1Q39

Crystal structure of the DNA repair enzyme endonuclease-VIII (Nei) from E. coli: The WT enzyme at 2.8 resolution.


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.299
  • R-Value Work: 0.216

Literature

Macromolecules
Sequence Display for 1Q39

Classification: HYDROLASE

Total Structure Weight: 30000.64

Macromolecule Entities
Molecule Chains Length Organism Details
Endonuclease VIII A 262 Escherichia coli EC#: 3.2.2 IUBMB
Mutation: P34T, T112R
Gene Name(s): nei b0714 JW0704
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CA
Query on CA

A CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.299
  • R-Value Work: 0.216
  • Space Group: I 2 2 2

Unit Cell:

Length (Å) Angle (°)
a = 57.72 α = 90.00
b = 79.58 β = 90.00
c = 169.65 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-07-29
  • Released Date: 2004-08-03
  • Deposition author(s): Golan, G., Zharkov, D.O., Feinberg, H., Fernandes, A.S., Zaika, E.I., Kycia, J.H., Grollman, A.P., Shoham, G.

Revision History

  • 2008-04-29
    Type: Version format compliance
  • 2011-07-13
    Type: Derived calculations, Version format compliance