3N57 | pdb_00003n57

Crystal Structure of human Insulin-degrading enzyme (IDE) in complex with human atrial natriuretic peptide (ANP)

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

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B		e3n57B1	A: Alpha-beta plaits	X: Phage tail protein-like	H: Transmembrane protein 14A	T: Phospholip_A2_1	F:	ECOD (20:10:01)
B		e3n57B11	A: Subtilisin-like	X: Subtilisin-like	H: Subtilisin-like	T: PRDM2_PR	F:	ECOD (20:10:01)
A		e3n57A1	A: Alpha-beta plaits	X: Phage tail protein-like	H: Transmembrane protein 14A	T: Phospholip_A2_1	F:	ECOD (20:10:01)
A		e3n57A11	A: Subtilisin-like	X: Subtilisin-like	H: Subtilisin-like	T: PRDM2_PR	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	3.30.830.10	Alpha Beta	2-Layer Sandwich	Cytochrome Bc1 Complex	Chain A, domain 1	CATH (4.3.0)
A	3.30.830.10	Alpha Beta	2-Layer Sandwich	Cytochrome Bc1 Complex	Chain A, domain 1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF05193	Peptidase M16 inactive domain (Peptidase_M16_C)	Peptidase M16 inactive domain	Peptidase M16 consists of two structurally related domains. One is the active peptidase, whereas the other is inactive. The two domains hold the substrate like a clamp [1].	Domain
A, B	PF16187	Middle or third domain of peptidase_M16 (Peptidase_M16_M)	Middle or third domain of peptidase_M16	-	Family
A, B	PF00675	Insulinase (Peptidase family M16) (Peptidase_M16)	Insulinase (Peptidase family M16)	-	Family
C, D	PF00212	Atrial natriuretic peptide (ANP)	Atrial natriuretic peptide	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Insulin-degrading enzyme	amyloid-beta binding binding peptide binding protein binding peptide hormone binding hormone binding insulin binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding amyloid-beta binding binding peptide binding protein binding peptide hormone binding hormone binding insulin binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding protein-containing complex binding peptidase activity catalytic activity, acting on a protein hydrolase activity catalytic activity endopeptidase activity beta-endorphin binding identical protein binding virus receptor activity exogenous protein binding metalloendopeptidase activity metallopeptidase activity protein homodimerization activity protein dimerization activity pyrophosphatase activity ATP hydrolysis activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity, acting on acid anhydrides ATP-dependent activity cation binding transition metal ion binding zinc ion binding metal ion binding	catabolic process metabolic process cellular process peptide metabolic process peptide catabolic process multicellular organismal process amyloid-beta metabolic process amyloid-beta clearance by cellular catabolic process amyloid-beta clearance primary metabolic process protein catabolic process protein metabolic process macromolecule metabolic process macromolecule catabolic process catabolic process metabolic process cellular process peptide metabolic process peptide catabolic process multicellular organismal process amyloid-beta metabolic process amyloid-beta clearance by cellular catabolic process amyloid-beta clearance primary metabolic process protein catabolic process protein metabolic process macromolecule metabolic process macromolecule catabolic process cellular homeostasis homeostatic process ubiquitin recycling bradykinin catabolic process cellular respiration aerobic respiration regulation of biological process regulation of cellular process energy derivation by oxidation of organic compounds biological regulation regulation of generation of precursor metabolites and energy generation of precursor metabolites and energy regulation of cellular respiration regulation of aerobic respiration regulation of metabolic process regulation of protein binding positive regulation of molecular function regulation of molecular function positive regulation of protein binding regulation of binding positive regulation of binding insulin metabolic process positive regulation of protein metabolic process positive regulation of biological process regulation of primary metabolic process positive regulation of metabolic process positive regulation of macromolecule metabolic process positive regulation of cellular process regulation of protein metabolic process regulation of macromolecule metabolic process regulation of catabolic process positive regulation of protein catabolic process positive regulation of catabolic process regulation of protein catabolic process negative regulation of proteolysis negative regulation of metabolic process negative regulation of biological process regulation of proteolysis proteolysis negative regulation of cellular process negative regulation of protein metabolic process negative regulation of macromolecule metabolic process cellular response to stimulus cellular response to nitrogen compound response to stimulus signaling response to peptide hormone insulin receptor signaling pathway cell surface receptor protein tyrosine