5DO8

1.8 Angstrom crystal structure of Listeria monocytogenes Lmo0184 alpha-1,6-glucosidase

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
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: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A [auth B]	d5do8b2	All beta proteins	Glycosyl hydrolase domain	Glycosyl hydrolase domain	automated matches	automated matches	(Listeria monocytogenes EGD-e ) [TaxId: 169963 ],	SCOPe (2.08)
A [auth B]	d5do8b1	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	(Trans)glycosidases	Amylase, catalytic domain	automated matches	(Listeria monocytogenes EGD-e ) [TaxId: 169963 ],	SCOPe (2.08)
A [auth B]	d5do8b3	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Listeria monocytogenes EGD-e ) [TaxId: 169963 ],	SCOPe (2.08)
B [auth A]	d5do8a2	All beta proteins	Glycosyl hydrolase domain	Glycosyl hydrolase domain	automated matches	automated matches	(Listeria monocytogenes EGD-e ) [TaxId: 169963 ],	SCOPe (2.08)
B [auth A]	d5do8a1	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	(Trans)glycosidases	Amylase, catalytic domain	automated matches	(Listeria monocytogenes EGD-e ) [TaxId: 169963 ],	SCOPe (2.08)
B [auth A]	d5do8a3	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Listeria monocytogenes EGD-e ) [TaxId: 169963 ],	SCOPe (2.08)
C	d5do8c2	All beta proteins	Glycosyl hydrolase domain	Glycosyl hydrolase domain	automated matches	automated matches	(Listeria monocytogenes EGD-e ) [TaxId: 169963 ],	SCOPe (2.08)
C	d5do8c1	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	(Trans)glycosidases	Amylase, catalytic domain	automated matches	(Listeria monocytogenes EGD-e ) [TaxId: 169963 ],	SCOPe (2.08)
C	d5do8c3	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Listeria monocytogenes EGD-e ) [TaxId: 169963 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A [auth B]	SCOP2 Family	alpha-Amylases C-terminal beta-sheet domain	8101037	4002636	SCOP2 (2022-06-29)
A [auth B]	SCOP2 Family	Amylase catalytic domain	8100295	4003138	SCOP2 (2022-06-29)
A [auth B]	SCOP2 Superfamily	Glycosyl hydrolase domain-like	8101038	3001528	SCOP2 (2022-06-29)
A [auth B]	SCOP2 Superfamily	(Trans)glycosidases	8100296	3000313	SCOP2 (2022-06-29)
B [auth A]	SCOP2B Superfamily	Glycosyl hydrolase domain-like	8101038	3001528	SCOP2B (2022-06-29)
B [auth A]	SCOP2B Superfamily	(Trans)glycosidases	8100296	3000313	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Glycosyl hydrolase domain-like	8101038	3001528	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	(Trans)glycosidases	8100296	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 [auth B]	PF16657	e5do8B2	A: beta sandwiches	X: Glycosyl hydrolase domain-like	H: Glycosyl hydrolase domain (From Topology)	T: Glycosyl hydrolase domain	F: PF16657	ECOD (1.6)
A [auth B]	PF00128	e5do8B1	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: PF00128	ECOD (1.6)
B [auth A]	PF16657	e5do8A1	A: beta sandwiches	X: Glycosyl hydrolase domain-like	H: Glycosyl hydrolase domain (From Topology)	T: Glycosyl hydrolase domain	F: PF16657	ECOD (1.6)
B [auth A]	PF00128	e5do8A2	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: PF00128	ECOD (1.6)
C	PF16657	e5do8C1	A: beta sandwiches	X: Glycosyl hydrolase domain-like	H: Glycosyl hydrolase domain (From Topology)	T: Glycosyl hydrolase domain	F: PF16657	ECOD (1.6)
C	PF00128	e5do8C2	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: PF00128	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A [auth B]	3.20.20.80	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Glycosidases	CATH (4.3.0)
A [auth B]	3.90.400.10	Alpha Beta	Alpha-Beta Complex	Oligo-1,6-glucosidase	domain 2	CATH (4.3.0)
A [auth B]	2.60.40.1180	Mainly Beta	Sandwich	Immunoglobulin-like	Golgi alpha-mannosidase II	CATH (4.3.0)
B [auth A]	3.20.20.80	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Glycosidases	CATH (4.3.0)
B [auth A]	3.90.400.10	Alpha Beta	Alpha-Beta Complex	Oligo-1,6-glucosidase	domain 2	CATH (4.3.0)
B [auth A]	2.60.40.1180	Mainly Beta	Sandwich	Immunoglobulin-like	Golgi alpha-mannosidase II	CATH (4.3.0)
C	3.20.20.80	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Glycosidases	CATH (4.3.0)
C	3.90.400.10	Alpha Beta	Alpha-Beta Complex	Oligo-1,6-glucosidase	domain 2	CATH (4.3.0)
C	2.60.40.1180	Mainly Beta	Sandwich	Immunoglobulin-like	Golgi alpha-mannosidase II	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth B], B [auth A], C	PF00128	Alpha amylase, catalytic domain (Alpha-amylase)	Alpha amylase, catalytic domain	Alpha amylase is classified as family 13 of the glycosyl hydrolases. The structure is an 8 stranded alpha/beta barrel containing the active site, interrupted by a ~70 a.a. calcium-binding domain protruding between beta strand 3 and alpha helix 3, a ...	Alpha amylase is classified as family 13 of the glycosyl hydrolases. The structure is an 8 stranded alpha/beta barrel containing the active site, interrupted by a ~70 a.a. calcium-binding domain protruding between beta strand 3 and alpha helix 3, and a carboxyl-terminal Greek key beta-barrel domain.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth B], B [auth A], C	Lmo0184 protein	hydrolase activity, acting on glycosyl bonds amylase activity alpha-amylase activity hydrolase activity, hydrolyzing O-glycosyl compounds hydrolase activity catalytic activity	carbohydrate metabolic process organic substance metabolic process catabolic process oligosaccharide catabolic process oligosaccharide metabolic process carbohydrate catabolic process primary metabolic process metabolic process organic substance catabolic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth B], B [auth A], C	IPR006047	Glycosyl hydrolase, family 13, catalytic domain	Domain
A [auth B], B [auth A], C	IPR045857	Oligo-1,6-glucosidase, domain 2	Homologous Superfamily
A [auth B], B [auth A], C	IPR017853	Glycoside hydrolase superfamily	Homologous Superfamily
A [auth B], B [auth A], C	IPR013780	Glycosyl hydrolase, all-beta	Homologous Superfamily

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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.