2ZVU

Crystal structure of rat heme oxygenase-1 in complex with ferrous verdoheme

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

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d2zvua_	All alpha proteins	Heme oxygenase-like	Heme oxygenase-like	Eukaryotic type heme oxygenase	Heme oxygenase-1 (HO-1)	Rat (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Heme oxygenase-like	8035972	3001676	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	Heme_oxygenase	e2zvuA1	A: alpha bundles	X: Ferritin/Heme oxygenase/4-helical cytokines	H: Ferritin/Heme oxygenase	T: Heme oxygenase/Ribonucleotide reductase	F: Heme_oxygenase	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.20.910.10	Mainly Alpha	Up-down Bundle	Heme Oxygenase	Chain A	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF01126	Heme oxygenase (Heme_oxygenase)	Heme oxygenase	-	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Heme oxygenase 1	oxidoreductase activity monooxygenase activity oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen arachidonate omega-hydroxylase activity catalytic activity oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced flavin or flavoprotein as one donor, and incorporation of one atom of oxygen cation binding ion binding binding metal ion binding small molecule binding identical protein binding protein binding phosphoric ester hydrolase activity oxidoreductase activity monooxygenase activity oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen arachidonate omega-hydroxylase activity catalytic activity oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced flavin or flavoprotein as one donor, and incorporation of one atom of oxygen cation binding ion binding binding metal ion binding small molecule binding identical protein binding protein binding phosphoric ester hydrolase activity phospholipase D activity hydrolase activity, acting on ester bonds phosphoric diester hydrolase activity carboxylic ester hydrolase activity hydrolase activity phospholipase activity lipase activity heme oxygenase (decyclizing) activity protein homodimerization activity protein dimerization activity organic cyclic compound binding tetrapyrrole binding heme binding structural molecule activity enzyme binding	intracellular iron ion homeostasis inorganic ion homeostasis cellular homeostasis chemical homeostasis homeostatic process intracellular monoatomic cation homeostasis monoatomic ion homeostasis intracellular chemical homeostasis monoatomic cation homeostasis intracellular monoatomic ion homeostasis response to stimulus response to chemical response to xenobiotic stimulus cellular response to stimulus intracellular iron ion homeostasis inorganic ion homeostasis cellular homeostasis chemical homeostasis homeostatic process intracellular monoatomic cation homeostasis monoatomic ion homeostasis intracellular chemical homeostasis monoatomic cation homeostasis intracellular monoatomic ion homeostasis response to stimulus response to chemical response to xenobiotic stimulus cellular response to stimulus cellular response to nutrient levels response to nutrient levels cellular response to chemical stimulus response to nutrient cellular response to nutrient cellular process heme metabolic process pigment metabolic process catabolic process heme oxidation tetrapyrrole metabolic process porphyrin-containing compound catabolic process metabolic process porphyrin-containing compound metabolic process tetrapyrrole catabolic process multicellular organismal process system process circulatory system process regulation of blood pressure biological regulation regulation of biological quality blood circulation positive regulation of epithelial cell apoptotic process regulation of biological process positive regulation of programmed cell death regulation of cellular process regulation of epithelial cell apoptotic process regulation of apoptotic process positive regulation of biological process regulation of programmed cell death cell death positive regulation of apoptotic process epithelial cell apoptotic process apoptotic process programmed cell death positive regulation of cellular process regulation of blood vessel endothelial cell proliferation involved in sprouting angiogenesis positive regulation of cell population proliferation endothelial cell proliferation angiogenesis multicellular organism development tube morphogenesis positive regulation of endothelial cell proliferation anatomical structure development epithelial cell proliferation blood vessel development system development developmental process positive regulation of blood vessel endothelial cell proliferation involved in sprouting angiogenesis cell population proliferation blood vessel morphogenesis tube development blood vessel endothelial cell proliferation involved in sprouting angiogenesis positive regulation of epithelial cell proliferation sprouting angiogenesis vasculature development circulatory system development anatomical structure morphogenesis regulation of endothelial cell proliferation regulation of cell population proliferation anatomical structure formation involved in morphogenesis regulation of epithelial cell proliferation cellular response to heat cellular response to stress response to stress response to heat response to abiotic stimulus response to temperature stimulus extrinsic apoptotic signaling pathway via death domain receptors signaling negative regulation of signaling negative regulation of biological process regulation of signal transduction extrinsic apoptotic signaling pathway negative regulation of cell communication cell communication negative regulation of extrinsic apoptotic signaling pathway negative regulation of apoptotic signaling pathway negative regulation of cellular process signal transduction regulation of signaling cell surface receptor signaling pathway negative regulation of response to stimulus negative regulation of programmed cell death negative regulation of extrinsic apoptotic signaling pathway via death domain receptors negative regulation of signal transduction regulation of extrinsic apoptotic signaling pathway apoptotic signaling pathway negative regulation of apoptotic process regulation of response to stimulus regulation of extrinsic apoptotic signaling pathway via death domain receptors regulation of cell communication regulation of apoptotic signaling pathway regulation of immune effector process negative regulation of mast cell cytokine production cytokine production regulation of cytokine production mast cell cytokine production regulation of immune system process regulation of multicellular organismal process myeloid leukocyte cytokine production cytokine production involved in immune response negative regulation of macromolecule metabolic process production of molecular mediator of immune response regulation of biosynthetic process negative regulation of cytokine production involved in immune response regulation of cytokine production involved in immune response regulation of mast cell cytokine production immune response negative regulation of metabolic process negative regulation of immune effector process negative regulation of cytokine production regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process immune effector process regulation of gene expression negative regulation of production of