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TitleRegulation of human mTOR complexes by DEPTOR.
Journal, issue, pagesElife, Vol. 10, Year 2021
Publish dateSep 14, 2021
AuthorsMatthias Wälchli / Karolin Berneiser / Francesca Mangia / Stefan Imseng / Louise-Marie Craigie / Edward Stuttfeld / Michael N Hall / Timm Maier /
PubMed AbstractThe vertebrate-specific DEP domain-containing mTOR interacting protein (DEPTOR), an oncoprotein or tumor suppressor, has important roles in metabolism, immunity, and cancer. It is the only protein ...The vertebrate-specific DEP domain-containing mTOR interacting protein (DEPTOR), an oncoprotein or tumor suppressor, has important roles in metabolism, immunity, and cancer. It is the only protein that binds and regulates both complexes of mammalian target of rapamycin (mTOR), a central regulator of cell growth. Biochemical analysis and cryo-EM reconstructions of DEPTOR bound to human mTOR complex 1 (mTORC1) and mTORC2 reveal that both structured regions of DEPTOR, the PDZ domain and the DEP domain tandem (DEPt), are involved in mTOR interaction. The PDZ domain binds tightly with mildly activating effect, but then acts as an anchor for DEPt association that allosterically suppresses mTOR activation. The binding interfaces of the PDZ domain and DEPt also support further regulation by other signaling pathways. A separate, substrate-like mode of interaction for DEPTOR phosphorylation by mTOR complexes rationalizes inhibition of non-stimulated mTOR activity at higher DEPTOR concentrations. The multifaceted interplay between DEPTOR and mTOR provides a basis for understanding the divergent roles of DEPTOR in physiology and opens new routes for targeting the mTOR-DEPTOR interaction in disease.
External linksElife / PubMed:34519268 / PubMed Central
MethodsEM (single particle) / X-ray diffraction
Resolution1.93 - 4.24 Å
Structure data

EMDB-13347, PDB-7pe7:
cryo-EM structure of DEPTOR bound to human mTOR complex 2, overall refinement
Method: EM (single particle) / Resolution: 3.41 Å

EMDB-13348, PDB-7pe8:
cryo-EM structure of DEPTOR bound to human mTOR complex 2, focussed on one protomer
Method: EM (single particle) / Resolution: 3.2 Å

EMDB-13349, PDB-7pe9:
cryo-EM structure of DEPTOR bound to human mTOR complex 2, DEPt-bound subset local refinement
Method: EM (single particle) / Resolution: 3.7 Å

EMDB-13350, PDB-7pea:
cryo-EM structure of DEPTOR bound to human mTOR complex 1, overall refinement
Method: EM (single particle) / Resolution: 4.07 Å

EMDB-13351, PDB-7peb:
cryo-EM structure of DEPTOR bound to human mTOR complex 1, focussed on one protomer
Method: EM (single particle) / Resolution: 3.67 Å

EMDB-13352, PDB-7pec:
cryo-EM structure of DEPTOR bound to human mTOR complex 1, DEPt-bound subset local refinement
Method: EM (single particle) / Resolution: 4.24 Å

PDB-7ped:
DEPTOR DEP domain tandem (DEPt)
Method: X-RAY DIFFRACTION / Resolution: 1.93 Å

Chemicals

ChemComp-IHP:
INOSITOL HEXAKISPHOSPHATE

ChemComp-ZN:
Unknown entry

ChemComp-ACE:
ACETYL GROUP

ChemComp-HOH:
WATER

Source
  • homo sapiens (human)
KeywordsSIGNALING PROTEIN / DEPTOR / mTOR / regulator / inhibitor / mTORC2 / DEP-domain / PDZ-domain / mTORC1 / mTOR-binding

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