4AD3

Structure of the GH99 endo-alpha-mannosidase from Bacteroides xylanisolvens in complex with Glucose-1,3-deoxymannojirimycin

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	d4ad3a_	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Glycosyl hydrolase family 99	Glycosyl hydrolase family 99	automated matches	(Bacteroides xylanisolvens XB1A ) [TaxId: 657309 ],	SCOPe (2.08)
B	d4ad3b_	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Glycosyl hydrolase family 99	Glycosyl hydrolase family 99	automated matches	(Bacteroides xylanisolvens XB1A ) [TaxId: 657309 ],	SCOPe (2.08)
C	d4ad3c_	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Glycosyl hydrolase family 99	Glycosyl hydrolase family 99	automated matches	(Bacteroides xylanisolvens XB1A ) [TaxId: 657309 ],	SCOPe (2.08)
D	d4ad3d_	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Glycosyl hydrolase family 99	Glycosyl hydrolase family 99	automated matches	(Bacteroides xylanisolvens XB1A ) [TaxId: 657309 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	(Trans)glycosidases	8090293	3000313	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	(Trans)glycosidases	8090293	3000313	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	(Trans)glycosidases	8090293	3000313	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	(Trans)glycosidases	8090293	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	Glyco_hydro_99	e4ad3A1	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: Glyco_hydro_99	ECOD (1.6)
B	Glyco_hydro_99	e4ad3B1	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: Glyco_hydro_99	ECOD (1.6)
C	Glyco_hydro_99	e4ad3C1	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: Glyco_hydro_99	ECOD (1.6)
D	Glyco_hydro_99	e4ad3D1	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: Glyco_hydro_99	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)
B	3.20.20.80	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Glycosidases	CATH (4.3.0)
C	3.20.20.80	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Glycosidases	CATH (4.3.0)
D	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	PF16317	Glycosyl hydrolase family 99 (Glyco_hydro_99)	Glycosyl hydrolase family 99	This domain, around 350 residues, is mainly found in some uncharacterized proteins from bacteroides to human. Some proteins in this family, annotated as endo-alpha-mannosidases cleave mannoside linkages internally within an N-linked glycan chain, sho ...	This domain, around 350 residues, is mainly found in some uncharacterized proteins from bacteroides to human. Some proteins in this family, annotated as endo-alpha-mannosidases cleave mannoside linkages internally within an N-linked glycan chain, short circuiting the classical N-glycan biosynthetic pathway. This domain reveals a (beta-alpha)(8) barrel fold in which the catalytic centre is present in a long substrate-binding groove, consistent with cleavage within the N-glycan chain, providing a foundation upon which to develop new enzyme inhibitors targeting the hijacking of N-glycan synthesis in viral disease and cancer [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	GLYCOSYL HYDROLASE FAMILY 71	hydrolase activity, acting on glycosyl bonds hydrolase activity, hydrolyzing O-glycosyl compounds mannosidase activity hydrolase activity alpha-mannosidase activity catalytic activity	-	cellular anatomical structure membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR026071	Glycosyl hydrolase family 99	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.