Pseudomonas Genome Database - Annotation for PA1054

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PA1054

Key to diagram

View in GBrowse:

15 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		Alternate Gene Names	phaA
Locus tag	PA1054 (View 8 updates) Submit an Update	GenBank Identifier (GI)	15596251 (Precomputed BLAST results at BLINK )
Genomic location	1142061 - 1144862 (+)	Feature type	CDS
Transposon Mutant Available?	Yes (View in GBrowse)	Pseudomonas Ortholog Group	POG001016
Product Information
Product Name	probable NADH dehydrogenase (Class 3 )
Alternate Product Names
Subcellular localization	Cytoplasmic Membrane (Class 3)
Alternate Annotations and Cross-References
TIGR	NTL03PA01055
Systomonas	PA1054
RefSeq	NP_249745.1
GI	15596251
KEGG	PA1054
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
PA1054	probable NADH dehydrogenase
PA1055	conserved hypothetical protein
PA1056	probable NADH dehydrogenase
PA1057	conserved hypothetical protein
PA1058	conserved hypothetical protein
PA1059	conserved hypothetical protein

Evidence

Computationally Predicted

PubMed

18988623

Cross-Reference

DOOR-13331

Genomic Context

Genomic context

- This is in a cluster of genes homologous to the phaABCDEFG locus of Rhizobium meliloti.

Function Classification / Gene Ontology (GO)

PseudoCAP Function Class

Membrane proteins
Putative enzymes

GO Accession

GO Term

Evidence

Molecular Function

GO:0005451

monovalent cation:proton antiporter activity

IEA

Biological Process

GO:0015672	monovalent inorganic cation transport	IEA
GO:0015992	proton transport	IEA

Cellular Component

COG Prediction

Accession	Description	Category
COG1009	NuoL, NADH:ubiquinone oxidoreductase subunit 5 (chain L)/Multisubunit Na+/H+ antiporter, MnhA subunit [Energy production and conversion / Inorganic ion transport and metabolism].	Energy production and conversion / Inorganic ion transport and metabolism

Homology

BLINK

Precomputed BLAST results at BLINK

Homologs

69% similar to phaA [Sinorhizobium meliloti]
61% similar to NADH-quinone oxidoreductase chain 5 [Rhodobacter capsulatus]
50% similar to NdhF NADH dehydrogenase subunit 5 [Synechococcus sp.]

Structure Features

23 predicted transmembrane helices
PF00361: NADH-Ubiquinone/plastoquinone (complex I), various chains
25 predicted transmembrane helices (TMHMM v.2.0)

PFAM predictions

Accession	Domain	Start	Stop	E-value	Release No.
PF00361	Oxidored_q1, NADH-Ubiquinone/plastoquinone (complex I), various chains.	126	395	4e-47	23.0
PF04039	MnhB, Domain related to MnhB subunit of Na+/H+ antiporter.	787	914	9e-22	23.0

Microarray Expression Data

NCBI GEO

Link

Upstream 500 BP Region

CGCGGCTACCGAAGAAGGCCTGACGCGCACCCAGGGCGTCGAGATCACCGTGCGCGAAGACGACGGCAGCACCCGCGCCTATGTCCAGCAGGTCGACCAG GGCCAGATCTTCCGCGTCGGCGAGCGCGTGCGCATCCTGACCGTCAACGGCACCAGCCGCGTCGCCCACTGATTCTTCCCACGTTATCCCGCGGCCGGCA TTTCGCCGGCCGTTTTCGTTGTAGCGCCGAACCACTGCCGGCGTTGTCTTGCTAAGCTTCAAGTCGTTGCCGTTGCAGAGTTTTTTTCGGCTTTCCGGCA GTCGGAACGCCTGAATTTTGTAATAATTCAATCCATGACGTTCGTTCGATAGATTGCGATAATCGTAGTTCCGTCGCGCCGCGCCTGCCGGTGGCCGATG GGGCTTCGAGCTGCTGGCGATCCGGCCGCGCACCGACAACCGCGGGGAAGCACCGCCGGCCAGGCATGCCGGGGGCTCCGCCATCGAAGAGGAGTAGCCC

