1ODM

ISOPENICILLIN N SYNTHASE FROM ASPERGILLUS NIDULANS (ANAEROBIC AC-VINYLGLYCINE FE COMPLEX)

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	d1odma_	All beta proteins	Double-stranded beta-helix	Clavaminate synthase-like	Penicillin synthase-like	Isopenicillin N synthase	Aspergillus nidulans (Aspergillus nidulans FGSC A4 ) [TaxId: 227321 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Penicillin synthase-like	8021613	4002884	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Clavaminate synthase-like	8033993	3001848	SCOP2 (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	DIOX_N	e1odmA1	A: beta sandwiches	X: jelly-roll	H: Double-stranded beta-helix (From Topology)	T: Double-stranded beta-helix	F: DIOX_N	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.60.120.330	Mainly Beta	Sandwich	Jelly Rolls	B-lactam Antibiotic, Isopenicillin N Synthase	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF03171	2OG-Fe(II) oxygenase superfamily (2OG-FeII_Oxy)	2OG-Fe(II) oxygenase superfamily	This family contains members of the 2-oxoglutarate (2OG) and Fe(II)-dependent oxygenase superfamily [1]. This family includes the C-terminal of prolyl 4-hydroxylase alpha subunit. The holoenzyme has the activity EC:1.14.11.2 catalysing the reacti ...	This family contains members of the 2-oxoglutarate (2OG) and Fe(II)-dependent oxygenase superfamily [1]. This family includes the C-terminal of prolyl 4-hydroxylase alpha subunit. The holoenzyme has the activity EC:1.14.11.2 catalysing the reaction: Procollagen L-proline + 2-oxoglutarate + O2 <=> procollagen trans- 4-hydroxy-L-proline + succinate + CO2. The full enzyme consists of a alpha2 beta2 complex with the alpha subunit contributing most of the parts of the active site [3]. The family also includes lysyl hydrolases, isopenicillin synthases and AlkB.	Domain
A	PF14226	non-haem dioxygenase in morphine synthesis N-terminal (DIOX_N)	non-haem dioxygenase in morphine synthesis N-terminal	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	ISOPENICILLIN N SYNTHASE	organic acid binding binding carbohydrate binding vitamin binding ion binding organic cyclic compound binding anion binding monosaccharide binding carboxylic acid binding heterocyclic compound binding L-ascorbic acid binding small molecule binding cation binding transition metal ion binding organic acid binding binding carbohydrate binding vitamin binding ion binding organic cyclic compound binding anion binding monosaccharide binding carboxylic acid binding heterocyclic compound binding L-ascorbic acid binding small molecule binding cation binding transition metal ion binding iron ion binding metal ion binding oxidoreductase activity oxidoreductase activity, acting on X-H and Y-H to form an X-Y bond oxidoreductase activity, acting on X-H and Y-H to form an X-Y bond, with oxygen as acceptor isopenicillin-N synthase activity catalytic activity	penicillin biosynthetic process oxoacid metabolic process cellular biosynthetic process organic acid biosynthetic process organic acid metabolic process carboxylic acid biosynthetic process secondary metabolic process antibiotic biosynthetic process antibiotic metabolic process secondary metabolite biosynthetic process small molecule metabolic process sulfur compound metabolic process amide metabolic process beta-lactam antibiotic metabolic process penicillin biosynthetic process oxoacid metabolic process cellular biosynthetic process organic acid biosynthetic process organic acid metabolic process carboxylic acid biosynthetic process secondary metabolic process antibiotic biosynthetic process antibiotic metabolic process secondary metabolite biosynthetic process small molecule metabolic process sulfur compound metabolic process amide metabolic process beta-lactam antibiotic metabolic process monocarboxylic acid biosynthetic process small molecule biosynthetic process cellular metabolic process carboxylic acid metabolic process amide biosynthetic process lactam biosynthetic process lactam metabolic process amine metabolic process penicillin metabolic process sulfur compound biosynthetic process biosynthetic process metabolic process cellular process monocarboxylic acid metabolic process beta-lactam antibiotic biosynthetic process	intracellular anatomical structure cytoplasm cellular anatomical entity cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR005123	Oxoglutarate/iron-dependent dioxygenase domain	Domain
A	IPR050231	Iron/ascorbate-dependent oxidoreductase	Family
A	IPR002057	Isopenicillin N synthase, conserved site	Conserved Site
A	IPR027443	Isopenicillin N synthase-like superfamily	Homologous Superfamily
A	IPR044861	Isopenicillin N synthase-like, Fe(2+) 2OG dioxygenase domain	Domain
A	IPR026992	Non-haem dioxygenase N-terminal domain	Domain

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

Chains	Enzyme Name	Description	Catalytic Residues
A	isopenicillin-N synthase M-CSA #145	Isopenicillin N synthase(IPNS), a non-haem iron-dependent oxidase, catalyses the reaction of delta-(L-aminoadipoyl)-L-cysteinyl-D-valine (ACV) and dioxygen to form isopenicillin N (IPN) and 2 water molecules. IPN is the precursor of the antibiotics, penicillins and cephalosporins.	Defined by 4 residues: PHE:A-211HIS:A-214ASP:A-216HIS:A-270 \| Explore in 3D: M-CSA Motif Definition Search M-CSA Motif EC: 1.21.3.1 (PDB Primary Data) Search M-CSA Motif + EC 1.21.3.1

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.