3SYS

Improved crystal structure of Pseudomonas aeruginosa OccK1 (OpdK)

Structural Biology Knowledgebase: 3SYS SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.65 Å
  • R-Value Free: 0.201
  • R-Value Work: 0.181

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3SYS

Classification: MEMBRANE PROTEIN

Total Structure Weight: 97677.55

Macromolecule Entities
Molecule Chains Length Organism Details
Vanillate porin OpdK A, B 398 Pseudomonas aeruginosa Fragment: unp residues 28-417
Gene Name(s): opdK PA4898
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Membrane Protein

Source: mpstruc | Group: BETA-BARREL

Subgroup Name: Outer Membrane Carboxylate Channels (Occ)

Protein Name: OccK1 (OpdK) benzoate channel


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

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

A, B 4-HYDROXY-3-METHOXYBENZOATE
vanillate (Synonym)
C8 H7 O4
WKOLLVMJNQIZCI-UHFFFAOYSA-M
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
EDO
Query on EDO

A, B 1,2-ETHANEDIOL
ETHYLENE GLYCOL (Synonym)
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.65 Å
  • R-Value Free: 0.201
  • R-Value Work: 0.181
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 82.14 α = 90.00
b = 96.84 β = 90.00
c = 121.56 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2011-07-18
  • Released Date: 2012-02-08
  • Deposition author(s): van den Berg, B., Eren, E.

Revision History

No revisions since initial release