4F3U

Crystal structure of 5-hydroxy-2'-deoxycytidine base paired with 2'-deoxyguanosine in Dickerson Drew Dodecamer

Structural Biology Knowledgebase: 4F3U SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.4 Å
  • R-Value Free: 0.232
  • R-Value Work: 0.172

Literature

Macromolecules
Sequence Display for 4F3U

Classification: DNA

Total Structure Weight: 7383.15

Macromolecule Entities
Molecule Chains Length Organism Details
DNA (5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*(5OC)P*GP*CP*G)-3') A, B 12 Synthetic construct

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
MG
Query on MG

A MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
5OC
Query on 5OC
A, B DNA LINKING C9 H14 N3 O8 P --

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.4 Å
  • R-Value Free: 0.232
  • R-Value Work: 0.172
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 25.29 α = 90.00
b = 40.22 β = 90.00
c = 65.47 γ = 90.00

Structure Validation

View Full Validation Report



Entry History

Deposition Data

  • Deposited Date: 2012-05-09
  • Released Date: 2013-06-05
  • Deposition author(s): Szulik, M.W., Nocek, B., Joachimiak, A., Stone, M.P.

Revision History

No revisions since initial release