9F43

cryo-EM structure of human LST2 bound to human mTOR complex 1, focused on RAPTOR


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.49 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

mTORC1 phosphorylates and stabilizes LST2 to negatively regulate EGFR.

Battaglioni, S.Craigie, L.M.Filippini, S.Maier, T.Hall, M.N.

(2024) Proc Natl Acad Sci U S A 121: e2405959121-e2405959121

  • DOI: https://doi.org/10.1073/pnas.2405959121
  • Primary Citation of Related Structures:  
    9F42, 9F43, 9F44, 9F45

  • PubMed Abstract: 

    TORC1 (target of rapamycin complex 1) is a highly conserved protein kinase that plays a central role in regulating cell growth. Given the role of mammalian TORC1 (mTORC1) in metabolism and disease, understanding mTORC1 downstream signaling and feedback loops is important. mTORC1 recognizes some of its substrates via a five amino acid binding sequence called the TOR signaling (TOS) motif. mTORC1 binding to a TOS motif facilitates phosphorylation of a distinct, distal site. Here, we show that LST2, also known as ZFYVE28, contains a TOS motif (amino acids 401 to 405) and is directly phosphorylated by mTORC1 at serine 670 (S670). mTORC1-mediated S670 phosphorylation promotes LST2 monoubiquitination on lysine 87 (K87). Monoubiquitinated LST2 is stable and displays a broad reticular distribution. When mTORC1 is inactive, unphosphorylated LST2 is degraded by the proteasome. The absence of LST2 enhances EGFR (epidermal growth factor receptor) signaling. We propose that mTORC1 negatively feeds back on its upstream receptor EGFR via LST2.


  • Organizational Affiliation

    Biozentrum, University of Basel, Basel 4056, Switzerland.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Regulatory-associated protein of mTORA [auth E]1,363Homo sapiensMutation(s): 0 
Gene Names: RPTORKIAA1303RAPTOR
UniProt & NIH Common Fund Data Resources
Find proteins for Q8N122 (Homo sapiens)
Explore Q8N122 
Go to UniProtKB:  Q8N122
PHAROS:  Q8N122
GTEx:  ENSG00000141564 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8N122
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Lateral signaling target protein 2 homologB [auth G]887Homo sapiensMutation(s): 0 
Gene Names: ZFYVE28KIAA1643LST2
UniProt & NIH Common Fund Data Resources
Find proteins for Q9HCC9 (Homo sapiens)
Explore Q9HCC9 
Go to UniProtKB:  Q9HCC9
PHAROS:  Q9HCC9
GTEx:  ENSG00000159733 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9HCC9
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.49 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX
RECONSTRUCTIONcryoSPARC

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Swiss National Science FoundationSwitzerland179323
H2020 Marie Curie Actions of the European CommissionEuropean Union812830

Revision History  (Full details and data files)

  • Version 1.0: 2024-08-14
    Type: Initial release
  • Version 1.1: 2024-08-28
    Changes: Data collection, Database references