2HSA

Crystal structure of 12-oxophytodienoate reductase 3 (OPR3) from tomato

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 [auth B]	d2hsab_	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	FMN-linked oxidoreductases	FMN-linked oxidoreductases	automated matches	(Solanum lycopersicum ) [TaxId: 4081 ],	SCOPe (2.08)
B [auth A]	d2hsaa_	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	FMN-linked oxidoreductases	FMN-linked oxidoreductases	automated matches	(Solanum lycopersicum ) [TaxId: 4081 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A [auth B]	SCOP2B Superfamily	FMN-linked oxidoreductases	8082035	3000014	SCOP2B (2022-06-29)
B [auth A]	SCOP2B Superfamily	FMN-linked oxidoreductases	8082035	3000014	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 [auth B]	Oxidored_FMN	e2hsaB1	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: Oxidored_FMN	ECOD (1.6)
B [auth A]	Oxidored_FMN	e2hsaA1	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: Oxidored_FMN	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A [auth B]	3.20.20.70	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Aldolase class I	CATH (4.3.0)
B [auth A]	3.20.20.70	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Aldolase class I	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth B], B [auth A]	PF00724	NADH:flavin oxidoreductase / NADH oxidase family (Oxidored_FMN)	NADH:flavin oxidoreductase / NADH oxidase family	-	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth B], B [auth A]	12-oxophytodienoate reductase 3	binding nucleotide binding FMN binding nucleoside phosphate binding ion binding organic cyclic compound binding anion binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding oxidoreductase activity oxidoreductase activity, acting on the CH-CH group of donors, NAD or NADP as acceptor 12-oxophytodienoate reductase activity binding nucleotide binding FMN binding nucleoside phosphate binding ion binding organic cyclic compound binding anion binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding oxidoreductase activity oxidoreductase activity, acting on the CH-CH group of donors, NAD or NADP as acceptor 12-oxophytodienoate reductase activity oxidoreductase activity, acting on the CH-CH group of donors catalytic activity identical protein binding protein binding	oxoacid metabolic process cellular biosynthetic process jasmonic acid biosynthetic process long-chain fatty acid biosynthetic process lipid biosynthetic process jasmonic acid metabolic process organic acid metabolic process organic acid biosynthetic process carboxylic acid biosynthetic process small molecule metabolic process fatty acid metabolic process long-chain fatty acid metabolic process monocarboxylic acid biosynthetic process small molecule biosynthetic process oxoacid metabolic process cellular biosynthetic process jasmonic acid biosynthetic process long-chain fatty acid biosynthetic process lipid biosynthetic process jasmonic acid metabolic process organic acid metabolic process organic acid biosynthetic process carboxylic acid biosynthetic process small molecule metabolic process fatty acid metabolic process long-chain fatty acid metabolic process monocarboxylic acid biosynthetic process small molecule biosynthetic process cellular metabolic process carboxylic acid metabolic process primary metabolic process fatty acid biosynthetic process biosynthetic process cellular lipid metabolic process metabolic process cellular process monocarboxylic acid metabolic process lipid metabolic process oxylipin metabolic process oxylipin biosynthetic process	membrane-bounded organelle intracellular organelle intracellular anatomical structure organelle peroxisome microbody cytoplasm cellular anatomical entity intracellular membrane-bounded organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth B], B [auth A]	IPR045247	Oxidoreductase Oye-like	Family
A [auth B], B [auth A]	IPR001155	NADH:flavin oxidoreductase/NADH oxidase, N-terminal	Domain
A [auth B], B [auth A]	IPR013785	Aldolase-type TIM barrel	Homologous Superfamily

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

Chains	Enzyme Name	Description	Catalytic Residues
A [auth B]	12-oxophytodienoate reductase M-CSA #697	12-Oxophytodienoate reductase 3 (OPR3) from tomato catalyses the reduction of a carbon-carbon double bond in 9S, 13S-12-oxo-phytodienoate (9S, 13S-OPDA) producing 1S,2S-3-oxo-2(2'[Z]-pentenyl)-cyclopentane-1-octanoate. The product is subsequently converted to jasmonic acid which is a plant hormone. OPR3 is a homologue of old yellow enzyme (OYE) and has a similar catalytic mechanism. OPR3 dimerises with a low affinity in vitro but the dimer is not catalytically active. Dimerisation in vivo could be regulated by phosphorylation as part of a control mechanism..	Defined by 3 residues: HIS:A-191 [auth B-185]HIS:A-194 [auth B-188]TYR:A-196 [auth B-190] \| Explore in 3D: M-CSA Motif Definition Search M-CSA Motif EC: 1.3.1.42 (PDB Primary Data) Search M-CSA Motif + EC 1.3.1.42

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.