4TXP | pdb_00004txp

Crystal structure of LIP5 N-terminal domain

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
Pharos: Disease Associations

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
C	SCOP2B Superfamily	Vta1-like	8093242	3002693	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Vta1-like	8093242	3002693	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Vta1-like	8093242	3002693	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)
C	Vta1_C	e4txpC1	A: alpha bundles	X: Spectrin repeat-like	H: MIT domain (From Topology)	T: MIT domain	F: Vta1_C	ECOD (1.6)
C	Vta1_N	e4txpC2	A: alpha bundles	X: Spectrin repeat-like	H: MIT domain (From Topology)	T: MIT domain	F: Vta1_N	ECOD (1.6)
B	Vta1_C	e4txpB2	A: alpha bundles	X: Spectrin repeat-like	H: MIT domain (From Topology)	T: MIT domain	F: Vta1_C	ECOD (1.6)
B	Vta1_N	e4txpB1	A: alpha bundles	X: Spectrin repeat-like	H: MIT domain (From Topology)	T: MIT domain	F: Vta1_N	ECOD (1.6)
A	Vta1_C	e4txpA2	A: alpha bundles	X: Spectrin repeat-like	H: MIT domain (From Topology)	T: MIT domain	F: Vta1_C	ECOD (1.6)
A	Vta1_N	e4txpA1	A: alpha bundles	X: Spectrin repeat-like	H: MIT domain (From Topology)	T: MIT domain	F: Vta1_N	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C	1.25.40.270	Mainly Alpha	Alpha Horseshoe	Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat	Vacuolar protein sorting-associated protein vta1	CATH (4.3.0)
B	1.25.40.270	Mainly Alpha	Alpha Horseshoe	Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat	Vacuolar protein sorting-associated protein vta1	CATH (4.3.0)
A	1.25.40.270	Mainly Alpha	Alpha Horseshoe	Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat	Vacuolar protein sorting-associated protein vta1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C	PF04652	Vta1 like (Vta1)	Vta1 like	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C	Vacuolar protein sorting-associated protein VTA1 homolog	-	cellular localization transport intracellular transport establishment of localization vesicle-mediated transport endosomal transport localization 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 cellular localization transport intracellular transport establishment of localization vesicle-mediated transport endosomal transport localization 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 catabolic process macroautophagy autophagy metabolic process process utilizing autophagic mechanism organelle assembly multivesicular body assembly vesicle organization cellular component organization cellular component biogenesis organelle organization cellular component assembly multivesicular body organization endosome organization cellular component organization or biogenesis endomembrane system organization establishment of protein localization nitrogen compound transport protein transport macromolecule localization intracellular protein localization cellular component disassembly protein-containing complex organization protein-containing complex disassembly ESCRT III complex disassembly ESCRT complex disassembly	extracellular exosome membrane-bounded organelle extracellular vesicle cellular anatomical structure extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle intracellular anatomical structure cytoplasm cytosol endosome membrane extracellular exosome membrane-bounded organelle extracellular vesicle cellular anatomical structure extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle intracellular anatomical structure cytoplasm cytosol endosome membrane membrane endosome intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle membrane bounding membrane of organelle vesicle membrane cytoplasmic vesicle organelle membrane late endosome multivesicular body nucleus membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C	IPR039431	Vta1/callose synthase, N-terminal	Domain
A, B, C	IPR023175	Vta1/Callose synthase, N-terminal domain superfamily	Homologous Superfamily
A, B, C	IPR041212	Vta1, C-terminal	Domain
A, B, C	IPR044538	Vacuolar protein sorting-associated protein Vta1-like	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C	Pharos: Q9NP79	adenoma glioblastoma oligodendroglioma atypical teratoid rhabdoid tumor large cell medulloblastoma ovarian cancer chronic obstructive pulmonary disease malignant ependymoma Sjogren syndrome

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.