3IGU | pdb_00003igu

Crystal structure of human alpha-N-acetylgalactosaminidase, covalent intermediate

External Resource: Annotation

Domain Annotation: SCOP/SCOPe 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	d3igub2	All beta proteins	Glycosyl hydrolase domain	Glycosyl hydrolase domain	automated matches	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d3igub1	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	(Trans)glycosidases	Amylase, catalytic domain	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d3igua2	All beta proteins	Glycosyl hydrolase domain	Glycosyl hydrolase domain	automated matches	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d3igua1	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	(Trans)glycosidases	Amylase, catalytic domain	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B	PDEase_I	e3iguB1	A: a/b three-layered sandwiches	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: PDEase_I	ECOD (v294.1)
A	PDEase_I	e3iguA1	A: a/b three-layered sandwiches	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: PDEase_I	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	3.20.20.70	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Aldolase class I	CATH (4.3.0)
B	2.60.40.1180	Mainly Beta	Sandwich	Immunoglobulin-like	Golgi alpha-mannosidase II	CATH (4.3.0)
A	3.20.20.70	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Aldolase class I	CATH (4.3.0)
A	2.60.40.1180	Mainly Beta	Sandwich	Immunoglobulin-like	Golgi alpha-mannosidase II	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF17450	Alpha galactosidase A C-terminal beta sandwich domain (Melibiase_2_C)	Alpha galactosidase A C-terminal beta sandwich domain		Domain
A, B	PF16499	Alpha galactosidase A (Melibiase_2)	Alpha galactosidase A	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Alpha-N-acetylgalactosaminidase	alpha-galactosidase activity hydrolase activity, acting on glycosyl bonds hydrolase activity, hydrolyzing O-glycosyl compounds hydrolase activity catalytic activity galactosidase activity identical protein binding protein binding binding protein homodimerization activity protein dimerization activity hexosaminidase activity alpha-N-acetylgalactosaminidase activity	carbohydrate metabolic process oligosaccharide metabolic process primary metabolic process metabolic process cellular process glycoside catabolic process carbohydrate derivative catabolic process catabolic process glycoside metabolic process carbohydrate derivative metabolic process glycosyl compound catabolic process carbohydrate catabolic process lipid catabolic process glycolipid metabolic process carbohydrate metabolic process oligosaccharide metabolic process primary metabolic process metabolic process cellular process glycoside catabolic process carbohydrate derivative catabolic process catabolic process glycoside metabolic process carbohydrate derivative metabolic process glycosyl compound catabolic process carbohydrate catabolic process lipid catabolic process glycolipid metabolic process liposaccharide metabolic process glycolipid catabolic process lipid metabolic process	cellular anatomical structure membrane extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle intracellular anatomical structure cytoplasm intracellular organelle cellular anatomical structure membrane extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle intracellular anatomical structure cytoplasm intracellular organelle lytic vacuole vacuole intracellular membrane-bounded organelle lysosome

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR035373	Alpha galactosidase A, C-terminal domain	Domain
A, B	IPR002241	Glycoside hydrolase, family 27	Family
A, B	IPR017853	Glycoside hydrolase superfamily	Homologous Superfamily
A, B	IPR013785	Aldolase-type TIM barrel	Homologous Superfamily
A, B	IPR000111	Glycoside hydrolase family 27/36, conserved site	Conserved Site
A, B	IPR013780	Glycosyl hydrolase, all-beta	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B	Pharos: P17050	alpha-N-acetylgalactosaminidase deficiency type 2 neuroaxonal dystrophy Schindler disease alpha-N-acetylgalactosaminidase deficiency type 3 alpha-N-acetylgalactosaminidase deficiency type 1 tuberculosis epilepsy glioblastoma intellectual disability malignant ependymoma osteosarcoma astrocytic tumor malignant mesothelioma pilocytic astrocytoma subependymal giant cell astrocytoma alpha-N-acetylgalactosaminidase deficiency type 2 neuroaxonal dystrophy Schindler disease alpha-N-acetylgalactosaminidase deficiency type 3 alpha-N-acetylgalactosaminidase deficiency type 1 tuberculosis epilepsy glioblastoma intellectual disability malignant ependymoma osteosarcoma astrocytic tumor malignant mesothelioma pilocytic astrocytoma subependymal giant cell astrocytoma autism spectrum disorder

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.