5X6G

Crystal Structure of SMAD5-MH1/palindromic SBE DNA complex

Structural Biology Knowledgebase: 5X6G SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.05 Å
  • R-Value Free: 0.256
  • R-Value Work: 0.223

Literature

Macromolecules
Sequence Display for 5X6G

Classification: METAL BINDING PROTEIN / DNA

Total Structure Weight: 44569.69


Macromolecule Entities
Molecule Chains Length Organism Details
Mothers against decapentaplegic homolog 5 A, B 150 Mus musculus EC#: 2.3.1.n3 IUBMB
Fragment: MH1 domain (UNP RESIDUES 1-143)
Gene Name(s): Smad5 Madh5 Msmad5
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Macromolecule Entities
Molecule Chains Length Organism Details
DNA (5'-D(P*AP*TP*CP*AP*GP*TP*CP*TP*AP*GP*AP*CP*AP*TP*A)-3') C 16 Synthetic construct
DNA (5'-D(P*GP*TP*AP*TP*GP*TP*CP*TP*AP*GP*AP*CP*TP*GP*A)-3') D 16 Synthetic construct

Small Molecules
Ligands 1 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 NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.05 Å
  • R-Value Free: 0.256
  • R-Value Work: 0.223
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 71.54 α = 90.00
b = 74.50 β = 90.00
c = 83.74 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2017-02-21
  • Released Date: 2017-03-15
  • Deposition author(s): Chai, N., Wang, J., Wang, Z.X., Wu, J.W.
  • Previous versions: 4ZKG

Revision History

No revisions since initial release