1KEK

Crystal Structure of the Free Radical Intermediate of Pyruvate:Ferredoxin Oxidoreductase

Structural Biology Knowledgebase: 1KEK SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.227
  • R-Value Work: 0.178

Literature

Macromolecules
Sequence Display for 1KEK

Classification: OXIDOREDUCTASE

Total Structure Weight: 270670.91

Macromolecule Entities
Molecule Chains Length Organism Details
Pyruvate-Ferredoxin Oxidoreductase A, B 1231 Desulfovibrio africanus EC#: 1.2.7.1 IUBMB
Gene Name(s): por
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 5 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
HTL
Query on HTL

A, B 2-ACETYL-THIAMINE DIPHOSPHATE
6, (Synonym)
C14 H21 N4 O8 P2 S
GYRGKLZCJRVYRV-UHFFFAOYSA-O
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SF4
Query on SF4

A, B IRON/SULFUR CLUSTER
Fe4 S4
LJBDFODJNLIPKO-VKOJMFJBAC
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CO2
Query on CO2

A, B CARBON DIOXIDE
C O2
CURLTUGMZLYLDI-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CA
Query on CA

A, B CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A, B MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.227
  • R-Value Work: 0.178
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 86.11 α = 90.00
b = 145.76 β = 90.00
c = 210.26 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2001-11-16
  • Released Date: 2001-12-21
  • Deposition author(s): Chabriere, E., Vernede, X., Guigliarelli, B., Charon, M.-H., Hatchikian, E.C., Fontecilla-Camps, J.C.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4