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

DNA Sequence

ATGATTCTGGCGCTGATCATCGCGCTGCCGTTCATGGGGGCGTTGTTGCCCCTGCTTGCCGAGCGTGGCGGCCGCACCTTGTGCGCGGCGTCCGCCGGCG TGGCGCCGCTGATCGGCCTGATCCTGTTGCTCGGGCAGCGCGGCACGGTGTTCGCCGGGCAGACCCTGACCGCCAGCTATTCCTGGCTGCCGGAAATCGG CATCAACCTCAGCCTGCGCCTGGACGGCCTCGGTTTCCTCTTCGCTCTGCTGATCCTCGGCATCGGCCTGCTGGTGATTCTCTACGCCCGCTACTACCTC TCCGAACAGGAGCCGATGGGGCGTTTCTTCGCTTTCCTGCTGCTGTTCATGGGCTCCATGCTCGGCGTGGTGCTCGCGGAAAATCTCTTGCTGATGATGC TCTTCTGGGAGCTGACCAGCCTGTCCTCGTTCCTGCTCATCGGCTTCTGGGGCAGCCGTTCCGACGCCCGCAAGGGTGCGAGGATGGCCCTGACCGTTAC CGGAGGGGGCGGCCTGGCGCTGCTGGCCGGGGTGCTGCTGCTCGGCCACATCGCCGGCAGCTTCGAACTCACCGAGGTCCTCGCGGCTGGCGAGCTGATC CGCGCCCACGCCCTGTATCCGCTGGTGCTGATACTGATCCTGCTCGGCGTGTTCACCAAGTCGGCGCAGTTTCCCTTCCATTTCTGGCTGCCCCACGCGA TGGCGGCGCCGACCCCGGTTTCCGCGTACCTGCACTCGGCGACCATGGTCAAGGCCGGCGTATTCCTGCTGGCCCGGCTGTATCCGGCGCTGGCCGGCAC CGAGTGGTTCTTCTACCTGGTCAGCCTGAGCGGCCTGGTGACGCTGTTGCTGGGGGCCGGCATGGCACTGTTCCAGCATGACCTGAAGGGGCTGCTGGCC TACTCGACGATCAGCCACCTGGGCCTGATCACCCTGCTGTTCGGCCTCGACTCCCCGCTGTCGAACGTCGCCGCGGTGTTCCACATCATCAACCACGCGA CCTTCAAGGCCTCGCTGTTCATGGCCGCCGGGATCATCGACCACGAGACCGGCAGCCGCGACATGCGCCTGATCAACGGGATGTGGAAGTACCTGCCGCA TACCGCGGTGCTGGCCATCGTCGCCTCCCTGGCGATGGCCGGGGTGCCGCTGCTGAACGGCTTCCTCAGCAAGGAGATGTTCTTCGGCGAAACCCTCAGC CAGAACCTGCTGGGCAGCTTCAACTGGCTGGTGCCGGCGGTGGCGACCCTGGCCGGCGTGTTCTCGGTGGCCTATTCGCTGCGTTTCATCCACGACGTGT TCTTCAACGGCGAGCCGGCCCGGTTGCCGAAGTTCCCGCCCCACGAGCCGCCGCGCTACATGAAGGTACCGGTGGAGATCCTGGTGTTCCTCTGCCTGTT GGTCGGCATGCTGCCGGCCTACACCGTGGCGCCGCTGCTGGCCGCCGCCGCCAGTGCCAGCCTTGGCGGGCAACTGCCGGAATACAGCCTGGCGATCTGG CACGGTTTCAACCTGCCATTGCTGATGAGCGTGGTGGCGCTGGTTGGCGGTGTGCTGGTCTATGTCCTGCGCAAGCCGCTGTTCAACTGGTACGCCGGGT TACCGGAGGTGGACGCCAAGCTGGTCTTCGAGCAGCAGGTGCAACGTGTGGTGGCCCTGGCCGCGCGCCTGACCGCCTGGCTGGAGAACGGGTCGCTGCA GCGCTACCTGGCCTGGCTGCTGGGCGCGGCGCTGGTCGTGGTGGCGGTCGAGCTGGCACCGCTGGCGAGGCTGACCGGCTCGCGCGGGCTGACCCCGCTG GACGGTATCACCGCCCTGGGCATGCTGGTGCTGGCCTTCAGCGGCCTGGCCACGGCGCTGTTCCATCGTATGCGCCTGGTCGCGCTATTGATCCTCAGCG TCGCCGGCCTGCTGGTGGCCCTGGCCTTCGCTCGCTTCTCGGCCCCGGACCTGGCGCTGACCCAGTTGTCGGTGGAAGTGGTGACCATGGTCCTGCTGAT GCTGGCGCTGTATTTCCTGCCCTCGCGCACTCCGGCGGAGTCCTCCAGCCTGCGCGGCTTGCGCGACGTGGCGCTGGCCGGCGGGGTCGGCATGCTGGTG GCGCTGCTGGCCTACGCGGTGCTGACCCGGCCCTACGAGAGCATCGCCGGATTCTTCGTCGAGAACAGCGTCTCCGGGGGCGGCGGCTACAACGTGGTCA ACGTCATCCTGGTGGACTTCCGTGGTTTCGATACCCTCGGCGAGATCAGCGTGCTGGCGATCGCCGGTGTCGGCATCTACGCGATGCTCGCCGGTTTCGC CCTGCACAAGCCGACCTGCGACCCGCAGGGTCGCAACTGGGCCCACGCCAAGCACCCGCTGATCCTGGAAACCCTGTCGCGGGTGCTGCTGCCGCTGGCG TTGCTGATCTCGGTGTTCATCTTCCTGCGCGGCCACAACCTGCCGGGCGGAGGTTTCATCGCCGGCCTGGTGACTGCCATCGCCCTGGTGCTGCAGTACA TCGCCAGCGGCTCGCAGTGGGTCGAGCAGCGCCTACCGCTGAACTATGCGGCCATGGCTGGCGCCGGAGTGCTGATCGCCGGGCTCACCGGGCTCGGCAG CTGGCTGTTCGGCTATCCGTTCCTGACTTCCGCGTTCGGCCACTTCGAGTTGCCGCTGATCGGCGAGATCGAGCTGGCCACGGCGATGCTGTTCGACCTC GGCGTGTACCTCACCGTGGTCGGTGCCGCGCTGCTGATCCTGTCCTACCTCGGCAAGCTCAGCCTGATGCCTGAACCCGTCGCACAAGAGGAGGCGCTCT GA

