2DPB

Crystal Structure of d(CGCGAATXCGCG) Where X is 5-(N-aminohexyl)carbamoyl-2'-deoxyuridine


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.245
  • R-Value Work: 0.193

Literature

Macromolecules
Sequence Display for 2DPB

Classification: DNA

Total Structure Weight: 7658.26

Macromolecule Entities
Molecule Chains Length Organism Details
DNA (5'-D(*DCP*DGP*DCP*DGP*DAP*DAP*DTP*DUP*DCP*DGP*DCP*DG)-3') A, B 12 synthetic

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

A, B (6-AMINOHEXYL)CARBAMIC ACID
C7 H16 N2 O2
HDIHOAXFFROQHR-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
K
Query on K

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

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.245
  • R-Value Work: 0.193
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 25.54 α = 90.00
b = 40.83 β = 90.00
c = 64.46 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2006-05-08
  • Released Date: 2007-04-17
  • Deposition author(s): Juan, E.C.M., Kondo, J., Kurihara, T., Ito, T., Ueno, Y., Matsuda, A., Takenaka, A.

Revision History

  • Version 1_0: 2007-04-17

    Type: Initial release

  • Version 1_1: 2007-12-26

    Type: Version format compliance

  • Version 1_2: 2011-07-13

    Type: Version format compliance