5MGD

STRUCTURE OF E298Q-BETA-GALACTOSIDASE FROM ASPERGILLUS NIGER IN COMPLEX WITH 6-Galactosyl-lactose

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	d5mgda4	All beta proteins	Galactose-binding domain-like	Galactose-binding domain-like	automated matches	automated matches	(Aspergillus niger CBS 513.88 ) [TaxId: 425011 ],	SCOPe (2.08)
A	d5mgda2	All beta proteins	Glycosyl hydrolase domain	Glycosyl hydrolase domain	automated matches	automated matches	(Aspergillus niger CBS 513.88 ) [TaxId: 425011 ],	SCOPe (2.08)
A	d5mgda3	All beta proteins	Beta-galactosidase LacA, domain 3	Beta-galactosidase LacA, domain 3	automated matches	automated matches	(Aspergillus niger CBS 513.88 ) [TaxId: 425011 ],	SCOPe (2.08)
A	d5mgda1	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	(Trans)glycosidases	automated matches	automated matches	(Aspergillus niger CBS 513.88 ) [TaxId: 425011 ],	SCOPe (2.08)
A	d5mgda6	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Aspergillus niger CBS 513.88 ) [TaxId: 425011 ],	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	BetaGal_dom4_5	e5mgdA5	A: beta sandwiches	X: jelly-roll	H: Concanavalin A-like	T: Galactose-binding domain-like	F: BetaGal_dom4_5	ECOD (1.6)
A	BetaGal_dom4_5_1	e5mgdA3	A: beta sandwiches	X: jelly-roll	H: Concanavalin A-like	T: Galactose-binding domain-like	F: BetaGal_dom4_5_1	ECOD (1.6)
A	BetaGal_dom2_C	e5mgdA2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Beta-galactosidase LacA beta-sandwich domain (From Topology)	T: Beta-galactosidase LacA beta-sandwich domain	F: BetaGal_dom2_C	ECOD (1.6)
A	BetaGal_dom2_N	e5mgdA4	A: beta sandwiches	X: Glycosyl hydrolase domain-like	H: Glycosyl hydrolase domain (From Topology)	T: Glycosyl hydrolase domain	F: BetaGal_dom2_N	ECOD (1.6)
A	BetaGal_dom3	e5mgdA6	A: beta sandwiches	X: Beta-galactosidase LacA, domain 3 (From Topology)	H: Beta-galactosidase LacA, domain 3 (From Topology)	T: Beta-galactosidase LacA, domain 3	F: BetaGal_dom3	ECOD (1.6)
A	Glyco_hydro_42	e5mgdA1	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: Glyco_hydro_42	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	2.102.20.10	Mainly Beta	3-layer Sandwich	beta-galactosidase, domain 2	Beta-galactosidase, domain 2	CATH (4.3.0)
A	2.60.390.10	Mainly Beta	Sandwich	beta-galactosidase, domain 3	Beta-galactosidase, domain 3	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	PF13363	Beta-galactosidase, domain 3 (BetaGal_dom3)	Beta-galactosidase, domain 3	This is the third domain of the five-domain beta-galactosidase enzyme that altogether catalyses the hydrolysis of beta(1-3) and beta(1-4) galactosyl bonds in oligosaccharides as well as the inverse reaction of enzymatic condensation and trans-glycosy ...	This is the third domain of the five-domain beta-galactosidase enzyme that altogether catalyses the hydrolysis of beta(1-3) and beta(1-4) galactosyl bonds in oligosaccharides as well as the inverse reaction of enzymatic condensation and trans-glycosylation. This domain has an Ig-like fold [1].	Domain
A	PF13364	Beta-galactosidase second all-beta domain (BetaGal_ABD2)	Beta-galactosidase second all-beta domain	This domain is the second all-beta domain from beta galactosidase enzymes which has a jelly roll fold [1]. These enzymes consist of a TIM-barrel catalytic domain and two all-beta domains (ABD), ABD1 is represented in Pfam:PF21317 and this entry repre ...	This domain is the second all-beta domain from beta galactosidase enzymes which has a jelly roll fold [1]. These enzymes consist of a TIM-barrel catalytic domain and two all-beta domains (ABD), ABD1 is represented in Pfam:PF21317 and this entry represents ABD2.	Domain
A	PF01301	Glycosyl hydrolases family 35 (Glyco_hydro_35)	Glycosyl hydrolases family 35	-	Domain
A	PF10435	Beta-galactosidase, domain 2 (BetaGal_dom2)	Beta-galactosidase, domain 2	This is the second domain of the five-domain beta-galactosidase enzyme that altogether catalyses the hydrolysis of beta(1-3) and beta(1-4) galactosyl bonds in oligosaccharides as well as the inverse reaction of enzymatic condensation and trans-glycos ...	This is the second domain of the five-domain beta-galactosidase enzyme that altogether catalyses the hydrolysis of beta(1-3) and beta(1-4) galactosyl bonds in oligosaccharides as well as the inverse reaction of enzymatic condensation and trans-glycosylation. This domain is made up of 16 antiparallel beta-strands and an alpha-helix at its C terminus. The fold of this domain appears to be unique. In addition, the last seven strands of the domain form a subdomain with an immunoglobulin-like (I-type Ig) fold in which the first strand is divided between the two beta-sheets. In penicillin spp this strand is interrupted by a 12-residue insertion which forms an additional edge-strand to the second beta-sheet of the sub-domain. The remainder of the second domain forms a series of beta-hairpins at its N terminus, four strands of which are contiguous with part of the Ig-like sub-domain, forming in total a seven-stranded antiparallel beta-sheet. This domain is associated with family Glyco_hydro_35, Pfam:PF01301, which is N-terminal to it, but itself has no metazoan members.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Probable beta-galactosidase A	hydrolase activity, acting on glycosyl bonds beta-galactosidase activity hydrolase activity, hydrolyzing O-glycosyl compounds hydrolase activity catalytic activity galactosidase activity oligosaccharide binding binding carbohydrate binding	carbohydrate metabolic process primary metabolic process metabolic process cellular process catabolic process oligosaccharide catabolic process oligosaccharide metabolic process lactose catabolic process carbohydrate catabolic process disaccharide metabolic process lactose metabolic process disaccharide catabolic process polysaccharide metabolic process polysaccharide catabolic process carbohydrate metabolic process primary metabolic process metabolic process cellular process catabolic process oligosaccharide catabolic process oligosaccharide metabolic process lactose catabolic process carbohydrate catabolic process disaccharide metabolic process lactose metabolic process disaccharide catabolic process polysaccharide metabolic process polysaccharide catabolic process macromolecule metabolic process macromolecule catabolic process	cellular anatomical structure extracellular region membrane-bounded organelle intracellular organelle intracellular anatomical structure organelle vacuole cytoplasm intracellular membrane-bounded organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR036833	Beta-galactosidase, domain 3 superfamily	Homologous Superfamily
A	IPR025300	Beta-galactosidase jelly roll domain	Domain
A	IPR031330	Glycoside hydrolase 35, catalytic domain	Domain
A	IPR017853	Glycoside hydrolase superfamily	Homologous Superfamily
A	IPR037110	Beta-galactosidase, domain 2 superfamily	Homologous Superfamily
A	IPR008979	Galactose-binding-like domain superfamily	Homologous Superfamily
A	IPR019801	Glycoside hydrolase, family 35, conserved site	Conserved Site
A	IPR025972	Beta-galactosidase, domain 3	Domain
A	IPR018954	Beta-galactosidase, domain 2	Domain
A	IPR001944	Glycoside hydrolase, family 35	Family

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.