1YQU | pdb_00001yqu

Escherichia coli purine nucleoside phosphorylase II, the product of the xapA gene

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)
C	d1yquc_	Alpha and beta proteins (a/b)	Phosphorylase/hydrolase-like	Purine and uridine phosphorylases	automated matches	automated matches	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
B	d1yqub_	Alpha and beta proteins (a/b)	Phosphorylase/hydrolase-like	Purine and uridine phosphorylases	automated matches	automated matches	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
A	d1yqua_	Alpha and beta proteins (a/b)	Phosphorylase/hydrolase-like	Purine and uridine phosphorylases	automated matches	automated matches	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
C	SCOP2B Superfamily	Purine and uridine phosphorylases	8069101	3000626	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Purine and uridine phosphorylases	8069101	3000626	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Purine and uridine phosphorylases	8069101	3000626	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)
C	Amidohydro_1	e1yquC1	A: alpha bundles	X: YrdC/RibB	H: YrdC/RibB	T: YrdC/RibB	F: Amidohydro_1	ECOD (develop294)
B	Amidohydro_1	e1yquB1	A: alpha bundles	X: YrdC/RibB	H: YrdC/RibB	T: YrdC/RibB	F: Amidohydro_1	ECOD (develop294)
A	tRNA-synt_1b	e1yquA1	A: alpha bundles	X: YrdC/RibB	H: YrdC/RibB	T: YrdC/RibB	F: tRNA-synt_1b	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C	3.40.50.1580	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Nucleoside phosphorylase domain	CATH (4.3.0)
B	3.40.50.1580	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Nucleoside phosphorylase domain	CATH (4.3.0)
A	3.40.50.1580	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Nucleoside phosphorylase domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C	PF01048	Phosphorylase superfamily (PNP_UDP_1)	Phosphorylase superfamily	Members of this family include: purine nucleoside phosphorylase (PNP) Uridine phosphorylase (UdRPase) 5'-methylthioadenosine phosphorylase (MTA phosphorylase)	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C	Xanthosine phosphorylase	hydrolase activity, acting on glycosyl bonds purine nucleosidase activity hydrolase activity hydrolase activity, hydrolyzing N-glycosyl compounds catalytic activity inosine nucleosidase activity guanosine phosphorylase activity pentosyltransferase activity glycosyltransferase activity purine-nucleoside phosphorylase activity transferase activity identical protein binding protein binding binding	catabolic process deoxyribonucleoside metabolic process purine nucleoside catabolic process carbohydrate derivative metabolic process purine deoxyribonucleoside catabolic process nucleobase-containing compound metabolic process deoxyinosine catabolic process nucleobase-containing small molecule metabolic process purine deoxyribonucleoside metabolic process small molecule metabolic process carbohydrate derivative catabolic process primary metabolic process glycosyl compound catabolic process purine-containing compound catabolic process catabolic process deoxyribonucleoside metabolic process purine nucleoside catabolic process carbohydrate derivative metabolic process purine deoxyribonucleoside catabolic process nucleobase-containing compound metabolic process deoxyinosine catabolic process nucleobase-containing small molecule metabolic process purine deoxyribonucleoside metabolic process small molecule metabolic process carbohydrate derivative catabolic process primary metabolic process glycosyl compound catabolic process purine-containing compound catabolic process deoxyinosine metabolic process nucleoside metabolic process nucleobase-containing compound catabolic process purine-containing compound metabolic process nucleobase-containing small molecule catabolic process nucleoside catabolic process deoxyribonucleoside catabolic process metabolic process cellular process small molecule catabolic process purine nucleoside metabolic process deoxyguanosine catabolic process cellular component organization cellular component biogenesis protein hexamerization cellular component assembly protein-containing complex organization protein complex oligomerization protein-containing complex assembly cellular component organization or biogenesis nucleobase-containing small molecule interconversion purine ribonucleoside metabolic process xanthosine catabolic process ribonucleoside catabolic process purine ribonucleoside catabolic process ribonucleoside metabolic process inosine catabolic process inosine metabolic process pyridine nucleotide salvage nucleotide biosynthetic process NAD+ biosynthetic process nucleotide salvage metabolic compound salvage purine nucleotide metabolic process purine-containing compound biosynthetic process purine nucleotide salvage phosphate-containing compound metabolic process pyridine-containing compound metabolic process phosphorus metabolic process NAD+ metabolic process pyridine nucleotide biosynthetic process nucleoside phosphate metabolic process nicotinamide nucleotide metabolic process purine-containing compound salvage NAD+ biosynthetic process via the salvage pathway pyridine-containing compound biosynthetic process nucleotide metabolic process nucleobase-containing compound biosynthetic process nicotinamide nucleotide biosynthetic process biosynthetic process organophosphate metabolic process organophosphate biosynthetic process nucleoside phosphate biosynthetic process purine nucleotide biosynthetic process guanosine-containing compound catabolic process guanosine metabolic process guanosine catabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C	IPR010943	Xanthosine phosphorylase	Family
A, B, C	IPR035994	Nucleoside phosphorylase superfamily	Homologous Superfamily
A, B, C	IPR011268	Purine nucleoside phosphorylase	Family
A, B, C	IPR018099	Purine phosphorylase, family 2, conserved site	Conserved Site
A, B, C	IPR000845	Nucleoside phosphorylase domain	Domain

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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.