5XN6 | pdb_00005xn6

Heterodimer crystal structure of geranylgeranyl diphosphate synthases 1 with GGPPS Recruiting Protein(OsGRP) from Oryza sativa

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
F	SCOP2B Superfamily	Terpenoid synthases	8099798	3001615	SCOP2B (2022-06-29)
D	SCOP2 Family	Isoprenyl diphosphate synthases	8099797	4001453	SCOP2 (2022-06-29)
D	SCOP2 Superfamily	Terpenoid synthases	8099798	3001615	SCOP2 (2022-06-29)
B [auth C]	SCOP2B Superfamily	Terpenoid synthases	8099798	3001615	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Terpenoid synthases	8059009	3001615	SCOP2B (2022-06-29)
C [auth B]	SCOP2B Superfamily	Terpenoid synthases	8059009	3001615	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Terpenoid synthases	8059009	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)
F	polyprenyl_synt	e5xn6F1	A: alpha bundles	X: Terpenoid synthases (From Topology)	H: Terpenoid synthases (From Topology)	T: Terpenoid synthases	F: polyprenyl_synt	ECOD (1.6)
D	polyprenyl_synt	e5xn6D1	A: alpha bundles	X: Terpenoid synthases (From Topology)	H: Terpenoid synthases (From Topology)	T: Terpenoid synthases	F: polyprenyl_synt	ECOD (1.6)
B [auth C]	polyprenyl_synt	e5xn6C1	A: alpha bundles	X: Terpenoid synthases (From Topology)	H: Terpenoid synthases (From Topology)	T: Terpenoid synthases	F: polyprenyl_synt	ECOD (1.6)
E	polyprenyl_synt	e5xn6E1	A: alpha bundles	X: Terpenoid synthases (From Topology)	H: Terpenoid synthases (From Topology)	T: Terpenoid synthases	F: polyprenyl_synt	ECOD (1.6)
C [auth B]	polyprenyl_synt	e5xn6B1	A: alpha bundles	X: Terpenoid synthases (From Topology)	H: Terpenoid synthases (From Topology)	T: Terpenoid synthases	F: polyprenyl_synt	ECOD (1.6)
A	polyprenyl_synt	e5xn6A1	A: alpha bundles	X: Terpenoid synthases (From Topology)	H: Terpenoid synthases (From Topology)	T: Terpenoid synthases	F: polyprenyl_synt	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
F	1.10.600.10	Mainly Alpha	Orthogonal Bundle	Farnesyl Diphosphate Synthase	Farnesyl Diphosphate Synthase	CATH (4.3.0)
D	1.10.600.10	Mainly Alpha	Orthogonal Bundle	Farnesyl Diphosphate Synthase	Farnesyl Diphosphate Synthase	CATH (4.3.0)
B [auth C]	1.10.600.10	Mainly Alpha	Orthogonal Bundle	Farnesyl Diphosphate Synthase	Farnesyl Diphosphate Synthase	CATH (4.3.0)
E	1.10.600.10	Mainly Alpha	Orthogonal Bundle	Farnesyl Diphosphate Synthase	Farnesyl Diphosphate Synthase	CATH (4.3.0)
C [auth B]	1.10.600.10	Mainly Alpha	Orthogonal Bundle	Farnesyl Diphosphate Synthase	Farnesyl Diphosphate Synthase	CATH (4.3.0)
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
B [auth C], D, F	PF00348	Polyprenyl synthetase (polyprenyl_synt)	Polyprenyl synthetase		Domain
A, C [auth B], E	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
B [auth C], D, F	Os02g0668100 protein	prenyltransferase activity transferase activity transferase activity, transferring alkyl or aryl (other than methyl) groups catalytic activity	biosynthetic process isoprenoid biosynthetic process lipid biosynthetic process primary metabolic process metabolic process cellular process lipid metabolic process isoprenoid metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm
A, C [auth B], E	Os07g0580900 protein	geranylgeranyl diphosphate synthase activity prenyl diphosphate synthase activity prenyltransferase activity transferase activity transferase activity, transferring alkyl or aryl (other than methyl) groups catalytic activity cation binding ion binding binding metal ion binding small molecule binding	biosynthetic process isoprenoid biosynthetic process lipid biosynthetic process primary metabolic process metabolic process cellular process lipid metabolic process isoprenoid metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B [auth C], D, F	IPR008949	Isoprenoid synthase domain superfamily	Homologous Superfamily
B [auth C], D, F	IPR033749	Polyprenyl synthetase, conserved site	Conserved Site
B [auth C], D, F	IPR000092	Polyprenyl synthetase-like	Family
A, C [auth B], E	IPR053378	Prenyl diphosphate synthase	Family
A, C [auth B], E	IPR008949	Isoprenoid synthase domain superfamily	Homologous Superfamily
A, C [auth B], E	IPR033749	Polyprenyl synthetase, conserved site	Conserved Site
A, C [auth B], E	IPR000092	Polyprenyl synthetase-like	Family

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.