6MVF | pdb_00006mvf

Crystal structure of FMN-binding beta-glucuronidase from Facaelibacterium prausnitzii L2-6

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	SCOP2 Family	beta-Galactosidase N-terminal domain-like	8085984	4002476	SCOP2 (2022-06-29)
A	SCOP2 Family	beta-Galactosidase/glucuronidase domain	8090661	4007531	SCOP2 (2022-06-29)
A	SCOP2 Family	beta-glycanases	8090663	4003164	SCOP2 (2022-06-29)
A	SCOP2 Family	E-set domains of sugar-utilizing enzymes	8090665	4007565	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	galactose-binding domain-like	8090660	3000087	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	beta-Galactosidase/glucuronidase domain-like	8090662	3002047	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	(Trans)glycosidases	8090664	3000313	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	E set domains	8090666	3000070	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	E set domains	8090666	3000070	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	galactose-binding domain-like	8090660	3000087	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	beta-Galactosidase/glucuronidase domain-like	8090662	3002047	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	(Trans)glycosidases	8090664	3000313	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	galactose-binding domain-like	8090660	3000087	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	(Trans)glycosidases	8090664	3000313	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	beta-Galactosidase/glucuronidase domain-like	8090662	3002047	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	E set domains	8090666	3000070	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	beta-Galactosidase/glucuronidase domain-like	8090662	3002047	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	(Trans)glycosidases	8090664	3000313	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	galactose-binding domain-like	8090660	3000087	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	E set domains	8090666	3000070	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	(Trans)glycosidases	8090664	3000313	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	E set domains	8090666	3000070	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	beta-Galactosidase/glucuronidase domain-like	8090662	3002047	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	galactose-binding domain-like	8090660	3000087	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	(Trans)glycosidases	8090664	3000313	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	beta-Galactosidase/glucuronidase domain-like	8090662	3002047	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	galactose-binding domain-like	8090660	3000087	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	E set domains	8090666	3000070	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	Glyco_hydro_2_N	e6mvfA4	A: beta sandwiches	X: jelly-roll	H: Concanavalin A-like	T: Galactose-binding domain-like	F: Glyco_hydro_2_N	ECOD (1.6)
A	Glyco_hydro_2	e6mvfA3	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Glyco_hydro_2	ECOD (1.6)
A	DUF4982	e6mvfA2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: DUF4982	ECOD (1.6)
A	Glyco_hydro_2_C	e6mvfA1	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: Glyco_hydro_2_C	ECOD (1.6)
B	Glyco_hydro_2_N	e6mvfB3	A: beta sandwiches	X: jelly-roll	H: Concanavalin A-like	T: Galactose-binding domain-like	F: Glyco_hydro_2_N	ECOD (1.6)
B	Glyco_hydro_2	e6mvfB1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Glyco_hydro_2	ECOD (1.6)
B	DUF4982	e6mvfB2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: DUF4982	ECOD (1.6)
B	Glyco_hydro_2_C	e6mvfB4	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: Glyco_hydro_2_C	ECOD (1.6)
C	Glyco_hydro_2_N	e6mvfC1	A: beta sandwiches	X: jelly-roll	H: Concanavalin A-like	T: Galactose-binding domain-like	F: Glyco_hydro_2_N	ECOD (1.6)
C	Glyco_hydro_2	e6mvfC3	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Glyco_hydro_2	ECOD (1.6)
C	DUF4982	e6mvfC2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: DUF4982	ECOD (1.6)
C	Glyco_hydro_2_C	e6mvfC4	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: Glyco_hydro_2_C	ECOD (1.6)
D	Glyco_hydro_2_N	e6mvfD4	A: beta sandwiches	X: jelly-roll	H: Concanavalin A-like	T: Galactose-binding domain-like	F: Glyco_hydro_2_N	ECOD (1.6)
D	Glyco_hydro_2	e6mvfD1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Glyco_hydro_2	ECOD (1.6)
D	DUF4982	e6mvfD2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: DUF4982	ECOD (1.6)
D	Glyco_hydro_2_C	e6mvfD3	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: Glyco_hydro_2_C	ECOD (1.6)
E	Glyco_hydro_2_N	e6mvfE1	A: beta sandwiches	X: jelly-roll	H: Concanavalin A-like	T: Galactose-binding domain-like	F: Glyco_hydro_2_N	ECOD (1.6)
