6MSF

F6 APTAMER MS2 COAT PROTEIN COMPLEX


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.201 
  • R-Value Work: 0.195 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Crystal structure of an RNA aptamer-protein complex at 2.8 A resolution.

Convery, M.A.Rowsell, S.Stonehouse, N.J.Ellington, A.D.Hirao, I.Murray, J.B.Peabody, D.S.Phillips, S.E.Stockley, P.G.

(1998) Nat.Struct.Mol.Biol. 5: 133-139


  • PubMed Abstract: 
  • The crystal structure, at 2.8 A resolution, of an RNA aptamer bound to bacteriophage MS2 coat protein has been determined. It provides an opportunity to compare the interactions of MS2 coat protein and wild type operator with those of an aptamer, who ...

    The crystal structure, at 2.8 A resolution, of an RNA aptamer bound to bacteriophage MS2 coat protein has been determined. It provides an opportunity to compare the interactions of MS2 coat protein and wild type operator with those of an aptamer, whose secondary structure differs from the wild type RNA in having a three-base loop (compared to a tetraloop) and an additional base pair between this loop and the sequence-specific recognition element in the stem. The RNA binds in the same location on the coat protein as the wild type operator and maintains many of the same RNA-protein interactions. In order to achieve this, the RNA stem loop undergoes a concerted rearrangement of the 3' side while leaving the 5' side and the loop interactions largely unchanged, illustrating the ability of RNA to present similar molecular recognition surfaces from distinct primary and secondary structures.


    Related Citations: 
    • The Refined Structure of Bacteriophage MS2 at 2.8 A Resolution
      Golmohammadi, R.,Valegard, K.,Fridborg, K.,Liljas, L.
      (1993) J.Mol.Biol. 234: 620
    • The Three-Dimensional Structures of Two Complexes between Recombinant MS2 Capsids and RNA Operator Fragments Reveal Sequence-Specific Protein-RNA Interactions
      Valegard, K.,Murray, J.B.,Stonehouse, N.J.,Van Den Worm, S.,Stockley, P.G.,Liljas, L.
      (1997) J.Mol.Biol. 270: 724
    • Crystal Structure of an RNA Bacteriophage Coat Protein-Operator Complex
      Valegard, K.,Murray, J.B.,Stockley, P.G.,Stonehouse, N.J.,Liljas, L.
      (1994) Nature 371: 623


    Organizational Affiliation

    School of Biochemistry and Molecular Biology, North of England Structural Biology Centre, University of Leeds, UK.




Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
PROTEIN (MS2 PROTEIN CAPSID)
A, B, C
129Escherichia phage MS2Mutation(s): 0 
Find proteins for P03612 (Escherichia phage MS2)
Go to UniProtKB:  P03612
Entity ID: 1
MoleculeChainsLengthOrganism
RNA (5'-R(*CP*CP*AP*CP*AP*GP*UP*CP*AP*CP*UP*GP*GP*G)-3')R14N/A
Entity ID: 2
MoleculeChainsLengthOrganism
RNA (5'-R(*CP*AP*GP*UP*CP*AP*CP*UP*GP*G)-3')S10N/A
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.201 
  • R-Value Work: 0.195 
  • Space Group: H 3 2
Unit Cell:
Length (Å)Angle (°)
a = 287.580α = 90.00
b = 287.580β = 90.00
c = 652.190γ = 120.00
Software Package:
Software NamePurpose
CCP4model building
X-PLORrefinement
CCP4phasing
CCP4data scaling
MOSFLMdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1998-07-08
    Type: Initial release
  • Version 1.1: 2008-05-22
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance