2AF9

Crystal Structure analysis of GM2-Activator protein complexed with phosphatidylcholine

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)
A	d2af9a2	All beta proteins	Ganglioside M2 (gm2) activator	Ganglioside M2 (gm2) activator	Ganglioside M2 (gm2) activator	Ganglioside M2 (gm2) activator	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d2af9a3	Artifacts	Tags	Tags	Tags	N-terminal Tags	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)
A	SCOP2B Superfamily	Ganglioside M2 (gm2) activator	8036993	3000364	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)
A	PF02221	e2af9A1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF02221	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.70.220.10	Mainly Beta	Distorted Sandwich	Ganglioside M2 Activator Protein	Chain: A,	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF02221	ML domain (E1_DerP2_DerF2)	ML domain	ML domain - MD-2-related lipid recognition domain. This family consists of proteins from plants, animals and fungi, including dust mite allergen Der P 2 (Swiss:P49278). It has been implicate in lipid recognition, particularly in the recognition of pa ...	ML domain - MD-2-related lipid recognition domain. This family consists of proteins from plants, animals and fungi, including dust mite allergen Der P 2 (Swiss:P49278). It has been implicate in lipid recognition, particularly in the recognition of pathogen related products. A mutation in Npc2 (Swiss:Q15668) causes a rare form of Niemann-Pick type C2 disease. This domain has a similar topology to immunoglobulin domains.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Ganglioside GM2 activator	hydrolase activity, acting on glycosyl bonds beta-N-acetylgalactosaminidase activity hexosaminidase activity beta-N-acetylhexosaminidase activity hydrolase activity, hydrolyzing O-glycosyl compounds hydrolase activity catalytic activity enzyme regulator activity enzyme activator activity molecular function activator activity phospholipase activator activity molecular function regulator activity lipase activator activity sphingolipid activator protein activity hydrolase activity, acting on glycosyl bonds beta-N-acetylgalactosaminidase activity hexosaminidase activity beta-N-acetylhexosaminidase activity hydrolase activity, hydrolyzing O-glycosyl compounds hydrolase activity catalytic activity enzyme regulator activity enzyme activator activity molecular function activator activity phospholipase activator activity molecular function regulator activity lipase activator activity sphingolipid activator protein activity lipid transporter activity transporter activity	sphingolipid catabolic process catabolic process glycolipid metabolic process carbohydrate derivative metabolic process cellular lipid catabolic process cellular catabolic process organic substance metabolic process membrane lipid metabolic process organonitrogen compound catabolic process carbohydrate derivative catabolic process glycosphingolipid catabolic process lipid catabolic process organonitrogen compound metabolic process glycosphingolipid metabolic process sphingolipid catabolic process catabolic process glycolipid metabolic process carbohydrate derivative metabolic process cellular lipid catabolic process cellular catabolic process organic substance metabolic process membrane lipid metabolic process organonitrogen compound catabolic process carbohydrate derivative catabolic process glycosphingolipid catabolic process lipid catabolic process organonitrogen compound metabolic process glycosphingolipid metabolic process cellular metabolic process liposaccharide metabolic process primary metabolic process sphingolipid metabolic process membrane lipid catabolic process glycolipid catabolic process cellular lipid metabolic process metabolic process cellular process organic substance catabolic process lipid metabolic process carbohydrate metabolic process oligosaccharide catabolic process oligosaccharide metabolic process carbohydrate catabolic process behavior multicellular organismal process system process learning or memory nervous system process cognition localization macromolecule localization lipid storage lipid localization maintenance of location transport organic substance transport lipid transport establishment of localization cellular localization maintenance of location in cell ganglioside catabolic process ceramide catabolic process amide metabolic process ceramide metabolic process ganglioside metabolic process neuromuscular process neuromuscular process controlling balance	cell periphery apical part of cell membrane plasma membrane plasma membrane region cellular anatomical entity apical plasma membrane extracellular region membrane-bounded organelle intracellular anatomical structure lytic vacuole membrane-enclosed lumen vacuolar lumen vacuole cell periphery apical part of cell membrane plasma membrane plasma membrane region cellular anatomical entity apical plasma membrane extracellular region membrane-bounded organelle intracellular anatomical structure lytic vacuole membrane-enclosed lumen vacuolar lumen vacuole intracellular membrane-bounded organelle lysosomal lumen intracellular organelle lumen intracellular organelle organelle lumen organelle cytoplasm lysosome extracellular exosome extracellular vesicle extracellular organelle extracellular space vesicle extracellular membrane-bounded organelle cytosol basal part of cell basal plasma membrane basolateral plasma membrane intracellular vesicle cytoplasmic vesicle lumen endomembrane system cytoplasmic vesicle vesicle lumen azurophil granule secretory granule lumen azurophil granule lumen secretory granule primary lysosome secretory vesicle cytoplasmic side of plasma membrane cytoplasmic side of membrane side of membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR028996	Ganglioside GM2 activator	Family
A	IPR003172	MD-2-related lipid-recognition domain	Domain
A	IPR036846	GM2-AP, lipid-recognition domain superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: P17900	Tay-Sachs disease AB variant Tay-Sachs disease gangliosidosis chronic obstructive pulmonary disease ovarian cancer progressive supranuclear palsy Sjogren syndrome astrocytic tumor tuberculosis cutaneous lupus erythematosus esophageal adenocarcinoma gastric carcinoma inborn errors of metabolism lung cancer medulloblastoma Tay-Sachs disease AB variant Tay-Sachs disease gangliosidosis chronic obstructive pulmonary disease ovarian cancer progressive supranuclear palsy Sjogren syndrome astrocytic tumor tuberculosis cutaneous lupus erythematosus esophageal adenocarcinoma gastric carcinoma inborn errors of metabolism lung cancer medulloblastoma Pick disease psoriasis sphingolipidosis atypical teratoid rhabdoid tumor ulcerative colitis cystic fibrosis glioblastoma intellectual disability lysosomal storage disease osteosarcoma pituitary cancer Sandhoff disease subependymal giant cell astrocytoma transitional cell carcinoma Epileptic encephalopathy gastric cancer large cell medulloblastoma malignant mesothelioma

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 R01GM133198.