6SB0

cryo-EM structure of mTORC1 bound to PRAS40-fused active RagA/C GTPases


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 5.50 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Architecture of human Rag GTPase heterodimers and their complex with mTORC1.

Anandapadamanaban, M.Masson, G.R.Perisic, O.Berndt, A.Kaufman, J.Johnson, C.M.Santhanam, B.Rogala, K.B.Sabatini, D.M.Williams, R.L.

(2019) Science 366: 203-210

  • DOI: https://doi.org/10.1126/science.aax3939
  • Primary Citation of Related Structures:  
    6S6A, 6S6D, 6SB0, 6SB2

  • PubMed Abstract: 

    The Rag guanosine triphosphatases (GTPases) recruit the master kinase mTORC1 to lysosomes to regulate cell growth and proliferation in response to amino acid availability. The nucleotide state of Rag heterodimers is critical for their association with mTORC1. Our cryo-electron microscopy structure of RagA/RagC in complex with mTORC1 shows the details of RagA/RagC binding to the RAPTOR subunit of mTORC1 and explains why only the RagA GTP /RagC GDP nucleotide state binds mTORC1. Previous kinetic studies suggested that GTP binding to one Rag locks the heterodimer to prevent GTP binding to the other. Our crystal structures and dynamics of RagA/RagC show the mechanism for this locking and explain how oncogenic hotspot mutations disrupt this process. In contrast to allosteric activation by RHEB, Rag heterodimer binding does not change mTORC1 conformation and activates mTORC1 by targeting it to lysosomes.


  • Organizational Affiliation

    MRC Laboratory of Molecular Biology, Cambridge CB2 0QH, UK.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
mTOR,Serine/threonine-protein kinase mTOR,mTOR,Serine/threonine-protein kinase mTOR
A, B
2,549Homo sapiensMutation(s): 0 
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 LST8C [auth E],
H
326Homo sapiensMutation(s): 0 
Gene Names: MLST8GBLLST8
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GTEx:  ENSG00000167965 
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Ras-related GTP-binding protein AD [auth C],
I
313Homo sapiensMutation(s): 1 
Gene Names: RRAGA
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GTEx:  ENSG00000155876 
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Ras-related GTP-binding protein CE [auth D],
J
399Homo sapiensMutation(s): 1 
Gene Names: RRAGC
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GTEx:  ENSG00000116954 
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Regulatory-associated protein of mTORF [auth Y],
K [auth N]
1,335Homo sapiensMutation(s): 0 
Gene Names: RPTORKIAA1303RAPTOR
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GTEx:  ENSG00000141564 
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
Proline-rich AKT1 substrate 1G [auth T],
L [auth O]
256Homo sapiensMutation(s): 0 
Gene Names: AKT1S1PRAS40
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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 5.50 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTREFMAC5.8.0238
RECONSTRUCTIONRELION3.0.6

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Medical Research Council (United Kingdom)United KingdomMC_U105184308
Cancer Research UKUnited KingdomC14801/A21211
European Molecular Biology OrganizationUnited Kingdomlong-term fellowship

Revision History  (Full details and data files)

  • Version 1.0: 2019-10-16
    Type: Initial release
  • Version 1.1: 2019-10-23
    Changes: Data collection, Database references