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Structure paper

TitleStructural pathway for class III PI 3-kinase activation by the myristoylated GTPbinding pseudokinase VPS15
Journal, issue, pagesTo Be Published
Publish dateDec 9, 2024 (structure data deposition date)
AuthorsCook ASI / Chen M / Ngyuen TN / Claveras-Cabezudo A / Khuu G / Rao S / Garcia SN / Yang M / Iavarone AT / Ren X ...Cook ASI / Chen M / Ngyuen TN / Claveras-Cabezudo A / Khuu G / Rao S / Garcia SN / Yang M / Iavarone AT / Ren X / Lazarou M / Hummer G / Hurley JH
External linksSearch PubMed
MethodsEM (single particle)
Resolution2.62 - 7.0 Å
Structure data

EMDB-48230: PI3KC3-C1 bound to RAB1A, no VPS34 Kinase domain
Method: EM (single particle) / Resolution: 2.73 Å

EMDB-48231: Local Refinement of VPS15 pseudokinase domain and helical repeats
Method: EM (single particle) / Resolution: 2.67 Å

EMDB-48232: PI3KC3-C1 Bound to RAB1A local refinement of RAB1A/VPS34 interface
Method: EM (single particle) / Resolution: 2.68 Å

EMDB-48233: PI3KC3-C1 bound to RAB1A. Local refinement of Bara like domains of BECN1 and ATG14, and VPS15 WD40 domain
Method: EM (single particle) / Resolution: 2.62 Å

EMDB-48257: PI3KC3-C1 bound to RAB1A in the inactive state. Consensus refinement
Method: EM (single particle) / Resolution: 3.1 Å

EMDB-48258: PI3KC3C1 bound to RAB1A, Inactive state, VPS34 kinase domain local refinement
Method: EM (single particle) / Resolution: 3.1 Å

EMDB-48259: PI3KC3-C1 bound to RAB1A. Consensus inactive state refinement of particle subset with strongest kinase domain density
Method: EM (single particle) / Resolution: 3.3 Å

EMDB-48260: PI3KC3-C1 bound to RAB1A. Local refinement of VPS34KD in the inactive state, particle subset
Method: EM (single particle) / Resolution: 3.3 Å

EMDB-48272: PI3KC3-C1 bound to RAB1A. VPS34 kinase domain in the active conformation, consensus reconstruction
Method: EM (single particle) / Resolution: 5.0 Å

EMDB-48273: PI3KC3-C1 bound to RAB1A, VPS34 in active state.
Method: EM (single particle) / Resolution: 7.0 Å

48276

9mhf

EMDB-48276, PDB-9mhf:
Cryo-EM reconstruction of PI3KC3-C1 in complex with Human RAB1A(Q70L)
Method: EM (single particle) / Resolution: 2.73 Å

48277

9mhg

EMDB-48277, PDB-9mhg:
Cryo EM reconstruction of PI3KC3-C1 in complex with Human RAB1A(Q70L), VPS34 kinase domain in the inactive conformation
Method: EM (single particle) / Resolution: 3.2 Å

48278

9mhh

EMDB-48278, PDB-9mhh:
PI3KC3-C1 in complex with RAB1A. VPS34 kinase domain active conformation
Method: EM (single particle) / Resolution: 4.5 Å

Chemicals

ChemComp-GTP:
GUANOSINE-5'-TRIPHOSPHATE / GTP, energy-carrying molecule*YM

ChemComp-MG:
Unknown entry

ChemComp-MYR:
MYRISTIC ACID

ChemComp-HOH:
WATER

Source
  • homo sapiens (human)
KeywordsSIGNALING PROTEIN / Complex / GTPase / GTP-binding / Autophagy / Kinase / Lipid Kinase

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