5HJR

Murine endoplasmic reticulum alpha-glucosidase II with bound covalent intermediate

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
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)
B	SCOP2B Superfamily	EGF/Laminin-like	8106404	3000412	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	EGF/Laminin-like	8106403	3000412	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	EGF/Laminin-like	8106403	3000412	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	EGF/Laminin-like	8106404	3000412	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	(Trans)glycosidases	8090457	3000313	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Galactose mutarotase-like	8090455	3000035	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	YicI C-terminal domain-like	8090453	3000267	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Glycosyl hydrolase domain-like	8090459	3001528	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	(Trans)glycosidases	8090457	3000313	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Galactose mutarotase-like	8090455	3000035	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	YicI C-terminal domain-like	8090453	3000267	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Glycosyl hydrolase domain-like	8090459	3001528	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	PRKCSH-like	e5hjrB1	A: few secondary structure elements	X: EGF-like	H: LDL receptor-like module (From Topology)	T: LDL receptor-like module	F: PRKCSH-like	ECOD (1.6)
D	PRKCSH-like	e5hjrD1	A: few secondary structure elements	X: EGF-like	H: LDL receptor-like module (From Topology)	T: LDL receptor-like module	F: PRKCSH-like	ECOD (1.6)
A	Glyco_hydro_31_C	e5hjrA4	A: beta sandwiches	X: Glycosyl hydrolase domain-like	H: Glycosyl hydrolase domain (From Topology)	T: Glycosyl hydrolase domain	F: Glyco_hydro_31_C	ECOD (1.6)
A	Gal_mutarotas_2	e5hjrA2	A: beta sandwiches	X: Glycosyl hydrolase domain-like	H: supersandwich (From Topology)	T: supersandwich	F: Gal_mutarotas_2	ECOD (1.6)
A	DUF5110_1	e5hjrA3	A: beta sandwiches	X: Putative glucosidase YicI, C-terminal domain (From Topology)	H: Putative glucosidase YicI, C-terminal domain (From Topology)	T: Putative glucosidase YicI, C-terminal domain	F: DUF5110_1	ECOD (1.6)
A	Glyco_hydro_31_N	e5hjrA1	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: Glyco_hydro_31_N	ECOD (1.6)
C	Glyco_hydro_31_C	e5hjrC1	A: beta sandwiches	X: Glycosyl hydrolase domain-like	H: Glycosyl hydrolase domain (From Topology)	T: Glycosyl hydrolase domain	F: Glyco_hydro_31_C	ECOD (1.6)
C	Gal_mutarotas_2	e5hjrC4	A: beta sandwiches	X: Glycosyl hydrolase domain-like	H: supersandwich (From Topology)	T: supersandwich	F: Gal_mutarotas_2	ECOD (1.6)
C	DUF5110_1	e5hjrC3	A: beta sandwiches	X: Putative glucosidase YicI, C-terminal domain (From Topology)	H: Putative glucosidase YicI, C-terminal domain (From Topology)	T: Putative glucosidase YicI, C-terminal domain	F: DUF5110_1	ECOD (1.6)
C	Glyco_hydro_31_N	e5hjrC2	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: Glyco_hydro_31_N	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B, D	PF12999	Glucosidase II beta subunit-like (PRKCSH-like)	Glucosidase II beta subunit-like	-	Family
A, C	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, C	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, C	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

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B, D	Glucosidase 2 subunit beta	cation binding ion binding binding calcium ion binding metal ion binding small molecule binding protein-containing complex binding RNA binding organic cyclic compound binding nucleic acid binding	developmental process multicellular organism development multicellular organismal process hepaticobiliary system development gland development animal organ development anatomical structure development liver development system development carbohydrate derivative metabolic process metabolic process cellular process primary metabolic process N-glycan processing developmental process multicellular organism development multicellular organismal process hepaticobiliary system development gland development animal organ development anatomical structure development liver development system development carbohydrate derivative metabolic process metabolic process cellular process primary metabolic process N-glycan processing protein metabolic process macromolecule metabolic process glycoprotein metabolic process regulation of neuron projection development regulation of cellular component organization regulation of cellular process cellular developmental process cell projection organization negative regulation of biological process cell development neuron projection development cellular component organization neurogenesis neuron differentiation cell differentiation negative regulation of cellular process cellular component organization or biogenesis negative regulation of cell projection organization regulation of biological process plasma membrane bounded cell projection organization negative regulation of cellular component organization regulation of cell projection organization biological regulation nervous system development negative regulation of neuron projection development generation of neurons neuron development regulation of plasma membrane bounded cell projection organization embryo development ending in birth or egg hatching chordate embryonic development embryo development in utero embryonic development	membrane-bounded organelle protein-containing complex intracellular anatomical structure catalytic complex glucosidase II complex intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure organelle endoplasmic reticulum cytoplasm glucosidase complex endoplasmic reticulum protein-containing complex
A, C	Neutral alpha-glucosidase AB	binding carbohydrate binding hydrolase activity, acting on glycosyl bonds glucosidase activity hydrolase activity, hydrolyzing O-glycosyl compounds hydrolase activity catalytic activity alpha-glucosidase activity glucan 1,3-alpha-glucosidase activity	carbohydrate metabolic process primary metabolic process metabolic process cellular process carbohydrate derivative metabolic process N-glycan processing protein metabolic process macromolecule metabolic process glycoprotein metabolic process	membrane-bounded organelle protein-containing complex intracellular anatomical structure catalytic complex glucosidase II complex intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure organelle endoplasmic reticulum cytoplasm glucosidase complex endoplasmic reticulum protein-containing complex membrane-bounded organelle protein-containing complex intracellular anatomical structure catalytic complex glucosidase II complex intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure organelle endoplasmic reticulum cytoplasm glucosidase complex endoplasmic reticulum protein-containing complex pigment granule intracellular vesicle melanosome cytoplasmic vesicle vesicle Golgi apparatus

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B, D	IPR018247	EF-Hand 1, calcium-binding site	Binding Site
B, D	IPR009011	Mannose-6-phosphate receptor binding domain superfamily	Homologous Superfamily
B, D	IPR028146	Glucosidase II beta subunit, N-terminal	Domain
B, D	IPR044865	MRH domain	Domain
B, D	IPR036055	LDL receptor-like superfamily	Homologous Superfamily
B, D	IPR036607	Glucosidase 2 subunit beta-like	Domain
B, D	IPR039794	Glucosidase II beta subunit-like	Family
B, D	IPR002048	EF-hand domain	Domain
B, D	IPR011992	EF-hand domain pair	Homologous Superfamily
A, C	IPR030459	Glycosyl hydrolases family 31, conserved site	Conserved Site
A, C	IPR000322	Glycoside hydrolase family 31, TIM barrel domain	Domain
A, C	IPR048395	Glycosyl hydrolase family 31, C-terminal domain	Domain
A, C	IPR017853	Glycoside hydrolase superfamily	Homologous Superfamily
A, C	IPR030458	Glycosyl hydrolases family 31, active site	Active Site
A, C	IPR013780	Glycosyl hydrolase, all-beta	Homologous Superfamily
A, C	IPR025887	Glycoside hydrolase family 31, N-terminal domain	Domain
A, C	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.