4HSU

Crystal structure of LSD2-NPAC with H3(1-26)in space group P21

Structural Biology Knowledgebase: 4HSU SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.99 Å
  • R-Value Free: 0.232
  • R-Value Work: 0.199

Literature

Macromolecules
Sequence Display for 4HSU

Classification: OXIDOREDUCTASE

Total Structure Weight: 104740.11

Macromolecule Entities
Molecule Chains Length Organism Details
Lysine-specific histone demethylase 1B A 776 Homo sapiens EC#: 1 IUBMB
Fragment: UNP residues 51-822
Gene Name(s): KDM1B Gene View AOF1 C6orf193 LSD2
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Putative oxidoreductase GLYR1 B 124 Homo sapiens EC#: 1 IUBMB
Fragment: UNP residues 152-268
Gene Name(s): GLYR1 Gene View HIBDL NP60
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Histone H3 C 30 Xenopus laevis Fragment: UNP residues 2-31
Mutation: K4M
Gene Name(s): hist1h3g H3l
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A FLAVIN-ADENINE DINUCLEOTIDE
C27 H33 N9 O15 P2
VWWQXMAJTJZDQX-UYBVJOGSSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

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

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.99 Å
  • R-Value Free: 0.232
  • R-Value Work: 0.199
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 62.75 α = 90.00
b = 89.48 β = 102.89
c = 88.35 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-10-30
  • Released Date: 2013-02-13
  • Deposition author(s): Chen, F., Dong, Z., Fang, J., Xu, Y.

Revision History

  • 2013-07-10
    Type: Citation | Details: Citation update