3KUI

Crystal structure of C-terminal domain of PABPC1 in complex with binding region of eRF3a

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free: 0.255 
  • R-Value Work: 0.247 
  • R-Value Observed: 0.248 

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Literature

Molecular basis of eRF3 recognition by the MLLE domain of poly(A)-binding protein.

Kozlov, G., Gehring, K.

(2010) PLoS One 5: e10169-e10169

  • DOI: 10.1371/journal.pone.0010169
  • Primary Citation of Related Structures:  
    3KUI, 3KUJ

  • PubMed Abstract: 

    • PABPC1 (cytosolic poly(A)-binding protein 1) is an RNA-binding protein that binds to the poly(A) tail of mRNAs to promote translation and mRNA turnover. In addition to RNA-binding domains, PABPC1 contains a unique protein-protein interaction domain, MLLE (also known as PABC) that binds regulatory proteins and translation factors that contain a conserved 12 amino acid peptide motif termed PAM2 ...

    PABPC1 (cytosolic poly(A)-binding protein 1) is an RNA-binding protein that binds to the poly(A) tail of mRNAs to promote translation and mRNA turnover. In addition to RNA-binding domains, PABPC1 contains a unique protein-protein interaction domain, MLLE (also known as PABC) that binds regulatory proteins and translation factors that contain a conserved 12 amino acid peptide motif termed PAM2. Eukaryotic Release Factor 3 (eRF3/GSPT1) contains two overlapping PAM2 sequences, which are required for its activity. Here, we determined the crystal structures of the MLLE domain from PABPC1 in complex with the two PAM2 regions of eRF3. The structures reveal a mechanism of cooperativity between the two PAM2 sites that increases the binding affinity but prevents the binding of more than one molecule of eRF3 to PABPC1. Relative to previous structures, the high-resolution crystal structures force a re-evaluation of the PAM2 motif and improve our understanding of the molecular basis of MLLE peptide recognition.

    Organizational Affiliation: 

    Department of Biochemistry, McGill University, Montréal, Québec, 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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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
GSPT1 protein B15Homo sapiensMutation(s): 0 
Gene Names: GSPT1, ERF3A
Find proteins for P15170 (Homo sapiens)
Explore P15170 
Go to UniProtKB:  P15170
NIH Common Fund Data Resources
PHAROS:  P15170
GTEx:  ENSG00000103342
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4
Download Ideal Coordinates CCD File 
A
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L		 Ligand Interaction
ZN
Query on ZN
Download Ideal Coordinates CCD File 
A
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N		 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free: 0.255 
  • R-Value Work: 0.247 
  • R-Value Observed: 0.248 
  • Space Group: P 21 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 37.432α = 90
b = 63.631β = 90
c = 32.226γ = 90
Software Package:
Software NamePurpose
CrystalCleardata collection
PHASERphasing
CNSrefinement
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2010-05-12
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance