3DMP

2.6 A crystal structure of uracil phosphoribosyltransferase from Burkholderia pseudomallei

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)
B	d3dmpb1	Alpha and beta proteins (a/b)	PRTase-like	PRTase-like	Phosphoribosyltransferases (PRTases)	automated matches	Pseudomonas pseudomallei (Burkholderia pseudomallei ) [TaxId: 28450 ],	SCOPe (2.08)
B	d3dmpb2	Artifacts	Tags	Tags	Tags	N-terminal Tags	Pseudomonas pseudomallei (Burkholderia pseudomallei ) [TaxId: 28450 ],	SCOPe (2.08)
C	d3dmpc1	Alpha and beta proteins (a/b)	PRTase-like	PRTase-like	Phosphoribosyltransferases (PRTases)	automated matches	Pseudomonas pseudomallei (Burkholderia pseudomallei ) [TaxId: 28450 ],	SCOPe (2.08)
C	d3dmpc2	Artifacts	Tags	Tags	Tags	N-terminal Tags	Pseudomonas pseudomallei (Burkholderia pseudomallei ) [TaxId: 28450 ],	SCOPe (2.08)
A	d3dmpa1	Alpha and beta proteins (a/b)	PRTase-like	PRTase-like	Phosphoribosyltransferases (PRTases)	automated matches	Pseudomonas pseudomallei (Burkholderia pseudomallei ) [TaxId: 28450 ],	SCOPe (2.08)
A	d3dmpa2	Artifacts	Tags	Tags	Tags	N-terminal Tags	Pseudomonas pseudomallei (Burkholderia pseudomallei ) [TaxId: 28450 ],	SCOPe (2.08)
D	d3dmpd1	Alpha and beta proteins (a/b)	PRTase-like	PRTase-like	Phosphoribosyltransferases (PRTases)	automated matches	Pseudomonas pseudomallei (Burkholderia pseudomallei ) [TaxId: 28450 ],	SCOPe (2.08)
D	d3dmpd2	Artifacts	Tags	Tags	Tags	N-terminal Tags	Pseudomonas pseudomallei (Burkholderia pseudomallei ) [TaxId: 28450 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	PRTase-like	8083047	3000060	SCOP2B (2021-05-27)
C	SCOP2B Superfamily	PRTase-like	8083047	3000060	SCOP2B (2021-05-27)
A	SCOP2 Family	Phosphoribosyltransferases (PRTases)	8083046	4000253	SCOP2 (2021-05-27)
A	SCOP2 Superfamily	PRTase-like	8083047	3000060	SCOP2 (2021-05-27)
D	SCOP2B Superfamily	PRTase-like	8083047	3000060	SCOP2B (2021-05-27)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B	PF14681	e3dmpB1	A: a/b three-layered sandwiches	X: PRTase-like (From Topology)	H: PRTase-like (From Topology)	T: PRTase-like	F: PF14681	ECOD (1.6)
C	PF14681	e3dmpC1	A: a/b three-layered sandwiches	X: PRTase-like (From Topology)	H: PRTase-like (From Topology)	T: PRTase-like	F: PF14681	ECOD (1.6)
A	PF14681	e3dmpA1	A: a/b three-layered sandwiches	X: PRTase-like (From Topology)	H: PRTase-like (From Topology)	T: PRTase-like	F: PF14681	ECOD (1.6)
D	PF14681	e3dmpD1	A: a/b three-layered sandwiches	X: PRTase-like (From Topology)	H: PRTase-like (From Topology)	T: PRTase-like	F: PF14681	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	3.40.50.2020	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
C	3.40.50.2020	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
A	3.40.50.2020	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
D	3.40.50.2020	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF14681	Uracil phosphoribosyltransferase (UPRTase)	Uracil phosphoribosyltransferase	This family includes the enzyme uracil phosphoribosyltransferase (EC:2.4.2.9). This enzyme catalyzes the first step of UMP biosynthesis.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	Uracil phosphoribosyltransferase	cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding pentosyltransferase activity glycosyltransferase activity transferase activity catalytic activity uracil phosphoribosyltransferase activity guanyl nucleotide binding GTP binding nucleotide binding cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding pentosyltransferase activity glycosyltransferase activity transferase activity catalytic activity uracil phosphoribosyltransferase activity guanyl nucleotide binding GTP binding nucleotide binding guanyl ribonucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding organic cyclic compound binding purine nucleotide binding anion binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding	pyrimidine nucleobase salvage uracil metabolic process organonitrogen compound biosynthetic process pyrimidine-containing compound salvage uracil biosynthetic process nucleobase-containing compound metabolic process nucleobase-containing small molecule metabolic process nucleobase metabolic process small molecule metabolic process pyrimidine-containing compound biosynthetic process cellular metabolic compound salvage organonitrogen compound metabolic process pyrimidine-containing compound metabolic process nucleobase biosynthetic process pyrimidine nucleobase salvage uracil metabolic process organonitrogen compound biosynthetic process pyrimidine-containing compound salvage uracil biosynthetic process nucleobase-containing compound metabolic process nucleobase-containing small molecule metabolic process nucleobase metabolic process small molecule metabolic process pyrimidine-containing compound biosynthetic process cellular metabolic compound salvage organonitrogen compound metabolic process pyrimidine-containing compound metabolic process nucleobase biosynthetic process cellular metabolic process pyrimidine nucleobase biosynthetic process primary metabolic process nucleobase-containing compound biosynthetic process pyrimidine nucleobase metabolic process biosynthetic process uracil salvage metabolic process cellular process nucleotide biosynthetic process carbohydrate derivative metabolic process pyrimidine nucleotide metabolic process ribonucleotide biosynthetic process phosphate-containing compound metabolic process UMP metabolic process phosphorus metabolic process ribose phosphate biosynthetic process nucleoside phosphate metabolic process pyrimidine ribonucleoside monophosphate metabolic process nucleotide metabolic process pyrimidine ribonucleoside monophosphate biosynthetic process organophosphate biosynthetic process nucleoside phosphate biosynthetic process pyrimidine nucleoside monophosphate biosynthetic process ribose phosphate metabolic process pyrimidine ribonucleotide salvage pyrimidine nucleotide salvage nucleotide salvage UMP salvage UMP biosynthetic process ribonucleotide metabolic process ribonucleoside monophosphate metabolic process nucleoside monophosphate metabolic process pyrimidine ribonucleotide metabolic process carbohydrate derivative biosynthetic process pyrimidine nucleoside monophosphate metabolic process nucleoside monophosphate biosynthetic process organophosphate metabolic process ribonucleoside monophosphate biosynthetic process pyrimidine nucleotide biosynthetic process pyrimidine ribonucleotide biosynthetic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR005765	Uracil phosphoribosyl transferase	Family
A, B, C, D	IPR000836	Phosphoribosyltransferase domain	Domain
A, B, C, D	IPR029057	Phosphoribosyltransferase-like	Homologous Superfamily
A, B, C, D	IPR034332	Uracil phosphoribosyltransferase, bacterial-type	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 R01GM133198.