4DL1 | pdb_00004dl1

Crystal Structure of human Myeloperoxidase with covalent thioxanthine analog

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations
Protein Modification Annotation

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
P	Med6	e4dl1P1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Med6	ECOD (v295.2)
N [auth O]	Med6	e4dl1O1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Med6	ECOD (v295.2)
L	Med6	e4dl1L1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Med6	ECOD (v295.2)
J [auth K]	Med6	e4dl1K1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Med6	ECOD (v295.2)
H	Med6	e4dl1H1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Med6	ECOD (v295.2)
F [auth G]	Med6	e4dl1G1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Med6	ECOD (v295.2)
D	Med6	e4dl1D1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Med6	ECOD (v295.2)
B [auth C]	Med6	e4dl1C1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Med6	ECOD (v295.2)
O [auth N]	Hemagglutinin	e4dl1N01	A: alpha arrays	X: Rossmann-like	H: Rossmann-related	T: FAD/NAD(P)-binding domain	F: Hemagglutinin	ECOD (v295.2)
M	Hemagglutinin	e4dl1M01	A: alpha arrays	X: Rossmann-like	H: Rossmann-related	T: FAD/NAD(P)-binding domain	F: Hemagglutinin	ECOD (v295.2)
K [auth J]	Hemagglutinin	e4dl1J01	A: alpha arrays	X: Rossmann-like	H: Rossmann-related	T: FAD/NAD(P)-binding domain	F: Hemagglutinin	ECOD (v295.2)
I	Hemagglutinin	e4dl1I01	A: alpha arrays	X: Rossmann-like	H: Rossmann-related	T: FAD/NAD(P)-binding domain	F: Hemagglutinin	ECOD (v295.2)
G [auth F]	Hemagglutinin	e4dl1F01	A: alpha arrays	X: Rossmann-like	H: Rossmann-related	T: FAD/NAD(P)-binding domain	F: Hemagglutinin	ECOD (v295.2)
E	Hemagglutinin	e4dl1E01	A: alpha arrays	X: Rossmann-like	H: Rossmann-related	T: FAD/NAD(P)-binding domain	F: Hemagglutinin	ECOD (v295.2)
C [auth B]	Hemagglutinin	e4dl1B01	A: alpha arrays	X: Rossmann-like	H: Rossmann-related	T: FAD/NAD(P)-binding domain	F: Hemagglutinin	ECOD (v295.2)
A	Hemagglutinin	e4dl1A01	A: alpha arrays	X: Rossmann-like	H: Rossmann-related	T: FAD/NAD(P)-binding domain	F: Hemagglutinin	ECOD (v295.2)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
P	1.10.640.10	Mainly Alpha	Orthogonal Bundle	Myeloperoxidase, subunit C	Haem peroxidase domain superfamily, animal type	CATH (4.3.0)
N [auth O]	1.10.640.10	Mainly Alpha	Orthogonal Bundle	Myeloperoxidase, subunit C	Haem peroxidase domain superfamily, animal type	CATH (4.3.0)
L	1.10.640.10	Mainly Alpha	Orthogonal Bundle	Myeloperoxidase, subunit C	Haem peroxidase domain superfamily, animal type	CATH (4.3.0)
J [auth K]	1.10.640.10	Mainly Alpha	Orthogonal Bundle	Myeloperoxidase, subunit C	Haem peroxidase domain superfamily, animal type	CATH (4.3.0)
H	1.10.640.10	Mainly Alpha	Orthogonal Bundle	Myeloperoxidase, subunit C	Haem peroxidase domain superfamily, animal type	CATH (4.3.0)
F [auth G]	1.10.640.10	Mainly Alpha	Orthogonal Bundle	Myeloperoxidase, subunit C	Haem peroxidase domain superfamily, animal type	CATH (4.3.0)
D	1.10.640.10	Mainly Alpha	Orthogonal Bundle	Myeloperoxidase, subunit C	Haem peroxidase domain superfamily, animal type	CATH (4.3.0)
B [auth C]	1.10.640.10	Mainly Alpha	Orthogonal Bundle	Myeloperoxidase, subunit C	Haem peroxidase domain superfamily, animal type	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B [auth C], D, F [auth G], H, J [auth K], B [auth C], D, F [auth G], H, J [auth K], L, N [auth O], P	PF03098	Animal haem peroxidase (An_peroxidase)	Animal haem peroxidase		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B [auth C], D, F [auth G], H, J [auth K], B [auth C], D, F [auth G], H, J [auth K], L, N [auth O], P	Myeloperoxidase heavy chain	peroxidase activity oxidoreductase activity antioxidant activity oxidoreductase activity, acting on peroxide as acceptor catalytic activity thiocyanate peroxidase activity chromatin binding binding tetrapyrrole binding heme binding protein-containing complex destabilizing activity heparin binding glycosaminoglycan binding carbohydrate derivative binding peroxidase activity oxidoreductase activity antioxidant activity oxidoreductase activity, acting on peroxide as acceptor catalytic activity thiocyanate peroxidase activity chromatin binding binding tetrapyrrole binding heme binding protein-containing complex destabilizing activity heparin binding glycosaminoglycan binding carbohydrate derivative binding sulfur compound binding protein-containing complex binding nucleosome binding	catabolic process hydrogen peroxide metabolic process reactive oxygen species metabolic process metabolic process cellular process hydrogen peroxide catabolic process plasma lipoprotein particle organization multicellular organismal process regulation of biological process low-density lipoprotein particle remodeling protein-containing complex organization protein-containing complex