2G1G

Solution structure of the anticodon loop of S. Pombe tRNAi including the naturally occurring N6-threonyl adenine

  • Classification: RNA

  • Deposited: 2006-02-14 Released: 2006-06-20 
  • Deposition Author(s): Lescrinier, E.

Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 73 
  • Conformers Submitted: 20 
  • Selection Criteria: structures with the lowest energy 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

The naturally occurring N6-threonyl adenine in anticodon loop of Schizosaccharomyces pombe tRNAi causes formation of a unique U-turn motif

Lescrinier, E.Nauwelaerts, K.Zanier, K.Poesen, K.Sattler, M.Herdewijn, P.

(2006) Nucleic Acids Res. 34: 2878-2886

  • DOI: 10.1093/nar/gkl081

  • PubMed Abstract: 
  • Modified nucleosides play an important role in structure and function of tRNA. We have determined the solution structure of the anticodon stem-loop (ASL) of initiator tRNA of Schizosaccharomyces pombe. The incorporation of N6-threonylcarbamoyladenosi ...

    Modified nucleosides play an important role in structure and function of tRNA. We have determined the solution structure of the anticodon stem-loop (ASL) of initiator tRNA of Schizosaccharomyces pombe. The incorporation of N6-threonylcarbamoyladenosine at the position 3' to the anticodon triplet (t6A37) results in the formation of a U-turn motif and enhances stacking interactions within the loop and stem regions (i.e. between A35 and t6A37) by bulging out U36. This conformation was not observed in a crystal structure of tRNAi including the same modification in its anticodon loop, nor in the solution structure of the unmodified ASL. A t6A modification also occurs in the well studied anti-stem-loop of lys-tRNA(UUU). A comparison of this stem-loop with our structure demonstrates different effects of the modification depending on the loop sequence.


    Organizational Affiliation

    Laboratory of Medicinal Chemistry, Rega Institute for Medical Research BioMacs, K.U.Leuven, Minderbroedersstraat 10, B-3000 Leuven, Belgium.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsLengthOrganism
5'-R(*AP*CP*GP*GP*GP*CP*UP*CP*AP*UP*(T6A)P*AP*CP*CP*CP*GP*U)-3'A17N/A
Small Molecules
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
T6A
Query on T6A
A
RNA LINKINGC15 H21 N6 O11 PA
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 73 
  • Conformers Submitted: 20 
  • Selection Criteria: structures with the lowest energy 

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2006-02-14 
  • Released Date: 2006-06-20 
  • Deposition Author(s): Lescrinier, E.

Revision History 

  • Version 1.0: 2006-06-20
    Type: Initial release
  • Version 1.1: 2008-05-01
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance