3HN3 | pdb_00003hn3

Human beta-glucuronidase at 1.7 A resolution

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	d3hn3a2	All beta proteins	Immunoglobulin-like beta-sandwich	beta-Galactosidase/glucuronidase domain	beta-Galactosidase/glucuronidase domain	beta-Glucuronidase	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d3hn3a1	All beta proteins	Galactose-binding domain-like	Galactose-binding domain-like	beta-Galactosidase/glucuronidase, N-terminal domain	beta-Glucuronidase	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d3hn3a3	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	(Trans)glycosidases	beta-glycanases	beta-Glucuronidase, domain 3	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d3hn3b2	All beta proteins	Immunoglobulin-like beta-sandwich	beta-Galactosidase/glucuronidase domain	beta-Galactosidase/glucuronidase domain	beta-Glucuronidase	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d3hn3b1	All beta proteins	Galactose-binding domain-like	Galactose-binding domain-like	beta-Galactosidase/glucuronidase, N-terminal domain	beta-Glucuronidase	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d3hn3b3	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	(Trans)glycosidases	beta-glycanases	beta-Glucuronidase, domain 3	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C [auth D]	d3hn3d2	All beta proteins	Immunoglobulin-like beta-sandwich	beta-Galactosidase/glucuronidase domain	beta-Galactosidase/glucuronidase domain	beta-Glucuronidase	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C [auth D]	d3hn3d1	All beta proteins	Galactose-binding domain-like	Galactose-binding domain-like	beta-Galactosidase/glucuronidase, N-terminal domain	beta-Glucuronidase	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C [auth D]	d3hn3d3	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	(Trans)glycosidases	beta-glycanases	beta-Glucuronidase, domain 3	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
D [auth E]	d3hn3e2	All beta proteins	Immunoglobulin-like beta-sandwich	beta-Galactosidase/glucuronidase domain	beta-Galactosidase/glucuronidase domain	beta-Glucuronidase	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
D [auth E]	d3hn3e1	All beta proteins	Galactose-binding domain-like	Galactose-binding domain-like	beta-Galactosidase/glucuronidase, N-terminal domain	beta-Glucuronidase	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
D [auth E]	d3hn3e3	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	(Trans)glycosidases	beta-glycanases	beta-Glucuronidase, domain 3	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	galactose-binding domain-like	8041150	3000087	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	beta-Galactosidase/glucuronidase domain-like	8055213	3002047	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	(Trans)glycosidases	8043384	3000313	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	galactose-binding domain-like	8041150	3000087	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	beta-Galactosidase/glucuronidase domain-like	8055213	3002047	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	(Trans)glycosidases	8043384	3000313	SCOP2B (2022-06-29)
C [auth D]	SCOP2B Superfamily	beta-Galactosidase/glucuronidase domain-like	8055213	3002047	SCOP2B (2022-06-29)
C [auth D]	SCOP2B Superfamily	(Trans)glycosidases	8043384	3000313	SCOP2B (2022-06-29)
C [auth D]	SCOP2B Superfamily	galactose-binding domain-like	8041150	3000087	SCOP2B (2022-06-29)
D [auth E]	SCOP2B Superfamily	(Trans)glycosidases	8043384	3000313	SCOP2B (2022-06-29)
D [auth E]	SCOP2B Superfamily	galactose-binding domain-like	8041150	3000087	SCOP2B (2022-06-29)
D [auth E]	SCOP2B Superfamily	beta-Galactosidase/glucuronidase domain-like	8055213	3002047	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		e3hn3A1	A: Cystatin-like	X: NTF2-like	H: NTF2-like	T: adh_short_C2	F:	ECOD (20:10:01)
B		e3hn3B7	A: Subtilisin-like	X: Subtilisin-like	H: Subtilisin-like	T: Peptidase_M49	F:	ECOD (20:10:01)
C [auth D]		e3hn3D7	A: Subtilisin-like	X: Subtilisin-like	H: Subtilisin-like	T: Peptidase_M49	F:	ECOD (20:10:01)
D [auth E]		e3hn3E7	A: Subtilisin-like	X: Subtilisin-like	H: Subtilisin-like	T: Peptidase_M49	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.60.120.260	Mainly Beta	Sandwich	Jelly Rolls	Galactose-binding domain-like	CATH (4.3.0)
A	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
A	3.20.20.80	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Glycosidases	CATH (4.3.0)
B	2.60.120.260	Mainly Beta	Sandwich	Jelly Rolls	Galactose-binding domain-like	CATH (4.3.0)
