4AE4 | pdb_00004ae4

The UBAP1 subunit of ESCRT-I interacts with ubiquitin via a novel SOUBA domain

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
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)
B		e4ae4B2	A: a/b three-layered sandwiches	X: P-loop domains-like	H: Rubredoxin-related	T: Rubredoxin-related	F:	ECOD (v294.1)
B	Ig_3	e4ae4B1	A: a/b three-layered sandwiches	X: Type II ABC importer transmembrane domain fold	H: DNA mismatch repair protein MutL regulatory subdomain	T: DNA mismatch repair protein MutL regulatory subdomain	F: Ig_3	ECOD (v294.1)
A	SHQ1-like_CS	e4ae4A1	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: Fibronectin type I module-like	T: Fibronectin type I module	F: SHQ1-like_CS	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	1.20.120.1920	Mainly Alpha	Up-down Bundle	Four Helix Bundle (Hemerythrin (Met), subunit A)	UBAP1 SOUBA domain	CATH (4.3.0)
A	1.20.120.1920	Mainly Alpha	Up-down Bundle	Four Helix Bundle (Hemerythrin (Met), subunit A)	UBAP1 SOUBA domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B	PF21267	Ubiquitin-associated protein 1, UBA2 domain (UBA2_UBAP-1)	Ubiquitin-associated protein 1, UBA2 domain	This domain is found in Ubiquitin-associated protein 1 (UBAP-1) and similar proteins predominantly found in animals. UBAP-1 is involved in vesicular trafficking process, as it's a component of an endosome- specific endosomal sorting complex I (ESCRT- ...	This domain is found in Ubiquitin-associated protein 1 (UBAP-1) and similar proteins predominantly found in animals. UBAP-1 is involved in vesicular trafficking process, as it's a component of an endosome- specific endosomal sorting complex I (ESCRT-I). It is thought to play an important role in the ubiquitin pathway and cell progression. It co-localizes with TDP-43 proteins in neuronal cytoplasmic inclusions and acts as a genetic risk factor for frontotemporal lobar degeneration (FTLD). This protein contains an N-terminal UBAP-1-MVB12-associated (UMA) domain, and several tandem ubiquitin- associated (UBA) domains that may be responsible for the binding of ubiquitin-conjugating enzymes. This entry corresponds to UBA2 domain.	Domain
B	PF22567	UBA-like domain (UBA_9)	UBA-like domain	This entry primarily represents the UBA domain found in the UBAP1 protein.	Domain
A	PF21267	Ubiquitin-associated protein 1, UBA2 domain (UBA2_UBAP-1)	Ubiquitin-associated protein 1, UBA2 domain	This domain is found in Ubiquitin-associated protein 1 (UBAP-1) and similar proteins predominantly found in animals. UBAP-1 is involved in vesicular trafficking process, as it's a component of an endosome- specific endosomal sorting complex I (ESCRT- ...	This domain is found in Ubiquitin-associated protein 1 (UBAP-1) and similar proteins predominantly found in animals. UBAP-1 is involved in vesicular trafficking process, as it's a component of an endosome- specific endosomal sorting complex I (ESCRT-I). It is thought to play an important role in the ubiquitin pathway and cell progression. It co-localizes with TDP-43 proteins in neuronal cytoplasmic inclusions and acts as a genetic risk factor for frontotemporal lobar degeneration (FTLD). This protein contains an N-terminal UBAP-1-MVB12-associated (UMA) domain, and several tandem ubiquitin- associated (UBA) domains that may be responsible for the binding of ubiquitin-conjugating enzymes. This entry corresponds to UBA2 domain.	Domain
A	PF22567	UBA-like domain (UBA_9)	UBA-like domain	This entry primarily represents the UBA domain found in the UBAP1 protein.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B	UBIQUITIN-ASSOCIATED PROTEIN 1	protein binding binding ubiquitin binding ubiquitin-like protein binding	membrane organization cellular component organization membrane fission cellular process cellular component organization or biogenesis organelle assembly multivesicular body assembly vesicle organization cellular component biogenesis organelle organization cellular component assembly multivesicular body organization endosome organization endomembrane system organization membrane organization cellular component organization membrane fission cellular process cellular component organization or biogenesis organelle assembly multivesicular body assembly vesicle organization cellular component biogenesis organelle organization cellular component assembly multivesicular body organization endosome organization endomembrane system organization establishment of protein localization cellular localization catabolic process transport establishment of protein localization to vacuole macromolecule catabolic process vesicle-mediated transport localization late endosome to vacuole transport modification-dependent macromolecule catabolic process late endosome to vacuole transport via multivesicular body sorting pathway establishment of localization in cell protein metabolic process intracellular protein localization endosome transport via multivesicular body sorting pathway protein transport to vacuole involved in ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway primary metabolic process protein localization to vacuole intracellular