Pseudomonas aeruginosa PAO1, PA0958 (oprD)

Cytoplasmic
Cytoplasmic Membrane
Periplasmic
Outer Membrane
Extracellular
Unknown
View in JBrowse View in GBrowse PseudoCyc / Metabolic Pathways

Gene Feature Overview

Strain Pseudomonas aeruginosa PAO1 (Reference)
GCF_000006765.1|latest
Locus Tag
PA0958
Name
oprD
Replicon chromosome
Genomic location 1043983 - 1045314 (- strand)
Transposon Mutants 4 transposon mutants in PAO1
Transposon Mutants in orthologs 7 transposon mutants in orthologs
CommentLocalication to outer membrane vesicle confirmed in three separate studies (PMID:22909304, PMID:21751344 and PMID:26303878).

Cross-References

RefSeq NP_249649.1
GI 15596155
Affymetrix PA0958_oprD_at
Entrez 881970
GenBank AAG04347.1
INSDC AAG04347.1
NCBI Locus Tag PA0958
protein_id(GenBank) gb|AAG04347.1|AE004529_13|gnl|PseudoCAP|PA0958
TIGR NTL03PA00959
UniParc UPI0000131F72
UniProtKB Acc P32722
UniProtKB ID PORD_PSEAE
UniRef100 UniRef100_P32722
UniRef50 UniRef50_P32722
UniRef90 UniRef90_P32722

Product

Feature Type CDS
Coding Frame 1
Product Name
Basic amino acid, basic peptide and imipenem outer membrane porin OprD precursor
Product Name Confidence: Class 1
Synonyms Porin D
Protein D2
Evidence for Translation
Detected by MALDI-TOF/TOF (PMID:19333994).
Identified using nanoflow high-pressure liquid chromatography (HPLC) in conjunction with microelectrospray ionization on LTQ XL mass spectrometer (PMID:24291602).
Detected using 2-DE, MALDI-TOF/MS analysis (47.98 kDa, pI 4.9, PMID:16335974)
Detected using LC-MS/MS (48.36 kDa, PMID:21751344)
Charge (pH 7) -12.55
Kyte-Doolittle Hydrophobicity Value -0.466
Molecular Weight (kDa) 48.4
Isoelectric Point (pI) 4.75

Subcellular localization

Individual Mappings
Localization Confidence PMID
Outer Membrane Class 3
Outer Membrane Vesicle Class 1
Outer Membrane Class 1
Additional evidence for subcellular localization
Detected in sarcosine-insoluble outer membrane fraction using 2-DE, MALDI-TOF/MS analysis (PMID:16335974)

PDB 3D Structures

Accession Header Accession Date Compound Source Resolution Method Percent Identity
4FOZ PROTEIN TRANSPORT 06/21/12 Crystal Structure of OccD1 (OprD) Y282R/D307H PSEUDOMONAS AERUGINOSA 2.4 X-RAY DIFFRACTION 99.3
3SY7 MEMBRANE PROTEIN 07/15/11 Improved crystal structure of Pseudomonas aeruginosa OprD PSEUDOMONAS AERUGINOSA 2.15 X-RAY DIFFRACTION 99.8
2ODJ MEMBRANE PROTEIN 12/22/06 Crystal structure of the outer membrane protein OprD from Pseudomonas aeruginosa PSEUDOMONAS AERUGINOSA 2.9 X-RAY DIFFRACTION 100.0

Drugs Targeting this Protein

Identified by Diamond using e-value cutoff of 0.0001 and returning alignments that span 100% of the query sequence and that have more than 95% identity.

Drug Name Source Accession Source DB Version Target Accession Target Description Percent Identity Alignment Length E-Value
(Hydroxyethyloxy)Tri(Ethyloxy)Octane DB04233 DrugBank 5.1.4 P32722 Porin D 100.0 443 6.2e-259

Pathogen Association Analysis

Results
Common
Found in both pathogen and nonpathogenic strains
Hits to this gene were found in 16 genera

Orthologs/Comparative Genomics

Pseudomonas Ortholog Database View orthologs at Pseudomonas Ortholog Database
Pseudomonas Ortholog Group POG000187 (1618 members)
Putative Inparalogs None Found

Interactions

STRING database Search for predicted protein-protein interactions using:
Search term: PA0958
Search term: oprD

Human Homologs

References

Identification of porins in the outer membrane of Pseudomonas aeruginosa that form small diffusion pores.
Yoshihara E, Nakae T
J Biol Chem 1989 Apr 15;264(11):6297-301
PubMed ID: 2539376
Proteomic analysis of the sarcosine-insoluble outer membrane fraction of Pseudomonas aeruginosa responding to ampicilin, kanamycin, and tetracycline resistance.
Peng X, Xu C, Ren H, Lin X, Wu L, Wang S
J Proteome Res 2005 Nov-Dec;4(6):2257-65
PubMed ID: 16335974
Protein D2 channel of the Pseudomonas aeruginosa outer membrane has a binding site for basic amino acids and peptides.
Trias J, Nikaido H
J Biol Chem 1990 Sep 15;265(26):15680-4
PubMed ID: 2118530
Nucleotide sequence of the protein D2 gene of Pseudomonas aeruginosa.
Yoneyama H, Yoshihara E, Nakae T
Antimicrob Agents Chemother 1992 Aug;36(8):1791-3
PubMed ID: 1339257
Analysis of the periplasmic proteome of Pseudomonas aeruginosa, a metabolically versatile opportunistic pathogen.
Imperi F, Ciccosanti F, Perdomo AB, Tiburzi F, Mancone C, Alonzi T, Ascenzi P, Piacentini M, Visca P, Fimia GM
Proteomics 2009 Apr;9(7):1901-15
PubMed ID: 19333994
Proteomic analysis of the sarcosine-insoluble outer membrane fraction of Pseudomonas aeruginosa responding to ampicilin, kanamycin, and tetracycline resistance.
Peng X, Xu C, Ren H, Lin X, Wu L, Wang S
J Proteome Res 2005 Nov-Dec;4(6):2257-65
PubMed ID: 16335974
Proteomic analysis of outer membrane vesicles derived from Pseudomonas aeruginosa.
Choi DS, Kim DK, Choi SJ, Lee J, Choi JP, Rho S, Park SH, Kim YK, Hwang D, Gho YS
Proteomics 2011 Aug;11(16):3424-9
PubMed ID: 21751344
Identification of proteins associated with the Pseudomonas aeruginosa biofilm extracellular matrix.
Toyofuku M, Roschitzki B, Riedel K, Eberl L
J Proteome Res 2012 Oct 5;11(10):4906-15
PubMed ID: 22909304
Proteome Profiles of Outer Membrane Vesicles and Extracellular Matrix of Pseudomonas aeruginosa Biofilms.
Couto N, Schooling SR, Dutcher JR, Barber J
J Proteome Res 2015 Oct 2;14(10):4207-22
PubMed ID: 26303878