthologs

View metabolic pathways using PseudoCyc

Acknowledgements for this annotation

Overview
Functional Data
Sequence Data
Operons/Regulons
Polymorphisms
References

Gene Information
Strain	Pseudomonas aeruginosa PAO1 (Tax ID: 208964)	Replicon	Chromosome(5651 genes, 6264404 bp) [ RefSeq ]
Gene name	bioF	Alternate Gene Names
Locus tag	PA0501 (View 8 updates) Submit an Update	GenBank Identifier (GI)	15595698 (Precomputed BLAST results at BLINK )
Genomic location	560808 - 562013 (+)	Feature type	CDS
Transposon Mutant Available?	Yes (View in GBrowse)	Pseudomonas Ortholog Group	POG000488
Product Information
Product Name	8-amino-7-oxononanoate synthase (Class 2 )
Alternate Product Names	7-keto-8-amino-pelargonic acid synthetase, 7-KAP synthetase, L-alanine--pimelyl coA ligase
Subcellular localization	Cytoplasmic (Class 3)
Alternate Annotations and Cross-References
TIGR	NTL03PA00502
Systomonas	PA0501
RefSeq	NP_249192.1
GI	15595698
KEGG	PA0501
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

Gene	Product
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

- Located in a cluster with the bioBFHCD genes.

Function Classification / Gene Ontology (GO)

PseudoCAP Function Class

Biosynthesis of cofactors, prosthetic groups and carriers

GO Accession

GO Term

Evidence

Molecular Function

GO:0008710

8-amino-7-oxononanoate synthase activity

IEA

Biological Process

GO:0051188	cofactor biosynthetic process	ISS
GO:0009102	biotin biosynthetic process	IEA

Cellular Component

COG Prediction

Accession	Description	Category
COG0156	BioF, 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism].	Coenzyme metabolism

Pathways

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

2.3.1.47

Homology

BLINK

Precomputed BLAST results at BLINK

Homologs

62% similar to 8-AMINO-7-OXONONANOATE SYNTHASE [Escherichia coli]

Most Similar Human Homolog

ENSP00000248924, Percent Identity: 39.58%, E-Value: 7e-55, Ensembl Release: 56.
Description: 2-amino-3-ketobutyrate coenzyme A ligase, mitochondrial Precursor

Structure Features

PF00222/PS00599: Aminotransferases class-II pyridoxal-phosphate attachment site

PFAM predictions

Accession	Domain	Start	Stop	E-value	Release No.
PF00155	Aminotran_1_2, Aminotransferase class I and II.	42	378	7e-40	23.0
PF01276	OKR_DC_1, Orn/Lys/Arg decarboxylase, major domain.	80	233	2e-06	23.0
PF01041	DegT_DnrJ_EryC1, DegT/DnrJ/EryC1/StrS aminotransferase family.	86	207	1e-05	23.0

Microarray Expression Data

NCBI GEO

Link

Upstream 500 BP Region

CGGAGTCGGTGCCGATCAACATGCTGGTGAAGGTCAAGGGCACGCCCCTGGCGGAAGAGAAGGACGTCGATCCCTTCGACTTCATCCGCACCCTGGCGGT GGCCCGGATCATGATGCCGAAGTCCCACGTGCGCCTGTCCGCCGGCCGCGAGCAGATGAACGAGCAGATGCAGGCGCTGGCCTTCATGGCCGGGGCCAAC TCGATCTTCTACGGCGAAAAGCTGCTGACCACGAAGAACCCGCAGGCCGAAAAGGACATGCAGTTGTTCGCCCGTCTCGGCATCAAGCCGGAAGAGCGCG AAGAGCACGCCGACGAAGTGCACCAGGCCGCCATCGAGCAGGCGTTGGTGGAACAACGCGAATCGAAGCTGTTCTATAACGCCGCTTCCGCCTGACCATA CTGGAAGGGAGGGTGCCGCCGTCCCTTCGTTGCAGCCGCTGATGTCGGCCCTGCGTGGACGGGTGCGCCTGCGTCCGTCCAGCAACACGAGCGACCTGCC

Need more than 500 BP? Try our sequence retrieval tool or view intergenic regions in GBrowse.

