1VRO

Selenium-Assisted Nucleic Acid Crystallography: Use of Phosphoroselenoates for MAD Phasing of a DNA Structure

Structural Biology Knowledgebase: 1VRO SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.1 Å
  • R-Value Free: 0.129
  • R-Value Work: 0.097

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1VRO

Classification: DNA

Total Structure Weight: 3973.01

Macromolecule Entities
Molecule Chains Length Organism Details
5'-D(*CP*(GMS)P*CP*GP*CP*G)-3' A, B 6 synthetic

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

A SPERMINE
C10 H26 N4
PFNFFQXMRSDOHW-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

B MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
GMS
Query on GMS
A, B DNA LINKING C10 H14 N5 O6 P Se DG

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.1 Å
  • R-Value Free: 0.129
  • R-Value Work: 0.097
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 17.78 α = 90.00
b = 31.35 β = 90.00
c = 44.12 γ = 90.00

Structure Validation

View Full Validation Report



Entry History

Deposition Data

  • Deposited Date: 2005-04-14
  • Released Date: 2005-04-19
  • Deposition author(s): Wilds, C.J., Pattanayek, R., Pan, C., Wawrzak, Z., Egli, M.
  • Previous versions: 1N6S

Revision History

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