2LHP

High resolution NMR solution structure of helix H1 of the chimpanzee HAR1 RNA


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 200 
  • Conformers Submitted: 10 
  • Selection Criteria: structures with the lowest energy 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

NMR Studies of HAR1 RNA Secondary Structures Reveal Conformational Dynamics in the Human RNA.

Ziegeler, M.Cevec, M.Richter, C.Schwalbe, H.

(2012) Chembiochem 13: 2100-2112

  • DOI: 10.1002/cbic.201200401
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Comparative genomics has shown that noncoding RNAs can display substantial differences between humans and chimpanzees. The human accelerated region 1 (HAR1) is a section in the human genome that exhibits the most strongly accelerated rate of nucleoti ...

    Comparative genomics has shown that noncoding RNAs can display substantial differences between humans and chimpanzees. The human accelerated region 1 (HAR1) is a section in the human genome that exhibits the most strongly accelerated rate of nucleotide substitution in relation to the chimpanzee genome. It is associated with higher cognitive functions in human brains. The HAR1 region of the HAR1F gene is transcribed into a 118 nt noncoding RNA. We provide experimental data to validate available secondary structure models of chimpanzee and human HAR1 RNA by utilizing CD and NMR spectroscopy and applying a "divide-and-conquer" strategy. The mutations lead to more dynamic secondary and tertiary structure in the human HAR1 RNA, presumably as part of its function. We have also determined NMR solution structures of helix H1 as the most conserved part of the chimpanzee and human HAR1 RNAs. Helix H1 contains a GAA asymmetric internal loop, the structure of which had not been solved previously. 37 nt chimpanzee and human RNA fragments (c37 and h37 RNAs) differ in a single base pair. h37 RNA folds into a slightly more stable and rigid structure than c37 RNA. Both NMR structures show structural heterogeneity of the residues corresponding to the GAA loop.


    Organizational Affiliation

    Institute for Organic Chemistry and Chemical Biology, Center for Biomolecular Magnetic Resonance, Goethe University Frankfurt, Max-von-Laue-Strasse 7, 60438 Frankfurt am Main, Germany.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsLengthOrganism
RNA (37-MER)A37Pan troglodytes
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 200 
  • Conformers Submitted: 10 
  • Selection Criteria: structures with the lowest energy 

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2012-07-25
    Type: Initial release
  • Version 1.1: 2012-09-26
    Type: Database references