3KTP

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

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.50 Å
  • R-Value Free: 0.231 
  • R-Value Work: 0.221 
  • R-Value Observed: 0.221 

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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:  
    3KTP, 3KTR

  • 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 crystal structures of the C-terminal Mlle (or PABC) domain in complex with peptides from GW182 (TNRC6C) and Ataxin-2 ...

    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
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(by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Polyadenylate-binding protein 1 A88Homo sapiensMutation(s): 0 
Gene Names: PABPC1, PAB1, PABP1, PABPC2
Find proteins for P11940 (Homo sapiens)
Explore P11940 
Go to UniProtKB:  P11940
NIH Common Fund Data Resources
PHAROS:  P11940
GTEx:  ENSG00000070756
Protein Feature View
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  • Reference Sequence
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(by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Trinucleotide repeat-containing gene 6C protein B22Homo sapiensMutation(s): 0 
Gene Names: TNRC6C, KIAA1582
Find proteins for Q9HCJ0 (Homo sapiens)
Explore Q9HCJ0 
Go to UniProtKB:  Q9HCJ0
NIH Common Fund Data Resources
PHAROS:  Q9HCJ0
GTEx:  ENSG00000078687
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.50 Å
  • R-Value Free: 0.231 
  • R-Value Work: 0.221 
  • R-Value Observed: 0.221 
  • Space Group: P 43 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 38.461α = 90
b = 38.461β = 90
c = 136.533γ = 90
Software Package:
Software NamePurpose
ADSCdata collection
PHASERphasing
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

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View more in-depth experimental data

Entry History 

Deposition Data

Revision History  (Full details and data files)

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