molecular mediator of immune response negative regulation of gene expression biosynthetic process negative regulation of immune system process negative regulation of biosynthetic process immune system process negative regulation of macromolecule biosynthetic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of production of molecular mediator of immune response negative regulation of multicellular organismal process regulation of metabolic process multicellular organismal-level iron ion homeostasis multicellular organismal-level homeostasis multicellular organismal-level chemical homeostasis response to lipid response to fatty acid response to oxygen-containing compound response to arachidonate wound healing wound healing involved in inflammatory response defense response inflammatory response to wounding inflammatory response response to wounding pigment catabolic process heme catabolic process cellular response to arsenic-containing substance response to arsenic-containing substance regulation of smooth muscle cell proliferation smooth muscle cell proliferation positive regulation of smooth muscle cell proliferation muscle cell proliferation response to decreased oxygen levels response to hypoxia response to oxygen levels cellular response to metal ion response to metal ion cellular response to cadmium ion response to cadmium ion response to polycyclic arene response to 3-methylcholanthrene response to organic cyclic compound response to hydrogen peroxide response to oxidative stress response to reactive oxygen species negative regulation of epithelial cell apoptotic process regulation of vascular associated smooth muscle cell proliferation negative regulation of cell population proliferation negative regulation of vascular associated smooth muscle cell proliferation negative regulation of smooth muscle cell proliferation vascular associated smooth muscle cell proliferation positive regulation of locomotion regulation of cell motility cell migration involved in sprouting angiogenesis regulation of blood vessel endothelial cell migration endothelial cell migration positive regulation of cell migration positive regulation of cell motility regulation of cell migration blood vessel endothelial cell migration regulation of endothelial cell migration cell migration positive regulation of cell migration involved in sprouting angiogenesis cell motility locomotion regulation of cell migration involved in sprouting angiogenesis positive regulation of blood vessel endothelial cell migration regulation of locomotion positive regulation of endothelial cell migration phospholipid metabolic process organophosphate metabolic process phosphate-containing compound metabolic process primary metabolic process phosphorus metabolic process lipid metabolic process response to hormone response to endogenous stimulus response to estrogen response to cisplatin cellular response to cisplatin homeostasis of number of cells myeloid cell homeostasis erythrocyte homeostasis negative regulation of catabolic process macroautophagy autophagy regulation of catabolic process regulation of autophagy negative regulation of macroautophagy regulation of macroautophagy negative regulation of autophagy process utilizing autophagic mechanism gland development animal organ development animal organ regeneration liver development regeneration hepaticobiliary system development liver regeneration neuron apoptotic process negative regulation of neuron apoptotic process regulation of neuron apoptotic process negative regulation of ferroptosis regulation of ferroptosis ferroptosis intracellular signal transduction DNA damage response intrinsic apoptotic signaling pathway in response to DNA damage intrinsic apoptotic signaling pathway positive regulation of autophagy positive regulation of catabolic process positive regulation of metabolic process positive regulation of macroautophagy establishment of organelle localization regulation of localization regulation of myeloid leukocyte mediated immunity regulated exocytosis negative regulation of transport cell activation involved in immune response leukocyte degranulation myeloid leukocyte mediated immunity vesicle-mediated transport myeloid leukocyte activation localization negative regulation of secretion establishment of localization in cell leukocyte mediated immunity negative regulation of secretion by cell negative regulation of myeloid leukocyte mediated immunity vacuolar localization establishment of localization mast cell degranulation regulation of secretion regulation of leukocyte mediated immunity exocytosis lysosome localization cellular localization transport negative regulation of regulated secretory pathway negative regulation of leukocyte degranulation regulation of mast cell degranulation leukocyte activation regulation of regulated secretory pathway secretion by cell regulation of secretion by cell negative regulation of exocytosis organelle localization leukocyte activation involved in immune response negative regulation of mast cell degranulation mast cell activation regulation of leukocyte degranulation mast cell mediated immunity secretion regulation of transport cell activation export from cell regulation of vesicle-mediated transport myeloid cell activation involved in immune response mast cell activation involved in immune response regulation of exocytosis negative regulation of leukocyte mediated immunity regulation of developmental process regulation of vasculature development positive regulation of developmental process regulation of anatomical structure morphogenesis regulation of multicellular organismal development positive regulation of angiogenesis positive regulation of vasculature development regulation of angiogenesis positive regulation of multicellular organismal process muscle cell apoptotic process regulation of muscle cell apoptotic process negative regulation of muscle cell apoptotic process RNA metabolic process regulation of primary metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process transcription by RNA polymerase II regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of transcription by RNA polymerase II nucleobase-containing compound biosynthetic process nucleic acid metabolic process regulation of DNA-templated transcription response to nicotine small GTPase-mediated signal transduction intracellular signaling cassette	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol perinuclear region of cytoplasm membrane microdomain cell periphery membrane raft plasma membrane raft membrane plasma membrane plasma membrane region caveola membrane-bounded organelle cellular anatomical structure intracellular anatomical structure cytoplasm cytosol perinuclear region of cytoplasm membrane microdomain cell periphery membrane raft plasma membrane raft membrane plasma membrane plasma membrane region caveola membrane-bounded organelle organelle subcompartment intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum organelle membrane endoplasmic reticulum membrane nucleus

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR002051	Haem oxygenase	Family
A	IPR016084	Haem oxygenase-like, multi-helical	Homologous Superfamily
A	IPR018207	Haem oxygenase conserved site	Conserved Site
A	IPR016053	Haem oxygenase-like	Family

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.