6BCU

Cryo-EM structure of the activated RHEB-mTORC1 refined to 3.4 angstrom


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.80 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.4 of the entry. See complete history


Literature

Mechanisms of mTORC1 activation by RHEB and inhibition by PRAS40.

Yang, H.Jiang, X.Li, B.Yang, H.J.Miller, M.Yang, A.Dhar, A.Pavletich, N.P.

(2017) Nature 552: 368-373

  • DOI: 10.1038/nature25023
  • Primary Citation of Related Structures:  
    5WBH, 5WBI, 5WBJ, 5WBK, 5WBL, 5WBU, 5WBY, 6BCU, 6BCX

  • PubMed Abstract: 
  • The mechanistic target of rapamycin complex 1 (mTORC1) controls cell growth and metabolism in response to nutrients, energy levels, and growth factors. It contains the atypical kinase mTOR and the RAPTOR subunit that binds to the Tor signalling sequence (TOS) motif of substrates and regulators ...

    The mechanistic target of rapamycin complex 1 (mTORC1) controls cell growth and metabolism in response to nutrients, energy levels, and growth factors. It contains the atypical kinase mTOR and the RAPTOR subunit that binds to the Tor signalling sequence (TOS) motif of substrates and regulators. mTORC1 is activated by the small GTPase RHEB (Ras homologue enriched in brain) and inhibited by PRAS40. Here we present the 3.0 ångström cryo-electron microscopy structure of mTORC1 and the 3.4 ångström structure of activated RHEB-mTORC1. RHEB binds to mTOR distally from the kinase active site, yet causes a global conformational change that allosterically realigns active-site residues, accelerating catalysis. Cancer-associated hyperactivating mutations map to structural elements that maintain the inactive state, and we provide biochemical evidence that they mimic RHEB relieving auto-inhibition. We also present crystal structures of RAPTOR-TOS motif complexes that define the determinants of TOS recognition, of an mTOR FKBP12-rapamycin-binding (FRB) domain-substrate complex that establishes a second substrate-recruitment mechanism, and of a truncated mTOR-PRAS40 complex that reveals PRAS40 inhibits both substrate-recruitment sites. These findings help explain how mTORC1 selects its substrates, how its kinase activity is controlled, and how it is activated by cancer-associated mutations.


    Organizational Affiliation

    Howard Hughes Medical Institute, Memorial Sloan Kettering Cancer Center, New York, New York 10065, USA.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Serine/threonine-protein kinase mTOR,Serine/threonine-protein kinase mTORA,
F [auth B]
2,549Homo sapiensMutation(s): 0 
Gene Names: MTORFRAPFRAP1FRAP2RAFT1RAPT1
EC: 2.7.11.1
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UniProt GroupP42345
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Target of rapamycin complex subunit LST8B [auth D],
G [auth E]
326Homo sapiensMutation(s): 0 
Gene Names: MLST8GBLLST8
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Regulatory-associated protein of mTOR,Regulatory-associated protein of mTORC [auth W],
H [auth Y]
1,343Homo sapiensMutation(s): 0 
Gene Names: RPTORKIAA1303RAPTOR
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
Eukaryotic translation initiation factor 4E-binding protein 1D [auth X],
I [auth Z]
122Homo sapiensMutation(s): 0 
Gene Names: EIF4EBP1
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
GTP-binding protein RhebJ [auth R],
E [auth S]
188Homo sapiensMutation(s): 0 
Gene Names: RHEBRHEB2
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Small Molecules
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.80 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Howard Hughes Medical Institute (HHMI)United States--

Revision History  (Full details and data files)

  • Version 1.0: 2017-12-20
    Type: Initial release
  • Version 1.1: 2018-01-17
    Changes: Author supporting evidence
  • Version 1.2: 2018-01-24
    Changes: Database references
  • Version 1.3: 2018-10-03
    Changes: Data collection, Refinement description
  • Version 1.4: 2019-11-20
    Changes: Author supporting evidence