kinase signaling pathway cell communication cellular response to endogenous stimulus response to hormone signal transduction enzyme-linked receptor protein signaling pathway cellular response to hormone stimulus cell surface receptor signaling pathway response to endogenous stimulus response to oxygen-containing compound cellular response to peptide hormone stimulus response to nitrogen compound cellular response to oxygen-containing compound cellular response to chemical stimulus response to chemical response to insulin cellular response to insulin stimulus antigen processing and presentation immune system process antigen processing and presentation of endogenous peptide antigen antigen processing and presentation of peptide antigen via MHC class I antigen processing and presentation of peptide antigen antigen processing and presentation of endogenous antigen antigen processing and presentation of endogenous peptide antigen via MHC class I regulation of hormone levels regulation of biological quality hormone metabolic process hormone catabolic process insulin catabolic process	cell periphery cellular anatomical structure cell surface membrane plasma membrane external side of plasma membrane side of membrane extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space cell periphery cellular anatomical structure cell surface membrane plasma membrane external side of plasma membrane side of membrane extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle intracellular anatomical structure cytoplasm cytosol basal part of cell basal plasma membrane plasma membrane region basolateral plasma membrane protein-containing complex catalytic complex peptidase complex cytosolic proteasome complex proteasome complex endopeptidase complex intracellular protein-containing complex intracellular organelle peroxisome microbody intracellular membrane-bounded organelle peroxisomal matrix membrane-enclosed lumen intracellular organelle lumen organelle lumen microbody lumen mitochondrion nucleus
C, D	Atrial natriuretic factor	protein binding binding signaling receptor binding hormone receptor binding hormone activity molecular function activator activity molecular function regulator activity neuropeptide hormone activity neuropeptide activity signaling receptor regulator activity receptor ligand activity signaling receptor activator activity G protein-coupled receptor binding neuropeptide receptor binding	heart process multicellular organismal process system process regulation of biological process regulation of heart contraction regulation of system process biological regulation positive regulation of biological process positive regulation of heart rate positive regulation of blood circulation positive regulation of heart contraction circulatory system process regulation of blood circulation positive regulation of multicellular organismal process heart process multicellular organismal process system process regulation of biological process regulation of heart contraction regulation of system process biological regulation positive regulation of biological process positive regulation of heart rate positive regulation of blood circulation positive regulation of heart contraction circulatory system process regulation of blood circulation positive regulation of multicellular organismal process regulation of multicellular organismal process regulation of biological quality heart contraction blood circulation regulation of heart rate regulation of blood pressure protein folding biosynthetic process metabolic process cellular process primary metabolic process protein metabolic process macromolecule metabolic process gene expression macromolecule biosynthetic process protein maturation transport sodium ion export across plasma membrane monoatomic ion transmembrane transport sodium ion transmembrane transport export from cell export across plasma membrane establishment of localization metal ion transport monoatomic cation transmembrane transport transmembrane transport localization monoatomic ion transport monoatomic cation transport sodium ion transport regulation of growth regulation of cellular component organization regulation of cellular process negative regulation of biological process growth negative regulation of cell growth regulation of cell growth cell growth cellular component organization negative regulation of growth negative regulation of cellular process cellular component organization or biogenesis lymphatic vascular process in circulatory system collecting lymphatic vessel constriction negative regulation of collecting lymphatic vessel constriction vascular process in circulatory system regulation of collecting lymphatic vessel constriction regulation of lymphatic vessel size negative regulation of multicellular organismal process regulation of anatomical structure size response to decreased oxygen levels response to stimulus response to hypoxia response to stress response to oxygen levels response to abiotic stimulus cellular developmental process cardiac