5FU7

drosophila nanos NBR peptide bound to the NOT module of the human CCR4-NOT complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.1 Å
  • R-Value Free: 0.227 
  • R-Value Work: 0.165 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Distinct Modes of Recruitment of the Ccr4-not Complex by Drosophila and Vertebrate Nanos

Bhandari, D.Sabath, K.Helms, S.Valkov, E.Weichenrieder, O.Izaurralde, E.Raisch, T.

(2016) Embo J. 35: 974

  • DOI: 10.15252/embj.201593634
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Nanos proteins repress the expression of target mRNAs by recruiting effector complexes through non-conserved N-terminal regions. In vertebrates, Nanos proteins interact with the NOT1 subunit of the CCR4-NOT effector complex through a NOT1 interacting ...

    Nanos proteins repress the expression of target mRNAs by recruiting effector complexes through non-conserved N-terminal regions. In vertebrates, Nanos proteins interact with the NOT1 subunit of the CCR4-NOT effector complex through a NOT1 interacting motif (NIM), which is absent in Nanos orthologs from several invertebrate species. Therefore, it has remained unclear whether the Nanos repressive mechanism is conserved and whether it also involves direct interactions with the CCR4-NOT deadenylase complex in invertebrates. Here, we identify an effector domain (NED) that is necessary for the Drosophila melanogaster (Dm) Nanos to repress mRNA targets. The NED recruits the CCR4-NOT complex through multiple and redundant binding sites, including a central region that interacts with the NOT module, which comprises the C-terminal domains of NOT1-3. The crystal structure of the NED central region bound to the NOT module reveals an unanticipated bipartite binding interface that contacts NOT1 and NOT3 and is distinct from the NIM of vertebrate Nanos. Thus, despite the absence of sequence conservation, the N-terminal regions of Nanos proteins recruit CCR4-NOT to assemble analogous repressive complexes.


    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
CCR4-NOT TRANSCRIPTION COMPLEX SUBUNIT 1
A, E
535Homo sapiensMutation(s): 3 
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
CCR4-NOT TRANSCRIPTION COMPLEX SUBUNIT 2
B, F
197Homo sapiensMutation(s): 0 
Gene Names: CNOT2 (CDC36, NOT2)
Find proteins for Q9NZN8 (Homo sapiens)
Go to Gene View: CNOT2
Go to UniProtKB:  Q9NZN8
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
CCR4-NOT TRANSCRIPTION COMPLEX SUBUNIT 3
C, G
148Homo sapiensMutation(s): 0 
Gene Names: CNOT3 (KIAA0691, LENG2, NOT3)
Find proteins for O75175 (Homo sapiens)
Go to Gene View: CNOT3
Go to UniProtKB:  O75175
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
NANOS, ISOFORM B
D, H
54Drosophila melanogasterMutation(s): 0 
Gene Names: nos (Dmel\CG5637, DRONANOS, Dronanos, l(3)07117, l(3)j3B6, l(3)j4B6, NANOS, Nanos, nNOS, NOS, Nos)
Find proteins for A0A0B4KGY5 (Drosophila melanogaster)
Go to UniProtKB:  A0A0B4KGY5
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.1 Å
  • R-Value Free: 0.227 
  • R-Value Work: 0.165 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 75.950α = 90.00
b = 135.670β = 107.98
c = 104.970γ = 90.00
Software Package:
Software NamePurpose
XDSdata reduction
PHASERphasing
BUSTERrefinement
XSCALEdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2016-03-23
    Type: Initial release
  • Version 1.1: 2016-05-18
    Type: Database references