5XUV

Crystal structure of DNA duplex containing 4-thiothymine-2Ag(I)-4-thiothymine base pairs


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.222
  • R-Value Work: 0.185

Literature

Macromolecules
Sequence Display for 5XUV

Classification: DNA

Total Structure Weight: 7818.69

Macromolecule Entities
Molecule Chains Length Organism Details
DNA (5'-D(*CP*GP*CP*GP*AP*(8RO)P*(8RO)P*TP*CP*GP*CP*G)-3') A, B 12 Synthetic construct

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

A, B SILVER ION
Ag
FOIXSVOLVBLSDH-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
K
Query on K

A POTASSIUM ION
K
NPYPAHLBTDXSSS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
8RO
Query on 8RO
A, B DNA linking C10 H15 N2 O6 P S DC

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.222
  • R-Value Work: 0.185
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 25.21 α = 90.00
b = 40.49 β = 90.00
c = 66.43 γ = 90.00

Structure Validation

View Full Validation Report



Entry History

Deposition Data

  • Deposited Date: 2017-06-26
  • Released Date: 2017-09-20
  • Deposition author(s): Kondo, J., Sugawara, T., Saneyoshi, H., Ono, A.

Revision History

  • Version 1_0: 2017-09-20

    Type: Initial release

  • Version 1_1: 2017-11-08

    Type: Database references