transport protein catabolic process establishment of localization endosomal transport establishment of protein localization to organelle protein transport modification-dependent protein catabolic process multivesicular body sorting pathway protein localization to organelle macromolecule localization ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway ubiquitin-dependent protein catabolic process metabolic process vacuolar transport macromolecule metabolic process intracellular protein transport	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol endosome membrane membrane-bounded organelle membrane endosome intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle membrane bounding membrane of organelle cellular anatomical structure intracellular anatomical structure cytoplasm cytosol endosome membrane membrane-bounded organelle membrane endosome intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle membrane bounding membrane of organelle vesicle membrane cytoplasmic vesicle organelle vesicle organelle membrane cell periphery plasma membrane protein-containing complex ESCRT complex membrane protein complex ESCRT I complex
A	UBIQUITIN-ASSOCIATED PROTEIN 1	protein binding binding ubiquitin binding ubiquitin-like protein binding	membrane organization cellular component organization membrane fission cellular process cellular component organization or biogenesis organelle assembly multivesicular body assembly vesicle organization cellular component biogenesis organelle organization cellular component assembly multivesicular body organization endosome organization endomembrane system organization membrane organization cellular component organization membrane fission cellular process cellular component organization or biogenesis organelle assembly multivesicular body assembly vesicle organization cellular component biogenesis organelle organization cellular component assembly multivesicular body organization endosome organization endomembrane system organization establishment of protein localization cellular localization catabolic process transport establishment of protein localization to vacuole macromolecule catabolic process vesicle-mediated transport localization late endosome to vacuole transport modification-dependent macromolecule catabolic process late endosome to vacuole transport via multivesicular body sorting pathway establishment of localization in cell protein metabolic process intracellular protein localization endosome transport via multivesicular body sorting pathway protein transport to vacuole involved in ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway primary metabolic process protein localization to vacuole intracellular transport protein catabolic process establishment of localization endosomal transport establishment of protein localization to organelle protein transport modification-dependent protein catabolic process multivesicular body sorting pathway protein localization to organelle macromolecule localization ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway ubiquitin-dependent protein catabolic process metabolic process vacuolar transport macromolecule metabolic process intracellular protein transport	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol endosome membrane membrane-bounded organelle membrane endosome intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle membrane bounding membrane of organelle cellular anatomical structure intracellular anatomical structure cytoplasm cytosol endosome membrane membrane-bounded organelle membrane endosome intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle membrane bounding membrane of organelle vesicle membrane cytoplasmic vesicle organelle vesicle organelle membrane cell periphery plasma membrane protein-containing complex ESCRT complex membrane protein complex ESCRT I complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B	IPR038870	Ubiquitin-associated protein 1	Family
B	IPR023340	UMA domain	Domain
B	IPR042575	Ubiquitin-associated protein 1, C-terminal	Homologous Superfamily
B	IPR009060	UBA-like superfamily	Homologous Superfamily
B	IPR015940	Ubiquitin-associated domain	Domain
B	IPR049467	Ubiquitin-associated protein 1-like, UBA2 domain	Domain
A	IPR038870	Ubiquitin-associated protein 1	Family
A	IPR023340	UMA domain	Domain
A	IPR042575	Ubiquitin-associated protein 1, C-terminal	Homologous Superfamily
A	IPR009060	UBA-like superfamily	Homologous Superfamily
A	IPR015940	Ubiquitin-associated domain	Domain
A	IPR049467	Ubiquitin-associated protein 1-like, UBA2 domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
B	Pharos: Q9NZ09	acute myeloid leukemia hereditary spastic paraplegia lung cancer ovarian cancer colorectal cancer idiopathic scoliosis neurodegenerative disease psoriasis DOID:0112341 large cell medulloblastoma osteosarcoma spina bifida
A	Pharos: Q9NZ09	acute myeloid leukemia hereditary spastic paraplegia lung cancer ovarian cancer colorectal cancer idiopathic scoliosis neurodegenerative disease psoriasis DOID:0112341 large cell medulloblastoma osteosarcoma spina bifida

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.