5ANR

Structure of a human 4E-T - DDX6 - CNOT1 complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.102 Å
  • R-Value Free: 0.232 
  • R-Value Work: 0.193 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Structure of a Human 4E-T/Ddx6/Cnot1 Complex Reveals the Different Interplay of Ddx6-Binding Proteins with the Ccr4-not Complex.

Ozgur, S.Basquin, J.Kamenska, A.Filipowicz, W.Standart, N.Conti, E.

(2015) Cell Rep. 13: 703

  • DOI: 10.1016/j.celrep.2015.09.033

  • PubMed Abstract: 
  • The DEAD-box protein DDX6 is a central component of translational repression mechanisms in maternal mRNA storage in oocytes and microRNA-mediated silencing in somatic cells. DDX6 interacts with the CCR4-NOT complex and functions in concert with sever ...

    The DEAD-box protein DDX6 is a central component of translational repression mechanisms in maternal mRNA storage in oocytes and microRNA-mediated silencing in somatic cells. DDX6 interacts with the CCR4-NOT complex and functions in concert with several post-transcriptional regulators, including Edc3, Pat1, and 4E-T. We show that the conserved CUP-homology domain (CHD) of human 4E-T interacts directly with DDX6 in both the presence and absence of the central MIF4G domain of CNOT1. The 2.1-Å resolution structure of the corresponding ternary complex reveals how 4E-T CHD wraps around the RecA2 domain of DDX6 and contacts CNOT1. Although 4E-T CHD lacks recognizable sequence similarity with Edc3 or Pat1, it shares the same DDX6-binding surface. In contrast to 4E-T, however, the Edc3 and Pat1 FDF motifs dissociate from DDX6 upon CNOT1 MIF4G binding in vitro. The results underscore the presence of a complex network of simultaneous and/or mutually exclusive interactions in DDX6-mediated repression.


    Organizational Affiliation

    Department of Structural Cell Biology, Max-Planck-Institute of Biochemistry, Am Klopferspitz 18, 82152 Martinsried/Munich, Germany.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
CCR4-NOT TRANSCRIPTION COMPLEX SUBUNIT 1
A
258Homo sapiensMutation(s): 0 
Gene Names: CNOT1 (CDC39, KIAA1007, NOT1)
Find proteins for A5YKK6 (Homo sapiens)
Go to Gene View: CNOT1
Go to UniProtKB:  A5YKK6
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
PROBABLE ATP-DEPENDENT RNA HELICASE DDX6
B
378Homo sapiensMutation(s): 0 
Gene Names: DDX6 (HLR2, RCK)
EC: 3.6.4.13
Find proteins for P26196 (Homo sapiens)
Go to Gene View: DDX6
Go to UniProtKB:  P26196
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
EUKARYOTIC TRANSLATION INITIATION FACTOR 4E TRANSPORTER
C
44Homo sapiensMutation(s): 0 
Gene Names: EIF4ENIF1
Find proteins for Q9NRA8 (Homo sapiens)
Go to Gene View: EIF4ENIF1
Go to UniProtKB:  Q9NRA8
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.102 Å
  • R-Value Free: 0.232 
  • R-Value Work: 0.193 
  • Space Group: P 32 2 1
Unit Cell:
Length (Å)Angle (°)
a = 93.129α = 90.00
b = 93.129β = 90.00
c = 175.329γ = 120.00
Software Package:
Software NamePurpose
XDSdata reduction
SCALAdata scaling
PHENIXrefinement
PHASERphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2015-10-21
    Type: Initial release
  • Version 1.1: 2016-04-27
    Type: Database references