Downstream 500 BP region

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

Protein Sequence

MILALIIALPFMGALLPLLAERGGRTLCAASAGVAPLIGLILLLGQRGTVFAGQTLTASYSWLPEIGINLSLRLDGLGFLFALLILGIGLLVILYARYYL SEQEPMGRFFAFLLLFMGSMLGVVLAENLLLMMLFWELTSLSSFLLIGFWGSRSDARKGARMALTVTGGGGLALLAGVLLLGHIAGSFELTEVLAAGELI RAHALYPLVLILILLGVFTKSAQFPFHFWLPHAMAAPTPVSAYLHSATMVKAGVFLLARLYPALAGTEWFFYLVSLSGLVTLLLGAGMALFQHDLKGLLA YSTISHLGLITLLFGLDSPLSNVAAVFHIINHATFKASLFMAAGIIDHETGSRDMRLINGMWKYLPHTAVLAIVASLAMAGVPLLNGFLSKEMFFGETLS QNLLGSFNWLVPAVATLAGVFSVAYSLRFIHDVFFNGEPARLPKFPPHEPPRYMKVPVEILVFLCLLVGMLPAYTVAPLLAAAASASLGGQLPEYSLAIW HGFNLPLLMSVVALVGGVLVYVLRKPLFNWYAGLPEVDAKLVFEQQVQRVVALAARLTAWLENGSLQRYLAWLLGAALVVVAVELAPLARLTGSRGLTPL DGITALGMLVLAFSGLATALFHRMRLVALLILSVAGLLVALAFARFSAPDLALTQLSVEVVTMVLLMLALYFLPSRTPAESSSLRGLRDVALAGGVGMLV ALLAYAVLTRPYESIAGFFVENSVSGGGGYNVVNVILVDFRGFDTLGEISVLAIAGVGIYAMLAGFALHKPTCDPQGRNWAHAKHPLILETLSRVLLPLA LLISVFIFLRGHNLPGGGFIAGLVTAIALVLQYIASGSQWVEQRLPLNYAAMAGAGVLIAGLTGLGSWLFGYPFLTSAFGHFELPLIGEIELATAMLFDL GVYLTVVGAALLILSYLGKLSLMPEPVAQEEAL

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 PA1054 gene of Pseudomonas aeruginosa PAO1, Chromosome (1142061 to 1144862 bp)

Displaying the first five SNPs out of a total of 271 found in all isolate strains ( View all 271 )

Strain	Type	Mutation Description		Effect	Details	GBrowse
		DNA	Protein
Pseudomonas aeruginosa PA7	Transition	g.1142087G>A		Silent CTG(Leu) -> CTA(Leu)	SNP-417512	View
Pseudomonas aeruginosa PA7	Transversion	g.1142094A>C	p.Met12Leu	Missense ATG(Met) -> CTG(Leu)	SNP-417513	View
Pseudomonas aeruginosa PA7	Transition	g.1142103T>C		Silent TTG(Leu) -> CTG(Leu)	SNP-417514	View
Pseudomonas aeruginosa PA7	Transition	g.1142106T>C		Silent TTG(Leu) -> CTG(Leu)	SNP-417515	View
Pseudomonas aeruginosa PA14	Transition	g.1142117T>C		Silent CTT(Leu) -> CTC(Leu)	SNP-137195	View

Select to view SNPs in a specific strain

SNP Map

PubMed

Genome-wide identification of Pseudomonas aeruginosa exported proteins using a consensus computational strategy combined with a laboratory-based PhoA fusion screen.
Lewenza S, Gardy JL, Brinkman FS, Hancock RE.
Genome Res. 2005 Feb;15(2):321-9.
PMID: 15687295
The pha gene cluster of Rhizobium meliloti involved in pH adaptation and symbiosis encodes a novel type of K+ efflux system.
Putnoky P, Kereszt A, Nakamura T, Endre G, Grosskopf E, Kiss P, Kondorosi A.
Mol Microbiol. 1998 Jun;28(6):1091-101.
PMID: 9680201