3GDB

Crystal structure of Spr0440 glycoside hydrolase domain, Endo-D from Streptococcus pneumoniae R6

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
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	SCOP2 Family	GH85 putative CBM-like	8051927	4007574	SCOP2 (2022-06-29)
A	SCOP2 Family	GH85 catalytic domain-like	8044662	4004066	SCOP2 (2022-06-29)
A	SCOP2 Family	Fibronectin type III	8051929	4007555	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	galactose-binding domain-like	8051928	3000087	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	(Trans)glycosidases	8051926	3000313	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Fibronectin type III	8051930	3002063	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)
A	COG4724	e3gdbA6	A: beta sandwiches	X: jelly-roll	H: Concanavalin A-like	T: Galactose-binding domain-like	F: COG4724	ECOD (1.6)
A	EUF07694	e3gdbA5	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: EUF07694	ECOD (1.6)
A	Glyco_hydro_85	e3gdbA1	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: Glyco_hydro_85	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.20.20.80	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Glycosidases	CATH (4.3.0)
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)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF03644	Glycosyl hydrolase family 85 (Glyco_hydro_85)	Glycosyl hydrolase family 85	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Putative uncharacterized protein spr0440	mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase activity hydrolase activity, acting on glycosyl bonds hydrolase activity, hydrolyzing O-glycosyl compounds hydrolase activity catalytic activity	metabolic process	intracellular anatomical structure cytoplasm cellular anatomical entity cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR032979	Cytosolic endo-beta-N-acetylglucosaminidase	Family
A	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
A	IPR005877	YSIRK Gram-positive signal peptide	Domain
A	IPR011098	G5 domain	Domain
A	IPR005201	Glycoside hydrolase, family 85	Domain
A	IPR022038	Ig-like domain, bacterial type	Domain
A	IPR019931	LPXTG cell wall anchor domain	Domain

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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.