4GAZ

Crystal Structure of a Jumonji Domain-containing Protein JMJD5


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.81 Å
  • R-Value Free: 0.274 
  • R-Value Work: 0.221 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Crystal Structure of a Jumonji Domain-containing Protein JMJD5

Wang, H.Zhou, X.Zhang, X.Tao, Y.Chen, N.Zang, J.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Lysine-specific demethylase 8
A, B
252Homo sapiensMutation(s): 0 
Gene Names: KDM8 (JMJD5)
EC: 1.14.11.27, 3.4.-.-
Find proteins for Q8N371 (Homo sapiens)
Go to Gene View: KDM8
Go to UniProtKB:  Q8N371
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
OGA
Query on OGA

Download SDF File 
Download CCD File 
A, B
N-OXALYLGLYCINE
C4 H5 N O5
BIMZLRFONYSTPT-UHFFFAOYSA-N
 Ligand Interaction
NI
Query on NI

Download SDF File 
Download CCD File 
A, B
NICKEL (II) ION
Ni
VEQPNABPJHWNSG-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.81 Å
  • R-Value Free: 0.274 
  • R-Value Work: 0.221 
  • Space Group: P 32 2 1
Unit Cell:
Length (Å)Angle (°)
a = 69.431α = 90.00
b = 69.431β = 90.00
c = 270.052γ = 120.00
Software Package:
Software NamePurpose
HKL-2000data scaling
PHENIXmodel building
Blu-Icedata collection
HKL-2000data reduction
PHENIXphasing
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2013-08-14
    Type: Initial release