5CG6 | pdb_00005cg6

Neutron crystal structure of human farnesyl pyrophosphate synthase in complex with risedronate and isopentenyl pyrophosphate

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
Pharos: Disease Associations

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d5cg6a_	All alpha proteins	Terpenoid synthases	Terpenoid synthases	Isoprenyl diphosphate synthases	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Terpenoid synthases	8073826	3001615	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	PID	e5cg6A1	A: a/b three-layered sandwiches	X: PH domain-like	H: PH domain-like	T: PH domain-like	F: PID	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.10.600.10	Mainly Alpha	Orthogonal Bundle	Farnesyl Diphosphate Synthase	Farnesyl Diphosphate Synthase	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00348	Polyprenyl synthetase (polyprenyl_synt)	Polyprenyl synthetase		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Farnesyl pyrophosphate synthase	prenyl diphosphate synthase activity dimethylallyltranstransferase activity prenyltransferase activity transferase activity transferase activity, transferring alkyl or aryl (other than methyl) groups catalytic activity (2E,6E)-farnesyl diphosphate synthase activity RNA binding binding nucleic acid binding cation binding ion binding metal ion binding small molecule binding	isoprenoid biosynthetic process lipid biosynthetic process primary metabolic process terpenoid biosynthetic process phospholipid biosynthetic process farnesyl diphosphate metabolic process phospholipid metabolic process biosynthetic process farnesyl diphosphate biosynthetic process organophosphate metabolic process organophosphate biosynthetic process phosphate-containing compound metabolic process metabolic process cellular process isoprenoid biosynthetic process lipid biosynthetic process primary metabolic process terpenoid biosynthetic process phospholipid biosynthetic process farnesyl diphosphate metabolic process phospholipid metabolic process biosynthetic process farnesyl diphosphate biosynthetic process organophosphate metabolic process organophosphate biosynthetic process phosphate-containing compound metabolic process metabolic process cellular process phosphorus metabolic process terpenoid metabolic process lipid metabolic process isoprenoid metabolic process geranyl diphosphate biosynthetic process geranyl diphosphate metabolic process secondary alcohol biosynthetic process small molecule biosynthetic process cholesterol biosynthetic process sterol metabolic process steroid metabolic process cholesterol metabolic process alcohol metabolic process secondary alcohol metabolic process sterol biosynthetic process alcohol biosynthetic process small molecule metabolic process steroid biosynthetic process	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure organelle peroxisome microbody cytoplasm intracellular membrane-bounded organelle cytosol nucleus membrane-enclosed lumen intracellular organelle lumen nucleoplasm membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure organelle peroxisome microbody cytoplasm intracellular membrane-bounded organelle cytosol nucleus membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen mitochondrion mitochondrial matrix

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR039702	Farnesyl pyrophosphate synthase-like	Family
A	IPR008949	Isoprenoid synthase domain superfamily	Homologous Superfamily
A	IPR033749	Polyprenyl synthetase, conserved site	Conserved Site
A	IPR000092	Polyprenyl synthetase-like	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: P14324	porokeratosis 9, multiple types osteoporosis Crohn disease plasma cell myeloma Porokeratosis, Disseminated Superficial Actinic Sjogren syndrome acute myeloid leukemia brain aneurysm ductal breast carcinoma in situ Lewy body dementia pancreatic intraductal papillary-mucinous carcinoma porokeratosis postmenopausal osteoporosis gastric adenocarcinoma hypercalcemia disease porokeratosis 9, multiple types osteoporosis Crohn disease plasma cell myeloma Porokeratosis, Disseminated Superficial Actinic Sjogren syndrome acute myeloid leukemia brain aneurysm ductal breast carcinoma in situ Lewy body dementia pancreatic intraductal papillary-mucinous carcinoma porokeratosis postmenopausal osteoporosis gastric adenocarcinoma hypercalcemia disease osteosarcoma pancreatic intraductal papillary-mucinous neoplasm bone Paget disease disseminated superficial actinic porokeratosis ovarian cancer

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.