2WMG

Crystal structure of the catalytic module of a family 98 glycoside hydrolase from Streptococcus pneumoniae TIGR4 (Sp4GH98) in complex with the LewisY pentasaccharide blood group antigen.

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

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d2wmga2	All beta proteins	Hyaluronate lyase-like, C-terminal domain	Glycosyl hydrolase family 98 C-terminal domain-like	automated matches	automated matches	(Streptococcus pneumoniae TIGR4 ) [TaxId: 170187 ],	SCOPe (2.08)
A	d2wmga1	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	ABC transporter ATPase domain-like	automated matches	(Streptococcus pneumoniae TIGR4 ) [TaxId: 170187 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	PF08307	e2wmgA1	A: beta sandwiches	X: Glycosyl hydrolase domain-like	H: Hyaluronate lyase-like, C-terminal domain (From Topology)	T: Hyaluronate lyase-like, C-terminal domain	F: PF08307	ECOD (1.6)
A	PF08306	e2wmgA2	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: PF08306	ECOD (1.6)
A	PF08307	e2wmgA3	A: a/b three-layered sandwiches	X: a/b domain in family 98 glycoside hydrolases (From Topology)	H: a/b domain in family 98 glycoside hydrolases (From Topology)	T: a/b domain in family 98 glycoside hydrolases	F: PF08307	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	3.30.2330.20	Alpha Beta	2-Layer Sandwich	arginine biosynthesis bifunctional protein fold	family 98 glycoside hydrolase	CATH (4.3.0)
A	2.60.220.10	Mainly Beta	Sandwich	Chondroitinase Ac	Chain A, domain 3	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF08307	Glycosyl hydrolase family 98 C-terminal domain (Glyco_hydro_98C)	Glycosyl hydrolase family 98 C-terminal domain	This putative domain is found at the C-terminus of glycosyl hydrolase family 98 proteins. This domain is not expected to form part of the catalytic activity.	Domain
A	PF08306	Glycosyl hydrolase family 98 (Glyco_hydro_98M)	Glycosyl hydrolase family 98	This domain is the putative catalytic domain of glycosyl hydrolase family 98 proteins.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	FUCOLECTIN-RELATED PROTEIN	cation binding ion binding binding metal ion binding small molecule binding fucose binding monosaccharide binding carbohydrate binding	regulation of defense response regulation of cellular defense response regulation of biological process response to stimulus defense response regulation of response to stimulus response to stress regulation of response to stress biological regulation cellular defense response carbohydrate metabolic process organic substance metabolic process primary metabolic process metabolic process regulation of defense response regulation of cellular defense response regulation of biological process response to stimulus defense response regulation of response to stimulus response to stress regulation of response to stress biological regulation cellular defense response carbohydrate metabolic process organic substance metabolic process primary metabolic process metabolic process regulation of humoral immune response regulation of immune effector process humoral immune response regulation of response to biotic stimulus biological process involved in interspecies interaction between organisms regulation of response to external stimulus positive regulation of biological process response to biotic stimulus positive regulation of response to stimulus complement activation positive regulation of immune response innate immune response regulation of immune system process response to external biotic stimulus positive regulation of immune system process regulation of complement activation, lectin pathway complement activation, lectin pathway immune response response to other organism regulation of innate immune response defense response to symbiont response to external stimulus immune effector process immune system process defense response to other organism regulation of immune response regulation of complement activation activation of immune response	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR006585	Fucolectin tachylectin-4 pentraxin-1	Domain
A	IPR013190	Glycosyl hydrolase family 98, C-terminal	Domain
A	IPR011071	Polysaccharide lyase family 8-like, C-terminal	Homologous Superfamily
A	IPR013191	Glycosyl hydrolase family 98, central domain	Domain
A	IPR000421	Coagulation factor 5/8 C-terminal domain	Domain
A	IPR008979	Galactose-binding-like domain superfamily	Homologous Superfamily

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.