4KWU | pdb_00004kwu

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_6	e4kwuA1	A: alpha bundles	X: PBZ domain	H: PBZ domain	T: PBZ domain	F: CBM_6	ECOD (develop294)
A	Kringle	e4kwuA2	A: alpha bundles	X: PBZ domain	H: PBZ domain	T: PBZ domain	F: Kringle	ECOD (develop294)

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 cellular process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR000322	Glycoside hydrolase family 31, TIM barrel domain	Domain
A	IPR055242	Lmo2446-like, N-terminal	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 R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.