1ODH

STRUCTURE OF THE GCM DOMAIN BOUND TO DNA

Structural Biology Knowledgebase: 1ODH SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.85 Å
  • R-Value Free: 0.281
  • R-Value Work: 0.219

Literature

Macromolecules
Sequence Display for 1ODH

Classification: TRANSCRIPTION FACTOR / DNA

Total Structure Weight: 28539.36


Macromolecule Entities
Molecule Chains Length Organism Details
MGCM1 A 174 Mus musculus Fragment: GCM DOMAIN, RESIDUES 1-174
Details: ZN-CONTAINING DNA-BINDING DOMAIN
Gene Name(s): Gcm1 Gcma
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Macromolecule Entities
Molecule Chains Length Organism Details
5'-D(*CP*GP*AP*TP*GP*CP*GP*GP*GP*TP *GP*CP*A)-3' C 13 synthetic DNA TARGET SITE OF THE GCM DOMAIN
5'-D(*TP*GP*CP*AP*CP*CP*CP*GP*CP*AP *TP*CP*G)-3' D 13 synthetic DNA TARGET SITE OF THE GCM DOMAIN

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
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: 2.85 Å
  • R-Value Free: 0.281
  • R-Value Work: 0.219
  • Space Group: P 1 21 1

Unit Cell:

Length (Å) Angle (°)
a = 41.81 α = 90.00
b = 52.91 β = 103.24
c = 62.97 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-02-19
  • Released Date: 2003-04-08
  • Deposition author(s): Cohen, S.X., Muller, C.W.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4