2LYD

The solution structure of the Dm DCP1 EVH1 domain in complex with the XRN1 DBM peptide


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 50 
  • Conformers Submitted: 21 
  • Selection Criteria: structures with the lowest energy 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

A direct interaction between DCP1 and XRN1 couples mRNA decapping to 5' exonucleolytic degradation.

Braun, J.E.Truffault, V.Boland, A.Huntzinger, E.Chang, C.T.Haas, G.Weichenrieder, O.Coles, M.Izaurralde, E.

(2012) Nat.Struct.Mol.Biol. 19: 1324-1331

  • DOI: 10.1038/nsmb.2413

  • PubMed Abstract: 
  • The removal of the mRNA 5' cap structure by the decapping enzyme DCP2 leads to rapid 5'→3' mRNA degradation by XRN1, suggesting that the two processes are coordinated, but the coupling mechanism is unknown. DCP2 associates with the decapping activato ...

    The removal of the mRNA 5' cap structure by the decapping enzyme DCP2 leads to rapid 5'→3' mRNA degradation by XRN1, suggesting that the two processes are coordinated, but the coupling mechanism is unknown. DCP2 associates with the decapping activators EDC4 and DCP1. Here we show that XRN1 directly interacts with EDC4 and DCP1 in human and Drosophila melanogaster cells, respectively. In D. melanogaster cells, this interaction is mediated by the DCP1 EVH1 domain and a DCP1-binding motif (DBM) in the XRN1 C-terminal region. The NMR structure of the DCP1 EVH1 domain bound to the DBM reveals that the peptide docks at a conserved aromatic cleft, which is used by EVH1 domains to recognize proline-rich ligands. Our findings reveal a role for XRN1 in decapping and provide a molecular basis for the coupling of decapping to 5'→3' mRNA degradation.


    Organizational Affiliation

    Department of Biochemistry, Max Planck Institute for Developmental Biology, Tübingen, Germany.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Decapping protein 1
A
134Drosophila melanogasterGene Names: DCP1 (Dcp1)
Find proteins for Q9W1H5 (Drosophila melanogaster)
Go to UniProtKB:  Q9W1H5
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Pacman protein
B
38Drosophila melanogasterGene Names: pcm
EC: 3.1.13.-
Find proteins for E1JJR3 (Drosophila melanogaster)
Go to UniProtKB:  E1JJR3
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 50 
  • Conformers Submitted: 21 
  • Selection Criteria: structures with the lowest energy 
  • Olderado: 2LYD Olderado

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2012-09-17 
  • Released Date: 2012-10-17 
  • Deposition Author(s): Truffault, V.

Revision History 

  • Version 1.0: 2012-10-17
    Type: Initial release
  • Version 1.1: 2012-10-31
    Type: Database references
  • Version 1.2: 2012-11-28
    Type: Database references
  • Version 1.3: 2012-12-19
    Type: Database references