2IOL

Crystal structure of the C-terminal MA3 domain of Pdcd4 (mouse); form 1


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.297 
  • R-Value Work: 0.259 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structural basis for inhibition of translation by the tumor suppressor pdcd4.

Laronde-Leblanc, N.Santhanam, A.N.Baker, A.R.Wlodawer, A.Colburn, N.H.

(2007) Mol.Cell.Biol. 27: 147-156

  • DOI: 10.1128/MCB.00867-06
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The tumor suppressor function of Programmed Cell Death 4 (Pdcd4) is achieved through interactions between Pdcd4 and components of the translation initiation complex, namely, the RNA helicase eIF4A and the scaffolding protein eIF4G. These interactions ...

    The tumor suppressor function of Programmed Cell Death 4 (Pdcd4) is achieved through interactions between Pdcd4 and components of the translation initiation complex, namely, the RNA helicase eIF4A and the scaffolding protein eIF4G. These interactions are mediated through two MA3 domains on the Pdcd4 molecule and result in inhibition of protein synthesis. We have solved the high-resolution crystal structure of the C-terminal MA3 (cMA3) domain of Pdcd4 in several crystal forms and demonstrated its similarity to the MA3 domain of eIF4G. As predicted by the structure, the cMA3 domain competes with eIF4Gc for binding to eIF4A and surprisingly is sufficient to inhibit translation initiation. Mutations that abolish eIF4A binding negate both functions of the cMA3. Interestingly mutations in the Akt phosphorylation site influenced neither cMA3 binding to eIF4A nor its ability to inhibit translation initiation. Finally, our structural analysis reveals MA3 domains to be a novel subfamily of VHS domains.


    Organizational Affiliation

    Macromolecular Crystallography Laboratory, CCR, National Cancer Institute, Frederick, MD 21702, USA. nlaronde@umd.edu




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Programmed Cell Death 4, Pdcd4
A, B
150Mus musculusMutation(s): 0 
Gene Names: Pdcd4 (Ma3, Tis)
Find proteins for Q61823 (Mus musculus)
Go to UniProtKB:  Q61823
Small Molecules
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MSE
Query on MSE
A, B
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.297 
  • R-Value Work: 0.259 
  • Space Group: P 31 2 1
Unit Cell:
Length (Å)Angle (°)
a = 64.650α = 90.00
b = 64.650β = 90.00
c = 164.700γ = 120.00
Software Package:
Software NamePurpose
SOLVEphasing
REFMACrefinement
HKL-2000data scaling
HKL-2000data collection
HKL-2000data reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2006-11-14
    Type: Initial release
  • Version 1.1: 2008-05-01
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Advisory, Version format compliance