5FZO

Crystal structure of the catalytic domain of human JmjD1C


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.84 Å
  • R-Value Free: 0.231 
  • R-Value Work: 0.193 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Crystal Structure of the Catalytic Domain of Human Jmjd1C

Nowak, R.Goubin, S.Mcdonough, M.Fairhead, M.Oppermann, U.Johansson, C.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
PROBABLE JMJC DOMAIN-CONTAINING HISTONE DEMETHYLATION PROT EIN 2C
A
352Homo sapiensMutation(s): 0 
Gene Names: JMJD1C (JHDM2C, KIAA1380, TRIP8)
EC: 1.14.11.-
Find proteins for Q15652 (Homo sapiens)
Go to Gene View: JMJD1C
Go to UniProtKB:  Q15652
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
PROBABLE JMJC DOMAIN-CONTAINING HISTONE DEMETHYLATION PROT EIN 2C
B
352Homo sapiensMutation(s): 0 
Gene Names: JMJD1C (JHDM2C, KIAA1380, TRIP8)
EC: 1.14.11.-
Find proteins for Q15652 (Homo sapiens)
Go to Gene View: JMJD1C
Go to UniProtKB:  Q15652
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MN
Query on MN

Download SDF File 
Download CCD File 
A, B
MANGANESE (II) ION
Mn
WAEMQWOKJMHJLA-UHFFFAOYSA-N
 Ligand Interaction
CL
Query on CL

Download SDF File 
Download CCD File 
A, B
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 Ligand Interaction
EDO
Query on EDO

Download SDF File 
Download CCD File 
B
1,2-ETHANEDIOL
ETHYLENE GLYCOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
CSD
Query on CSD
A, B
L-PEPTIDE LINKINGC3 H7 N O4 SCYS
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.84 Å
  • R-Value Free: 0.231 
  • R-Value Work: 0.193 
  • Space Group: P 2 21 21
Unit Cell:
Length (Å)Angle (°)
a = 45.320α = 90.00
b = 110.920β = 90.00
c = 165.310γ = 90.00
Software Package:
Software NamePurpose
DIMPLEphasing
SCALAdata scaling
PHENIXrefinement
XDSdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2016-03-30
    Type: Initial release
  • Version 1.1: 2016-04-06
    Type: Structure summary