408D

STRUCTURAL BASIS FOR RECOGNITION OF A-T AND T-A BASE PAIRS IN THE MINOR GROOVE OF B-DNA

Structural Biology Knowledgebase: 408D SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.242
  • R-Value Work: 0.219

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 408D

Classification: DNA

Total Structure Weight: 7387.55

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

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

A, B IMIDAZOLE-PYRROLE POLYAMIDE
IMIDAZOLE-PYRROLE-PYRROLE-PYRROLE-BETA ALANINE- DIMETHYLAMINO PROPYLAMIDE (Synonym)
C31 H42 N11 O5
NCFLEKZHRQALKT-UHFFFAOYSA-O
Ligand Explorer
 
JSmol
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
IPY N/A in BindingDB
N/A in BindingMoad
Kd: 48 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.242
  • R-Value Work: 0.219
  • Space Group: C 1 2 1

Unit Cell:

Length (Å) Angle (°)
a = 60.66 α = 90.00
b = 30.20 β = 123.59
c = 43.46 γ = 90.00

Structure Validation

View Full Validation Report



Entry History

Deposition Data

  • Deposited Date: 1998-06-24
  • Released Date: 1998-10-19
  • Deposition author(s): Kielkopf, C.L., White, S., Szewczyk, J.W., Turner, J.M., Baird, E.E., Dervan, P.B., Rees, D.C.

Revision History

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