1P3X

INTRAMOLECULAR DNA TRIPLEX WITH 1-PROPYNYL DEOXYURIDINE IN THE THIRD STRAND, NMR, 10 STRUCTURES


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 30
  • Conformers Submitted: 10
  • Selection Criteria: Lowest Overall Energy

Literature

Macromolecules
Sequence Display for 1P3X

Classification: DNA

Total Structure Weight: 7525.15

Macromolecule Entities
Molecule Chains Length Organism Details
DNA (5'-D(*AP*GP*AP*GP*AP*GP*AP*A)-3') A 8 synthetic HEXAKIS (ETHYLENE GLYCOL) LINKERS BETWEEN A 8 AND T 9 AND BETWEEN T 16 AND T 17. C 18, C 20, AND C 22 ARE PROTONATED
DNA (5'-D(*TP*TP*CP*TP*CP*TP*CP*T)-3') B 8 synthetic HEXAKIS (ETHYLENE GLYCOL) LINKERS BETWEEN A 8 AND T 9 AND BETWEEN T 16 AND T 17. C 18, C 20, AND C 22 ARE PROTONATED

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

A 5(1-PROPYNYL)-2'-DEOXYURIDINE-5-MONOPHOSPHATE
C12 H19 N2 O8 P
MCQFLTGFZQKDHC-IVZWLZJFSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
DC
Query on DC

A 2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE
C9 H14 N3 O7 P
NCMVOABPESMRCP-SHYZEUOFSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
DCM
Query on DCM

A 2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE
C9 H14 N3 O7 P
NCMVOABPESMRCP-SHYZEUOFSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 30
  • Conformers Submitted: 10
  • Selection Criteria: LOWEST OVERALL ENERGY

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1998-02-05
  • Released Date: 1998-05-06
  • Deposition author(s): Phipps, A.K., Tarkoy, M., Schultze, P., Feigon, J.

Revision History

  • 2008-03-24
    Type: Version format compliance
  • 2011-07-13
    Type: Version format compliance