B	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
B	3.20.20.80	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Glycosidases	CATH (4.3.0)
C [auth D]	2.60.120.260	Mainly Beta	Sandwich	Jelly Rolls	Galactose-binding domain-like	CATH (4.3.0)
C [auth D]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
C [auth D]	3.20.20.80	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Glycosidases	CATH (4.3.0)
D [auth E]	2.60.120.260	Mainly Beta	Sandwich	Jelly Rolls	Galactose-binding domain-like	CATH (4.3.0)
D [auth E]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
D [auth E]	3.20.20.80	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Glycosidases	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C [auth D], D [auth E]	PF02836	Glycosyl hydrolases family 2, TIM barrel domain (Glyco_hydro_2_C)	Glycosyl hydrolases family 2, TIM barrel domain	This family contains beta-galactosidase, beta-mannosidase and beta-glucuronidase activities.	Domain
A, B, C [auth D], D [auth E]	PF00703	Glycosyl hydrolases family 2 (Glyco_hydro_2)	Glycosyl hydrolases family 2	This family contains beta-galactosidase, beta-mannosidase and beta-glucuronidase activities.	Domain
A, B, C [auth D], D [auth E]	PF02837	Glycosyl hydrolases family 2, sugar binding domain (Glyco_hydro_2_N)	Glycosyl hydrolases family 2, sugar binding domain	This family contains beta-galactosidase, beta-mannosidase and beta-glucuronidase activities and has a jelly-roll fold. The domain binds the sugar moiety during the sugar-hydrolysis reaction.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C [auth D], D [auth E]	Beta-glucuronidase	protein binding binding protein domain specific binding signaling receptor binding hydrolase activity, acting on glycosyl bonds hydrolase activity, hydrolyzing O-glycosyl compounds beta-glucuronidase activity glucuronidase activity hydrolase activity catalytic activity carbohydrate binding	carbohydrate derivative catabolic process catabolic process glycosaminoglycan metabolic process carbohydrate derivative metabolic process aminoglycan catabolic process macromolecule catabolic process glycosaminoglycan catabolic process aminoglycan metabolic process metabolic process cellular process macromolecule metabolic process developmental process multicellular organismal process cellular developmental process carbohydrate derivative catabolic process catabolic process glycosaminoglycan metabolic process carbohydrate derivative metabolic process aminoglycan catabolic process macromolecule catabolic process glycosaminoglycan catabolic process aminoglycan metabolic process metabolic process cellular process macromolecule metabolic process developmental process multicellular organismal process cellular developmental process connective tissue development developmental cell growth developmental growth chondrocyte hypertrophy growth animal organ development cell development tissue development cell growth multicellular organism development skeletal system development cell differentiation anatomical structure development chondrocyte differentiation chondrocyte development cartilage development system development phosphatidylinositol metabolic process glycerophospholipid biosynthetic process phosphatidylinositol-3-phosphate biosynthetic process glycerophospholipid metabolic process lipid biosynthetic process primary metabolic process phosphatidylinositol phosphate biosynthetic process phospholipid biosynthetic process phosphatidylinositol biosynthetic process phospholipid metabolic process biosynthetic process glycerolipid biosynthetic process organophosphate metabolic process organophosphate biosynthetic process phosphate-containing compound metabolic process glycerolipid metabolic process phosphorus metabolic process lipid metabolic process endochondral bone morphogenesis organ growth growth plate cartilage development endochondral bone growth animal organ morphogenesis bone development growth plate cartilage morphogenesis anatomical structure morphogenesis tissue morphogenesis bone growth cartilage morphogenesis skeletal system morphogenesis cartilage development involved in endochondral bone morphogenesis bone morphogenesis autophagy process utilizing autophagic mechanism cell population proliferation cellular response to stimulus TOR signaling regulation of biological process regulation of cellular process response to stimulus signaling biological regulation intracellular signal transduction cell communication signal transduction TORC1 signaling endochondral ossification replacement ossification