3RRU | pdb_00003rru

X-ray crystal structure of the VHS domain of human TOM1-like protein, Northeast Structural Genomics Consortium Target HR3050E

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
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: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
B	d3rrub_	All alpha proteins	alpha-alpha superhelix	ENTH/VHS domain	automated matches	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d3rrua_	All alpha proteins	alpha-alpha superhelix	ENTH/VHS domain	automated matches	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	ENTH/VHS domain-like	8066259	3000164	SCOP2B (2022-06-29)
A	SCOP2 Family	VHS domain	8066258	4001359	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	ENTH/VHS domain-like	8066259	3000164	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B	VHS	e3rruB1	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: VHS	ECOD (1.6)
A	VHS	e3rruA1	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: VHS	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	1.25.40.90	Mainly Alpha	Alpha Horseshoe	Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat		CATH (4.3.0)
A	1.25.40.90	Mainly Alpha	Alpha Horseshoe	Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF00790	VHS domain (VHS)	VHS domain	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	TOM1L1 protein	binding phospholipid binding lipid binding phosphatidylinositol binding clathrin binding protein binding enzyme regulator activity kinase activator activity enzyme activator activity molecular function activator activity molecular function regulator activity protein kinase activator activity protein kinase regulator activity kinase regulator activity binding phospholipid binding lipid binding phosphatidylinositol binding clathrin binding protein binding enzyme regulator activity kinase activator activity enzyme activator activity molecular function activator activity molecular function regulator activity protein kinase activator activity protein kinase regulator activity kinase regulator activity ubiquitin binding ubiquitin-like protein binding SH3 domain binding protein domain specific binding kinase binding enzyme binding protein kinase binding	localization establishment of protein localization nitrogen compound transport protein transport transport macromolecule localization intracellular protein localization establishment of localization catabolic process proteolysis involved in protein catabolic process primary metabolic process protein catabolic process macromolecule catabolic process modification-dependent macromolecule catabolic process localization establishment of protein localization nitrogen compound transport protein transport transport macromolecule localization intracellular protein localization establishment of localization catabolic process proteolysis involved in protein catabolic process primary metabolic process protein catabolic process macromolecule catabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process proteolysis ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway ubiquitin-dependent protein catabolic process metabolic process cellular process macromolecule metabolic process protein metabolic process cellular response to stimulus regulation of biological process regulation of cellular process response to stimulus signaling biological regulation signal transduction cell communication regulation of protein modification process positive regulation of phosphorylation regulation of catalytic activity regulation of protein phosphorylation positive regulation of protein metabolic process positive regulation of biological process regulation of transferase activity positive regulation of phosphate metabolic process regulation of primary metabolic process positive regulation of metabolic process positive regulation of molecular function positive regulation of protein modification process phosphate-containing compound metabolic process positive regulation of macromolecule metabolic process positive regulation of protein kinase activity phosphorus metabolic process protein modification process positive regulation of protein phosphorylation positive regulation of cellular process protein phosphorylation positive regulation of phosphorus metabolic process phosphorylation regulation of protein metabolic process positive regulation of catalytic activity regulation of protein kinase activity regulation of macromolecule metabolic process regulation of molecular function positive regulation of kinase activity regulation of kinase activity activation of protein kinase activity macromolecule modification regulation of phosphorylation regulation of phosphorus metabolic process regulation of metabolic process regulation of cellular component organization negative regulation of biological process negative regulation of cell cycle regulation of mitotic nuclear division mitotic cell cycle negative regulation of mitotic cell cycle cellular component organization regulation of mitotic cell cycle negative regulation of cellular process cell cycle cellular component organization or biogenesis regulation of cell cycle cell cycle process mitotic nuclear division negative regulation of cellular component organization regulation of cell cycle process organelle fission negative regulation of cell cycle process regulation of organelle organization organelle organization nuclear division mitotic cell cycle process negative regulation of nuclear division negative regulation of organelle organization regulation of nuclear division negative regulation of mitotic nuclear division protein autophosphorylation regulation of protein autophosphorylation positive regulation of protein autophosphorylation	membrane-bounded organelle intracellular anatomical structure Golgi apparatus subcompartment Golgi apparatus organelle subcompartment intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure organelle Golgi stack cytoplasm membrane extracellular exosome membrane-bounded organelle intracellular anatomical structure Golgi apparatus subcompartment Golgi apparatus organelle subcompartment intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure organelle Golgi stack cytoplasm membrane extracellular exosome extracellular vesicle extracellular organelle extracellular region extracellular space vesicle extracellular membrane-bounded organelle cytosol lytic vacuole vacuole lysosome endosome intracellular vesicle cytoplasmic vesicle endosome membrane cytoplasmic vesicle membrane bounding membrane of organelle vesicle membrane organelle membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR002014	VHS domain	Domain
A, B	IPR008942	ENTH/VHS	Homologous Superfamily
A, B	IPR027428	TOM1-like protein 1, GAT domain	Domain
A, B	IPR014645	Target of Myb protein 1	Family
A, B	IPR047013	TOM1-like protein 1, VHS domain	Domain
A, B	IPR038425	GAT domain superfamily	Homologous Superfamily
A, B	IPR004152	GAT domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B	Pharos: O75674	prostate cancer astrocytic tumor cystic fibrosis interstitial cystitis lung cancer oligodendroglioma pilocytic astrocytoma psoriasis atypical teratoid rhabdoid tumor ductal breast carcinoma in situ invasive ductal breast carcinoma malignant ependymoma osteosarcoma breast carcinoma glioblastoma prostate cancer astrocytic tumor cystic fibrosis interstitial cystitis lung cancer oligodendroglioma pilocytic astrocytoma psoriasis atypical teratoid rhabdoid tumor ductal breast carcinoma in situ invasive ductal breast carcinoma malignant ependymoma osteosarcoma breast carcinoma glioblastoma lung adenocarcinoma medulloblastoma ovarian cancer Prostatic Neoplasms

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.