2WMF | pdb_00002wmf

Crystal structure of the catalytic module of a family 98 glycoside hydrolase from Streptococcus pneumoniae TIGR4 (Sp4GH98) in its native form.

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	d2wmfa2	All beta proteins	Hyaluronate lyase-like, C-terminal domain	Glycosyl hydrolase family 98 C-terminal domain-like	Glycosyl hydrolase family 98 C-terminal domain	Sp4GH98	(Streptococcus pneumoniae TIGR4 ) [TaxId: 170187 ],	SCOPe (2.08)
A	d2wmfa1	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	ABC transporter ATPase domain-like	P-glycoprotein (P-gp) multidrug resistance protein, head domain	(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		e2wmfA1	A: TIM beta/alpha-barrel	X: TIM barrels	H: TIM barrels	T: Glyco_hydro_98M	F:	ECOD (20:10:01)
A		e2wmfA2	A: Immunoglobulin-like beta-sandwich	X: RIFT-related	H: Alanine racemase-C	T:	F:	ECOD (20:10:01)

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

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	FUCOLECTIN-RELATED PROTEIN	catalytic activity 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 primary metabolic process metabolic process cellular process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR006585	Fucolectin tachylectin-4 pentraxin-1	Domain
A	IPR000421	Coagulation factor 5/8, C-terminal domain	Domain
A	IPR013190	Glycosyl hydrolase family 98, C-terminal	Domain
A	IPR011071	Polysaccharide lyase family 8-like, C-terminal	Homologous Superfamily
A	IPR051941	Blood Group Antigen-Binding Lectin	Family
A	IPR013191	Glycosyl hydrolase family 98, central domain	Domain
A	IPR008979	Galactose-binding-like domain superfamily	Homologous Superfamily

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.