1DPL

A-DNA DECAMER GCGTA(T23)TACGC WITH INCORPORATED 2'-METHOXY-3'-METHYLENEPHOSPHATE-THYMIDINE

Structural Biology Knowledgebase: 1DPL SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 0.83 Å
  • R-Value Free: 0.121
  • R-Value Work: 0.115

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1DPL

Classification: DNA

Total Structure Weight: 6599.45

Macromolecule Entities
Molecule Chains Length Organism Details
5'-D(*GP*CP*GP*TP*AP*(T23)P*AP*CP*GP*C)-3' A, B 10 synthetic

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

A, B MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
SPM
Query on SPM

B SPERMINE
C10 H26 N4
PFNFFQXMRSDOHW-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
T23
Query on T23
A, B RNA LINKING C12 H19 N2 O8 P T

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 0.83 Å
  • R-Value Free: 0.121
  • R-Value Work: 0.115
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 24.63 α = 90.00
b = 42.72 β = 90.00
c = 46.91 γ = 90.00

Structure Validation

View Full Validation Report



Entry History

Deposition Data

  • Deposited Date: 1999-12-27
  • Released Date: 2000-04-04
  • Deposition author(s): Egli, M., Tereshko, V., Teplova, M., Minasov, G., Joachimiak, A., Sanishvili, R., Weeks, C.M., Miller, R., Maier, M.A., An, H., Dan Cook, P., Manoharan, M.

Revision History

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