DNA Sequence

ATGTCCTTCGATCTCGCTTCCCGCCTCGCCAGCCGGCGCGCGGAAGACCTCTACCGCCAGCGGCCGCTGCTGGAGTCGGCCCAGGGCCCGGACGTCGTGG TCGACGGCCAGCCGCTGCTGGCCTTCTGTTCCAACGACTACCTCGGCCTGGCCAACCATCCCGAGGTGATCGCCGCGCTGCGCGCCGGCGCCGAGCGCTG GGGCGTGGGCGGTGGCGCCTCGCACCTGGTGGTCGGCCACAGCGGCCCGCACCACGAACTGGAGCTGGCCCTCGCCGAATTCACCGGGCGGCCGCGCGCG CTGCTGTTCTCCACCGGCTACATGGCCAATCTCGGCGCGGTGGCCGCGCTGGTCGGCAAGGGCGACACGGTGCTGGAGGACCGCCTCAACCACGCTTCGC TGCTGGATGCCGGATTGCTCTCCGGCGCGCGTTTCTCGCGCTACCTGCACAACGACCCGGCAAGCCTCGCCGCGCGCCTGGACAAGGCCGAGGGCAATAC CCTGGTGGTCACCGACGGGGTCTTCAGCATGGACGGCAATCTCGCCGACCTGCCGGCCCTGGCCGCCGTCGCGCAGGCCCGCGGCGCCTGGCTGATGGTC GACGACGCGCATGGCTTCGGCCCGCTGGGCGCCAGCGGCGGCGGGATCGTCGAACACTTCGGCCTCGGCCAGGAGCAGGTGCCGGTGCTGATCGGCACCC TCGGCAAGGGTTTCGGTACCGCCGGCGCCTTCGTAGCGGGCAGCGAGGAACTGATCGAGACCCTGATCCAGTACGCCCGGCCCTACATCTACACCACCAG CCAGCCGCCAGCGGTGGCCTGCGCCACCCTGAAGAGCCTGGAGCTGCTGCGCCGCGAAAGCTGGCGGCGGCAACACCTGGCGGCGCTGATCGCCCGTTTC CGCCATGGCGCCGAGGCGCTTGGCCTGACCCTGATGGACAGCTTCACGCCGATCCAGCCGATCCTGGTCGGCGGCAGCCGCCAGGCCGTGGCCCTGGCCG GCATGCTTCGAGCCCGTGGCATCATGGTCGGCGCGATCCGCCCGCCAACCGTGCCGGCCAACAGCGCGCGGCTGCGCGTCACGCTGTCCGCCGCGCACAG CGAAGCGCAGGTCGACCGCTTGCTCGAAGCCCTCGGCGAAAGCTGGCGACAGCTGTCGTCTAGCCTTCTGGCAGAGATCGAAGCCGAGGAGGGAGACGAT GCGTGA

Downstream 500 BP region

Click here to view the nucleotide sequence of the region 500 BP downstream of this gene.

Protein Sequence

MSFDLASRLASRRAEDLYRQRPLLESAQGPDVVVDGQPLLAFCSNDYLGLANHPEVIAALRAGAERWGVGGGASHLVVGHSGPHHELELALAEFTGRPRA LLFSTGYMANLGAVAALVGKGDTVLEDRLNHASLLDAGLLSGARFSRYLHNDPASLAARLDKAEGNTLVVTDGVFSMDGNLADLPALAAVAQARGAWLMV DDAHGFGPLGASGGGIVEHFGLGQEQVPVLIGTLGKGFGTAGAFVAGSEELIETLIQYARPYIYTTSQPPAVACATLKSLELLRRESWRRQHLAALIARF RHGAEALGLTLMDSFTPIQPILVGGSRQAVALAGMLRARGIMVGAIRPPTVPANSARLRVTLSAAHSEAQVDRLLEALGESWRQLSSSLLAEIEAEEGDD A

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 PA0501 gene of Pseudomonas aeruginosa PAO1, Chromosome (560808 to 562013 bp)

Displaying the first five SNPs out of a total of 71 found in all isolate strains ( View all 71 )

Strain	Type	Mutation Description		Effect	Details	GBrowse
		DNA	Protein
Pseudomonas aeruginosa PA7	Transition	g.560834C>T		Silent CTC(Leu) -> CTT(Leu)	SNP-191507	View
Pseudomonas aeruginosa PA7	Transition	g.560838A>G	p.Ser11Ala	Missense AGC(Ser) -> GCC(Ala)	SNP-191508	View
Pseudomonas aeruginosa PA7	Transversion	g.560839G>C	p.Ser11Ala	Missense AGC(Ser) -> GCC(Ala)	SNP-191509	View
Pseudomonas aeruginosa PA7	Transition	g.560870G>A		Silent CGG(Arg) -> CGA(Arg)	SNP-191510	View
Pseudomonas aeruginosa PA7	Transversion	g.560880G>C	p.Glu25Gln	Missense GAG(Glu) -> CAG(Gln)	SNP-191511	View

Select to view SNPs in a specific strain

SNP Map

PubMed

The Escherichia coli biotin biosynthetic enzyme sequences predicted from the nucleotide sequence of the bio operon.
Otsuka AJ, Buoncristiani MR, Howard PK, Flamm J, Johnson C, Yamamoto R, Uchida K, Cook C, Ruppert J, Matsuzaki J.
J Biol Chem. 1988 Dec 25;263(36):19577-85.
PMID: 3058702
Characterisation of 8-amino-7-oxononanoate synthase: a bacterial PLP-dependent, acyl CoA condensing enzyme.
Webster SP, Campopiano DJ, Alexeev D, Alexeeva M, Watt RM, Sawyer L, Baxter RL.
Biochem Soc Trans. 1998 Aug;26(3):S268.
PMID: 9765987
The crystal structure of 8-amino-7-oxononanoate synthase: a bacterial PLP-dependent, acyl-CoA-condensing enzyme.
Alexeev D, Alexeeva M, Baxter RL, Campopiano DJ, Webster SP, Sawyer L.
J Mol Biol. 1998 Nov 27;284(2):401-19.
PMID: 9813126