4GBJ

Crystal structure of NAD-binding 6-phosphogluconate dehydrogenase from Dyadobacter fermentans


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.05 Å
  • R-Value Free: 0.197 
  • R-Value Work: 0.160 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Crystal structure of NAD-binding 6-phosphogluconate dehydrogenase from Dyadobacter fermentans

Michalska, K.Holowicki, J.Clancy, S.Joachimiak, A.Midwest Center for Structural Genomics (MCSG)

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
6-phosphogluconate dehydrogenase NAD-binding
A, B, C, D
297Dyadobacter fermentans (strain ATCC 700827 / DSM 18053 / NS114)Mutation(s): 0 
Find proteins for C6VV20 (Dyadobacter fermentans (strain ATCC 700827 / DSM 18053 / NS114))
Go to UniProtKB:  C6VV20
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NA
Query on NA

Download SDF File 
Download CCD File 
B, C, D
SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MSE
Query on MSE
A, B, C, D
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

Unit Cell:
Length (Å)Angle (°)
a = 79.633α = 90.00
b = 89.645β = 90.00
c = 151.506γ = 90.00
Software Package:
Software NamePurpose
BUCCANEERmodel building
SBC-Collectdata collection
DMmodel building
HKL-3000data scaling
DMphasing
SHELXmodel building
Cootmodel building
MLPHAREphasing
BUCCANEERphasing
BUSTERrefinement
HKL-3000data reduction
SHELXphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2012-09-05
    Type: Initial release