3KTP

Structural basis of GW182 recognition by poly(A)-binding protein


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.231 
  • R-Value Work: 0.221 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Structural basis of binding of P-body-associated proteins GW182 and ataxin-2 by the Mlle domain of poly(A)-binding protein.

Kozlov, G.Safaee, N.Rosenauer, A.Gehring, K.

(2010) J.Biol.Chem. 285: 13599-13606

  • DOI: 10.1074/jbc.M109.089540
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Poly(A)-binding protein (PABPC1) is involved in multiple aspects of mRNA processing and translation. It is a component of RNA stress granules and binds the RNA-induced silencing complex to promote degradation of silenced mRNAs. Here, we report the cr ...

    Poly(A)-binding protein (PABPC1) is involved in multiple aspects of mRNA processing and translation. It is a component of RNA stress granules and binds the RNA-induced silencing complex to promote degradation of silenced mRNAs. Here, we report the crystal structures of the C-terminal Mlle (or PABC) domain in complex with peptides from GW182 (TNRC6C) and Ataxin-2. The structures reveal overlapping binding sites but with unexpected diversity in the peptide conformation and residues involved in binding. The mutagenesis and binding studies show low to submicromolar binding affinity with overlapping but distinct specificity determinants. These results rationalize the role of the Mlle domain of PABPC1 in microRNA-mediated mRNA deadenylation and suggest a more general function in the assembly of cytoplasmic RNA granules.


    Organizational Affiliation

    Department of Biochemistry and Groupe de Recherche axé sur la Structure des Protéines, McGill University, Montréal, Québec H3G1Y6, Canada.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Polyadenylate-binding protein 1
A
88Homo sapiensMutation(s): 0 
Gene Names: PABPC1 (PAB1, PABP1, PABPC2)
Find proteins for P11940 (Homo sapiens)
Go to Gene View: PABPC1
Go to UniProtKB:  P11940
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Trinucleotide repeat-containing gene 6C protein
B
22Homo sapiensMutation(s): 0 
Gene Names: TNRC6C (KIAA1582)
Find proteins for Q9HCJ0 (Homo sapiens)
Go to Gene View: TNRC6C
Go to UniProtKB:  Q9HCJ0
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.231 
  • R-Value Work: 0.221 
  • Space Group: P 43 21 2
Unit Cell:
Length (Å)Angle (°)
a = 38.461α = 90.00
b = 38.461β = 90.00
c = 136.533γ = 90.00
Software Package:
Software NamePurpose
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling
PHASERphasing
ADSCdata collection

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2010-02-23
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Advisory, Version format compliance