3SYB

Crystal structure of Pseudomonas aeruginosa OccD3 (OpdP)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.267
  • R-Value Work: 0.214

Literature

Macromolecules
Sequence Display for 3SYB

Classification: MEMBRANE PROTEIN

Total Structure Weight: 52568.74

Macromolecule Entities
Molecule Chains Length Organism Details
Glycine-glutamate dipeptide porin OpdP A 467 Pseudomonas aeruginosa Fragment: unp residues 26-484
Gene Name(s): opdP PA4501
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Membrane Protein

Source: mpstruc | Group: BETA-BARREL

Subgroup Name: Outer Membrane Carboxylate Channels (Occ)

Protein Name: OccD3 (OpdP) basic amino acid uptake channel


Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
C8E
Query on C8E

A (HYDROXYETHYLOXY)TRI(ETHYLOXY)OCTANE
C16 H34 O5
FEOZZFHAVXYAMB-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.267
  • R-Value Work: 0.214
  • Space Group: C 2 2 21

Unit Cell:

Length (Å) Angle (°)
a = 99.93 α = 90.00
b = 159.83 β = 90.00
c = 82.06 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2011-07-16
  • Released Date: 2012-02-08
  • Deposition author(s): van den Berg, B., Eren, E.

Revision History

  • Version 1_0: 2012-02-08

    Type: Initial release