8BFI

human CNOT1-CNOT10-CNOT11 module


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.00 Å
  • R-Value Free: 0.283 
  • R-Value Work: 0.262 
  • R-Value Observed: 0.263 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

The human CNOT1-CNOT10-CNOT11 complex forms a structural platform for protein-protein interactions.

Mauxion, F.Basquin, J.Ozgur, S.Rame, M.Albrecht, J.Schafer, I.Seraphin, B.Conti, E.

(2023) Cell Rep 42: 111902-111902

  • DOI: https://doi.org/10.1016/j.celrep.2022.111902
  • Primary Citation of Related Structures:  
    8BFH, 8BFI, 8BFJ

  • PubMed Abstract: 

    The evolutionary conserved CCR4-NOT complex functions in the cytoplasm as the main mRNA deadenylase in both constitutive mRNA turnover and regulated mRNA decay pathways. The versatility of this complex is underpinned by its modular multi-subunit organization, with distinct structural modules actuating different functions. The structure and function of all modules are known, except for that of the N-terminal module. Using different structural approaches, we obtained high-resolution data revealing the architecture of the human N-terminal module composed of CNOT1, CNOT10, and CNOT11. The structure shows how two helical domains of CNOT1 sandwich CNOT10 and CNOT11, leaving the most conserved domain of CNOT11 protruding into solvent as an antenna. We discovered that GGNBP2, a protein identified as a tumor suppressor and spermatogenic factor, is a conserved interacting partner of the CNOT11 antenna domain. Structural and biochemical analyses thus pinpoint the N-terminal CNOT1-CNOT10-CNOT11 module as a conserved protein-protein interaction platform.


  • Organizational Affiliation

    Institut de Génétique et de Biologie Moléculaire et cellulaire (IGBMC), Centre National de Recherche scientifique (CNRS) UMR 7104 - Institut National de santé et de Recherche Médicale (Inserm) U964 - Université de Strasbourg, 1 rue Laurent Fries, Illkirch, France. Electronic address: mauxion@igbmc.fr.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
CCR4-NOT transcription complex subunit 1778Homo sapiensMutation(s): 0 
Gene Names: CNOT1CDC39KIAA1007NOT1AD-005
UniProt & NIH Common Fund Data Resources
Find proteins for A5YKK6 (Homo sapiens)
Explore A5YKK6 
Go to UniProtKB:  A5YKK6
PHAROS:  A5YKK6
GTEx:  ENSG00000125107 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA5YKK6
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
CCR4-NOT transcription complex subunit 10718Homo sapiensMutation(s): 0 
Gene Names: CNOT10
UniProt & NIH Common Fund Data Resources
Find proteins for Q9H9A5 (Homo sapiens)
Explore Q9H9A5 
Go to UniProtKB:  Q9H9A5
PHAROS:  Q9H9A5
GTEx:  ENSG00000182973 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9H9A5
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
CCR4-NOT transcription complex subunit 11455Homo sapiensMutation(s): 0 
Gene Names: CNOT11C2orf29C40
UniProt & NIH Common Fund Data Resources
Find proteins for Q9UKZ1 (Homo sapiens)
Explore Q9UKZ1 
Go to UniProtKB:  Q9UKZ1
PHAROS:  Q9UKZ1
GTEx:  ENSG00000158435 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9UKZ1
Sequence Annotations
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  • Reference Sequence
Small Molecules
Modified Residues  1 Unique
IDChains TypeFormula2D DiagramParent
MSE
Query on MSE
A
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.00 Å
  • R-Value Free: 0.283 
  • R-Value Work: 0.262 
  • R-Value Observed: 0.263 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 83.76α = 90
b = 110.64β = 103.39
c = 128.58γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
Aimlessdata scaling
PHENIXphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
European Research Council (ERC)European UnionEXORICO

Revision History  (Full details and data files)

  • Version 1.0: 2022-12-28
    Type: Initial release
  • Version 1.1: 2023-01-11
    Changes: Database references
  • Version 1.2: 2023-02-15
    Changes: Database references
  • Version 1.3: 2024-11-13
    Changes: Data collection, Structure summary