4TXJ | pdb_00004txj

Crystal structure of uridine phosphorylase from Schistosoma mansoni in complex with thymidine

External Resource: Annotation

Domain Annotation: SCOP/SCOPe 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	d4txja_	Alpha and beta proteins (a/b)	Phosphorylase/hydrolase-like	Purine and uridine phosphorylases	automated matches	automated matches	Blood fluke (Schistosoma mansoni ) [TaxId: 6183 ],	SCOPe (2.08)
B	d4txjb_	Alpha and beta proteins (a/b)	Phosphorylase/hydrolase-like	Purine and uridine phosphorylases	automated matches	automated matches	Blood fluke (Schistosoma mansoni ) [TaxId: 6183 ],	SCOPe (2.08)
C	d4txjc_	Alpha and beta proteins (a/b)	Phosphorylase/hydrolase-like	Purine and uridine phosphorylases	automated matches	automated matches	Blood fluke (Schistosoma mansoni ) [TaxId: 6183 ],	SCOPe (2.08)
D	d4txjd_	Alpha and beta proteins (a/b)	Phosphorylase/hydrolase-like	Purine and uridine phosphorylases	automated matches	automated matches	Blood fluke (Schistosoma mansoni ) [TaxId: 6183 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A		e4txjA1	A: cradle loop barrel	X: RIFT-related	H: acid protease	T: PTR2	F:	ECOD (20:10:01)
B		e4txjB1	A: cradle loop barrel	X: RIFT-related	H: acid protease	T: PTR2	F:	ECOD (20:10:01)
C		e4txjC1	A: cradle loop barrel	X: RIFT-related	H: acid protease	T: PTR2	F:	ECOD (20:10:01)
D		e4txjD1	A: cradle loop barrel	X: RIFT-related	H: acid protease	T: PTR2	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	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)
C	3.40.50.1580	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Nucleoside phosphorylase domain	CATH (4.3.0)
D	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, D	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, D	Uridine phosphorylase	pentosyltransferase activity glycosyltransferase activity uridine phosphorylase activity transferase activity catalytic activity pyrimidine-nucleoside phosphorylase activity identical protein binding protein binding binding	ribose phosphate metabolic process nucleotide biosynthetic process pyrimidine ribonucleotide salvage carbohydrate derivative metabolic process pyrimidine nucleotide metabolic process pyrimidine-containing compound salvage nucleobase-containing compound metabolic process pyrimidine nucleotide salvage nucleotide salvage metabolic compound salvage ribonucleotide biosynthetic process UMP salvage UMP biosynthetic process ribonucleotide metabolic process nucleobase-containing small molecule metabolic process ribose phosphate metabolic process nucleotide biosynthetic process pyrimidine ribonucleotide salvage carbohydrate derivative metabolic process pyrimidine nucleotide metabolic process pyrimidine-containing compound salvage nucleobase-containing compound metabolic process pyrimidine nucleotide salvage nucleotide salvage metabolic compound salvage ribonucleotide biosynthetic process UMP salvage UMP biosynthetic process ribonucleotide metabolic process nucleobase-containing small molecule metabolic process phosphate-containing compound metabolic process UMP metabolic process small molecule metabolic process pyrimidine-containing compound biosynthetic process phosphorus metabolic process nucleoside monophosphate metabolic process ribose phosphate biosynthetic process pyrimidine ribonucleotide metabolic process nucleoside phosphate metabolic process carbohydrate derivative biosynthetic process pyrimidine nucleoside monophosphate metabolic process pyrimidine ribonucleoside monophosphate metabolic process pyrimidine-containing compound metabolic process primary metabolic process nucleobase-containing compound biosynthetic process nucleotide metabolic process nucleoside monophosphate biosynthetic process biosynthetic process pyrimidine ribonucleoside monophosphate biosynthetic process organophosphate metabolic process organophosphate biosynthetic process nucleoside phosphate biosynthetic process metabolic process cellular process pyrimidine nucleoside monophosphate biosynthetic process ribonucleoside monophosphate biosynthetic process pyrimidine nucleotide biosynthetic process pyrimidine ribonucleotide biosynthetic process catabolic process organophosphate catabolic process nucleoside phosphate catabolic process nucleobase-containing compound catabolic process nucleotide catabolic process pyrimidine-containing compound catabolic process uridine metabolic process pyrimidine nucleoside metabolic process carbohydrate derivative catabolic process pyrimidine nucleoside catabolic process glycosyl compound catabolic process nucleoside metabolic process uridine catabolic process pyrimidine ribonucleoside metabolic process nucleobase-containing small molecule catabolic process nucleoside catabolic process pyrimidine ribonucleoside catabolic process small molecule catabolic process ribonucleoside catabolic process ribonucleoside metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR035994	Nucleoside phosphorylase superfamily	Homologous Superfamily
A, B, C, D	IPR010059	Uridine phosphorylase, eukaryotic	Family
A, B, C, D	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.