4CW5

Crystal structure of the enoyl reductase domain of DfnA from Bacillus amyloliquefaciens

External Resource: Annotation

Domain Annotation: ECOD Classification
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)
A	NPD_FabD	e4cw5A2	A: alpha bundles	X: Inserted helical domain in fatty acid synthase subunit beta (From Topology)	H: Inserted helical domain in fatty acid synthase subunit beta (From Topology)	T: Inserted helical domain in fatty acid synthase subunit beta	F: NPD_FabD	ECOD (1.6)
A	IMPDH_1st_1	e4cw5A1	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: IMPDH_1st_1	ECOD (1.6)
B	NPD_FabD	e4cw5B2	A: alpha bundles	X: Inserted helical domain in fatty acid synthase subunit beta (From Topology)	H: Inserted helical domain in fatty acid synthase subunit beta (From Topology)	T: Inserted helical domain in fatty acid synthase subunit beta	F: NPD_FabD	ECOD (1.6)
B	IMPDH_1st_1	e4cw5B1	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: IMPDH_1st_1	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF03060	Nitronate monooxygenase (NMO)	Nitronate monooxygenase	Nitronate monooxygenase (NMO), formerly referred to as 2-nitropropane dioxygenase (NPD) (EC:1.13.11.32), is an FMN-dependent enzyme that uses molecular oxygen to oxidize (anionic) alkyl nitronates and, in the case of the enzyme from Neurospora crassa ...	Nitronate monooxygenase (NMO), formerly referred to as 2-nitropropane dioxygenase (NPD) (EC:1.13.11.32), is an FMN-dependent enzyme that uses molecular oxygen to oxidize (anionic) alkyl nitronates and, in the case of the enzyme from Neurospora crassa, (neutral) nitroalkanes to the corresponding carbonyl compounds and nitrite. Previously classified as 2-nitropropane dioxygenase [1,2,3], but it is now recognized that this was the result of the slow ionization of nitroalkanes to their nitronate (anionic) forms [4]. The enzymes from the fungus Neurospora crassa and the yeast Williopsis saturnus var. mrakii (formerly classified as Hansenula mrakii) contain non-covalently bound FMN as the cofactor. Active towards linear alkyl nitronates of lengths between 2 and 6 carbon atoms and, with lower activity, towards propyl-2-nitronate. The enzyme from N. crassa can also utilize neutral nitroalkanes, but with lower activity. One atom of oxygen is incorporated into the carbonyl group of the aldehyde product. The reaction appears to involve the formation of an enzyme-bound nitronate radical and an a-peroxynitroethane species, which then decomposes, either in the active site of the enzyme or after release, to acetaldehyde and nitrite.	Domain
A, B	PF21607	[Acyl-carrier-protein] S-malonyltransferase, inserted helical domain (FabD_helical_ins)	[Acyl-carrier-protein] S-malonyltransferase, inserted helical domain	This domain is found in the C-terminal region of [Acyl-carrier-protein] S-malonyltransferase from Bacillus velezensis (FabD) and similar bacterial proteins. FabD, a marine polyunsaturated fatty acid (PUFA) synthase involved in difficidin A biosynthes ...	This domain is found in the C-terminal region of [Acyl-carrier-protein] S-malonyltransferase from Bacillus velezensis (FabD) and similar bacterial proteins. FabD, a marine polyunsaturated fatty acid (PUFA) synthase involved in difficidin A biosynthesis, is is organised into two domains: anacetyl-transferase (AT) domain (Pfam:PF00698) and an enoyl reductase (ER) domain that consists of a TIM-barrel domain (Pfam:PF03060) and an inserted alpha-helical substrate-binding domain (this entry).	Domain
A, B	PF00698	Acyl transferase domain (Acyl_transf_1)	Acyl transferase domain	-	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	DFNA	malonyltransferase activity acyltransferase activity [acyl-carrier-protein] S-malonyltransferase activity acyltransferase activity, transferring groups other than amino-acyl groups transferase activity S-acyltransferase activity catalytic activity S-malonyltransferase activity binding nucleoside phosphate binding organic cyclic compound binding nucleotide binding heterocyclic compound binding small molecule binding malonyltransferase activity acyltransferase activity [acyl-carrier-protein] S-malonyltransferase activity acyltransferase activity, transferring groups other than amino-acyl groups transferase activity S-acyltransferase activity catalytic activity S-malonyltransferase activity binding nucleoside phosphate binding organic cyclic compound binding nucleotide binding heterocyclic compound binding small molecule binding nitronate monooxygenase activity oxidoreductase activity monooxygenase activity oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of one atom of oxygen (internal monooxygenases or internal mixed function oxidases) oxidoreductase activity, acting on single donors with incorporation of molecular oxygen	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR016035	Acyl transferase/acyl hydrolase/lysophospholipase	Homologous Superfamily
A, B	IPR001227	Acyl transferase domain superfamily	Homologous Superfamily
A, B	IPR016036	Malonyl-CoA ACP transacylase, ACP-binding	Homologous Superfamily
A, B	IPR014043	Acyl transferase	Domain
A, B	IPR004410	Malonyl CoA-acyl carrier protein transacylase, FabD-type	Family
A, B	IPR013785	Aldolase-type TIM barrel	Homologous Superfamily
A, B	IPR049489	[Acyl-carrier-protein] S-malonyltransferase-like, inserted helical domain	Domain
A, B	IPR004136	Nitronate monooxygenase	Domain
A, B	IPR014179	PfaD-like, TIM-barrel domain	Domain

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.