E	Glyco_hydro_2	e6mvfE2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Glyco_hydro_2	ECOD (1.6)
E	DUF4982	e6mvfE4	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: DUF4982	ECOD (1.6)
E	Glyco_hydro_2_C	e6mvfE3	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: Glyco_hydro_2_C	ECOD (1.6)
F	Glyco_hydro_2_N	e6mvfF1	A: beta sandwiches	X: jelly-roll	H: Concanavalin A-like	T: Galactose-binding domain-like	F: Glyco_hydro_2_N	ECOD (1.6)
F	Glyco_hydro_2	e6mvfF4	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Glyco_hydro_2	ECOD (1.6)
F	DUF4982	e6mvfF2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: DUF4982	ECOD (1.6)
F	Glyco_hydro_2_C	e6mvfF3	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: Glyco_hydro_2_C	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.60.120.260	Mainly Beta	Sandwich	Jelly Rolls	Galactose-binding domain-like	CATH (4.3.0)
A	3.20.20.80	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Glycosidases	CATH (4.3.0)
B	2.60.120.260	Mainly Beta	Sandwich	Jelly Rolls	Galactose-binding domain-like	CATH (4.3.0)
B	3.20.20.80	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Glycosidases	CATH (4.3.0)
C	2.60.120.260	Mainly Beta	Sandwich	Jelly Rolls	Galactose-binding domain-like	CATH (4.3.0)
C	3.20.20.80	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Glycosidases	CATH (4.3.0)
D	2.60.120.260	Mainly Beta	Sandwich	Jelly Rolls	Galactose-binding domain-like	CATH (4.3.0)
D	3.20.20.80	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Glycosidases	CATH (4.3.0)
E	2.60.120.260	Mainly Beta	Sandwich	Jelly Rolls	Galactose-binding domain-like	CATH (4.3.0)
E	3.20.20.80	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Glycosidases	CATH (4.3.0)
F	2.60.120.260	Mainly Beta	Sandwich	Jelly Rolls	Galactose-binding domain-like	CATH (4.3.0)
F	3.20.20.80	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Glycosidases	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F	PF02836	Glycosyl hydrolases family 2, TIM barrel domain (Glyco_hydro_2_C)	Glycosyl hydrolases family 2, TIM barrel domain	This family contains beta-galactosidase, beta-mannosidase and beta-glucuronidase activities.	Domain
A, B, C, D, E A, B, C, D, E, F	PF00703	Glycosyl hydrolases family 2 (Glyco_hydro_2)	Glycosyl hydrolases family 2	This family contains beta-galactosidase, beta-mannosidase and beta-glucuronidase activities.	Domain
A, B, C, D, E A, B, C, D, E, F	PF02837	Glycosyl hydrolases family 2, sugar binding domain (Glyco_hydro_2_N)	Glycosyl hydrolases family 2, sugar binding domain	This family contains beta-galactosidase, beta-mannosidase and beta-glucuronidase activities and has a jelly-roll fold. The domain binds the sugar moiety during the sugar-hydrolysis reaction.	Domain
A, B, C, D, E A, B, C, D, E, F	PF16355	Domain of unknown function (DUF4982) (DUF4982)	Domain of unknown function (DUF4982)	This domain is found towards the C terminus of Beta-glucuronidase from Formosa agariphila (P17_GH2) and similar proteins mainly from bacteria and fungi. P17_GH2 is involved in the degradation of the polysaccharide ulvan. The function of this domain, ...	This domain is found towards the C terminus of Beta-glucuronidase from Formosa agariphila (P17_GH2) and similar proteins mainly from bacteria and fungi. P17_GH2 is involved in the degradation of the polysaccharide ulvan. The function of this domain, which shows an all-beta structure, is unknown [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F	Beta-galactosidase/beta-glucuronidase	binding nucleoside phosphate binding nucleotide binding heterocyclic compound binding small molecule binding hydrolase activity, acting on glycosyl bonds beta-galactosidase activity hydrolase activity, hydrolyzing O-glycosyl compounds hydrolase activity catalytic activity galactosidase activity	carbohydrate metabolic process primary metabolic process metabolic process cellular process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F	IPR032311	Domain of unknown function DUF4982	Domain
A, B, C, D, E A, B, C, D, E, F	IPR051913	Glycosyl Hydrolase 2 Domain-Containing Protein	Family
A, B, C, D, E A, B, C, D, E, F	IPR006102	Glycoside hydrolase family 2, immunoglobulin-like beta-sandwich	Domain
A, B, C, D, E A, B, C, D, E, F	IPR017853	Glycoside hydrolase superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR006101	Glycoside hydrolase, family 2	Family
A, B, C, D, E A, B, C, D, E, F	IPR008979	Galactose-binding-like domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR036156	Beta-Galactosidase/glucuronidase domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR006104	Glycosyl hydrolases family 2, sugar binding domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR006103	Glycoside hydrolase family 2, catalytic domain	Domain