6Y0O | pdb_00006y0o

isopenicillin N synthase in complex with ACV and Fe under anaerobic environment using FT-SSX methods

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d6y0oa_	All beta proteins	Double-stranded beta-helix	Clavaminate synthase-like	Penicillin synthase-like	Isopenicillin N synthase	(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	SCOP2B Superfamily	Clavaminate synthase-like	8033993	3001848	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	Ldh_1_C	e6y0oA1	A: a/b three-layered sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Ldh_1_C	ECOD (v294.1)

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 reactio ...	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	Anaerobic Fixed Target Structure of Isopenicillin N synthase in complex with Fe and ACV	organic acid binding binding carbohydrate binding vitamin binding ion 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 organic acid binding binding carbohydrate binding vitamin binding ion 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 organic acid metabolic process organic acid biosynthetic process carboxylic acid biosynthetic process secondary metabolic process antibiotic biosynthetic process antibiotic metabolic process secondary metabolite biosynthetic process sulfur compound metabolic process small molecule metabolic process monocarboxylic acid biosynthetic process small molecule biosynthetic process carboxylic acid metabolic process penicillin biosynthetic process oxoacid metabolic process organic acid metabolic process organic acid biosynthetic process carboxylic acid biosynthetic process secondary metabolic process antibiotic biosynthetic process antibiotic metabolic process secondary metabolite biosynthetic process sulfur compound metabolic process small molecule metabolic process monocarboxylic acid biosynthetic process small molecule biosynthetic process carboxylic acid metabolic process lactam biosynthetic process lactam metabolic process penicillin metabolic process sulfur compound biosynthetic process biosynthetic process metabolic process cellular process monocarboxylic acid metabolic process beta-lactam antibiotic biosynthetic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR026992	Non-haem dioxygenase, N-terminal domain	Domain
A	IPR005123	Oxoglutarate/iron-dependent dioxygenase domain	Domain
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

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.