3NKS

Structure of human protoporphyrinogen IX oxidase

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations
Membrane Protein Annotation: OPM

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Amine oxidase-like	8063048	4000128	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Flavoreductase-like	8063049	3000055	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	Amino_oxidase_2nd_3	e3nksA2	A: a+b two layers	X: FAD-linked reductases, C-terminal domain-like	H: FAD-linked reductases-C (From Topology)	T: FAD-linked reductases-C	F: Amino_oxidase_2nd_3	ECOD (1.6)
A	Amino_oxidase_1st	e3nksA1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: FAD/NAD(P)-binding domain	F: Amino_oxidase_1st	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.50.50.60	Alpha Beta	3-Layer(bba) Sandwich	FAD/NAD(P)-binding domain	FAD/NAD(P)-binding domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF01593	Flavin containing amine oxidoreductase (Amino_oxidase)	Flavin containing amine oxidoreductase	This family consists of various amine oxidases, including maze polyamine oxidase (PAO) [1] and various flavin containing monoamine oxidases (MAO). The aligned region includes the flavin binding site of these enzymes. The family also contains phytoene ...	This family consists of various amine oxidases, including maze polyamine oxidase (PAO) [1] and various flavin containing monoamine oxidases (MAO). The aligned region includes the flavin binding site of these enzymes. The family also contains phytoene dehydrogenases and related enzymes. In vertebrates MAO plays an important role regulating the intracellular levels of amines via there oxidation; these include various neurotransmitters, neurotoxins and trace amines [2]. In lower eukaryotes such as aspergillus and in bacteria the main role of amine oxidases is to provide a source of ammonium [3]. PAOs in plants, bacteria and protozoa oxidase spermidine and spermine to an aminobutyral, diaminopropane and hydrogen peroxide and are involved in the catabolism of polyamines [1]. Other members of this family include tryptophan 2-monooxygenase, putrescine oxidase, corticosteroid binding proteins and antibacterial glycoproteins.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Protoporphyrinogen oxidase	oxidoreductase activity oxidoreductase activity, acting on the CH-CH group of donors oxygen-dependent protoporphyrinogen oxidase activity catalytic activity oxidoreductase activity, acting on the CH-CH group of donors, oxygen as acceptor protoporphyrinogen oxidase activity flavin adenine dinucleotide binding binding nucleoside phosphate binding ion binding anion binding nucleotide binding heterocyclic compound binding small molecule binding oxidoreductase activity oxidoreductase activity, acting on the CH-CH group of donors oxygen-dependent protoporphyrinogen oxidase activity catalytic activity oxidoreductase activity, acting on the CH-CH group of donors, oxygen as acceptor protoporphyrinogen oxidase activity flavin adenine dinucleotide binding binding nucleoside phosphate binding ion binding anion binding nucleotide binding heterocyclic compound binding small molecule binding menaquinone-dependent protoporphyrinogen oxidase activity oxidoreductase activity, acting on the CH-CH group of donors, quinone or related compound as acceptor	heme A biosynthetic process heme metabolic process pigment metabolic process porphyrin-containing compound biosynthetic process tetrapyrrole metabolic process heme biosynthetic process pigment biosynthetic process tetrapyrrole biosynthetic process biosynthetic process heme a metabolic process metabolic process cellular process porphyrin-containing compound metabolic process heme O metabolic process heme A biosynthetic process heme metabolic process pigment metabolic process porphyrin-containing compound biosynthetic process tetrapyrrole metabolic process heme biosynthetic process pigment biosynthetic process tetrapyrrole biosynthetic process biosynthetic process heme a metabolic process metabolic process cellular process porphyrin-containing compound metabolic process heme O metabolic process heme O biosynthetic process protoporphyrinogen IX metabolic process protoporphyrinogen IX biosynthetic process heme B biosynthetic process heme B metabolic process	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle mitochondrial membrane organelle inner membrane membrane mitochondrial inner membrane organelle envelope mitochondrial envelope membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle mitochondrial membrane organelle inner membrane membrane mitochondrial inner membrane organelle envelope mitochondrial envelope organelle membrane mitochondrial intermembrane space membrane-enclosed lumen intracellular organelle lumen organelle envelope lumen organelle lumen

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR002937	Amine oxidase	Domain
A	IPR050464	Zeta Carotene Desaturase and Related Oxidoreductases	Family
A	IPR036188	FAD/NAD(P)-binding domain superfamily	Homologous Superfamily
A	IPR004572	Protoporphyrinogen oxidase	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: P50336	variegate porphyria inherited porphyria colorectal cancer Porphyria, South African type allergic rhinitis inborn errors of metabolism lung cancer malignant pancreatic neoplasm osteosarcoma psoriasis cutaneous lupus erythematosus malignant ependymoma medulloblastoma tuberculosis colorectal carcinoma variegate porphyria inherited porphyria colorectal cancer Porphyria, South African type allergic rhinitis inborn errors of metabolism lung cancer malignant pancreatic neoplasm osteosarcoma psoriasis cutaneous lupus erythematosus malignant ependymoma medulloblastoma tuberculosis colorectal carcinoma exocrine pancreatic carcinoma intellectual disability malignant mesothelioma nasopharyngeal carcinoma primitive neuroectodermal tumor

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A	OPM	Transmembrane	Bitopic proteins	Bitopic proteins with NAD(P)-binding Rossmann-fold domains	Flavin containing amine oxidoreductase

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.