NMR Ensemble

1DB6

SOLUTION STRUCTURE OF THE DNA APTAMER 5'-CGACCAACGTGTCGCCTGGTCG-3' COMPLEXED WITH ARGININAMIDE

Structural Biology Knowledgebase: 1DB6 SBKB.org


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 30
  • Conformers Submitted: 10
  • Selection Criteria: Structures with Acceptable Covalent Geometry Structures with Favorable Non Bond Energy Structures with the Least Restraint Violations Structures with the Lowest Energy

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1DB6

Classification: DNA

Total Structure Weight: 6903.61

Macromolecule Entities
Molecule Chains Length Organism Details
DNA A 22 synthetic

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

A ARGININEAMIDE
C6 H16 N5 O
ULEBESPCVWBNIF-BYPYZUCNSA-O
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
AAR N/A in BindingDB
N/A in BindingMoad
Kd: 100000 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 30
  • Conformers Submitted: 10
  • Selection Criteria: structures with acceptable covalent geometry,structures with favorable non- bond energy,structures with the least restraint violations,structures with the lowest energy

Structure Validation

View Full Validation Report



Entry History

Deposition Data

  • Deposited Date: 1999-11-02
  • Released Date: 2000-02-03
  • Deposition author(s): Robertson, S.A., Harada, K., Frankel, A.D., Wemmer, D.E.

Revision History

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