6J56

Crystal structure of Myosin VI CBD in complex with Tom1 MBM


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.80 Å
  • R-Value Free: 0.234 
  • R-Value Work: 0.177 
  • R-Value Observed: 0.179 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Structure of Myosin VI/Tom1 complex reveals a cargo recognition mode of Myosin VI for tethering.

Hu, S.Guo, Y.Wang, Y.Li, Y.Fu, T.Zhou, Z.Wang, Y.Liu, J.Pan, L.

(2019) Nat Commun 10: 3459-3459

  • DOI: https://doi.org/10.1038/s41467-019-11481-6
  • Primary Citation of Related Structures:  
    6J56

  • PubMed Abstract: 

    Myosin VI plays crucial roles in diverse cellular processes. In autophagy, Myosin VI can facilitate the maturation of autophagosomes through interactions with Tom1 and the autophagy receptors, Optineurin, NDP52 and TAX1BP1. Here, we report the high-resolution crystal structure of the C-terminal cargo-binding domain (CBD) of Myosin VI in complex with Tom1, which elucidates the mechanistic basis underpinning the specific interaction between Myosin VI and Tom1, and uncovers that the C-terminal CBD of Myosin VI adopts a unique cargo recognition mode to interact with Tom1 for tethering. Furthermore, we show that Myosin VI can serve as a bridging adaptor to simultaneously interact with Tom1 and autophagy receptors through two distinct interfaces. In all, our findings provide mechanistic insights into the interactions of Myosin VI with Tom1 and relevant autophagy receptors, and are valuable for further understanding the functions of these proteins in autophagy and the cargo recognition modes of Myosin VI.


  • Organizational Affiliation

    State Key Laboratory of Bioorganic and Natural Products Chemistry, Center for Excellence in Molecular Synthesis, Shanghai Institute of Organic Chemistry, University of Chinese Academy of Sciences, Chinese Academy of Sciences, 200032, Shanghai, China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Unconventional myosin-VIA,
C [auth B]
129Homo sapiensMutation(s): 0 
Gene Names: MYO6KIAA0389
UniProt & NIH Common Fund Data Resources
Find proteins for Q9UM54 (Homo sapiens)
Explore Q9UM54 
Go to UniProtKB:  Q9UM54
PHAROS:  Q9UM54
GTEx:  ENSG00000196586 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9UM54
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Peptide from Target of Myb protein 1B [auth C],
D
27Homo sapiensMutation(s): 0 
Gene Names: TOM1
UniProt & NIH Common Fund Data Resources
Find proteins for O60784 (Homo sapiens)
Explore O60784 
Go to UniProtKB:  O60784
PHAROS:  O60784
GTEx:  ENSG00000100284 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO60784
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.80 Å
  • R-Value Free: 0.234 
  • R-Value Work: 0.177 
  • R-Value Observed: 0.179 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 40.733α = 90
b = 74.875β = 106.34
c = 50.873γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-2000data reduction
HKL-2000data scaling
PHENIXphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data

  • Released Date: 2019-08-21 
  • Deposition Author(s): Hu, S., Pan, L.

Funding OrganizationLocationGrant Number
National Natural Science Foundation of ChinaChina31800646
National Natural Science Foundation of ChinaChina21822705

Revision History  (Full details and data files)

  • Version 1.0: 2019-08-21
    Type: Initial release
  • Version 1.1: 2023-11-22
    Changes: Data collection, Database references, Refinement description