4BBQ

Crystal structure of the CXXC and PHD domain of Human Lysine-specific Demethylase 2A (KDM2A)(FBXL11)

Structural Biology Knowledgebase: 4BBQ SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.24 Å
  • R-Value Free: 0.221
  • R-Value Work: 0.197

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4BBQ

Classification: OXIDOREDUCTASE

Total Structure Weight: 27224.11

Macromolecule Entities
Molecule Chains Length Organism Details
LYSINE-SPECIFIC DEMETHYLASE 2A A, B 117 Homo sapiens EC#: 1.14.11.27 IUBMB
Fragment: CXXC AND PHD DOMAIN, RESIDUES 567-681
Gene Name(s): KDM2A Gene View CXXC8 FBL7 FBXL11 JHDM1A KIAA1004

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

A, B ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
EDO
Query on EDO

A 1,2-ETHANEDIOL
ETHYLENE GLYCOL (Synonym)
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.24 Å
  • R-Value Free: 0.221
  • R-Value Work: 0.197
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 49.02 α = 90.00
b = 30.05 β = 91.66
c = 90.82 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-09-27
  • Released Date: 2012-10-10
  • Deposition author(s): Allerston, C.K., Watson, A.A., Edlich, C., Li, B., Chen, Y., Ball, L., Krojer, T., Arrowsmith, C.H., Edwards, A., Bountra, C., Von Delft, F., Laue, E.D., Gileadi, O.

Revision History

No revisions since initial release