3GGZ | pdb_00003ggz

Crystal Structure of S.cerevisiae Ist1 N-terminal domain in complex with Did2 MIM motif

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)
D	SCOP2B Superfamily	IST1/CHMP3-like	8055734	3002301	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	IST1/CHMP3-like	8055734	3002301	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	IST1/CHMP3-like	8055734	3002301	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	IST1/CHMP3-like	8055734	3002301	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	Histone	e3ggzD1	A: a/b three-layered sandwiches	X: jelly-roll	H: Double-stranded beta-helix	T: Double-stranded beta-helix	F: Histone	ECOD (v294.1)
C	LYTB	e3ggzC1	A: a/b three-layered sandwiches	X: PBZ domain	H: PBZ domain	T: PBZ domain	F: LYTB	ECOD (v294.1)
B	LYTB	e3ggzB1	A: a/b three-layered sandwiches	X: PBZ domain	H: PBZ domain	T: PBZ domain	F: LYTB	ECOD (v294.1)
A	LYTB	e3ggzA1	A: a/b three-layered sandwiches	X: PBZ domain	H: PBZ domain	T: PBZ domain	F: LYTB	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	1.20.1260.60	Mainly Alpha	Up-down Bundle	Ferritin	Vacuolar protein sorting-associated protein Ist1	CATH (4.3.0)
C	1.20.1260.60	Mainly Alpha	Up-down Bundle	Ferritin	Vacuolar protein sorting-associated protein Ist1	CATH (4.3.0)
B	1.20.1260.60	Mainly Alpha	Up-down Bundle	Ferritin	Vacuolar protein sorting-associated protein Ist1	CATH (4.3.0)
A	1.20.1260.60	Mainly Alpha	Up-down Bundle	Ferritin	Vacuolar protein sorting-associated protein Ist1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF03398	Regulator of Vps4 activity in the MVB pathway (Ist1)	Regulator of Vps4 activity in the MVB pathway	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
E, F, G, H	Vacuolar protein-sorting-associated protein 46	-	cellular localization transport intracellular transport establishment of localization vesicle-mediated transport endosomal transport localization multivesicular body sorting pathway establishment of localization in cell cellular process endosome transport via multivesicular body sorting pathway intercellular transport late endosome to vacuole transport vacuolar transport cellular localization transport intracellular transport establishment of localization vesicle-mediated transport endosomal transport localization multivesicular body sorting pathway establishment of localization in cell cellular process endosome transport via multivesicular body sorting pathway intercellular transport late endosome to vacuole transport vacuolar transport late endosome to vacuole transport via multivesicular body sorting pathway cellular component organization cellular component biogenesis ESCRT III complex assembly ESCRT complex assembly cellular component assembly protein-containing complex organization protein-containing complex assembly cellular component organization or biogenesis establishment of protein localization protein targeting establishment of protein localization to vacuole protein localization to vacuole establishment of protein localization to organelle protein transport protein localization to organelle macromolecule localization intracellular protein localization protein targeting to vacuole intracellular protein transport	membrane-bounded organelle endosome membrane protein-containing complex intracellular anatomical structure ESCRT complex endosome membrane intracellular vesicle membrane protein complex intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure cytoplasmic vesicle membrane membrane-bounded organelle endosome membrane protein-containing complex intracellular anatomical structure ESCRT complex endosome membrane intracellular vesicle membrane protein complex intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure cytoplasmic vesicle membrane bounding membrane of organelle cytoplasmic vesicle vesicle membrane organelle ESCRT III complex cytoplasm vesicle organelle membrane late endosome multivesicular body
A, B, C, D	Increased sodium tolerance protein 1	molecular function inhibitor activity molecular function regulator activity ATPase inhibitor activity	cellular localization transport intracellular transport establishment of localization vesicle-mediated transport endosomal transport localization intercellular transport late endosome to vacuole transport late endosome to vacuole transport via multivesicular body sorting pathway multivesicular body sorting pathway establishment of localization in cell cellular process vacuolar transport cellular localization transport intracellular transport establishment of localization vesicle-mediated transport endosomal transport localization intercellular transport late endosome to vacuole transport late endosome to vacuole transport via multivesicular body sorting pathway multivesicular body sorting pathway establishment of localization in cell cellular process vacuolar transport endosome transport via multivesicular body sorting pathway establishment of protein localization establishment of protein localization to plasma membrane endocytic recycling intracellular protein localization protein localization to cell periphery establishment of protein localization to membrane protein localization to plasma membrane localization within membrane protein localization to membrane vesicle-mediated transport to the plasma membrane endosome to plasma membrane protein transport protein transport macromolecule localization intracellular protein transport	cellular anatomical structure intracellular anatomical structure cytoplasm membrane-bounded organelle endosome intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle organelle vesicle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
E, F, G, H	IPR005024	Snf7 family	Family
A, B, C, D	IPR042277	Vacuolar protein sorting-associated protein IST1-like	Homologous Superfamily
A, B, C, D	IPR005061	Vacuolar protein sorting-associated protein Ist1	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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.