Annotations: 8Y1L

Cryo-EM structure of human N-terminally bound ATG9A-ATG2A-WIPI4 complex

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D [auth A]	WD40	e8y1lA1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
E [auth B]	PF13329	Autophagy-related protein 2 (ATG2_CAD)	Autophagy-related protein 2	-	Repeat
D [auth A]	PF21032	PROPPIN (PROPPIN)	PROPPIN	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
E [auth B]	Autophagy-related protein 2 homolog A	protein-membrane adaptor activity protein-macromolecule adaptor activity molecular adaptor activity binding phospholipid binding lipid binding phosphatidylinositol-3-phosphate binding phosphatidylinositol phosphate binding lipid carrier activity lipid transfer activity transporter activity molecular carrier activity	carbohydrate metabolic process catabolic process glucan catabolic process energy derivation by oxidation of organic compounds macroautophagy glycogen metabolic process carbohydrate catabolic process autophagy primary metabolic process generation of precursor metabolites and energy macromolecule catabolic process polysaccharide metabolic process glucan metabolic process glycogen catabolic process glycophagy carbohydrate metabolic process catabolic process glucan catabolic process energy derivation by oxidation of organic compounds macroautophagy glycogen metabolic process carbohydrate catabolic process autophagy primary metabolic process generation of precursor metabolites and energy macromolecule catabolic process polysaccharide metabolic process glucan metabolic process glycogen catabolic process glycophagy polysaccharide catabolic process metabolic process cellular process energy reserve metabolic process macromolecule metabolic process process utilizing autophagic mechanism autophagy of mitochondrion autophagosome assembly organelle assembly vacuole organization autophagosome organization cellular component biogenesis cellular component organization organelle organization cellular component assembly cellular component organization or biogenesis piecemeal microautophagy of the nucleus microautophagy nucleophagy positive regulation of organelle organization regulation of cellular process regulation of cellular component organization positive regulation of cellular component organization positive regulation of vacuole organization positive regulation of biological process regulation of autophagy positive regulation of metabolic process positive regulation of autophagosome assembly positive regulation of macroautophagy positive regulation of cellular process positive regulation of autophagy regulation of biological process positive regulation of cellular component biogenesis biological regulation regulation of autophagosome assembly regulation of catabolic process regulation of vacuole organization regulation of cellular component biogenesis regulation of organelle organization positive regulation of catabolic process regulation of macroautophagy regulation of organelle assembly regulation of metabolic process positive regulation of organelle assembly autophagy of peroxisome pexophagy reticulophagy	lipid droplet intracellular organelle cellular anatomical structure intracellular anatomical structure organelle membraneless organelle intracellular membraneless organelle phagophore cytoplasm phagophore assembly site membrane membrane phagophore assembly site organelle membrane contact site membrane-bounded organelle lipid droplet intracellular organelle cellular anatomical structure intracellular anatomical structure organelle membraneless organelle intracellular membraneless organelle phagophore cytoplasm phagophore assembly site membrane membrane phagophore assembly site organelle membrane contact site membrane-bounded organelle organelle subcompartment intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum organelle membrane endoplasmic reticulum membrane
D [auth A]	WD repeat domain phosphoinositide-interacting protein 4	phosphatidylinositol-3,5-bisphosphate binding ion binding binding anion binding phosphatidylinositol bisphosphate binding phospholipid binding lipid binding phosphatidylinositol phosphate binding small molecule binding protein binding kinase binding enzyme binding protein kinase binding phosphatidylinositol-3-phosphate binding phosphatidylinositol-3,5-bisphosphate binding ion binding binding anion binding phosphatidylinositol bisphosphate binding phospholipid binding lipid binding phosphatidylinositol phosphate binding small molecule binding protein binding kinase binding enzyme binding protein kinase binding phosphatidylinositol-3-phosphate binding protein-macromolecule adaptor activity molecular adaptor activity	carbohydrate metabolic process catabolic process glucan catabolic process energy derivation by oxidation of organic compounds macroautophagy glycogen metabolic process carbohydrate catabolic process autophagy primary metabolic process generation of precursor metabolites and energy macromolecule catabolic process polysaccharide metabolic process glucan metabolic process glycogen catabolic process glycophagy carbohydrate metabolic process catabolic process glucan catabolic process energy derivation by oxidation of organic compounds macroautophagy glycogen metabolic process carbohydrate catabolic process autophagy primary metabolic process generation of precursor metabolites and energy macromolecule catabolic process polysaccharide metabolic process glucan metabolic