5YGK | pdb_00005ygk

Crystal structure of a synthase from Streptomyces sp. CL190 with dmaspp

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
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)
E	SCOP2B Superfamily	Undecaprenyl diphosphate synthase	8067726	3000594	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	Undecaprenyl diphosphate synthase	8067726	3000594	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Undecaprenyl diphosphate synthase	8067726	3000594	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Undecaprenyl diphosphate synthase	8067726	3000594	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Undecaprenyl diphosphate synthase	8067726	3000594	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Undecaprenyl diphosphate synthase	8067726	3000594	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Undecaprenyl diphosphate synthase	8067726	3000594	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Undecaprenyl diphosphate synthase	8067726	3000594	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)
E	Prenyltransf	e5ygkE1	A: a/b three-layered sandwiches	X: Undecaprenyl diphosphate synthase (From Topology)	H: Undecaprenyl diphosphate synthase (From Topology)	T: Undecaprenyl diphosphate synthase	F: Prenyltransf	ECOD (1.6)
H	Prenyltransf	e5ygkH1	A: a/b three-layered sandwiches	X: Undecaprenyl diphosphate synthase (From Topology)	H: Undecaprenyl diphosphate synthase (From Topology)	T: Undecaprenyl diphosphate synthase	F: Prenyltransf	ECOD (1.6)
G	Prenyltransf	e5ygkG1	A: a/b three-layered sandwiches	X: Undecaprenyl diphosphate synthase (From Topology)	H: Undecaprenyl diphosphate synthase (From Topology)	T: Undecaprenyl diphosphate synthase	F: Prenyltransf	ECOD (1.6)
F	Prenyltransf	e5ygkF1	A: a/b three-layered sandwiches	X: Undecaprenyl diphosphate synthase (From Topology)	H: Undecaprenyl diphosphate synthase (From Topology)	T: Undecaprenyl diphosphate synthase	F: Prenyltransf	ECOD (1.6)
D	Prenyltransf	e5ygkD1	A: a/b three-layered sandwiches	X: Undecaprenyl diphosphate synthase (From Topology)	H: Undecaprenyl diphosphate synthase (From Topology)	T: Undecaprenyl diphosphate synthase	F: Prenyltransf	ECOD (1.6)
C	Prenyltransf	e5ygkC1	A: a/b three-layered sandwiches	X: Undecaprenyl diphosphate synthase (From Topology)	H: Undecaprenyl diphosphate synthase (From Topology)	T: Undecaprenyl diphosphate synthase	F: Prenyltransf	ECOD (1.6)
B	Prenyltransf	e5ygkB1	A: a/b three-layered sandwiches	X: Undecaprenyl diphosphate synthase (From Topology)	H: Undecaprenyl diphosphate synthase (From Topology)	T: Undecaprenyl diphosphate synthase	F: Prenyltransf	ECOD (1.6)
A	Prenyltransf	e5ygkA1	A: a/b three-layered sandwiches	X: Undecaprenyl diphosphate synthase (From Topology)	H: Undecaprenyl diphosphate synthase (From Topology)	T: Undecaprenyl diphosphate synthase	F: Prenyltransf	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F, G, H	PF01255	Putative undecaprenyl diphosphate synthase (Prenyltransf)	Putative undecaprenyl diphosphate synthase	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F, G, H	Cyclolavandulyl diphosphate synthase	prenyl diphosphate synthase activity prenyltransferase activity ditrans,polycis-polyprenyl diphosphate synthase [(2E,6E)-farnesyl diphosphate specific] 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	polyprenol metabolic process polyprenol biosynthetic process small molecule biosynthetic process isoprenoid biosynthetic process lipid biosynthetic process alcohol metabolic process primary metabolic process biosynthetic process alcohol biosynthetic process small molecule metabolic process metabolic process cellular process isoprenoid metabolic process lipid metabolic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F, G, H	IPR036424	Decaprenyl diphosphate synthase-like superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H	IPR001441	Decaprenyl diphosphate synthase-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.