2GVY

Monoclinic crystal form of Aspergillus niger alpha-amylase in complex with maltose at 1.8 A resolution

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)
B	d2gvyb1	All beta proteins	Glycosyl hydrolase domain	Glycosyl hydrolase domain	alpha-Amylases, C-terminal beta-sheet domain	Fungal alpha-amylase	(Aspergillus oryzae ) [TaxId: 5062 ],	SCOPe (2.08)
B	d2gvyb2	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	(Trans)glycosidases	Amylase, catalytic domain	Fungal alpha-amylases	(Aspergillus oryzae ) [TaxId: 5062 ],	SCOPe (2.08)
A	d2gvya1	All beta proteins	Glycosyl hydrolase domain	Glycosyl hydrolase domain	alpha-Amylases, C-terminal beta-sheet domain	Fungal alpha-amylase	(Aspergillus oryzae ) [TaxId: 5062 ],	SCOPe (2.08)
A	d2gvya2	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	(Trans)glycosidases	Amylase, catalytic domain	Fungal alpha-amylases	(Aspergillus oryzae ) [TaxId: 5062 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	(Trans)glycosidases	8042080	3000313	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Glycosyl hydrolase domain-like	8042079	3001528	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Glycosyl hydrolase domain-like	8042079	3001528	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	(Trans)glycosidases	8042080	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)
B	DUF1966	e2gvyB1	A: beta sandwiches	X: Glycosyl hydrolase domain-like	H: Glycosyl hydrolase domain (From Topology)	T: Glycosyl hydrolase domain	F: DUF1966	ECOD (1.6)
B	Alpha-amylase	e2gvyB2	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: Alpha-amylase	ECOD (1.6)
A	DUF1966	e2gvyA1	A: beta sandwiches	X: Glycosyl hydrolase domain-like	H: Glycosyl hydrolase domain (From Topology)	T: Glycosyl hydrolase domain	F: DUF1966	ECOD (1.6)
A	Alpha-amylase	e2gvyA2	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: Alpha-amylase	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	3.20.20.80	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Glycosidases	CATH (4.3.0)
B	2.60.40.1180	Mainly Beta	Sandwich	Immunoglobulin-like	Golgi alpha-mannosidase II	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)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	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
A, B	PF09260	Alpha-amylase, domain C (A_amylase_dom_C)	Alpha-amylase, domain C	This domain is found at the C-terminal of various fungal alpha-amylase proteins [1]. It has been identified as a secondary binding site, which might be part of a starch interaction site [2]. It has a beta- sandwich fold comprising an antiparallel bet ...	This domain is found at the C-terminal of various fungal alpha-amylase proteins [1]. It has been identified as a secondary binding site, which might be part of a starch interaction site [2]. It has a beta- sandwich fold comprising an antiparallel beta-sheet with eight strands [2,3].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Alpha-amylase A	cation binding ion binding binding calcium ion binding metal ion binding small molecule binding hydrolase activity, acting on glycosyl bonds amylase activity alpha-amylase activity hydrolase activity, hydrolyzing O-glycosyl compounds hydrolase activity catalytic activity	carbohydrate metabolic process catabolic process carbohydrate catabolic process primary metabolic process metabolic process	fungal-type cell wall cell periphery external encapsulating structure cell wall cellular anatomical entity extracellular region cell septum intracellular organelle septin band intracellular anatomical structure cytoskeleton organelle septin cytoskeleton intracellular non-membrane-bounded organelle fungal-type cell wall cell periphery external encapsulating structure cell wall cellular anatomical entity extracellular region cell septum intracellular organelle septin band intracellular anatomical structure cytoskeleton organelle septin cytoskeleton intracellular non-membrane-bounded organelle non-membrane-bounded organelle hyphal septin band protein-containing complex cell tip cell pole spitzenkorper endomembrane system hyphal tip site of polarized growth cell wall-bounded periplasmic space periplasmic space

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR015340	Alpha-amylase, domain C	Domain
A, B	IPR017853	Glycoside hydrolase superfamily	Homologous Superfamily
A, B	IPR013777	Alpha-amylase-like	Family
A, B	IPR006047	Glycosyl hydrolase, family 13, catalytic domain	Domain
A, B	IPR006046	Alpha amylase	Family
A, B	IPR013780	Glycosyl hydrolase, all-beta	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.