4M0K | pdb_00004m0k

Crystal structure of adenine phosphoribosyltransferase from Rhodothermus marinus DSM 4252, NYSGRC Target 029775.

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)
D	d4m0kd_	Alpha and beta proteins (a/b)	PRTase-like	PRTase-like	automated matches	automated matches	(Rhodothermus marinus DSM 4252 ) [TaxId: 518766 ],	SCOPe (2.08)
C	d4m0kc_	Alpha and beta proteins (a/b)	PRTase-like	PRTase-like	automated matches	automated matches	(Rhodothermus marinus DSM 4252 ) [TaxId: 518766 ],	SCOPe (2.08)
B	d4m0kb_	Alpha and beta proteins (a/b)	PRTase-like	PRTase-like	automated matches	automated matches	(Rhodothermus marinus DSM 4252 ) [TaxId: 518766 ],	SCOPe (2.08)
A	d4m0ka_	Alpha and beta proteins (a/b)	PRTase-like	PRTase-like	automated matches	automated matches	(Rhodothermus marinus DSM 4252 ) [TaxId: 518766 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D	SCOP2B Superfamily	PRTase-like	8073445	3000060	SCOP2B (2022-06-29)
C	SCOP2 Family	Phosphoribosyltransferases (PRTases)	8073444	4000253	SCOP2 (2022-06-29)
C	SCOP2 Superfamily	PRTase-like	8073445	3000060	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	PRTase-like	8073445	3000060	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	PRTase-like	8073445	3000060	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)
D	Pribosyltran	e4m0kD1	A: a/b three-layered sandwiches	X: PRTase-like (From Topology)	H: PRTase-like (From Topology)	T: PRTase-like	F: Pribosyltran	ECOD (1.6)
C	Pribosyltran	e4m0kC1	A: a/b three-layered sandwiches	X: PRTase-like (From Topology)	H: PRTase-like (From Topology)	T: PRTase-like	F: Pribosyltran	ECOD (1.6)
B	Pribosyltran	e4m0kB1	A: a/b three-layered sandwiches	X: PRTase-like (From Topology)	H: PRTase-like (From Topology)	T: PRTase-like	F: Pribosyltran	ECOD (1.6)
A	Pribosyltran	e4m0kA1	A: a/b three-layered sandwiches	X: PRTase-like (From Topology)	H: PRTase-like (From Topology)	T: PRTase-like	F: Pribosyltran	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	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)
B	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)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF00156	Phosphoribosyl transferase domain (Pribosyltran)	Phosphoribosyl transferase domain	This family includes a range of diverse phosphoribosyl transferase enzymes. This family includes: Adenine phosphoribosyl-transferase EC:2.4.2.7, Swiss:P07672. Hypoxanthine-guanine-xanthine phosphoribosyl-transferase Swiss:P51900. Hypoxanthine phosph ...	This family includes a range of diverse phosphoribosyl transferase enzymes. This family includes: Adenine phosphoribosyl-transferase EC:2.4.2.7, Swiss:P07672. Hypoxanthine-guanine-xanthine phosphoribosyl-transferase Swiss:P51900. Hypoxanthine phosphoribosyl-transferase EC:2.4.2.8 Swiss:P36766. Ribose-phosphate pyrophosphokinase i EC:2.7.6.1 Swiss:P09329. Amidophosphoribosyltransferase EC:2.4.2.14 Swiss:P00496. Orotate phosphoribosyl-transferase EC:2.4.2.10 Swiss:P11172. Uracil phosphoribosyl-transferase EC:2.4.2.9 Swiss:P25532. Xanthine-guanine phosphoribosyl-transferase EC:2.4.2.22 Swiss:P00501. In Arabidopsis, At the very N-terminus of this domain is the P-Loop NTPase domain [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	Adenine phosphoribosyltransferase	pentosyltransferase activity glycosyltransferase activity adenine phosphoribosyltransferase activity purine phosphoribosyltransferase activity transferase activity catalytic activity binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding cation binding AMP binding nucleoside phosphate binding ion binding pentosyltransferase activity glycosyltransferase activity adenine phosphoribosyltransferase activity purine phosphoribosyltransferase activity transferase activity catalytic activity binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding cation binding AMP binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding adenine binding nucleobase binding purine nucleobase binding metal ion binding	carbohydrate derivative metabolic process nucleoside biosynthetic process nucleobase-containing compound metabolic process metabolic compound salvage nucleobase-containing small molecule metabolic process purine-containing compound biosynthetic process small molecule metabolic process purine ribonucleoside metabolic process carbohydrate derivative biosynthetic process glycosyl compound biosynthetic process purine-containing compound salvage small molecule biosynthetic process nucleoside salvage purine ribonucleoside biosynthetic process carbohydrate derivative metabolic process nucleoside biosynthetic process nucleobase-containing compound metabolic process metabolic compound salvage nucleobase-containing small molecule metabolic process purine-containing compound biosynthetic process small molecule metabolic process purine ribonucleoside metabolic process carbohydrate derivative biosynthetic process glycosyl compound biosynthetic process purine-containing compound salvage small molecule biosynthetic process nucleoside salvage purine ribonucleoside biosynthetic process primary metabolic process ribonucleoside biosynthetic process nucleobase-containing compound biosynthetic process nucleoside metabolic process nucleobase-containing small molecule biosynthetic process purine-containing compound metabolic process purine ribonucleoside salvage biosynthetic process purine nucleoside biosynthetic process metabolic process cellular process purine nucleoside metabolic process ribonucleoside metabolic process ribose phosphate metabolic process purine ribonucleoside monophosphate biosynthetic process nucleotide biosynthetic process purine ribonucleotide biosynthetic process AMP metabolic process nucleotide salvage ribonucleotide biosynthetic process purine nucleoside monophosphate biosynthetic process purine ribonucleoside monophosphate metabolic process purine nucleotide metabolic process ribonucleotide metabolic process purine nucleoside monophosphate metabolic process phosphate-containing compound metabolic process purine nucleotide salvage AMP salvage phosphorus metabolic process ribose phosphate biosynthetic process nucleoside monophosphate metabolic process nucleoside phosphate metabolic process nucleotide metabolic process nucleoside monophosphate biosynthetic process purine ribonucleotide salvage organophosphate metabolic process organophosphate biosynthetic process AMP biosynthetic process nucleoside phosphate biosynthetic process purine ribonucleotide metabolic process ribonucleoside monophosphate biosynthetic process purine nucleotide biosynthetic process nucleobase biosynthetic process purine nucleobase metabolic process purine nucleobase biosynthetic process adenine biosynthetic process nucleobase metabolic process purine nucleobase salvage adenine metabolic process adenine salvage	cellular anatomical structure intracellular anatomical structure cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR050054	Uracil phosphoribosyltransferase/Adenine phosphoribosyltransferase	Family
A, B, C, D	IPR000836	Phosphoribosyltransferase domain	Domain
A, B, C, D	IPR005764	Adenine phosphoribosyl transferase	Family
A, B, C, D	IPR029057	Phosphoribosyltransferase-like	Homologous Superfamily

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.