2I74

Crystal structure of mouse Peptide N-Glycanase C-terminal domain in complex with mannopentaose

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	d2i74a1	All beta proteins	Galactose-binding domain-like	Galactose-binding domain-like	Extended PAW domain	Peptide:N-glycanase, PNGase, C-terminal domain	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
B	d2i74b_	All beta proteins	Galactose-binding domain-like	Galactose-binding domain-like	Extended PAW domain	Peptide:N-glycanase, PNGase, C-terminal domain	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Extended PAW domain	8030200	4001639	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	galactose-binding domain-like	8042579	3000087	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	galactose-binding domain-like	8042579	3000087	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	PAW	e2i74A1	A: beta sandwiches	X: jelly-roll	H: Concanavalin A-like	T: Galactose-binding domain-like	F: PAW	ECOD (1.6)
B	PAW	e2i74B1	A: beta sandwiches	X: jelly-roll	H: Concanavalin A-like	T: Galactose-binding domain-like	F: PAW	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.60.120.1020	Mainly Beta	Sandwich	Jelly Rolls	PAW domain	CATH (4.3.0)
B	2.60.120.1020	Mainly Beta	Sandwich	Jelly Rolls	PAW domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF04721	PNGase C-terminal domain, mannose-binding module PAW (PAW)	PNGase C-terminal domain, mannose-binding module PAW	The PAW domain is found at the C-terminus of PGNase, or peptide-N-glycanase, enzymes. It was named for 'domain present in PNGases and other worm proteins' [1]. PNGase catalyses the deglycosylation of several misfolded N-linked glycoproteins by cleavi ...	The PAW domain is found at the C-terminus of PGNase, or peptide-N-glycanase, enzymes. It was named for 'domain present in PNGases and other worm proteins' [1]. PNGase catalyses the deglycosylation of several misfolded N-linked glycoproteins by cleaving off the bulky glycan chain before these proteins are degraded by the proteasome. PNGase specifically acts on the unfolded form of high-mannose type N-glycosylated proteins, and this domain appears to be the mannose-binding domain, which contributes to the oligosaccharide-binding specificity of PNGase [2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	PNGase	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides peptide-N4-(N-acetyl-beta-glucosaminyl)asparagine amidase activity hydrolase activity catalytic activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds cation binding ion binding binding metal ion binding small molecule binding	organonitrogen compound catabolic process carbohydrate derivative catabolic process glycoprotein catabolic process organonitrogen compound metabolic process catabolic process carbohydrate derivative metabolic process primary metabolic process protein catabolic process glycoprotein metabolic process macromolecule catabolic process organic substance metabolic process metabolic process protein metabolic process macromolecule metabolic process organonitrogen compound catabolic process carbohydrate derivative catabolic process glycoprotein catabolic process organonitrogen compound metabolic process catabolic process carbohydrate derivative metabolic process primary metabolic process protein catabolic process glycoprotein metabolic process macromolecule catabolic process organic substance metabolic process metabolic process protein metabolic process macromolecule metabolic process organic substance catabolic process proteolysis involved in protein catabolic process proteolysis protein quality control for misfolded or incompletely synthesized proteins	cell periphery extracellular matrix external encapsulating structure collagen-containing extracellular matrix cellular anatomical entity intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle intracellular organelle organelle nucleus intracellular membrane-bounded organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR036339	PUB-like domain superfamily	Homologous Superfamily
A, B	IPR018997	PUB domain	Domain
A, B	IPR008979	Galactose-binding-like domain superfamily	Homologous Superfamily
A, B	IPR038680	PAW domain superfamily	Homologous Superfamily
A, B	IPR002931	Transglutaminase-like	Domain
A, B	IPR038765	Papain-like cysteine peptidase superfamily	Homologous Superfamily
A, B	IPR006588	Peptide N glycanase, PAW domain	Domain

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.