2ZYD

Dimeric 6-phosphogluconate dehydrogenase complexed with glucose

Structural Biology Knowledgebase: 2ZYD SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.191
  • R-Value Work: 0.165

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 2ZYD

Classification: OXIDOREDUCTASE

Total Structure Weight: 106266.78

Macromolecule Entities
Molecule Chains Length Organism Details
6-phosphogluconate dehydrogenase, decarboxylating A, B 480 Escherichia coli EC#: 1.1.1.44 IUBMB
Mutation: Y378C
Gene Name(s): gnd b2029 JW2011
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
GLO
Query on GLO

A D-GLUCOSE IN LINEAR FORM
C6 H12 O6
GZCGUPFRVQAUEE-SLPGGIOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.191
  • R-Value Work: 0.165
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 68.45 α = 90.00
b = 118.61 β = 90.00
c = 120.00 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2009-01-19
  • Released Date: 2009-09-01
  • Deposition author(s): Chen, Y.-Y., Ko, T.-P., Lo, L.-P., Lin, C.-H., Wang, A.H.-J.

Revision History

  • 2014-01-22
    Type: Citation | Details: Citation update
  • 2011-07-13
    Type: Source and taxonomy | Details: Removed strain from scientific name
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4