4UI9

Atomic structure of the human Anaphase-Promoting Complex


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.60 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.4 of the entry. See complete history


Literature

Atomic Structure of the Apc and its Mechanism of Protein Ubiquitination

Chang, L.Zhang, Z.Yang, J.Mclaughlin, S.H.Barford, D.

(2015) Nature 522: 450

  • DOI: https://doi.org/10.1038/nature14471
  • Primary Citation of Related Structures:  
    4UI9, 5A31

  • PubMed Abstract: 

    The anaphase-promoting complex (APC/C) is a multimeric RING E3 ubiquitin ligase that controls chromosome segregation and mitotic exit. Its regulation by coactivator subunits, phosphorylation, the mitotic checkpoint complex and interphase early mitotic inhibitor 1 (Emi1) ensures the correct order and timing of distinct cell-cycle transitions. Here we use cryo-electron microscopy to determine atomic structures of APC/C-coactivator complexes with either Emi1 or a UbcH10-ubiquitin conjugate. These structures define the architecture of all APC/C subunits, the position of the catalytic module and explain how Emi1 mediates inhibition of the two E2s UbcH10 and Ube2S. Definition of Cdh1 interactions with the APC/C indicates how they are antagonized by Cdh1 phosphorylation. The structure of the APC/C with UbcH10-ubiquitin reveals insights into the initiating ubiquitination reaction. Our results provide a quantitative framework for the design of future experiments to investigate APC/C functions in vivo.


  • Organizational Affiliation

    MRC Laboratory of Molecular Biology, Francis Crick Avenue, Cambridge, CB2 0QH, UK.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
ANAPHASE-PROMOTING COMPLEX SUBUNIT 11,944Homo sapiensMutation(s): 0 
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PHAROS:  Q9H1A4
GTEx:  ENSG00000153107 
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UniProt GroupQ9H1A4
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
ANAPHASE-PROMOTING COMPLEX SUBUNIT 1184Homo sapiensMutation(s): 0 
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PHAROS:  Q9NYG5
GTEx:  ENSG00000141552 
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
CELL DIVISION CYCLE PROTEIN 23 HOMOLOG
C, P
591Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000094880 
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UniProt GroupQ9UJX2
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
ANAPHASE-PROMOTING COMPLEX SUBUNIT 15121Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000110200 
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
ANAPHASE-PROMOTING COMPLEX SUBUNIT 16110Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000166295 
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
CELL DIVISION CYCLE PROTEIN 27 HOMOLOG
F, H
824Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000004897 
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
ANAPHASE-PROMOTING COMPLEX SUBUNIT CDC2685Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000176386 
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
ANAPHASE-PROMOTING COMPLEX SUBUNIT 4808Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000053900 
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
CELL DIVISION CYCLE PROTEIN 16 HOMOLOG620Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000130177 
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Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
CELL DIVISION CYCLE PROTEIN 16 HOMOLOG620Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000130177 
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Entity ID: 11
MoleculeChains Sequence LengthOrganismDetailsImage
ANAPHASE-PROMOTING COMPLEX SUBUNIT 10183Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000164162 
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Entity ID: 12
MoleculeChains Sequence LengthOrganismDetailsImage
ANAPHASE-PROMOTING COMPLEX SUBUNIT 1374Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000129055 
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Entity ID: 13
MoleculeChains Sequence LengthOrganismDetailsImage
ANAPHASE-PROMOTING COMPLEX SUBUNIT 2822Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000176248 
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Entity ID: 14
MoleculeChains Sequence LengthOrganismDetailsImage
ANAPHASE-PROMOTING COMPLEX SUBUNIT 5756Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000089053 
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Entity ID: 15
MoleculeChains Sequence LengthOrganismDetailsImage
FIZZY-RELATED PROTEIN HOMOLOGQ [auth R]493Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000105325 
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Entity ID: 16
MoleculeChains Sequence LengthOrganismDetailsImage
F-BOX ONLY PROTEIN 5R [auth S]447Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000112029 
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Entity ID: 17
MoleculeChains Sequence LengthOrganismDetailsImage
PEPTIDES [auth T]21Homo sapiensMutation(s): 0 
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Entity ID: 18
MoleculeChains Sequence LengthOrganismDetailsImage
PEPTIDET [auth U]24Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000112029 
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Entity ID: 19
MoleculeChains Sequence LengthOrganismDetailsImage
ANAPHASE-PROMOTING COMPLEX SUBUNIT CDC26U [auth W]85Homo sapiensMutation(s): 0 
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PHAROS:  Q8NHZ8
GTEx:  ENSG00000176386 
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UniProt GroupQ8NHZ8
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Entity ID: 20
MoleculeChains Sequence LengthOrganismDetailsImage
ANAPHASE-PROMOTING COMPLEX SUBUNIT 7V [auth X],
W [auth Y]
565Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000196510 
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UniProt GroupQ9UJX3
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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.60 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONRELION

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2015-06-17
    Type: Initial release
  • Version 1.1: 2015-06-24
    Changes: Other
  • Version 1.2: 2015-07-01
    Changes: Database references
  • Version 1.3: 2017-08-02
    Changes: Data collection
  • Version 1.4: 2019-04-24
    Changes: Data collection, Other