3PYB | pdb_00003pyb

Crystal structure of ent-copalyl diphosphate synthase from Arabidopsis thaliana in complex with 13-aza-13,14-dihydrocopalyl diphosphate

External Resource: Annotation

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

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
C		e3pybC7	A: DEATH domain	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Lipase_3	F:	ECOD (20:10:01)
B		e3pybB7	A: Fusion glycoprotein F2	X: Fusion glycoprotein F2	H: Fusion glycoprotein F2	T: Ribosomal_L12_N	F:	ECOD (20:10:01)
A		e3pybA7	A: DEATH domain	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Lipase_3	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C	1.50.10.130	Mainly Alpha	Alpha/alpha barrel	Glycosyltransferase	Terpene synthase, N-terminal domain	CATH (4.3.0)
C	1.50.10.160	Mainly Alpha	Alpha/alpha barrel	Glycosyltransferase		CATH (4.3.0)
C	1.10.600.10	Mainly Alpha	Orthogonal Bundle	Farnesyl Diphosphate Synthase	Farnesyl Diphosphate Synthase	CATH (4.3.0)
B	1.50.10.130	Mainly Alpha	Alpha/alpha barrel	Glycosyltransferase	Terpene synthase, N-terminal domain	CATH (4.3.0)
B	1.50.10.160	Mainly Alpha	Alpha/alpha barrel	Glycosyltransferase		CATH (4.3.0)
B	1.10.600.10	Mainly Alpha	Orthogonal Bundle	Farnesyl Diphosphate Synthase	Farnesyl Diphosphate Synthase	CATH (4.3.0)
A	1.50.10.130	Mainly Alpha	Alpha/alpha barrel	Glycosyltransferase	Terpene synthase, N-terminal domain	CATH (4.3.0)
A	1.50.10.160	Mainly Alpha	Alpha/alpha barrel	Glycosyltransferase		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
A, B, C	PF01397	Terpene synthase, N-terminal domain (Terpene_synth)	Terpene synthase, N-terminal domain	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C	Ent-copalyl diphosphate synthase, chloroplastic	cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding intramolecular lyase activity isomerase activity ent-copalyl diphosphate synthase activity catalytic activity carbon-oxygen lyase activity, acting on phosphates terpene synthase activity lyase activity carbon-oxygen lyase activity	cellular response to stimulus cellular response to gibberellin stimulus regulation of cellular process response to lipid response to stimulus signaling hormone-mediated signaling pathway cell communication response to gibberellin cellular response to endogenous stimulus response to hormone signal transduction cellular response to hormone stimulus gibberellin mediated signaling pathway cellular response to stimulus cellular response to gibberellin stimulus regulation of cellular process response to lipid response to stimulus signaling hormone-mediated signaling pathway cell communication response to gibberellin cellular response to endogenous stimulus response to hormone signal transduction cellular response to hormone stimulus gibberellin mediated signaling pathway regulation of biological process response to endogenous stimulus gibberellic acid mediated signaling pathway biological regulation response to oxygen-containing compound cellular response to oxygen-containing compound cellular response to chemical stimulus response to chemical cellular response to lipid cellular process diterpenoid metabolic process gibberellin metabolic process small molecule biosynthetic process oxoacid metabolic process isoprenoid biosynthetic process gibberellin biosynthetic process carboxylic acid metabolic process lipid biosynthetic process primary metabolic process organic acid biosynthetic process organic acid metabolic process terpenoid biosynthetic process carboxylic acid biosynthetic process diterpenoid biosynthetic process biosynthetic process small molecule metabolic process metabolic process terpenoid metabolic process isoprenoid metabolic process lipid metabolic process	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure plastid organelle cytoplasm intracellular membrane-bounded organelle chloroplast

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C	IPR001906	Terpene synthase, N-terminal domain	Domain
A, B, C	IPR008949	Isoprenoid synthase domain superfamily	Homologous Superfamily
A, B, C	IPR036965	Terpene synthase, N-terminal domain superfamily	Homologous Superfamily
A, B, C	IPR044814	Terpene cyclases, class 1, plant	Family
A, B, C	IPR008930	Terpenoid cyclases/protein prenyltransferase alpha-alpha toroid	Homologous Superfamily
A, B, C	IPR050148	Terpene 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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.