remodeling protein-lipid complex organization biological regulation catabolic process hydrogen peroxide metabolic process reactive oxygen species metabolic process metabolic process cellular process hydrogen peroxide catabolic process plasma lipoprotein particle organization multicellular organismal process regulation of biological process low-density lipoprotein particle remodeling protein-containing complex organization protein-containing complex remodeling protein-lipid complex organization biological regulation plasma lipoprotein particle remodeling regulation of plasma lipoprotein particle levels cellular component organization protein-lipid complex remodeling cellular component organization or biogenesis neutrophil-mediated killing of symbiont cell biological process involved in interspecies interaction between organisms response to stimulus neutrophil-mediated killing of fungus disruption of cell in another organism response to biotic stimulus myeloid leukocyte mediated immunity neutrophil mediated immunity response to stress leukocyte mediated immunity response to external biotic stimulus killing of cells of another organism neutrophil mediated cytotoxicity response to other organism defense response response to external stimulus leukocyte mediated cytotoxicity immune effector process defense response to fungus immune system process response to fungus disruption of anatomical structure in another organism cell killing regulation of localization transport positive regulation of sterol transport positive regulation of biological process regulation of lipid transport organic hydroxy compound transport positive regulation of cholesterol import localization sterol transport regulation of cholesterol transport positive regulation of cholesterol transport regulation of sterol transport regulation of transport lipid localization lipid transport positive regulation of lipid localization regulation of cholesterol import establishment of localization positive regulation of lipid transport positive regulation of transport regulation of lipid localization macromolecule localization cholesterol transport cholesterol import regulation of cellular process negative regulation of programmed cell death regulation of apoptotic process negative regulation of biological process regulation of programmed cell death cell death negative regulation of apoptotic process negative regulation of cellular process apoptotic process programmed cell death defense response to bacterium response to bacterium neutrophil-mediated killing of bacterium cellular component biogenesis cellular component assembly neutrophil extracellular trap formation cellular component disassembly protein-DNA complex disassembly protein-containing complex disassembly protein-DNA complex organization chromatin organization nucleosome disassembly chromatin remodeling nucleosome organization response to transition metal nanoparticle response to gold nanoparticle response to chemical response to mechanical stimulus response to abiotic stimulus response to oxidative stress response to lipid response to oxygen-containing compound response to lipopolysaccharide response to molecule of bacterial origin response to nutrient levels response to food	membrane-bounded organelle intracellular anatomical structure lytic vacuole cytolytic granule vacuole intracellular membrane-bounded organelle intracellular organelle cellular anatomical structure organelle cytoplasm lysosome extracellular exosome extracellular vesicle extracellular organelle membrane-bounded organelle intracellular anatomical structure lytic vacuole cytolytic granule vacuole intracellular membrane-bounded organelle intracellular organelle cellular anatomical structure organelle cytoplasm lysosome extracellular exosome extracellular vesicle extracellular organelle extracellular region vesicle extracellular membrane-bounded organelle intracellular vesicle phagocytic vesicle cytoplasmic vesicle endocytic vesicle endomembrane system secretory granule secretory vesicle membrane-enclosed lumen cytoplasmic vesicle lumen vacuolar lumen intracellular organelle lumen vesicle lumen azurophil granule secretory granule lumen azurophil granule lumen organelle lumen primary lysosome phagocytic vesicle lumen endocytic vesicle lumen membraneless organelle intracellular membraneless organelle chromosome extracellular membraneless organelle neutrophil extracellular trap nucleus
