5BUZ

Crystal Structure of a Complex Between the SNARE Vam3 and the HOPS Vps33-Vps16 subcomplex from Chaetomium thermophilum

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
C	SCOP2 Family	SNARE fusion complex	8065295	4003812	SCOP2 (2022-06-29)
C	SCOP2 Superfamily	SNARE fusion complex	8065296	3001549	SCOP2 (2022-06-29)
F	SCOP2B Superfamily	SNARE fusion complex	8065296	3001549	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D	Sec1_3rd	e5buzD3	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: Sec1_3rd	ECOD (1.6)
D	Sec1_2nd	e5buzD4	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: Sec1_2nd	ECOD (1.6)
D	Sec1_1st	e5buzD2	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: Sec1_1st	ECOD (1.6)
A	Sec1_3rd	e5buzA2	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: Sec1_3rd	ECOD (1.6)
A	Sec1_2nd	e5buzA4	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: Sec1_2nd	ECOD (1.6)
A	Sec1_1st	e5buzA3	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: Sec1_1st	ECOD (1.6)
B	Vps16_C	e5buzB1	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: Vps16_C	ECOD (1.6)
E	Vps16_C	e5buzE1	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: Vps16_C	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	3.40.50.2060	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Sec1/Munc18 (SM) protein, domain 1	CATH (4.3.0)
D	3.40.50.1910	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Sec1/Munc18 (SM) protein, domain 2	CATH (4.3.0)
D	3.90.830.10	Alpha Beta	Alpha-Beta Complex	Syntaxin Binding Protein 1	Chain A, domain 2	CATH (4.3.0)
D	1.25.40.850	Mainly Alpha	Alpha Horseshoe	Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat	Sec1/Munc18 (SM) protein, domain 3b	CATH (4.3.0)
A	3.40.50.2060	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Sec1/Munc18 (SM) protein, domain 1	CATH (4.3.0)
A	3.40.50.1910	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Sec1/Munc18 (SM) protein, domain 2	CATH (4.3.0)
A	3.90.830.10	Alpha Beta	Alpha-Beta Complex	Syntaxin Binding Protein 1	Chain A, domain 2	CATH (4.3.0)
A	1.25.40.850	Mainly Alpha	Alpha Horseshoe	Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat	Sec1/Munc18 (SM) protein, domain 3b	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, D	PF00995	Sec1 family (Sec1)	Sec1 family	-	Family
B, E	PF04840	Vps16, C-terminal region (Vps16_C)	Vps16, C-terminal region	-	Repeat
C, F	PF05739	SNARE domain (SNARE)	SNARE domain	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, D	SM (Sec1/Munc18-like) protein	catalytic activity ligase activity	localization transport cellular process establishment of localization vesicle-mediated transport	-
B, E	Putative vacuolar protein sorting-associated protein	-	protein localization cellular localization establishment of protein localization nitrogen compound transport transport intracellular transport establishment of localization localization protein transport establishment of localization in cell cellular macromolecule localization macromolecule localization cellular process intracellular protein transport protein localization cellular localization establishment of protein localization nitrogen compound transport 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 membrane cytoplasm protein-containing complex
C, F	SNAP receptor-like protein	SNAP receptor activity protein-macromolecule adaptor activity molecular adaptor activity	localization transport cellular process establishment of localization vesicle-mediated transport protein localization cellular localization establishment of protein localization nitrogen compound transport intracellular transport protein transport establishment of localization in cell cellular macromolecule localization macromolecule localization localization transport cellular process establishment of localization vesicle-mediated transport protein localization cellular localization establishment of protein localization nitrogen compound 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, D	IPR027482	Sec1-like, domain 2	Homologous Superfamily
A, D	IPR000608	Ubiquitin-conjugating enzyme E2	Domain
A, D	IPR043127	Sec1-like, domain 3a	Homologous Superfamily
A, D	IPR016135	Ubiquitin-conjugating enzyme/RWD-like	Homologous Superfamily
A, D	IPR001619	Sec1-like protein	Family
A, D	IPR043155	Vacuolar protein sorting-associated protein 33, domain 3b	Homologous Superfamily
A, D	IPR043154	Sec1-like, domain 1	Homologous Superfamily
A, D	IPR036045	Sec1-like superfamily	Homologous Superfamily
B, E	IPR016534	Vacuolar protein sorting-associated protein 16	Family
B, E	IPR006925	Vps16, C-terminal	Domain
B, E	IPR038132	Vps16, C-terminal domain superfamily	Homologous Superfamily
B, E	IPR015943	WD40/YVTN repeat-like-containing domain superfamily	Homologous Superfamily
B, E	IPR006926	Vps16, N-terminal	Domain
C, F	IPR006012	Syntaxin/epimorphin, conserved site	Conserved Site
C, F	IPR000727	Target SNARE coiled-coil homology domain	Domain
C, F	IPR010989	SNARE	Homologous Superfamily
C, F	IPR006011	Syntaxin, N-terminal domain	Domain
C, F	IPR045242	Syntaxin	Family

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.