1ESS

STEROID TETHERED DNA, NMR, MINIMIZED AVERAGE STRUCTURE


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 17 
  • Conformers Submitted: 
  • Selection Criteria: LOWEST ENERGY, BEST AGREEMENT WITH NOE VOLUMES 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

The NMR structure of estrone (Es)-tethered tandem DNA duplex: [d(5'pCAGCp3')-Es] + [Es-d(5'pTCCA3')]: d(5'pTGGAGCTG3').

Denisov, A.Y.Sandstrom, A.Maltseva, T.V.Pyshnyi, D.V.Ivanova, E.M.Zarytova, V.F.Chattopadhyaya, J.

(1997) J.Biomol.Struct.Dyn. 15: 499-516

  • DOI: 10.1080/07391102.1997.10508961
  • Primary Citation of Related Structures:  1TAN

  • PubMed Abstract: 
  • The solution structure of an estrone (Es)-tethered tandem DNA duplex consisting of two Es-tethered tetranucleotides and a target octameric DNA sequence is reported. The structure of this Es-tethered tandem duplex has been compared with a correspondin ...

    The solution structure of an estrone (Es)-tethered tandem DNA duplex consisting of two Es-tethered tetranucleotides and a target octameric DNA sequence is reported. The structure of this Es-tethered tandem duplex has been compared with a corresponding natural tandem duplex without estrones. The Tm of the 3'-Es-tethered tetranucleotide part of the tandem duplex increases by 5 degrees C, whereas the Tm of the 5'-Es-tethered tetranucleotide part increases by 7 degrees C, compared with the corresponding natural counterpart. The NMR structures of both the Es-tethered tandem duplex and the natural counterpart have been based on 24 experimental NMR constraints per residue. Despite the fact that there is considerable distortion at the junction of two Es-tethered tetranucleotides in the major groove of the Es-tethered DNA duplex compared to the natural counterpart, both duplexes do take up B-type DNA structures. It is likely that the spatial proximity of two Es residues, and the resulting hydrophobic interaction between them might be responsible for the increase of the thermal stability of the Es-tethered tandem duplex in comparison with the natural counterpart.


    Organizational Affiliation

    Department of Bioorganic Chemistry, University of Uppsala, Sweden.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsLengthOrganism
DNA (5'-D(P*TP*GP*GP*AP*GP*CP*TP*G)-3')A8N/A
Entity ID: 2
MoleculeChainsLengthOrganism
DNA (5'-D(P*CP*AP*GP*C)-3')B4N/A
Entity ID: 3
MoleculeChainsLengthOrganism
DNA (5'-D(P*TP*CP*CP*A)-3')C4N/A
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ESO
Query on ESO

Download SDF File 
Download CCD File 
B, C
O3-PHOSPHONOESTRONE
C18 H23 O5 P
XYNRXDLLYXFCRS-CBZIJGRNSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 17 
  • Conformers Submitted: 
  • Selection Criteria: LOWEST ENERGY, BEST AGREEMENT WITH NOE VOLUMES 
Software Package:
Software NamePurpose
AMBERrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1997-09-17
    Type: Initial release
  • Version 1.1: 2008-03-24
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance