1LJX

THE STRUCTURE OF D(TPGPCPGPCPA)2 AT 293K: COMPARISON OF THE EFFECT OF SEQUENCE AND TEMPERATURE


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.64 Å
  • R-Value Free: 0.267 
  • R-Value Work: 0.212 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Structure of d(TGCGCA)2 at 293 K: comparison of the effects of sequence and temperature.

Thiyagarajan, S.Satheesh Kumar, P.Rajan, S.S.Gautham, N.

(2002) Acta Crystallogr.,Sect.D 58: 1381-1384


  • PubMed Abstract: 
  • The crystal structure of a hexameric DNA fragment with the sequence d(TGCGCA)(2) has been solved and refined at 293 K at a resolution of 1.64 A. The molecule adopts a left-handed Z-type helical conformation which is common in alternating pyrimidine-p ...

    The crystal structure of a hexameric DNA fragment with the sequence d(TGCGCA)(2) has been solved and refined at 293 K at a resolution of 1.64 A. The molecule adopts a left-handed Z-type helical conformation which is common in alternating pyrimidine-purine sequences. The presence of A.T base pairs at the two terminals does not perturb the structure to any great degree. However, several sequence-specific microstructural changes are noticeable. The structure of the identical sequence determined at 120 K involving somewhat different crystallization conditions has been reported previously [Harper et al. (1998), Acta Cryst. D54, 1273-1284]. A comparison of the present structure with that at low temperature and with that of d(CGCGCG)(2) shows that the effect of the change in sequence is greater than the combined effect of changes in temperature and environment.


    Organizational Affiliation

    Department of Crystallography and Biophysics, University of Madras, Guindy Campus, Chennai 600025, India.




Macromolecules

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Entity ID: 1
MoleculeChainsLengthOrganism
5'-D(*TP*GP*CP*GP*CP*A)-3'A,B6N/A
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MG
Query on MG

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Download CCD File 
A, B
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.64 Å
  • R-Value Free: 0.267 
  • R-Value Work: 0.212 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 21.182α = 90.00
b = 28.363β = 90.00
c = 44.440γ = 90.00
Software Package:
Software NamePurpose
AMoREphasing
MAR345data collection
CNSrefinement
AUTOMARdata reduction

Structure Validation

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Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2002-05-03
    Type: Initial release
  • Version 1.1: 2008-04-28
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance
  • Version 1.3: 2017-10-11
    Type: Refinement description