Crystal structure of alpha-COP

Experimental Data Snapshot

  • Resolution: 1.67 Å
  • R-Value Free: 0.192 
  • R-Value Work: 0.167 
  • R-Value Observed: 0.169 

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Rules for the recognition of dilysine retrieval motifs by coatomer.

Ma, W.Goldberg, J.

(2013) EMBO J 32: 926-937

  • DOI: https://doi.org/10.1038/emboj.2013.41
  • Primary Citation of Related Structures:  
    4J73, 4J77, 4J78, 4J79, 4J81, 4J82, 4J84, 4J86, 4J87, 4J8B, 4J8G

  • PubMed Abstract: 

    Cytoplasmic dilysine motifs on transmembrane proteins are captured by coatomer α-COP and β'-COP subunits and packaged into COPI-coated vesicles for Golgi-to-ER retrieval. Numerous ER/Golgi proteins contain K(x)Kxx motifs, but the rules for their recognition are unclear. We present crystal structures of α-COP and β'-COP bound to a series of naturally occurring retrieval motifs-encompassing KKxx, KxKxx and non-canonical RKxx and viral KxHxx sequences. Binding experiments show that α-COP and β'-COP have generally the same specificity for KKxx and KxKxx, but only β'-COP recognizes the RKxx signal. Dilysine motif recognition involves lysine side-chain interactions with two acidic patches. Surprisingly, however, KKxx and KxKxx motifs bind differently, with their lysine residues transposed at the binding patches. We derive rules for retrieval motif recognition from key structural features: the reversed binding modes, the recognition of the C-terminal carboxylate group which enforces lysine positional context, and the tolerance of the acidic patches for non-lysine residues.

  • Organizational Affiliation

    Memorial Sloan-Kettering Cancer Center, Howard Hughes Medical Institute and the Structural Biology Program, New York, NY, USA.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
coatomer subunit alpha327Schizosaccharomyces pombeMutation(s): 0 
Find proteins for Q96WV5 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
Explore Q96WV5 
Go to UniProtKB:  Q96WV5
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ96WV5
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 1.67 Å
  • R-Value Free: 0.192 
  • R-Value Work: 0.167 
  • R-Value Observed: 0.169 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 37.432α = 90
b = 53.614β = 90
c = 157.961γ = 90
Software Package:
Software NamePurpose
ADSCdata collection

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2013-03-27
    Type: Initial release
  • Version 1.1: 2013-04-17
    Changes: Database references
  • Version 1.2: 2024-02-28
    Changes: Data collection, Database references