Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
ASCOP2B SuperfamilyFamilies 57/38 glycoside transferase middle domain 8039561 3000997 SCOP2B (2022-06-29)
ASCOP2B SuperfamilyGalactose mutarotase-like 8039564 3000035 SCOP2B (2022-06-29)
ASCOP2B SuperfamilyGlycoside hydrolase/deacetylase 8039566 3001025 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
AKOG1958e1qwnA2 A: beta sandwichesX: Glycosyl hydrolase domain-likeH: Glycosyl hydrolase domain (From Topology)T: Glycosyl hydrolase domainF: KOG1958ECOD (1.6)
AKOG1959e1qwnA1 A: beta sandwichesX: Glycosyl hydrolase domain-likeH: Glycosyl hydrolase domain (From Topology)T: Glycosyl hydrolase domainF: KOG1959ECOD (1.6)
AGlyco_hydro_38C_1st_1e1qwnA4 A: beta sandwichesX: Glycosyl hydrolase domain-likeH: supersandwich (From Topology)T: supersandwichF: Glyco_hydro_38C_1st_1ECOD (1.6)
AAlpha-mann_mide1qwnA5 A: alpha bundlesX: immunoglobulin/albumin-binding domain-likeH: Families 57/38 glycoside transferase middle domain (From Topology)T: Families 57/38 glycoside transferase middle domainF: Alpha-mann_midECOD (1.6)
AGlyco_hydro_38e1qwnA6 A: a/b barrelsX: TIM beta/alpha-barrelH: Glycoside hydrolase/deacetylase (From Topology)T: Glycoside hydrolase/deacetylaseF: Glyco_hydro_38ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
PF18230Glycosyl hydrolases family 38 C-terminal sub-domain (Glyc_hyd_38C_2)Glycosyl hydrolases family 38 C-terminal sub-domainThis is a subdomain found in the C-terminal region of golgi alpha-mannosidase II present in Drosophila melanogaster. These proteins are important in glycoprotein processing and are thought to cleave mannosidic bonds through a double displacement mech ...This is a subdomain found in the C-terminal region of golgi alpha-mannosidase II present in Drosophila melanogaster. These proteins are important in glycoprotein processing and are thought to cleave mannosidic bonds through a double displacement mechanism involving a reaction intermediate.This subdomain is found at the C-terminal of Glycosyl hydrolases family 38 C-terminal domain [1].
Domain
PF01074Glycosyl hydrolases family 38 N-terminal domain (Glyco_hydro_38N)Glycosyl hydrolases family 38 N-terminal domainGlycosyl hydrolases are key enzymes of carbohydrate metabolism.Domain
PF09261Alpha mannosidase middle domain (Alpha-mann_mid)Alpha mannosidase middle domainMembers of this family adopt a structure consisting of three alpha helices, in an immunoglobulin/albumin-binding domain-like fold. They are predominantly found in the enzyme alpha-mannosidase [1].Domain
PF21260Lysosomal alpha-mannosidase-like, central domain (Laman-like_dom)Lysosomal alpha-mannosidase-like, central domainThis domain is found in Lysosomal alpha-mannosidase from Bos taurus (Laman) and similar proteins from eukaryotes. This protein is necessary for the catabolism of N-linked carbohydrates released during glycoprotein turnover. Laman, which belongs to th ...This domain is found in Lysosomal alpha-mannosidase from Bos taurus (Laman) and similar proteins from eukaryotes. This protein is necessary for the catabolism of N-linked carbohydrates released during glycoprotein turnover. Laman, which belongs to the glycoside hydrolase family 38 (GH38), is organised into four domains: the alpha-beta N-terminal Pfam:PF01074, a three-helix bundle domain Pfam:PF09261, and three mainly beta-sheet domains (covered by this entry, Pfam:PF07748 and Pfam:PF17677) [1-5].
Domain
PF07748Glycosyl hydrolases family 38 C-terminal domain (Glyco_hydro_38C)Glycosyl hydrolases family 38 C-terminal domainGlycosyl hydrolases are key enzymes of carbohydrate metabolism.Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
Alpha-mannosidase II

Structure Motif Annotation: Mechanism and Catalytic Site Atlas M-CSA Database Homepage

ChainsEnzyme NameDescriptionCatalytic Residues
mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase  M-CSA #793

Golgi alpha-mannosidase II (dGMII) from Drosophila melanogaster is a member of the glycosyl hydrolase family 38. It catalyses the hydrolysis of the terminal 1,3- and 1,6-linked alpha-D-mannose (Man) residues in the mannosyl-oligosaccharide Man(5)(GlcNAc)(3) producing Man(3)(GlcNAc)(3). GlcNAc stands for N-acetylglucosamine. The enzyme has a high degree of conservation of sequence among many eukaryotes. Inhibition of the human GMII may be helpful in the treatmant of breast, colon or skin cancer. GMII is involved in the N-linked glycosylation pathway which begins in the endoplasmic reticulum where an oligosaccharide is attached to an asparagine residue on a nascent polypeptide. GMII is located in the Golgi apparatus and is one of the glycosyl hydrolases involved in trimming the oligosaccharide. The active site of GMII consitsis of a ctalytic site, a holding site, and an anchor site. Initially the alpha1,6-linked mannose residue of the substrate binds in the catalytic site while the alpha1,3-linked mannose bind in the holding site. A terminal N-acetylglucosamine residue of the substrate binds in the holding site and helps orient the substrate for the hydrolysis reaction. The holding site cannot accommodate the alpha1,6-linked residue without displacing the terminal N-acetylglucosamine from the anchor site. This ensures that the alpha1,6 bond is hydrolysed before the alpha1,3 bond. In in vitro studies dGMII shows an 80-fold preference for substrates containing a nonreducing beta(1,2)-linked GlcNAc which can occupy the anchor site. It has been proposed that the conformation of the catalytic site depends on the presence of a GlcNAc residue in the anchoring site.

Defined by 5 residues: HIS:A-90ASP:A-92ASP:A-204ASP:A-341HIS:A-471
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