1MIS

STRUCTURE OF RNA (5'-R(GP*CP*GP*GP*AP*CP*GP*C)-3') ANTI-PARALLEL RNA DUPLEX WITH TANDEM G:A MISMATCHES, NMR, MINIMIZED AVERAGE STRUCTURE

  • Classification: RNA

  • Deposited: 1997-03-26 Released: 1997-07-07 
  • Deposition Author(s): Wu, M., Turner, D.H.

Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Submitted: 
  • Selection Criteria: MINIMIZED AVERAGE : STRUCTURE 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Solution structure of (rGCGGACGC)2 by two-dimensional NMR and the iterative relaxation matrix approach.

Wu, M.Turner, D.H.

(1996) Biochemistry 35: 9677-9689

  • DOI: 10.1021/bi960133q
  • Primary Citation of Related Structures:  1MWG

  • PubMed Abstract: 
  • The three-dimensional solution structure of the RNA self-complementary duplex [sequence: see text] was derived from two-dimensional NMR and the iterative relaxation matrix approach. Each GA mismatch forms two hydrogen bonds: A-NH6 to G-O6 and A-N1 to ...

    The three-dimensional solution structure of the RNA self-complementary duplex [sequence: see text] was derived from two-dimensional NMR and the iterative relaxation matrix approach. Each GA mismatch forms two hydrogen bonds: A-NH6 to G-O6 and A-N1 to G-NH1 (imino). This is the first three-dimensional RNA structure with imino hydrogen-bonded tandem GA mismatches. This GA structure is totally different from the sheared tandem GA structure in [sequence: see text] which also has two hydrogen bonds: A-N7 to G-NH2 and A-NH6 to G-N3 [SantaLucia, J., Jr., & Turner, D. H. (1993) Biochemistry 32, 12612-12623]. In particular, the sheared and imino GA mismatches produce a narrowing and widening of the backbone, respectively. The results show that substitutions of Watson-Crick base pairs can have dramatic effects on the three-dimensional structures of adjacent non-Watson-Crick paired regions; i.e., the structure depends on sequence context. Thus compensating substitutions in site-directed mutagenesis experiments may not always restore biological activities.


    Organizational Affiliation

    Department of Chemistry, University of Rochester, New York 14627-0216, USA.




Macromolecules

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Entity ID: 1
MoleculeChainsLengthOrganism
RNA (5'-R(*GP*CP*GP*GP*AP*CP*GP*C)-3')A,B8N/A
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Submitted: 
  • Selection Criteria: MINIMIZED AVERAGE : STRUCTURE 
Software Package:
Software NamePurpose
AMBERrefinement

Structure Validation

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Entry History 

Deposition Data

  • Deposited Date: 1997-03-26 
  • Released Date: 1997-07-07 
  • Deposition Author(s): Wu, M., Turner, D.H.

Revision History 

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