- PDB-6hog: Structure of VPS34 LIR motif bound to GABARAP -
+
Open data
ID or keywords:
Loading...
-
Basic information
Entry
Database: PDB / ID: 6hog
Title
Structure of VPS34 LIR motif bound to GABARAP
Components
Phosphatidylinositol 3-kinase catalytic subunit type 3,Gamma-aminobutyric acid receptor-associated protein
Keywords
SIGNALING PROTEIN / Autophagy / ATG8 / LIR
Function / homology
Function and homology information
Toll Like Receptor 9 (TLR9) Cascade / protein lipidation / Synthesis of PIPs at the late endosome membrane / phosphatidylinositol 3-kinase complex, class III / Synthesis of PIPs at the early endosome membrane / phosphatidylinositol 3-kinase complex, class III, type II / phosphatidylinositol 3-kinase complex, class III, type I / positive regulation of protein K48-linked ubiquitination / positive regulation by host of viral genome replication / Synthesis of PIPs at the Golgi membrane ...Toll Like Receptor 9 (TLR9) Cascade / protein lipidation / Synthesis of PIPs at the late endosome membrane / phosphatidylinositol 3-kinase complex, class III / Synthesis of PIPs at the early endosome membrane / phosphatidylinositol 3-kinase complex, class III, type II / phosphatidylinositol 3-kinase complex, class III, type I / positive regulation of protein K48-linked ubiquitination / positive regulation by host of viral genome replication / Synthesis of PIPs at the Golgi membrane / regulation of Rac protein signal transduction / phosphatidylinositol kinase activity / GABA receptor binding / protein localization to phagophore assembly site / protein targeting to lysosome / early endosome to late endosome transport / phosphatidylethanolamine binding / Translation of Replicase and Assembly of the Replication Transcription Complex / phagophore assembly site / cellular response to nitrogen starvation / TBC/RABGAPs / microtubule associated complex / autolysosome / phosphatidylinositol 3-kinase / phosphatidylinositol-3-phosphate biosynthetic process / 1-phosphatidylinositol-3-kinase activity / Macroautophagy / beta-tubulin binding / axoneme / phosphatidylinositol-mediated signaling / phosphatidylinositol phosphate biosynthetic process / autophagosome membrane / autophagosome maturation / extrinsic apoptotic signaling pathway via death domain receptors / autophagosome assembly / autophagosome / PI3K Cascade / RHO GTPases Activate NADPH Oxidases / smooth endoplasmic reticulum / protein targeting / regulation of macroautophagy / cellular response to glucose starvation / sperm midpiece / regulation of cytokinesis / regulation of autophagy / macroautophagy / Antigen Presentation: Folding, assembly and peptide loading of class I MHC / autophagy / microtubule cytoskeleton organization / endocytosis / phagocytic vesicle membrane / actin cytoskeleton / positive regulation of proteasomal ubiquitin-dependent protein catabolic process / protein transport / late endosome / peroxisome / kinase activity / Translation of Replicase and Assembly of the Replication Transcription Complex / midbody / cytoplasmic vesicle / microtubule binding / chemical synaptic transmission / microtubule / lysosome / protein kinase activity / endosome / cell division / Golgi membrane / ubiquitin protein ligase binding / synapse / SARS-CoV-2 activates/modulates innate and adaptive immune responses / ATP binding / membrane / plasma membrane / cytosol / cytoplasm Similarity search - Function
In the structure databanks used in Yorodumi, some data are registered as the other names, "COVID-19 virus" and "2019-nCoV". Here are the details of the virus and the list of structure data.
Jan 31, 2019. EMDB accession codes are about to change! (news from PDBe EMDB page)
EMDB accession codes are about to change! (news from PDBe EMDB page)
The allocation of 4 digits for EMDB accession codes will soon come to an end. Whilst these codes will remain in use, new EMDB accession codes will include an additional digit and will expand incrementally as the available range of codes is exhausted. The current 4-digit format prefixed with “EMD-” (i.e. EMD-XXXX) will advance to a 5-digit format (i.e. EMD-XXXXX), and so on. It is currently estimated that the 4-digit codes will be depleted around Spring 2019, at which point the 5-digit format will come into force.
The EM Navigator/Yorodumi systems omit the EMD- prefix.
Related info.:Q: What is EMD? / ID/Accession-code notation in Yorodumi/EM Navigator
Yorodumi is a browser for structure data from EMDB, PDB, SASBDB, etc.
This page is also the successor to EM Navigator detail page, and also detail information page/front-end page for Omokage search.
The word "yorodu" (or yorozu) is an old Japanese word meaning "ten thousand". "mi" (miru) is to see.
Related info.:EMDB / PDB / SASBDB / Comparison of 3 databanks / Yorodumi Search / Aug 31, 2016. New EM Navigator & Yorodumi / Yorodumi Papers / Jmol/JSmol / Function and homology information / Changes in new EM Navigator and Yorodumi