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)
C [auth B]		e4dl1B01	A: Rossmann-like	X: Rossmann-related	H: FAD/NAD(P)-binding domain	T: Hemagglutinin	F:	ECOD (20:10:01)
I		e4dl1I01	A: Rossmann-like	X: Rossmann-related	H: FAD/NAD(P)-binding domain	T: Hemagglutinin	F:	ECOD (20:10:01)
K [auth J]		e4dl1J01	A: Rossmann-like	X: Rossmann-related	H: FAD/NAD(P)-binding domain	T: Hemagglutinin	F:	ECOD (20:10:01)
M		e4dl1M01	A: Rossmann-like	X: Rossmann-related	H: FAD/NAD(P)-binding domain	T: Hemagglutinin	F:	ECOD (20:10:01)
O [auth N]		e4dl1N01	A: Rossmann-like	X: Rossmann-related	H: FAD/NAD(P)-binding domain	T: Hemagglutinin	F:	ECOD (20:10:01)
G [auth F]		e4dl1F01	A: Rossmann-like	X: Rossmann-related	H: FAD/NAD(P)-binding domain	T: Hemagglutinin	F:	ECOD (20:10:01)
E		e4dl1E01	A: Rossmann-like	X: Rossmann-related	H: FAD/NAD(P)-binding domain	T: Hemagglutinin	F:	ECOD (20:10:01)
A		e4dl1A01	A: Rossmann-like	X: Rossmann-related	H: FAD/NAD(P)-binding domain	T: Hemagglutinin	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B [auth C]	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)
H	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)
L	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)
P	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)

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
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 chromatin binding binding tetrapyrrole binding heme binding cation binding ion binding metal ion binding small molecule binding heparin binding peroxidase activity oxidoreductase activity antioxidant activity oxidoreductase activity, acting on peroxide as acceptor catalytic activity chromatin binding binding tetrapyrrole binding heme binding cation binding ion binding metal ion binding small molecule binding heparin binding glycosaminoglycan binding carbohydrate derivative binding sulfur compound 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 cellular response to stimulus response to stimulus cellular response to oxidative stress detoxification cellular response to chemical stress response to superoxide cellular oxidant detoxification cellular response to oxygen radical cellular response to reactive oxygen species cellular response to stress response to stress cellular detoxification response to oxygen-containing compound cellular response to oxygen-containing compound response to reactive oxygen species response to toxic substance removal of superoxide radicals superoxide metabolic process response to oxidative stress cellular response to chemical stimulus response to chemical cellular response to superoxide cellular response to toxic substance response to oxygen radical 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 biological process involved in interspecies interaction between organisms response to other organism response to yeast response to external stimulus response to fungus response to external biotic stimulus response to biotic stimulus reactive oxygen species biosynthetic process biosynthetic process small molecule biosynthetic process oxoacid metabolic process hypochlorous acid biosynthetic process small molecule metabolic process organic acid metabolic process defense response to bacterium defense response response to bacterium response to transition metal nanoparticle response to gold nanoparticle response to mechanical stimulus response to abiotic stimulus defense response to fungus respiratory burst respiratory burst involved in defense response immune system process immune effector process response to lipid response to lipopolysaccharide response to molecule of bacterial origin response to nutrient levels response to food	extracellular exosome membrane-bounded organelle extracellular vesicle cellular anatomical structure extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle intracellular anatomical structure intracellular vesicle intracellular membrane-bounded organelle endomembrane system extracellular exosome membrane-bounded organelle extracellular vesicle cellular anatomical structure extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle intracellular anatomical structure intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle secretory granule secretory vesicle cytoplasm lytic vacuole membrane-enclosed lumen cytoplasmic vesicle lumen vacuolar lumen intracellular organelle lumen lysosome vesicle lumen azurophil granule vacuole secretory granule lumen azurophil granule lumen organelle lumen primary lysosome nucleus nucleoplasm nuclear lumen phagocytic vesicle lumen phagocytic vesicle endocytic vesicle lumen endocytic vesicle
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 chromatin binding binding tetrapyrrole binding heme binding cation binding ion binding metal ion binding small molecule binding heparin binding peroxidase activity oxidoreductase activity antioxidant activity oxidoreductase activity, acting on peroxide as acceptor catalytic activity chromatin binding binding tetrapyrrole binding heme binding cation binding ion binding metal ion binding small molecule binding heparin binding glycosaminoglycan binding carbohydrate derivative binding sulfur compound 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 cellular response to stimulus response to stimulus cellular response to oxidative stress detoxification cellular response to chemical stress response to superoxide cellular oxidant detoxification cellular response to oxygen radical cellular response to reactive oxygen species cellular response to stress response to stress cellular detoxification response to oxygen-containing compound cellular response to oxygen-containing compound response to reactive oxygen species response to toxic substance removal of superoxide radicals superoxide metabolic process response to oxidative stress cellular response to chemical stimulus response to chemical cellular response to superoxide cellular response to toxic substance response to oxygen radical 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 biological process involved in interspecies interaction between organisms response to other organism response to yeast response to external stimulus response to fungus response to external biotic stimulus response to biotic stimulus reactive oxygen species biosynthetic process biosynthetic process small molecule biosynthetic process oxoacid metabolic process hypochlorous acid biosynthetic process small molecule metabolic process organic acid metabolic process defense response to bacterium defense response response to bacterium response to transition metal nanoparticle response to gold nanoparticle response to mechanical stimulus response to abiotic stimulus defense response to fungus respiratory burst respiratory burst involved in defense response immune system process immune effector process response to lipid response to lipopolysaccharide response to molecule of bacterial origin response to nutrient levels response to food	extracellular exosome membrane-bounded organelle extracellular vesicle cellular anatomical structure extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle intracellular anatomical structure intracellular vesicle intracellular membrane-bounded organelle endomembrane system extracellular exosome membrane-bounded organelle extracellular vesicle cellular anatomical structure extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle intracellular anatomical structure intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle secretory granule secretory vesicle cytoplasm lytic vacuole membrane-enclosed lumen cytoplasmic vesicle lumen vacuolar lumen intracellular organelle lumen lysosome vesicle lumen azurophil granule vacuole secretory granule lumen azurophil granule lumen organelle lumen primary lysosome nucleus nucleoplasm nuclear lumen phagocytic vesicle lumen phagocytic vesicle endocytic vesicle lumen endocytic vesicle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
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
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

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
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]	Pharos: 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
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	Pharos: 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 RESID: AA0205 PSI-MOD : L-cysteine sulfenic acid MOD:00210

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.