4KWU

1.9 Angstrom resolution crystal structure of uncharacterized protein lmo2446 from Listeria monocytogenes EGD-e in complex with alpha-D-glucose, beta-D-glucose, magnesium and calcium

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	SCOP2B Superfamily	YicI C-terminal domain-like	8090431	3000267	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	E set domains	8090425	3000070	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Glycosyl hydrolase domain-like	8090429	3001528	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Galactose mutarotase-like	8090422	3000035	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	galactose-binding domain-like	8090423	3000087	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	(Trans)glycosidases	8090427	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	CBM_35	e4kwuA1	A: beta sandwiches	X: jelly-roll	H: Concanavalin A-like	T: Galactose-binding domain-like	F: CBM_35	ECOD (1.6)
A	C1-set_like_1	e4kwuA2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_like_1	ECOD (1.6)
A	Glyco_hydro_31_C	e4kwuA3	A: beta sandwiches	X: Glycosyl hydrolase domain-like	H: Glycosyl hydrolase domain (From Topology)	T: Glycosyl hydrolase domain	F: Glyco_hydro_31_C	ECOD (1.6)
A	Gal_mutarotas_2	e4kwuA4	A: beta sandwiches	X: Glycosyl hydrolase domain-like	H: supersandwich (From Topology)	T: supersandwich	F: Gal_mutarotas_2	ECOD (1.6)
A	DUF5110	e4kwuA5	A: beta sandwiches	X: Putative glucosidase YicI, C-terminal domain (From Topology)	H: Putative glucosidase YicI, C-terminal domain (From Topology)	T: Putative glucosidase YicI, C-terminal domain	F: DUF5110	ECOD (1.6)
A	Glyco_hydro_31_N	e4kwuA6	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: Glyco_hydro_31_N	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
A	2.60.40.1760	Mainly Beta	Sandwich	Immunoglobulin-like	glycosyl hydrolase (family 31)	CATH (4.3.0)
A	3.20.20.80	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Glycosidases	CATH (4.3.0)
A	2.60.40.1180	Mainly Beta	Sandwich	Immunoglobulin-like	Golgi alpha-mannosidase II	CATH (4.3.0)
A	2.60.120.260	Mainly Beta	Sandwich	Jelly Rolls	Galactose-binding domain-like	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF21365	Glycosyl hydrolase family 31 C-terminal domain (Glyco_hydro_31_3rd)	Glycosyl hydrolase family 31 C-terminal domain	Glycosyl hydrolases are key enzymes of carbohydrate metabolism. Family 31 comprises of enzymes that are, or similar to, alpha- galactosidases. This entry represents the 3rd beta sandwich domain.	Domain
A	PF13802	Glycosyl hydrolase 31 N-terminal galactose mutarotase-like domain (Gal_mutarotas_2)	Glycosyl hydrolase 31 N-terminal galactose mutarotase-like domain	This entry represents the first of three common domains found in Glycosyl hydrolase 31 family proteins. It has a galactose mutarotase superfamily fold.	Domain
A	PF22681	Lmo2446-like, N-terminal (Lmo2446-like_N)	Lmo2446-like, N-terminal	This domain is found at the N-terminal end of a group of bacterial proteins, including Lmo2446 protein from Listeria monocytogenes, a functionally uncharacterised extracellular lipidated protein. Lmo2446 contains a glycoside hydrolase 31 family (GH31 ...	This domain is found at the N-terminal end of a group of bacterial proteins, including Lmo2446 protein from Listeria monocytogenes, a functionally uncharacterised extracellular lipidated protein. Lmo2446 contains a glycoside hydrolase 31 family (GH31) catalytic domain (Pfam:PF01055) flanked by three structural beta-domains. This domain folds into a carbohydrate binding module (CBM)-like beta-sandwich [1].	Domain
A	PF01055	Glycosyl hydrolases family 31 TIM-barrel domain (Glyco_hydro_31_2nd)	Glycosyl hydrolases family 31 TIM-barrel domain	Glycosyl hydrolases are key enzymes of carbohydrate metabolism. Family 31 comprises of enzymes that are, or similar to, alpha- galactosidases. This entry corresponds to the second domain of family 31 enzymes and adopts a TIM-barrel fold.	Domain
A	PF03422	Carbohydrate binding module (family 6) (CBM_6)	Carbohydrate binding module (family 6)	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Lmo2446 protein	binding carbohydrate binding hydrolase activity, acting on glycosyl bonds hydrolase activity, hydrolyzing O-glycosyl compounds hydrolase activity catalytic activity cation binding ion binding metal ion binding small molecule binding	carbohydrate metabolic process primary metabolic process metabolic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR000322	Glycoside hydrolase family 31, TIM barrel domain	Domain
A	IPR048395	Glycosyl hydrolase family 31, C-terminal domain	Domain
A	IPR017853	Glycoside hydrolase superfamily	Homologous Superfamily
A	IPR051816	Glycosyl Hydrolase Family 31	Family
A	IPR008979	Galactose-binding-like domain superfamily	Homologous Superfamily
A	IPR005084	Carbohydrate binding module family 6	Domain
A	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
A	IPR013780	Glycosyl hydrolase, all-beta	Homologous Superfamily
A	IPR025887	Glycoside hydrolase family 31, N-terminal domain	Domain
A	IPR011013	Galactose mutarotase-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 R01GM133198.