2R87 | pdb_00002r87

Crystal structure of PurP from Pyrococcus furiosus complexed with ADP

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)
F	d2r87f1	Alpha and beta proteins (a/b)	PreATP-grasp domain	PreATP-grasp domain	PurP N-terminal domain-like	5-formaminoimidazole-4-carboxamide ribonucleotide synthetase PurP	(Pyrococcus furiosus ) [TaxId: 2261 ],	SCOPe (2.08)
F	d2r87f2	Alpha and beta proteins (a+b)	ATP-grasp	Glutathione synthetase ATP-binding domain-like	PurP ATP-binding domain-like	5-formaminoimidazole-4-carboxamide ribonucleotide synthetase PurP	(Pyrococcus furiosus ) [TaxId: 2261 ],	SCOPe (2.08)
E	d2r87e1	Alpha and beta proteins (a/b)	PreATP-grasp domain	PreATP-grasp domain	PurP N-terminal domain-like	5-formaminoimidazole-4-carboxamide ribonucleotide synthetase PurP	(Pyrococcus furiosus ) [TaxId: 2261 ],	SCOPe (2.08)
E	d2r87e2	Alpha and beta proteins (a+b)	ATP-grasp	Glutathione synthetase ATP-binding domain-like	PurP ATP-binding domain-like	5-formaminoimidazole-4-carboxamide ribonucleotide synthetase PurP	(Pyrococcus furiosus ) [TaxId: 2261 ],	SCOPe (2.08)
D	d2r87d1	Alpha and beta proteins (a/b)	PreATP-grasp domain	PreATP-grasp domain	PurP N-terminal domain-like	5-formaminoimidazole-4-carboxamide ribonucleotide synthetase PurP	(Pyrococcus furiosus ) [TaxId: 2261 ],	SCOPe (2.08)
D	d2r87d2	Alpha and beta proteins (a+b)	ATP-grasp	Glutathione synthetase ATP-binding domain-like	PurP ATP-binding domain-like	5-formaminoimidazole-4-carboxamide ribonucleotide synthetase PurP	(Pyrococcus furiosus ) [TaxId: 2261 ],	SCOPe (2.08)
C	d2r87c1	Alpha and beta proteins (a/b)	PreATP-grasp domain	PreATP-grasp domain	PurP N-terminal domain-like	5-formaminoimidazole-4-carboxamide ribonucleotide synthetase PurP	(Pyrococcus furiosus ) [TaxId: 2261 ],	SCOPe (2.08)
C	d2r87c2	Alpha and beta proteins (a+b)	ATP-grasp	Glutathione synthetase ATP-binding domain-like	PurP ATP-binding domain-like	5-formaminoimidazole-4-carboxamide ribonucleotide synthetase PurP	(Pyrococcus furiosus ) [TaxId: 2261 ],	SCOPe (2.08)
B	d2r87b1	Alpha and beta proteins (a/b)	PreATP-grasp domain	PreATP-grasp domain	PurP N-terminal domain-like	5-formaminoimidazole-4-carboxamide ribonucleotide synthetase PurP	(Pyrococcus furiosus ) [TaxId: 2261 ],	SCOPe (2.08)
B	d2r87b2	Alpha and beta proteins (a+b)	ATP-grasp	Glutathione synthetase ATP-binding domain-like	PurP ATP-binding domain-like	5-formaminoimidazole-4-carboxamide ribonucleotide synthetase PurP	(Pyrococcus furiosus ) [TaxId: 2261 ],	SCOPe (2.08)
A	d2r87a1	Alpha and beta proteins (a/b)	PreATP-grasp domain	PreATP-grasp domain	PurP N-terminal domain-like	5-formaminoimidazole-4-carboxamide ribonucleotide synthetase PurP	(Pyrococcus furiosus ) [TaxId: 2261 ],	SCOPe (2.08)
A	d2r87a2	Alpha and beta proteins (a+b)	ATP-grasp	Glutathione synthetase ATP-binding domain-like	PurP ATP-binding domain-like	5-formaminoimidazole-4-carboxamide ribonucleotide synthetase PurP	(Pyrococcus furiosus ) [TaxId: 2261 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
F	SCOP2B Superfamily	Glutathione synthetase ATP-binding domain-like	8036655	3000094	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	PreATP-grasp domain	8036653	3001680	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Glutathione synthetase ATP-binding domain-like	8036655	3000094	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	PreATP-grasp domain	8036653	3001680	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Glutathione synthetase ATP-binding domain-like	8036655	3000094	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	PreATP-grasp domain	8036653	3001680	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	PreATP-grasp domain	8036653	3001680	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Glutathione synthetase ATP-binding domain-like	8036655	3000094	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	PreATP-grasp domain	8036653	3001680	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Glutathione synthetase ATP-binding domain-like	8036655	3000094	SCOP2B (2022-06-29)
