7NNJ | pdb_00007nnj

Crystal Structure of NUDT4 (Diphosphoinositol polyphosphate phosphohydrolase 2) in complex with 4-O-Bn-1-PCP-InsP4 (AMR2105)

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Nudix	8068394	3000098	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Nudix	8068394	3000098	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)
A	PK_C	e7nnjA1	A: a/b three-layered sandwiches	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PK_C	ECOD (v294.1)
B	FrhB_FdhB_N,FrhB_FdhB_C	e7nnjB1	A: a/b three-layered sandwiches	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: FrhB_FdhB_N,FrhB_FdhB_C	ECOD (v294.1)

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	Diphosphoinositol polyphosphate phosphohydrolase 2	RNA binding binding snoRNA binding nucleic acid binding pyrophosphatase activity bis(5'-adenosyl)-hexaphosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity endopolyphosphatase activity inositol bisdiphosphate tetrakisphosphate diphosphatase activity diphosphoinositol-polyphosphate diphosphatase activity inositol-3,5-bisdiphosphate-2,3,4,6-tetrakisphosphate 5-diphosphatase activity RNA binding binding snoRNA binding nucleic acid binding pyrophosphatase activity bis(5'-adenosyl)-hexaphosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity endopolyphosphatase activity inositol bisdiphosphate tetrakisphosphate diphosphatase activity diphosphoinositol-polyphosphate diphosphatase activity inositol-3,5-bisdiphosphate-2,3,4,6-tetrakisphosphate 5-diphosphatase activity inositol-5-diphosphate-1,2,3,4,6-pentakisphosphate diphosphatase activity inositol diphosphate pentakisphosphate diphosphatase activity inositol diphosphate tetrakisphosphate diphosphatase activity inositol-5-diphosphate-1,3,4,6-tetrakisphosphate diphosphatase activity bis(5'-adenosyl)-pentaphosphatase activity cation binding ion binding metal ion binding small molecule binding	nucleoside phosphate metabolic process catabolic process organophosphate catabolic process primary metabolic process diadenosine polyphosphate metabolic process nucleoside phosphate catabolic process nucleotide metabolic process nucleobase-containing compound catabolic process nucleobase-containing compound metabolic process organophosphate metabolic process diadenosine polyphosphate catabolic process nucleobase-containing small molecule metabolic process phosphate-containing compound metabolic process metabolic process nucleoside phosphate metabolic process catabolic process organophosphate catabolic process primary metabolic process diadenosine polyphosphate metabolic process nucleoside phosphate catabolic process nucleotide metabolic process nucleobase-containing compound catabolic process nucleobase-containing compound metabolic process organophosphate metabolic process diadenosine polyphosphate catabolic process nucleobase-containing small molecule metabolic process phosphate-containing compound metabolic process metabolic process cellular process small molecule metabolic process phosphorus metabolic process nucleotide catabolic process diadenosine hexaphosphate catabolic process polyol metabolic process alcohol metabolic process inositol phosphate metabolic process diphosphoinositol polyphosphate metabolic process diadenosine pentaphosphate catabolic process cellular response to stimulus regulation of biological process regulation of cellular process response to stimulus signaling biological regulation signal transduction intracellular signal transduction cell communication calcium-mediated signaling intracellular signaling cassette ribose phosphate metabolic process ribonucleotide catabolic process carbohydrate derivative metabolic process purine nucleotide metabolic process ribonucleotide metabolic process purine ribonucleotide catabolic process purine nucleotide catabolic process carbohydrate derivative catabolic process adenosine 5'-(hexahydrogen pentaphosphate) catabolic process purine-containing compound catabolic process purine-containing compound metabolic process purine ribonucleotide metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle intracellular organelle organelle nucleus intracellular membrane-bounded organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR047198	Diphosphoinositol polyphosphate phosphohydrolase-like, NUDIX domain	Domain
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

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B	Pharos: Q9NZJ9	adenoma glioblastoma malignant glioma oligodendroglioma primitive neuroectodermal tumor astrocytic tumor lung cancer malignant mesothelioma osteosarcoma psoriasis atypical teratoid rhabdoid tumor malignant ependymoma medulloblastoma pilocytic astrocytoma

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.