ossification system process muscle system process artery development aorta development vasculature development blood vessel development circulatory system development embryo development ending in birth or egg hatching chordate embryonic development embryo development in utero embryonic development establishment of protein localization transport secretion establishment of protein localization to extracellular region export from cell protein secretion establishment of localization protein localization to extracellular region localization secretion by cell protein transport macromolecule localization intracellular protein localization multicellular organism growth multicellular organismal-level homeostasis homeostatic process tissue remodeling bone remodeling anatomical structure homeostasis tissue homeostasis bone resorption hyaluronan catabolic process hyaluronan metabolic process diterpenoid metabolic process retinoid metabolic process terpenoid metabolic process isoprenoid metabolic process response to hormone response to chemical response to endogenous stimulus response to peptide hormone response to oxygen-containing compound response to nitrogen compound glycoprotein catabolic process chondroitin sulfate proteoglycan metabolic process protein catabolic process chondroitin sulfate proteoglycan catabolic process glycoprotein metabolic process protein metabolic process proteoglycan catabolic process proteoglycan metabolic process homeostasis of number of cells carbohydrate metabolic process cranial skeletal system development energy homeostasis cellular component organization lysosome organization organelle organization vacuole organization lytic vacuole organization cellular component organization or biogenesis gene expression macromolecule biosynthetic process heparan sulfate proteoglycan metabolic process heparan sulfate proteoglycan catabolic process defense response response to stress inflammatory response protein localization to organelle protein localization to nucleus articular cartilage development	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 membrane-enclosed lumen lytic vacuole 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 membrane-enclosed lumen lytic vacuole vacuolar lumen vacuole intracellular membrane-bounded organelle lysosomal lumen intracellular organelle lumen intracellular organelle organelle lumen cytoplasm lysosome 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 ficolin-1-rich granule ficolin-1-rich granule lumen endoplasmic reticulum

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C [auth D], D [auth E]	IPR006102	Glycoside hydrolase family 2, immunoglobulin-like beta-sandwich	Domain
A, B, C [auth D], D [auth E]	IPR017853	Glycoside hydrolase superfamily	Homologous Superfamily
A, B, C [auth D], D [auth E]	IPR006101	Glycoside hydrolase, family 2	Family
A, B, C [auth D], D [auth E]	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
A, B, C [auth D], D [auth E]	IPR023230	Glycoside hydrolase, family 2, conserved site	Conserved Site
A, B, C [auth D], D [auth E]	IPR008979	Galactose-binding-like domain superfamily	Homologous Superfamily
A, B, C [auth D], D [auth E]	IPR006104	Glycosyl hydrolases family 2, sugar binding domain	Domain
A, B, C [auth D], D [auth E]	IPR023232	Glycoside hydrolase, family 2, active site	Active Site
A, B, C [auth D], D [auth E]	IPR036156	Beta-Galactosidase/glucuronidase domain superfamily	Homologous Superfamily
A, B, C [auth D], D [auth E]	IPR006103	Glycoside hydrolase family 2, catalytic domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C [auth D], D [auth E]	Pharos: P08236	mucopolysaccharidosis type 7 mucopolysaccharidosis proteinuria nervous system disorder ovarian cancer astrocytic tumor esophageal adenocarcinoma hydrops fetalis inborn errors of metabolism lysosomal storage disease non-immune hydrops fetalis pancreatic intraductal papillary-mucinous carcinoma dermatomyositis glioblastoma hydrops fetalis, idiopathic mucopolysaccharidosis type 7 mucopolysaccharidosis proteinuria nervous system disorder ovarian cancer astrocytic tumor esophageal adenocarcinoma hydrops fetalis inborn errors of metabolism lysosomal storage disease non-immune hydrops fetalis pancreatic intraductal papillary-mucinous carcinoma dermatomyositis glioblastoma hydrops fetalis, idiopathic intellectual disability malignant glioma osteosarcoma plasma cell myeloma Duchenne muscular dystrophy hydrocephalus hypertrophic cardiomyopathy juvenile dermatomyositis medulloblastoma

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.