1Z43

Crystal structure of 7S.S SRP RNA of M. jannaschii


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.296 
  • R-Value Work: 0.253 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structural insights into SRP RNA: An induced fit mechanism for SRP assembly

Hainzl, T.Huang, S.Sauer-Eriksson, A.E.

(2005) Rna 11: 1043-1050

  • DOI: 10.1261/rna.2080205

  • PubMed Abstract: 
  • Proper assembly of large protein-RNA complexes requires sequential binding of the proteins to the RNA. The signal recognition particle (SRP) is a multiprotein-RNA complex responsible for the cotranslational targeting of proteins to biological membran ...

    Proper assembly of large protein-RNA complexes requires sequential binding of the proteins to the RNA. The signal recognition particle (SRP) is a multiprotein-RNA complex responsible for the cotranslational targeting of proteins to biological membranes. Here we describe the crystal structure at 2.6-A resolution of the S-domain of SRP RNA from the archeon Methanococcus jannaschii. Comparison of this structure with the SRP19-bound form reveals the nature of the SRP19-induced conformational changes, which promote subsequent SRP54 attachment. These structural changes are initiated at the SRP19 binding site and transmitted through helix 6 to looped-out adenosines, which form tertiary RNA interaction with helix 8. Displacement of these adenosines enforces a conformational change of the asymmetric loop structure in helix 8. In free RNA, the three unpaired bases A195, C196, and C197 are directed toward the helical axis, whereas upon SRP19 binding the loop backbone inverts and the bases are splayed out in a conformation that resembles the SRP54-bound form. Nucleotides adjacent to the bulged nucleotides seem to be particularly important in the regulation of this loop transition. Binding of SRP19 to 7S RNA reveals an elegant mechanism of how protein-induced changes are directed through an RNA molecule and may relate to those regulating the assembly of other RNPs.


    Related Citations: 
    • Structure of the SRP19 RNA complex and implications for signal recognition particle assembly
      Hainzl, T.,Huang, S.,Sauer-Eriksson, A.E.
      (2002) Nature 417: 767


    Organizational Affiliation

    Umeå Centre for Molecular Pathogenesis, Umeå University, SE-901 87 Umeå, Sweden. tobias. hainzl@ucmp.umu.se




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsLengthOrganism
RNA (101-MER)A101N/A
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.296 
  • R-Value Work: 0.253 
  • Space Group: P 43 21 2
Unit Cell:
Length (Å)Angle (°)
a = 62.110α = 90.00
b = 62.110β = 90.00
c = 247.520γ = 90.00
Software Package:
Software NamePurpose
XDSdata reduction
CNSphasing
XDSdata scaling
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2005-06-14
    Type: Initial release
  • Version 1.1: 2008-04-30
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Refinement description, Version format compliance