A, C [auth B], E, G [auth F], I, A, C [auth B], E, G [auth F], I, K [auth J], M, O [auth N]	Myeloperoxidase light chain	peroxidase activity oxidoreductase activity antioxidant activity oxidoreductase activity, acting on peroxide as acceptor catalytic activity thiocyanate peroxidase activity chromatin binding binding tetrapyrrole binding heme binding protein-containing complex destabilizing activity heparin binding glycosaminoglycan binding carbohydrate derivative binding peroxidase activity oxidoreductase activity antioxidant activity oxidoreductase activity, acting on peroxide as acceptor catalytic activity thiocyanate peroxidase activity chromatin binding binding tetrapyrrole binding heme binding protein-containing complex destabilizing activity heparin binding glycosaminoglycan binding carbohydrate derivative binding sulfur compound binding protein-containing complex binding nucleosome binding	catabolic process hydrogen peroxide metabolic process reactive oxygen species metabolic process metabolic process cellular process hydrogen peroxide catabolic process plasma lipoprotein particle organization multicellular organismal process regulation of biological process low-density lipoprotein particle remodeling protein-containing complex organization protein-containing complex remodeling protein-lipid complex organization biological regulation catabolic process hydrogen peroxide metabolic process reactive oxygen species metabolic process metabolic process cellular process hydrogen peroxide catabolic process plasma lipoprotein particle organization multicellular organismal process regulation of biological process low-density lipoprotein particle remodeling protein-containing complex organization protein-containing complex remodeling protein-lipid complex organization biological regulation plasma lipoprotein particle remodeling regulation of plasma lipoprotein particle levels cellular component organization protein-lipid complex remodeling cellular component organization or biogenesis neutrophil-mediated killing of symbiont cell biological process involved in interspecies interaction between organisms response to stimulus neutrophil-mediated killing of fungus disruption of cell in another organism response to biotic stimulus myeloid leukocyte mediated immunity neutrophil mediated immunity response to stress leukocyte mediated immunity response to external biotic stimulus killing of cells of another organism neutrophil mediated cytotoxicity response to other organism defense response response to external stimulus leukocyte mediated cytotoxicity immune effector process defense response to fungus immune system process response to fungus disruption of anatomical structure in another organism cell killing regulation of localization transport positive regulation of sterol transport positive regulation of biological process regulation of lipid transport organic hydroxy compound transport positive regulation of cholesterol import localization sterol transport regulation of cholesterol transport positive regulation of cholesterol transport regulation of sterol transport regulation of transport lipid localization lipid transport positive regulation of lipid localization regulation of cholesterol import establishment of localization positive regulation of lipid transport positive regulation of transport regulation of lipid localization macromolecule localization cholesterol transport cholesterol import regulation of cellular process negative regulation of programmed cell death regulation of apoptotic process negative regulation of biological process regulation of programmed cell death cell death negative regulation of apoptotic process negative regulation of cellular process apoptotic process programmed cell death defense response to bacterium response to bacterium neutrophil-mediated killing of bacterium cellular component biogenesis cellular component assembly neutrophil extracellular trap formation cellular component disassembly protein-DNA complex disassembly protein-containing complex disassembly protein-DNA complex organization chromatin organization nucleosome disassembly chromatin remodeling nucleosome organization response to transition metal nanoparticle response to gold nanoparticle response to chemical response to mechanical stimulus response to abiotic stimulus response to oxidative stress response to lipid response to oxygen-containing compound response to lipopolysaccharide response to molecule of bacterial origin response to nutrient levels response to food	membrane-bounded organelle intracellular anatomical structure lytic vacuole cytolytic granule vacuole intracellular membrane-bounded organelle intracellular organelle cellular anatomical structure organelle cytoplasm lysosome extracellular exosome extracellular vesicle extracellular organelle membrane-bounded organelle intracellular anatomical structure lytic vacuole cytolytic granule vacuole intracellular membrane-bounded organelle intracellular organelle cellular anatomical structure organelle cytoplasm lysosome extracellular exosome extracellular vesicle extracellular organelle extracellular region vesicle extracellular membrane-bounded organelle intracellular vesicle phagocytic vesicle cytoplasmic vesicle endocytic vesicle endomembrane system secretory granule secretory vesicle membrane-enclosed lumen cytoplasmic vesicle lumen vacuolar lumen intracellular organelle lumen vesicle lumen azurophil granule secretory granule lumen azurophil granule lumen organelle lumen primary lysosome phagocytic vesicle lumen endocytic vesicle lumen membraneless organelle intracellular membraneless organelle chromosome extracellular membraneless organelle neutrophil extracellular trap nucleus

