5NZR

The structure of the COPI coat leaf


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 9.20 Å
  • Aggregation State: 3D ARRAY 
  • Reconstruction Method: SUBTOMOGRAM AVERAGING 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

9 angstrom structure of the COPI coat reveals that the Arf1 GTPase occupies two contrasting molecular environments.

Dodonova, S.O.Aderhold, P.Kopp, J.Ganeva, I.Rohling, S.Hagen, W.J.Sinning, I.Wieland, F.Briggs, J.A.

(2017) Elife 6

  • DOI: 10.7554/eLife.26691
  • Primary Citation of Related Structures:  
    5MU7, 5NZR, 5NZT, 5NZS, 5NZV, 5NZU

  • PubMed Abstract: 
  • COPI coated vesicles mediate trafficking within the Golgi apparatus and between the Golgi and the endoplasmic reticulum. Assembly of a COPI coated vesicle is initiated by the small GTPase Arf1 that recruits the coatomer complex to the membrane, triggering polymerization and budding ...

    COPI coated vesicles mediate trafficking within the Golgi apparatus and between the Golgi and the endoplasmic reticulum. Assembly of a COPI coated vesicle is initiated by the small GTPase Arf1 that recruits the coatomer complex to the membrane, triggering polymerization and budding. The vesicle uncoats before fusion with a target membrane. Coat components are structurally conserved between COPI and clathrin/adaptor proteins. Using cryo-electron tomography and subtomogram averaging, we determined the structure of the COPI coat assembled on membranes in vitro at 9 Å resolution. We also obtained a 2.57 Å resolution crystal structure of βδ-COP. By combining these structures we built a molecular model of the coat. We additionally determined the coat structure in the presence of ArfGAP proteins that regulate coat dissociation. We found that Arf1 occupies contrasting molecular environments within the coat, leading us to hypothesize that some Arf1 molecules may regulate vesicle assembly while others regulate coat disassembly.


    Organizational Affiliation

    MRC Laboratory of Molecular Biology, Cambridge, United Kingdom.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Coatomer subunit alphaA1262Mus musculusMutation(s): 0 
Gene Names: Copa
UniProt
Find proteins for Q8CIE6 (Mus musculus)
Explore Q8CIE6 
Go to UniProtKB:  Q8CIE6
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Coatomer subunit betaB968Mus musculusMutation(s): 0 
Gene Names: Copb1Copb
UniProt
Find proteins for Q9JIF7 (Mus musculus)
Explore Q9JIF7 
Go to UniProtKB:  Q9JIF7
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Coatomer subunit beta'C905Mus musculusMutation(s): 0 
Gene Names: Copb2
UniProt & NIH Common Fund Data Resources
Find proteins for O55029 (Mus musculus)
Explore O55029 
Go to UniProtKB:  O55029
IMPC:  MGI:1354962
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
Coatomer subunit deltaD511Mus musculusMutation(s): 0 
Gene Names: Arcn1Copd
UniProt & NIH Common Fund Data Resources
Find proteins for Q5XJY5 (Mus musculus)
Explore Q5XJY5 
Go to UniProtKB:  Q5XJY5
IMPC:  MGI:2387591
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
ADP-ribosylation factor 1E [auth F], K [auth M], G [auth R]181Saccharomyces cerevisiaeMutation(s): 0 
Gene Names: ARF1YDL192WD1244
UniProt
Find proteins for P11076 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore P11076 
Go to UniProtKB:  P11076
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 6
MoleculeChainsSequence LengthOrganismDetailsImage
Coatomer subunit gamma-1F [auth G], I [auth K]874Mus musculusMutation(s): 0 
Gene Names: Copg1Copg
UniProt & NIH Common Fund Data Resources
Find proteins for Q9QZE5 (Mus musculus)
Explore Q9QZE5 
Go to UniProtKB:  Q9QZE5
IMPC:  MGI:1858696
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 7
MoleculeChainsSequence LengthOrganismDetailsImage
Coatomer subunit zeta-1J [auth L], H [auth Z]177Mus musculusMutation(s): 0 
Gene Names: Copz1Copz
UniProt
Find proteins for P61924 (Mus musculus)
Explore P61924 
Go to UniProtKB:  P61924
Protein Feature View
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 9.20 Å
  • Aggregation State: 3D ARRAY 
  • Reconstruction Method: SUBTOMOGRAM AVERAGING 

Structure Validation

View Full Validation Report




Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
German Research FoundationGermanySFB638 (A16 and Z4)
German Research FoundationGermanyWI 654/12-1

Revision History  (Full details and data files)

  • Version 1.0: 2017-06-28
    Type: Initial release
  • Version 1.1: 2017-08-30
    Changes: Author supporting evidence, Data collection, Experimental preparation, Refinement description
  • Version 1.2: 2018-01-31
    Changes: Data processing
  • Version 1.3: 2018-10-24
    Changes: Advisory, Data collection, Derived calculations