4NRP

Crystal structure of human ALKBH5 in complex with N-oxalylglycine

Structural Biology Knowledgebase: 4NRP SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.218
  • R-Value Work: 0.196

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4NRP

Classification: OXIDOREDUCTASE

Total Structure Weight: 26587.34

Macromolecule Entities
Molecule Chains Length Organism Details
RNA demethylase ALKBH5 A 230 Homo sapiens EC#: 1.14.11 IUBMB
Fragment: UNP RESIDUES 66-292
Gene Name(s): ALKBH5 Gene View ABH5 OFOXD1
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A N-OXALYLGLYCINE
C4 H5 N O5
BIMZLRFONYSTPT-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MN
Query on MN

A MANGANESE (II) ION
Mn
WAEMQWOKJMHJLA-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.218
  • R-Value Work: 0.196
  • Space Group: P 43 21 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 56.56 α = 90.00
b = 56.56 β = 90.00
c = 143.87 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2013-11-27
  • Released Date: 2014-03-19
  • Deposition author(s): Feng, C., Chen, Z., Liu, Y.

Revision History

  • 2015-10-21
    Type: Citation | Details: Citation update