4JD8

Racemic-[Ru(phen)2(dppz)]2+] bound to synthetic DNA at high resolution

Structural Biology Knowledgebase: 4JD8 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.16 Å
  • R-Value Free: 0.162
  • R-Value Work: 0.138

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4JD8

Classification: DNA

Total Structure Weight: 5143.16

Macromolecule Entities
Molecule Chains Length Organism Details
DNA (5'-D(*AP*TP*GP*CP*AP*T)-3') A, B 6 synthetic

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
0TN
Query on 0TN

B Delta-Ru(phen)2(dppz) complex
C42 H26 N8 Ru
OYSRBLHMGIHFCB-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
RKP
Query on RKP

B Lambda-Ru(phen)2(dppz) complex
C42 H26 N8 Ru
OYSRBLHMGIHFCB-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
K
Query on K

B POTASSIUM ION
K
NPYPAHLBTDXSSS-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.16 Å
  • R-Value Free: 0.162
  • R-Value Work: 0.138
  • Space Group: P 31 2 1

Unit Cell:

Length (Å) Angle (°)
a = 37.55 α = 90.00
b = 37.55 β = 90.00
c = 54.37 γ = 120.00

Structure Validation

View Full Validation Report



Entry History

Deposition Data

  • Deposited Date: 2013-02-24
  • Released Date: 2013-04-24
  • Deposition author(s): Cook, D.S., Hall, J.P., Cardin, C.J.
  • Previous versions: 4E87

Revision History

  • 2013-09-18
    Type: Citation | Details: Citation update