3R03 | pdb_00003r03

The crystal structure of NUDIX hydrolase from Rhodospirillum rubrum

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)
B	d3r03b_	Alpha and beta proteins (a+b)	Nudix	Nudix	automated matches	automated matches	(Rhodospirillum rubrum ATCC 11170 ) [TaxId: 269796 ],	SCOPe (2.08)
A	d3r03a_	Alpha and beta proteins (a+b)	Nudix	Nudix	automated matches	automated matches	(Rhodospirillum rubrum ATCC 11170 ) [TaxId: 269796 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B	Radical_SAM	e3r03B1	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: Radical_SAM	ECOD (v294.1)
A	Cu-oxidase	e3r03A1	A: a/b three-layered sandwiches	X: Cupredoxin-like	H: Cupredoxin-related	T: Cupredoxin-related	F: Cu-oxidase	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	3.90.79.10	Alpha Beta	Alpha-Beta Complex	Nucleoside Triphosphate Pyrophosphohydrolase	Nucleoside Triphosphate Pyrophosphohydrolase	CATH (4.3.0)
A	3.90.79.10	Alpha Beta	Alpha-Beta Complex	Nucleoside Triphosphate Pyrophosphohydrolase	Nucleoside Triphosphate Pyrophosphohydrolase	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF14815	NUDIX domain (NUDIX_4)	NUDIX domain		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	NUDIX hydrolase	pyrophosphatase activity 8-oxo-7,8-dihydrodeoxyguanosine triphosphate pyrophosphatase activity nucleoside triphosphate diphosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity 8-oxo-7,8-dihydroguanosine triphosphate pyrophosphatase activity 8-oxo-GDP phosphatase activity nucleoside diphosphate phosphatase activity binding nucleoside phosphate binding nucleotide binding heterocyclic compound binding pyrophosphatase activity 8-oxo-7,8-dihydrodeoxyguanosine triphosphate pyrophosphatase activity nucleoside triphosphate diphosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity 8-oxo-7,8-dihydroguanosine triphosphate pyrophosphatase activity 8-oxo-GDP phosphatase activity nucleoside diphosphate phosphatase activity binding nucleoside phosphate binding nucleotide binding heterocyclic compound binding small molecule binding 8-oxo-dGDP phosphatase activity cation binding ion binding metal ion binding	nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process cellular response to stimulus response to stimulus cellular response to stress DNA damage response response to stress DNA repair	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR047127	Mutator MutT-like	Family
A, B	IPR000086	NUDIX hydrolase domain	Domain
A, B	IPR015797	NUDIX hydrolase-like domain superfamily	Homologous Superfamily
A, B	IPR029119	Adenine DNA glycosylase, C-terminal	Domain
A, B	IPR020084	NUDIX hydrolase, conserved site	Conserved Site
A, B	IPR020476	NUDIX hydrolase	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.