2ODJ image
Deposition Date 2006-12-22
Release Date 2007-10-16
Last Version Date 2024-10-30
Entry Detail
PDB ID:
2ODJ
Keywords:
MEMBRANE PROTEIN
Title:
Crystal structure of the outer membrane protein OprD from Pseudomonas aeruginosa
Biological Source:
Source Organism:
Pseudomonas aeruginosa (Taxon ID: 208964)
Host Organism:
Escherichia coli
Method Details:
Experimental Method:
X-RAY DIFFRACTION
Resolution:
2.90 Å
R-Value Free:
0.31
R-Value Work:
0.24
R-Value Observed:
0.24
Space Group:
C 1 2 1
2ODJ validation report
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Porin D
Gene (Uniprot):oprD
Chain IDs:A, B
Chain Length:428
Number of Molecules:2
Biological Source:Pseudomonas aeruginosa
UniProt ID:P32722 Pfam ID:PF03573
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
MSE A MET SELENOMETHIONINE
Ligand Molecules
C8E
Primary Citation
Structural insight into OprD substrate specificity.
Nat.Struct.Mol.Biol. 14 1108 1109 (2007)
PMID: 17952093 DOI: 10.1038/nsmb1304

Abstact

OprD proteins form a large family of substrate-specific outer-membrane channels in Gram-negative bacteria. We report here the X-ray crystal structure of OprD from Pseudomonas aeruginosa, which reveals a monomeric 18-stranded beta-barrel characterized by a very narrow pore constriction, with a positively charged basic ladder on one side and an electronegative pocket on the other side. The location of highly conserved residues in OprD suggests that the structure represents the general architecture of OprD channels.

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Disease

Primary Citation of related structures
2ODJ