A	SCOP2 Family	PurP N-terminal domain-like	8024274	4002172	SCOP2 (2022-06-29)
A	SCOP2 Family	PurP ATP-binding domain-like	8024276	4002469	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	PreATP-grasp domain	8036653	3001680	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Glutathione synthetase ATP-binding domain-like	8036655	3000094	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
F	LRR_6,LRR_RI_capping	e2r87F1	A: alpha bundles	X: EGF-like	H: LDL receptor-like module	T: LDL receptor-like module	F: LRR_6,LRR_RI_capping	ECOD (develop294)
F	GBP	e2r87F2	A: alpha bundles	X: HTH	H: HTH	T: winged helix domain	F: GBP	ECOD (develop294)
E	LRR_6,LRR_RI_capping	e2r87E1	A: alpha bundles	X: EGF-like	H: LDL receptor-like module	T: LDL receptor-like module	F: LRR_6,LRR_RI_capping	ECOD (develop294)
E	GBP	e2r87E2	A: alpha bundles	X: HTH	H: HTH	T: winged helix domain	F: GBP	ECOD (develop294)
D	LRR_6,LRR_RI_capping	e2r87D1	A: alpha bundles	X: EGF-like	H: LDL receptor-like module	T: LDL receptor-like module	F: LRR_6,LRR_RI_capping	ECOD (develop294)
D	GBP	e2r87D2	A: alpha bundles	X: HTH	H: HTH	T: winged helix domain	F: GBP	ECOD (develop294)
C	LRR_6,LRR_RI_capping	e2r87C1	A: alpha bundles	X: EGF-like	H: LDL receptor-like module	T: LDL receptor-like module	F: LRR_6,LRR_RI_capping	ECOD (develop294)
C	GBP	e2r87C2	A: alpha bundles	X: HTH	H: HTH	T: winged helix domain	F: GBP	ECOD (develop294)
B	LRR_6,LRR_RI_capping	e2r87B1	A: alpha bundles	X: EGF-like	H: LDL receptor-like module	T: LDL receptor-like module	F: LRR_6,LRR_RI_capping	ECOD (develop294)
B	GBP	e2r87B2	A: alpha bundles	X: HTH	H: HTH	T: winged helix domain	F: GBP	ECOD (develop294)
A	LRR_6,LRR_RI_capping	e2r87A1	A: alpha bundles	X: EGF-like	H: LDL receptor-like module	T: LDL receptor-like module	F: LRR_6,LRR_RI_capping	ECOD (develop294)
A	GBP	e2r87A2	A: alpha bundles	X: HTH	H: HTH	T: winged helix domain	F: GBP	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
F	3.40.50.20	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
F	3.30.470.20	Alpha Beta	2-Layer Sandwich	D-amino Acid Aminotransferase	Chain A, domain 1	CATH (4.3.0)
F	3.30.1490.20	Alpha Beta	2-Layer Sandwich	Dna Ligase	domain 1	CATH (4.3.0)
E	3.40.50.20	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
E	3.30.470.20	Alpha Beta	2-Layer Sandwich	D-amino Acid Aminotransferase	Chain A, domain 1	CATH (4.3.0)
E	3.30.1490.20	Alpha Beta	2-Layer Sandwich	Dna Ligase	domain 1	CATH (4.3.0)
D	3.40.50.20	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
D	3.30.470.20	Alpha Beta	2-Layer Sandwich	D-amino Acid Aminotransferase	Chain A, domain 1	CATH (4.3.0)
D	3.30.1490.20	Alpha Beta	2-Layer Sandwich	Dna Ligase	domain 1	CATH (4.3.0)
C	3.40.50.20	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
C	3.30.470.20	Alpha Beta	2-Layer Sandwich	D-amino Acid Aminotransferase	Chain A, domain 1	CATH (4.3.0)
C	3.30.1490.20	Alpha Beta	2-Layer Sandwich	Dna Ligase	domain 1	CATH (4.3.0)
B	3.40.50.20	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
B	3.30.470.20	Alpha Beta	2-Layer Sandwich	D-amino Acid Aminotransferase	Chain A, domain 1	CATH (4.3.0)
B	3.30.1490.20	Alpha Beta	2-Layer Sandwich	Dna Ligase	domain 1	CATH (4.3.0)
A	3.40.50.20	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
