9ZBJ | pdb_00009zbj

Cryo-EM structure of human apo mTORC2


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.20 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Structural basis for the recruitment and selective phosphorylation of Akt by mTORC2.

Taylor, M.S.Chen, M.Hancock, M.Wranik, M.Miller, B.D.O'Meara, T.R.Palanski, B.A.Ficarro, S.B.Groendyke, B.J.Xiang, Y.Kondo, K.T.Linde-Garelli, K.Y.Lee, M.J.Mondal, D.Freund, D.Congreve, S.Matas, K.Hennink, M.Xibinaku, K.Valenstein, M.L.van Eeuwen, T.Marto, J.A.Sali, A.Shi, Y.Gray, N.S.Sabatini, D.M.Chu, N.Rogala, K.B.Cole, P.A.

(2026) Science 391: eadv7111-eadv7111

  • DOI: https://doi.org/10.1126/science.adv7111
  • Primary Citation Related Structures: 
    9ZBJ, 9ZBK

  • PubMed Abstract: 

    The mechanistic target of rapamycin (mTOR) protein kinase forms two multiprotein complexes, mTORC1 and mTORC2, that function in distinct signaling pathways. mTORC1 is regulated by nutrients, and mTORC2 is a central node in phosphoinositide-3 kinase (PI3K) and small guanosine triphosphate Ras signaling networks commonly deregulated in cancer and diabetes. Although mTOR phosphorylates many substrates in vitro, in cells, mTORC1 and mTORC2 have high specificity: mTORC2 phosphorylates the protein kinases Akt and PKC, but not closely related kinases that are mTORC1 substrates. To understand how mTORC2 recognizes substrates, we created semisynthetic probes to trap the mTORC2 :: Akt complex and determine its structure. Whereas most protein kinases recognize amino acids adjacent to the phosphorylation site, local sequence contributes little to substrate recognition by mTORC2. Instead, the specificity determinants were secondary and tertiary structural elements of Akt that bound the mTORC2 component mSin1 distal to the mTOR active site and were conserved among at least 18 related substrates. These results reveal how mTORC2 recognizes its canonical substrates and may enable the design of mTORC2-specific inhibitors.


  • Organizational Affiliation
    • Department of Pathology and Laboratory Medicine, Brown University, Providence, RI, USA.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Serine/threonine-protein kinase mTOR2,347Homo sapiensMutation(s): 0 
Gene Names: MTORFRAPFRAP1FRAP2RAFT1RAPT1
EC: 2.7.11.1 (PDB Primary Data), 2.7.10.2 (PDB Primary Data)
UniProt & NIH Common Fund Data Resources
Find proteins for P42345 (Homo sapiens)
Explore P42345 
Go to UniProtKB:  P42345
PHAROS:  P42345
GTEx:  ENSG00000198793 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP42345
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Target of rapamycin complex subunit LST8317Homo sapiensMutation(s): 0 
Gene Names: MLST8GBLLST8
UniProt & NIH Common Fund Data Resources
Find proteins for Q9BVC4 (Homo sapiens)
Explore Q9BVC4 
Go to UniProtKB:  Q9BVC4
PHAROS:  Q9BVC4
GTEx:  ENSG00000167965 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9BVC4
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Rapamycin-insensitive companion of mTOR1,672Homo sapiensMutation(s): 0 
Gene Names: RICTORKIAA1999
UniProt & NIH Common Fund Data Resources
Find proteins for Q6R327 (Homo sapiens)
Explore Q6R327 
Go to UniProtKB:  Q6R327
PHAROS:  Q6R327
GTEx:  ENSG00000164327 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ6R327
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Target of rapamycin complex 2 subunit MAPKAP1148Homo sapiensMutation(s): 0 
Gene Names: MAPKAP1MIP1SIN1
UniProt & NIH Common Fund Data Resources
Find proteins for Q9BPZ7 (Homo sapiens)
Explore Q9BPZ7 
Go to UniProtKB:  Q9BPZ7
PHAROS:  Q9BPZ7
GTEx:  ENSG00000119487 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9BPZ7
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.20 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX1.21.1_5286
RECONSTRUCTIONcryoSPARC5.0

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Cancer Institute (NIH/NCI)United StatesK99/R00 CA255926
National Institutes of Health/National Cancer Institute (NIH/NCI)United StatesR35 GM150935
National Institutes of Health/National Cancer Institute (NIH/NCI)United StatesP30 CA124435
Other privateUnited StatesShmunis Family Innovation Award
Other privateGermanyBridging Excellence Fellowship
Other privateUnited States--

Revision History  (Full details and data files)

  • Version 1.0: 2026-04-15
    Type: Initial release