1I2X

2.4 A STRUCTURE OF A-DUPLEX WITH BULGED ADENOSINE, SPERMIDINE FORM

Structural Biology Knowledgebase: 1I2X SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.278
  • R-Value Work: 0.250

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1I2X

Classification: DNA-RNA HYBRID

Total Structure Weight: 14030.12

Macromolecule Entities
Molecule Chains Length Organism Details
DNA/RNA (5'-R(*GP*CP*G)-D(P*AP*TP*AP*T)-R(P*AP*CP*GP*U)-3') A, B, C, D 11 synthetic

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
SPD
Query on SPD

D SPERMIDINE
N-(2-AMINO-PROPYL)-1,4-DIAMINOBUTANE; PA(34) (Synonym)
C7 H19 N3
ATHGHQPFGPMSJY-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.278
  • R-Value Work: 0.250
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 27.69 α = 90.00
b = 47.71 β = 90.00
c = 113.62 γ = 90.00

Structure Validation

View Full Validation Report



Entry History

Deposition Data

  • Deposited Date: 2001-02-12
  • Released Date: 2001-04-21
  • Deposition author(s): Tereshko, V., Wallace, S., Usman, N., Wincott, F., Egli, M.

Revision History

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