A	3.30.470.20	Alpha Beta	2-Layer Sandwich	D-amino Acid Aminotransferase	Chain A, domain 1	CATH (4.3.0)
A	3.30.1490.20	Alpha Beta	2-Layer Sandwich	Dna Ligase	domain 1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F	PF06849	Protein of unknown function (DUF1246) (DUF1246)	Protein of unknown function (DUF1246)	-	Family
A, B, C, D, E A, B, C, D, E, F	PF06973	Domain of unknown function (DUF1297) (DUF1297)	Domain of unknown function (DUF1297)	This family represents the C-terminus (approximately 200 residues) of a number of archaeal proteins of unknown function. One member is annotated as being a possible carboligase enzyme.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F	PurP protein PF1517	cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding purine nucleotide binding anion binding adenyl nucleotide binding cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding catalytic activity ligase activity, forming carbon-nitrogen bonds ligase activity	ribose phosphate metabolic process IMP metabolic process purine ribonucleoside monophosphate biosynthetic process nucleotide biosynthetic process carbohydrate derivative metabolic process purine ribonucleotide biosynthetic process nucleobase-containing compound metabolic process ribonucleotide biosynthetic process purine nucleoside monophosphate biosynthetic process purine ribonucleoside monophosphate metabolic process purine nucleotide metabolic process ribonucleotide metabolic process nucleobase-containing small molecule metabolic process purine-containing compound biosynthetic process purine nucleoside monophosphate metabolic process ribose phosphate metabolic process IMP metabolic process purine ribonucleoside monophosphate biosynthetic process nucleotide biosynthetic process carbohydrate derivative metabolic process purine ribonucleotide biosynthetic process nucleobase-containing compound metabolic process ribonucleotide biosynthetic process purine nucleoside monophosphate biosynthetic process purine ribonucleoside monophosphate metabolic process purine nucleotide metabolic process ribonucleotide metabolic process nucleobase-containing small molecule metabolic process purine-containing compound biosynthetic process purine nucleoside monophosphate metabolic process phosphate-containing compound metabolic process small molecule metabolic process phosphorus metabolic process ribose phosphate biosynthetic process nucleoside monophosphate metabolic process nucleoside phosphate metabolic process carbohydrate derivative biosynthetic process primary metabolic process nucleotide metabolic process nucleobase-containing compound biosynthetic process nucleoside monophosphate biosynthetic process purine-containing compound metabolic process IMP biosynthetic process biosynthetic process organophosphate metabolic process organophosphate biosynthetic process nucleoside phosphate biosynthetic process metabolic process cellular process 'de novo' IMP biosynthetic process purine ribonucleotide metabolic process ribonucleoside monophosphate biosynthetic process purine nucleotide biosynthetic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F	IPR010672	IMP biosynthesis enzyme PurP, N-terminal	Domain
A, B, C, D, E A, B, C, D, E, F	IPR011761	ATP-grasp fold	Domain
A, B, C, D, E A, B, C, D, E, F	IPR016185	Pre-ATP-grasp domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR013815	ATP-grasp fold, subdomain 1	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR009720	IMP biosynthesis enzyme PurP, C-terminal	Domain
A, B, C, D, E A, B, C, D, E, F	IPR023656	IMP biosynthesis enzyme PurP	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 R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.