7TZO

The apo structure of human mTORC2 complex


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.28 Å
  • Aggregation State: 3D ARRAY 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Interactions between mTORC2 core subunits Rictor and mSin1 dictate selective and context-dependent phosphorylation of substrate kinases SGK1 and Akt.

Yu, Z.Chen, J.Takagi, E.Wang, F.Saha, B.Liu, X.Joubert, L.M.Gleason, C.E.Jin, M.Li, C.Nowotny, C.Agard, D.Cheng, Y.Pearce, D.

(2022) J Biol Chem 298: 102288-102288

  • DOI: https://doi.org/10.1016/j.jbc.2022.102288
  • Primary Citation of Related Structures:  
    7TZO

  • PubMed Abstract: 

    Mechanistic target of rapamycin complex 2 (mTORC2) is a multi-subunit kinase complex, central to multiple essential signaling pathways. Two core subunits, Rictor and mSin1, distinguish it from the related mTORC1 and support context-dependent phosphorylation of its substrates. mTORC2 structures have been determined previously; however, important questions remain, particularly regarding the structural determinants mediating substrate specificity and context-dependent activity. Here, we used cryo-EM to obtain high-resolution structures of the human mTORC2 apo-complex in the presence of substrates Akt and SGK1. Using functional assays, we then tested predictions suggested by substrate-induced structural changes in mTORC2. For the first time, we visualized in the apo-state the side chain interactions between Rictor and mTOR that sterically occlude recruitment of mTORC1 substrates and confer resistance to the mTORC1 inhibitor rapamycin. Also in the apo-state, we observed that mSin1 formed extensive contacts with Rictor via a pair of short α-helices nestled between two Rictor helical repeat clusters, as well as by an extended strand that makes multiple weak contacts with Rictor helical cluster 1. In co-complex structures, we found that SGK1, but not Akt, markedly altered the conformation of the mSin1 N-terminal extended strand, disrupting multiple weak interactions while inducing a large rotation of mSin1 residue Arg-83, which then interacts with a patch of negatively charged residues within Rictor. Finally, we demonstrate mutation of Arg-83 to Ala selectively disrupts mTORC2-dependent phosphorylation of SGK1, but not of Akt, supporting context-dependent substrate selection. These findings provide new structural and functional insights into mTORC2 specificity and context-dependent activity.


  • Organizational Affiliation

    Department of Biochemistry and Biophysics, University of California, San Francisco, California, USA.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Serine/threonine-protein kinase mTOR
A, B
2,674Homo sapiensMutation(s): 0 
Gene Names: MTORFRAPFRAP1FRAP2RAFT1RAPT1
EC: 2.7.11.1
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Find proteins for P42345 (Homo sapiens)
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PHAROS:  P42345
GTEx:  ENSG00000198793 
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UniProt GroupP42345
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Target of rapamycin complex subunit LST8
C, D
347Homo sapiensMutation(s): 0 
Gene Names: MLST8GBLLST8
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PHAROS:  Q9BVC4
GTEx:  ENSG00000167965 
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UniProt GroupQ9BVC4
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Rapamycin-insensitive companion of mTOR
E, F
1,720Homo sapiensMutation(s): 0 
Gene Names: RICTORKIAA1999
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Find proteins for Q6R327 (Homo sapiens)
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GTEx:  ENSG00000164327 
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Target of rapamycin complex 2 subunit MAPKAP1
G, H
538Homo sapiensMutation(s): 0 
Gene Names: MAPKAP1MIP1SIN1
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PHAROS:  Q9BPZ7
GTEx:  ENSG00000119487 
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UniProt GroupQ9BPZ7
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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.28 Å
  • Aggregation State: 3D ARRAY 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Cancer Institute (NIH/NCI)United States--

Revision History  (Full details and data files)

  • Version 1.0: 2023-01-11
    Type: Initial release
  • Version 1.1: 2024-06-12
    Changes: Data collection