8B0E | pdb_00008b0e

Crystal structure of beta-glucuronidase from Acidobacterium capsulatum in complex with covalent inhibitor VB158

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A [auth AAA]	SCOP2B Superfamily	Glycosyl hydrolase domain-like	8051979	3001528	SCOP2B (2022-06-29)
A [auth AAA]	SCOP2B Superfamily	(Trans)glycosidases	8051977	3000313	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 [auth AAA]	Alpha-L-AF_C	e8b0eAAA1	A: beta sandwiches	X: Glycosyl hydrolase domain-like	H: Glycosyl hydrolase domain (From Topology)	T: Glycosyl hydrolase domain	F: Alpha-L-AF_C	ECOD (1.6)
A [auth AAA]	Glyco_hydro_3	e8b0eAAA2	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: Glyco_hydro_3	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth AAA]	PF16862	Glycosyl hydrolase family 79 C-terminal beta domain (Glyco_hydro_79C)	Glycosyl hydrolase family 79 C-terminal beta domain	This domain is found at the C-terminus of glycosyl hydrolase family 79 proteins. It's function is not yet known [1].	Domain
A [auth AAA]	PF03662	Glycosyl hydrolase family 79, N-terminal domain (Glyco_hydro_79n)	Glycosyl hydrolase family 79, N-terminal domain	Family of endo-beta-N-glucuronidase, or heparanase. Heparan sulfate proteoglycans (HSPGs) play a key role in the self- assembly, insolubility and barrier properties of basement membranes and extracellular matrices. Hence, cleavage of heparan sulfate ...	Family of endo-beta-N-glucuronidase, or heparanase. Heparan sulfate proteoglycans (HSPGs) play a key role in the self- assembly, insolubility and barrier properties of basement membranes and extracellular matrices. Hence, cleavage of heparan sulfate (HS) affects the integrity and functional state of tissues and thereby fundamental normal and pathological phenomena involving cell migration and response to changes in the extracellular micro-environment. Heparanase degrades HS at specific intra-chain sites. The enzyme is synthesised as a latent approximately 65 kDa protein that is processed at the N-terminus into a highly active approximately 50 kDa form. Experimental evidence suggests that heparanase may facilitate both tumour cell invasion and neovascularization, both critical steps in cancer progression. The enzyme is also involved in cell migration associated with inflammation and autoimmunity [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth AAA]	beta-glucuronidase from Acidobacterium capsulatum	hydrolase activity, acting on glycosyl bonds hydrolase activity catalytic activity	-	cellular anatomical structure membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth AAA]	IPR017853	Glycoside hydrolase superfamily	Homologous Superfamily
A [auth AAA]	IPR031728	Beta-glucuronidase, C-terminal	Domain
A [auth AAA]	IPR005199	Glycoside hydrolase, family 79	Family
A [auth AAA]	IPR013780	Glycosyl hydrolase, all-beta	Homologous Superfamily
A [auth AAA]	IPR052974	Glycosyl Hydrolase 79 Enzymes	Family

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.