- EMDB-22631: PIKfyve/Fig4/Vac14 complex centered on Fig4 - map3 -
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Basic information
Entry
Database: EMDB / ID: EMD-22631
Title
PIKfyve/Fig4/Vac14 complex centered on Fig4 - map3
Map data
PIKfyve complex density map centered on Fig4
Sample
Complex: PIKfyve/Fig4/Vac14 complex
Protein or peptide: Fig4 Sac homology model
Keywords
Lipid kinase / Lipid phosphatase / protein complex / LIPID BINDING PROTEIN
Function / homology
Function and homology information
phosphatidylinositol-3,5-bisphosphate 5-phosphatase activity / Synthesis of PIPs at the late endosome membrane / Synthesis of PIPs at the early endosome membrane / Synthesis of PIPs at the Golgi membrane / Hydrolases; Acting on ester bonds; Phosphoric-monoester hydrolases / phosphatidylinositol dephosphorylation / phosphatidylinositol biosynthetic process / lipid droplet / late endosome membrane / early endosome membrane ...phosphatidylinositol-3,5-bisphosphate 5-phosphatase activity / Synthesis of PIPs at the late endosome membrane / Synthesis of PIPs at the early endosome membrane / Synthesis of PIPs at the Golgi membrane / Hydrolases; Acting on ester bonds; Phosphoric-monoester hydrolases / phosphatidylinositol dephosphorylation / phosphatidylinositol biosynthetic process / lipid droplet / late endosome membrane / early endosome membrane / endosome membrane / Golgi membrane / intracellular membrane-bounded organelle Similarity search - Function
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)
GM131715
United States
Citation
Journal: Mol Cell / Year: 2020 Title: Insights into Lysosomal PI(3,5)P Homeostasis from a Structural-Biochemical Analysis of the PIKfyve Lipid Kinase Complex. Authors: Joshua A Lees / PeiQi Li / Nikit Kumar / Lois S Weisman / Karin M Reinisch / Abstract: The phosphoinositide PI(3,5)P, generated exclusively by the PIKfyve lipid kinase complex, is key for lysosomal biology. Here, we explore how PI(3,5)P levels within cells are regulated. We find the ...The phosphoinositide PI(3,5)P, generated exclusively by the PIKfyve lipid kinase complex, is key for lysosomal biology. Here, we explore how PI(3,5)P levels within cells are regulated. We find the PIKfyve complex comprises five copies of the scaffolding protein Vac14 and one copy each of the lipid kinase PIKfyve, generating PI(3,5)P from PI3P and the lipid phosphatase Fig4, reversing the reaction. Fig4 is active as a lipid phosphatase in the ternary complex, whereas PIKfyve within the complex cannot access membrane-incorporated phosphoinositides due to steric constraints. We find further that the phosphoinositide-directed activities of both PIKfyve and Fig4 are regulated by protein-directed activities within the complex. PIKfyve autophosphorylation represses its lipid kinase activity and stimulates Fig4 lipid phosphatase activity. Further, Fig4 is also a protein phosphatase acting on PIKfyve to stimulate its lipid kinase activity, explaining why catalytically active Fig4 is required for maximal PI(3,5)P production by PIKfyve in vivo.
History
Deposition
Sep 8, 2020
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Header (metadata) release
Oct 21, 2020
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Map release
Oct 21, 2020
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Update
Mar 6, 2024
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Current status
Mar 6, 2024
Processing site: RCSB / Status: Released
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Structure visualization
Movie
Surface view with section colored by density value
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