1FPS | pdb_00001fps

CRYSTAL STRUCTURE OF RECOMBINANT FARNESYL DIPHOSPHATE SYNTHASE AT 2.6 ANGSTROMS RESOLUTION

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
Structure Motif: Primary M-CSA Annotation

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d1fpsa_	All alpha proteins	Terpenoid synthases	Terpenoid synthases	Isoprenyl diphosphate synthases	Farnesyl diphosphate synthase (geranyltranstransferase)	chicken (Gallus gallus ) [TaxId: 9031 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Isoprenyl diphosphate synthases	8026470	4001453	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Terpenoid synthases	8038849	3001615	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)
A		e1fpsA1	A: Terpenoid synthases	X: Terpenoid synthases	H: Terpenoid synthases	T: polyprenyl_synt	F:	ECOD (20:10:01)

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 DIPHOSPHATE SYNTHASE	prenyl diphosphate synthase activity (2E,6E)-farnesyl diphosphate synthase activity prenyltransferase activity transferase activity transferase activity, transferring alkyl or aryl (other than methyl) groups catalytic activity dimethylallyltranstransferase activity cation binding ion binding 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	cellular anatomical structure intracellular anatomical structure cytoplasm

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

Structure Motif Annotation: Mechanism and Catalytic Site Atlas M-CSA Database Homepage

Chains	Enzyme Name	Description	Catalytic Residues
A	geranyltranstransferase M-CSA #253	Geranyltranstransferase is a member of the Isoprenoid Synthase Type I superfamily. It catalyses the metal-dependent formation of (2E,6E)-farnesyl diphosphate from geranyl diphosphate + isopentenyl diphosphate. It is known that the residue at the fifth position before the first DDxxD motif [PMID:12135472], in this case a phenylalanine, is responsible for determining product chain length.	Defined by 10 residues: LYS:A-52 [auth A-71]PHE:A-93 [auth A-112]ASP:A-98 [auth A-117]ASP:A-102 [auth A-121]ARG:A-107 [auth A-126]ASP:A-169 [auth A-188]LYS:A-195 [auth A-214]PHE:A-234 [auth A-253]ASP:A-238 [auth A-257]ASP:A-239 [auth A-258] \| Explore in 3D: M-CSA Motif Definition Search M-CSA Motif EC: 2.5.1.10 (PDB Primary Data) Search M-CSA Motif + EC 2.5.1.10 EC: 2.5.1.1 (UniProt) Search M-CSA Motif + EC 2.5.1.1

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.

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