process glycogen catabolic process glycophagy polysaccharide catabolic process metabolic process cellular process energy reserve metabolic process macromolecule metabolic process process utilizing autophagic mechanism cellular response to stimulus cellular response to nutrient levels response to nutrient levels response to stimulus cellular response to stress response to stress response to starvation cellular response to starvation autophagy of mitochondrion autophagosome assembly organelle assembly vacuole organization autophagosome organization cellular component biogenesis cellular component organization organelle organization cellular component assembly cellular component organization or biogenesis nucleophagy positive regulation of organelle organization regulation of cellular process regulation of cellular component organization positive regulation of cellular component organization positive regulation of vacuole organization positive regulation of biological process regulation of autophagy positive regulation of metabolic process positive regulation of autophagosome assembly positive regulation of macroautophagy positive regulation of cellular process positive regulation of autophagy regulation of biological process positive regulation of cellular component biogenesis biological regulation regulation of autophagosome assembly regulation of catabolic process regulation of vacuole organization regulation of cellular component biogenesis regulation of organelle organization positive regulation of catabolic process regulation of macroautophagy regulation of organelle assembly regulation of metabolic process positive regulation of organelle assembly autophagy of peroxisome pexophagy localization macromolecule localization protein localization to phagophore assembly site intracellular protein localization	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol phagophore assembly site membrane membrane phagophore assembly site
A [auth C], B [auth D], C [auth E]	Autophagy-related protein 9A	lipid carrier activity transporter activity phospholipid scramblase activity intramembrane lipid carrier activity molecular carrier activity	developmental process multicellular organismal process animal organ development multicellular organism development anatomical structure morphogenesis skeletal system development anatomical structure development skeletal system morphogenesis animal organ morphogenesis bone morphogenesis bone development system development autophagosome assembly catabolic process developmental process multicellular organismal process animal organ development multicellular organism development anatomical structure morphogenesis skeletal system development anatomical structure development skeletal system morphogenesis animal organ morphogenesis bone morphogenesis bone development system development autophagosome assembly catabolic process organelle assembly vacuole organization macroautophagy autophagy autophagosome organization cellular component biogenesis cellular component organization organelle organization cellular component assembly cellular process metabolic process cellular component organization or biogenesis process utilizing autophagic mechanism piecemeal microautophagy of the nucleus microautophagy nucleophagy programmed necrotic cell death cell death programmed cell death mitophagy autophagy of mitochondrion localization macromolecule localization protein localization to phagophore assembly site intracellular protein localization reticulophagy	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle membrane cell periphery plasma membrane synapse cell junction plasma membrane region membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle membrane cell periphery plasma membrane synapse cell junction plasma membrane region synaptic membrane mitochondrial membrane organelle envelope mitochondrial envelope organelle membrane phagophore assembly site membrane phagophore assembly site endosome membrane endosome intracellular vesicle late endosome membrane endomembrane system cytoplasmic vesicle membrane bounding membrane of organelle cytoplasmic vesicle vesicle membrane late endosome vesicle organelle subcompartment endoplasmic reticulum subcompartment nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum endoplasmic reticulum membrane vacuole autophagosome recycling endosome recycling endosome membrane Golgi apparatus subcompartment Golgi apparatus trans-Golgi network Golgi membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
E [auth B]	IPR026849	Autophagy-related protein 2	Family
D [auth A]	IPR048720	PROPPIN	Family
D [auth A]	IPR036322	WD40-repeat-containing domain superfamily	Homologous Superfamily
D [auth A]	IPR001680	WD40 repeat	Repeat
D [auth A]	IPR015943	WD40/YVTN repeat-like-containing domain superfamily	Homologous Superfamily
A [auth C], B [auth D], C [auth E]	IPR007241	Autophagy-related protein 9	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
E [auth B]	: Q2TAZ0	astrocytic tumor gout osteosarcoma
D [auth A]	: Q9Y484	neurodegeneration with brain iron accumulation 5 Neurodevelopmental Disorders epilepsy large cell medulloblastoma ovarian cancer neurodegeneration with brain iron accumulation neurodegenerative disease Parkinson disease intellectual disability X-linked dominant disease
A [auth C], B [auth D], C [auth E]	: Q7Z3C6	diabetes mellitus lung cancer psoriasis

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.