5LM5

Structure of C-terminal domain from S. cerevisiae Pat1 decapping activator bound to Dcp2 HLM2 peptide (region 435-451)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.268 
  • R-Value Work: 0.256 

wwPDB Validation 3D Report Full Report


This is version 1.4 of the entry. See complete history

Literature

A unique surface on Pat1 C-terminal domain directly interacts with Dcp2 decapping enzyme and Xrn1 5'-3' mRNA exonuclease in yeast.

Charenton, C.Gaudon-Plesse, C.Fourati, Z.Taverniti, V.Back, R.Kolesnikova, O.Seraphin, B.Graille, M.

(2017) Proc. Natl. Acad. Sci. U.S.A. 114: E9493-E9501

  • DOI: 10.1073/pnas.1711680114
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The Pat1 protein is a central player of eukaryotic mRNA decay that has also been implicated in translational control. It is commonly considered a central platform responsible for the recruitment of several RNA decay factors. We demonstrate here that ...

    The Pat1 protein is a central player of eukaryotic mRNA decay that has also been implicated in translational control. It is commonly considered a central platform responsible for the recruitment of several RNA decay factors. We demonstrate here that a yeast-specific C-terminal region from Pat1 interacts with several short motifs, named helical leucine-rich motifs (HLMs), spread in the long C-terminal region of yeast Dcp2 decapping enzyme. Structures of Pat1-HLM complexes reveal the basis for HLM recognition by Pat1. We also identify a HLM present in yeast Xrn1, the main 5'-3' exonuclease involved in mRNA decay. We show further that the ability of yeast Pat1 to bind HLMs is required for efficient growth and normal mRNA decay. Overall, our analyses indicate that yeast Pat1 uses a single binding surface to successively recruit several mRNA decay factors and show that interaction between those factors is highly polymorphic between species.


    Organizational Affiliation

    Laboratoire de Biochimie, Ecole Polytechnique, CNRS, Université Paris-Saclay, 91128 Palaiseau cedex, France.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
DNA topoisomerase 2-associated protein PAT1
A, B
369Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 2 
Gene Names: PAT1 (MRT1)
Find proteins for P25644 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P25644
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
mRNA decapping protein 2
C, D
14Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: DCP2 (PSU1)
EC: 3.6.1.62
Find proteins for P53550 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to Gene View: DCP2
Go to UniProtKB:  P53550
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.268 
  • R-Value Work: 0.256 
  • Space Group: I 2 2 2
Unit Cell:
Length (Å)Angle (°)
a = 98.280α = 90.00
b = 115.960β = 90.00
c = 122.010γ = 90.00
Software Package:
Software NamePurpose
MOLREPphasing
XDSdata reduction
PDB_EXTRACTdata extraction
BUSTER-TNTrefinement
MOLREPphasing
XSCALEdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2017-08-16
    Type: Initial release
  • Version 1.1: 2017-11-01
    Type: Database references
  • Version 1.2: 2017-11-08
    Type: Database references
  • Version 1.3: 2017-11-15
    Type: Database references
  • Version 1.4: 2018-09-26
    Type: Data collection, Structure summary