8DIT

Cryo-EM structure of a HOPS core complex containing Vps33, Vps16, and Vps18

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	PF00995	e8ditA1	A: alpha complex topology	X: alpha-helical domain in sec1/munc18-like (SM) proteins (From Topology)	H: alpha-helical domain in sec1/munc18-like (SM) proteins (From Topology)	T: alpha-helical domain in sec1/munc18-like (SM) proteins	F: PF00995	ECOD (1.6)
A	PF00995	e8ditA2	A: a/b three-layered sandwiches	X: Rossmann-like domains in Sec1/munc18-like proteins (From Topology)	H: Rossmann-like domains in Sec1/munc18-like proteins (From Topology)	T: Rossmann-like domains in Sec1/munc18-like proteins	F: PF00995	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00995	Sec1 family (Sec1)	Sec1 family	-	Family
B	PF04840	Vps16, C-terminal region (Vps16_C)	Vps16, C-terminal region	-	Repeat
B	PF04841	Vps16, N-terminal region (Vps16_N)	Vps16, N-terminal region	-	Repeat
C	PF05131	Pep3/Vps18/deep orange beta-propeller domain (Pep3_Vps18)	Pep3/Vps18/deep orange beta-propeller domain	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Vacuolar protein sorting-associated protein 33	catalytic activity ligase activity	localization transport cellular process establishment of localization vesicle-mediated transport	-
B	Vacuolar protein sorting-associated protein 16	-	protein localization cellular localization establishment of protein localization nitrogen compound transport transport organic substance transport intracellular transport establishment of localization localization protein transport establishment of localization in cell cellular macromolecule localization macromolecule localization cellular process protein localization cellular localization establishment of protein localization nitrogen compound transport transport organic substance transport intracellular transport establishment of localization localization protein transport establishment of localization in cell cellular macromolecule localization macromolecule localization cellular process intracellular protein transport cellular component organization organelle organization vacuole organization cellular component organization or biogenesis	cellular anatomical entity endomembrane system membrane-bounded organelle intracellular organelle intracellular anatomical structure organelle intracellular membrane-bounded organelle cytoplasm protein-containing complex
C	Vacuolar protein sorting-associated protein 18	cation binding ion binding binding metal ion binding small molecule binding	localization transport cellular process establishment of localization vesicle-mediated transport protein localization cellular localization establishment of protein localization nitrogen compound transport organic substance transport intracellular transport protein transport establishment of localization in cell cellular macromolecule localization localization transport cellular process establishment of localization vesicle-mediated transport protein localization cellular localization establishment of protein localization nitrogen compound transport organic substance transport intracellular transport protein transport establishment of localization in cell cellular macromolecule localization macromolecule localization intracellular protein transport	membrane cellular anatomical entity

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR027482	Sec1-like, domain 2	Homologous Superfamily
A	IPR000608	Ubiquitin-conjugating enzyme E2	Domain
A	IPR043127	Sec1-like, domain 3a	Homologous Superfamily
A	IPR016135	Ubiquitin-conjugating enzyme/RWD-like	Homologous Superfamily
A	IPR001619	Sec1-like protein	Family
A	IPR043155	Vacuolar protein sorting-associated protein 33, domain 3b	Homologous Superfamily
A	IPR043154	Sec1-like, domain 1	Homologous Superfamily
A	IPR036045	Sec1-like superfamily	Homologous Superfamily
B	IPR016534	Vacuolar protein sorting-associated protein 16	Family
B	IPR006925	Vps16, C-terminal	Domain
B	IPR038132	Vps16, C-terminal domain superfamily	Homologous Superfamily
B	IPR015943	WD40/YVTN repeat-like-containing domain superfamily	Homologous Superfamily
B	IPR006926	Vps16, N-terminal	Domain
C	IPR000547	Clathrin, heavy chain/VPS, 7-fold repeat	Repeat
C	IPR007810	Pep3/Vps18/deep orange, beta-propeller domain	Domain

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 R01GM133198.