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B [auth C], D, F [auth G], H, J [auth K], B [auth C], D, F [auth G], H, J [auth K], L, N [auth O], P	IPR019791	Haem peroxidase, animal-type	Family
B [auth C], D, F [auth G], H, J [auth K], B [auth C], D, F [auth G], H, J [auth K], L, N [auth O], P	IPR037120	Haem peroxidase domain superfamily, animal type	Homologous Superfamily
B [auth C], D, F [auth G], H, J [auth K], B [auth C], D, F [auth G], H, J [auth K], L, N [auth O], P	IPR010255	Haem peroxidase superfamily	Homologous Superfamily
B [auth C], D, F [auth G], H, J [auth K], B [auth C], D, F [auth G], H, J [auth K], L, N [auth O], P	IPR061955	Lactoperoxidase, N-terminal domain	Domain
A, C [auth B], E, G [auth F], I, A, C [auth B], E, G [auth F], I, K [auth J], M, O [auth N]	IPR019791	Haem peroxidase, animal-type	Family
A, C [auth B], E, G [auth F], I, A, C [auth B], E, G [auth F], I, K [auth J], M, O [auth N]	IPR037120	Haem peroxidase domain superfamily, animal type	Homologous Superfamily
A, C [auth B], E, G [auth F], I, A, C [auth B], E, G [auth F], I, K [auth J], M, O [auth N]	IPR010255	Haem peroxidase superfamily	Homologous Superfamily
A, C [auth B], E, G [auth F], I, A, C [auth B], E, G [auth F], I, K [auth J], M, O [auth N]	IPR061955	Lactoperoxidase, N-terminal domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
B [auth C], D, F [auth G], H, J [auth K], B [auth C], D, F [auth G], H, J [auth K], L, N [auth O], P	: P05164	myeloperoxidase deficiency Alzheimer disease colitis trichuriasis rheumatoid arthritis kidney disease major depressive disorder ulcerative colitis pancreatitis Inflammation brain ischemia keratosis alcoholic liver cirrhosis urinary bladder cancer brain disease myeloperoxidase deficiency Alzheimer disease colitis trichuriasis rheumatoid arthritis kidney disease major depressive disorder ulcerative colitis pancreatitis Inflammation brain ischemia keratosis alcoholic liver cirrhosis urinary bladder cancer brain disease prostate cancer cardiovascular disease urticaria extrahepatic cholestasis hypertensive disorder precancerous condition prostate carcinoma sarcoidosis social phobia lung benign neoplasm Alzheimer disease type 1 vasculitis osteosarcoma generalized anxiety disorder panic disorder autoimmune disease cancer ischemia reperfusion injury colorectal cancer leprosy depressive disorder lung disease tuberculosis lymphoplasmacytic lymphoma urinary bladder neoplasm obsessive-compulsive disorder gastroesophageal reflux disease hepatocellular carcinoma post-traumatic stress disorder brain injury injury burn acute kidney failure skin disease dermatitis herpetiformis dilated cardiomyopathy
A, C [auth B], E, G [auth F], I, A, C [auth B], E, G [auth F], I, K [auth J], M, O [auth N]	: P05164	myeloperoxidase deficiency Alzheimer disease colitis trichuriasis rheumatoid arthritis kidney disease major depressive disorder ulcerative colitis pancreatitis Inflammation brain ischemia keratosis alcoholic liver cirrhosis urinary bladder cancer brain disease myeloperoxidase deficiency Alzheimer disease colitis trichuriasis rheumatoid arthritis kidney disease major depressive disorder ulcerative colitis pancreatitis Inflammation brain ischemia keratosis alcoholic liver cirrhosis urinary bladder cancer brain disease prostate cancer cardiovascular disease urticaria extrahepatic cholestasis hypertensive disorder precancerous condition prostate carcinoma sarcoidosis social phobia lung benign neoplasm Alzheimer disease type 1 vasculitis osteosarcoma generalized anxiety disorder panic disorder autoimmune disease cancer ischemia reperfusion injury colorectal cancer leprosy depressive disorder lung disease tuberculosis lymphoplasmacytic lymphoma urinary bladder neoplasm obsessive-compulsive disorder gastroesophageal reflux disease hepatocellular carcinoma post-traumatic stress disorder brain injury injury burn acute kidney failure skin disease dermatitis herpetiformis dilated cardiomyopathy

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
B [auth C], D, F [auth G], H, J [auth K], B [auth C], D, F [auth G], H, J [auth K], L, N [auth O], P	CSO	Parent Component: CYS : AA0205 : L-cysteine sulfenic acid MOD:00210

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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.