6DBZ | pdb_00006dbz

Crystal structure of Nudix 1 from Arabidopsis thaliana complexed with isopentenyl diphosphate

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B	Anoctamin	e6dbzB1	A: a/b three-layered sandwiches	X: PriB N-terminal domain-like	H: gp11/gp12 receptor-binding domain	T: gp11/gp12 receptor-binding domain	F: Anoctamin	ECOD (v294.1)
A	Anoctamin	e6dbzA1	A: a/b three-layered sandwiches	X: PriB N-terminal domain-like	H: gp11/gp12 receptor-binding domain	T: gp11/gp12 receptor-binding domain	F: Anoctamin	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	PF00293	NUDIX domain (NUDIX)	NUDIX domain		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Nudix hydrolase 1	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 dihydroneopterin triphosphate pyrophosphohydrolase activity NAD+ diphosphatase activity dinucleotide phosphatase activity NADH pyrophosphatase activity cation binding ion 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 dihydroneopterin triphosphate pyrophosphohydrolase activity NAD+ diphosphatase activity dinucleotide phosphatase activity NADH pyrophosphatase activity cation binding ion binding binding metal ion binding small molecule binding	cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process catabolic process nucleoside triphosphate catabolic process purine nucleoside triphosphate catabolic process purine deoxyribonucleoside triphosphate metabolic process carbohydrate derivative metabolic process organophosphate catabolic process dGTP metabolic process nucleoside phosphate catabolic process cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process catabolic process nucleoside triphosphate catabolic process purine nucleoside triphosphate catabolic process purine deoxyribonucleoside triphosphate metabolic process carbohydrate derivative metabolic process organophosphate catabolic process dGTP metabolic process nucleoside phosphate catabolic process deoxyribose phosphate catabolic process nucleobase-containing compound metabolic process purine nucleotide metabolic process purine deoxyribonucleoside triphosphate catabolic process nucleobase-containing small molecule metabolic process phosphate-containing compound metabolic process small molecule metabolic process phosphorus metabolic process nucleotide catabolic process deoxyribonucleoside triphosphate metabolic process nucleoside phosphate metabolic process purine nucleoside triphosphate metabolic process purine nucleotide catabolic process purine deoxyribonucleotide catabolic process carbohydrate derivative catabolic process 2'-deoxyribonucleotide metabolic process primary metabolic process purine-containing compound catabolic process deoxyribonucleoside triphosphate catabolic process nucleotide metabolic process purine-containing compound metabolic process nucleobase-containing compound catabolic process organophosphate metabolic process purine deoxyribonucleotide metabolic process metabolic process nucleoside triphosphate metabolic process dGTP catabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR000086	NUDIX hydrolase domain	Domain
A, B	IPR015797	NUDIX hydrolase-like domain superfamily	Homologous Superfamily
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.