3I1D

Distinct recognition of three-way DNA junctions by the two enantiomers of a metallo-supramolecular cylinder ('helicate')

Structural Biology Knowledgebase: 3I1D SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.259
  • R-Value Work: 0.245

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3I1D

Classification: DNA

Total Structure Weight: 7341.68

Macromolecule Entities
Molecule Chains Length Organism Details
5'-D(*CP*GP*TP*AP*CP*G)-3' A, B 6 synthetic Palindromic hexanucleotide

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

A, B N-[(1E)-PYRIDIN-2-YLMETHYLENE]-N-[4-(4-{[(1E)- PYRIDIN-2-YLMETHYLENE]AMINO}BENZYL)PHENYL]AMINE
1,1-BIS(N-(4-PHENYL)-2-PYRIDYLCARBOXALDIMINE)METHANE (Synonym)
C25 H20 N4
OMZVNZJNZUGOJK-UOSOPFLXSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
FE2
Query on FE2

A, B FE (II) ION
Fe
CWYNVVGOOAEACU-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.259
  • R-Value Work: 0.245
  • Space Group: P 43 3 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 74.97 α = 90.00
b = 74.97 β = 90.00
c = 74.97 γ = 90.00

Structure Validation

View Full Validation Report



Entry History

Deposition Data

  • Deposited Date: 2009-06-26
  • Released Date: 2011-01-12
  • Deposition author(s): Boer, D.R., Uson, I., Hannon, M.J., Coll, M.

Revision History

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