muscle cell development developmental growth cell development organ growth muscle cell differentiation striated muscle tissue development muscle structure development multicellular organism development striated muscle cell development muscle cell development cell differentiation cardiac muscle hypertrophy anatomical structure development cardiac cell development muscle tissue development cardiac muscle tissue growth system development developmental process muscle hypertrophy heart development heart growth developmental cell growth cardiac muscle tissue development physiological muscle hypertrophy animal organ development cardiac muscle cell differentiation striated muscle hypertrophy tissue development muscle system process cardiocyte differentiation circulatory system development cell growth involved in cardiac muscle cell development physiological cardiac muscle hypertrophy striated muscle cell differentiation regulation of calcium ion transport regulation of localization regulation of monoatomic ion transmembrane transport calcium ion transport regulation of calcium ion transmembrane transport regulation of calcium ion transmembrane transport via high voltage-gated calcium channel calcium ion transmembrane transport via high voltage-gated calcium channel regulation of metal ion transport regulation of transport regulation of monoatomic ion transport regulation of transmembrane transport regulation of monoatomic cation transmembrane transport calcium ion transmembrane transport response to polycyclic arene response to 3-methylcholanthrene response to chemical positive regulation of cation transmembrane transport regulation of potassium ion transport potassium ion transmembrane transport potassium ion export across plasma membrane positive regulation of monoatomic ion transport positive regulation of potassium ion export across plasma membrane positive regulation of transmembrane transport positive regulation of monoatomic ion transmembrane transport positive regulation of cellular process regulation of potassium ion transmembrane transport positive regulation of potassium ion transport positive regulation of transport regulation of potassium ion export across plasma membrane positive regulation of potassium ion transmembrane transport potassium ion transport positive regulation of cardiac muscle contraction cardiac muscle contraction striated muscle contraction positive regulation of striated muscle contraction regulation of cardiac muscle contraction muscle contraction regulation of muscle system process regulation of striated muscle contraction regulation of muscle contraction positive regulation of muscle contraction cellular response to stimulus signaling cell communication G protein-coupled receptor signaling pathway signal transduction neuropeptide signaling pathway regulation of catalytic activity negative regulation of catalytic activity regulation of signal transduction regulation of transferase activity regulation of MAP kinase activity intracellular signal transduction regulation of primary metabolic process negative regulation of kinase activity negative regulation of JNK cascade JNK cascade phosphate-containing compound metabolic process intracellular signaling cassette negative regulation of protein modification process phosphorus metabolic process protein modification process negative regulation of protein metabolic process protein phosphorylation phosphorylation regulation of protein metabolic process negative regulation of metabolic process regulation of JNK cascade regulation of MAPK cascade regulation of molecular function regulation of kinase activity regulation of response to stimulus negative regulation of protein phosphorylation regulation of protein serine/threonine kinase activity macromolecule modification regulation of phosphorus metabolic process regulation of metabolic process regulation of protein modification process regulation of protein phosphorylation negative regulation of signaling negative regulation of intracellular signal transduction negative regulation of phosphate metabolic process negative regulation of cell communication regulation of intracellular signal transduction negative regulation of protein serine/threonine kinase activity negative regulation of JUN kinase activity negative regulation of macromolecule metabolic process regulation of signaling negative regulation of response to stimulus negative regulation of molecular function negative regulation of MAP kinase activity regulation of protein kinase activity regulation of macromolecule metabolic process negative regulation of protein kinase activity negative regulation of signal transduction negative regulation of phosphorus metabolic process regulation of JUN kinase activity MAPK cascade regulation of cell communication regulation of phosphorylation negative regulation of phosphorylation negative regulation of MAPK cascade multi-multicellular organism process reproductive process female pregnancy multi-organism reproductive process homeostatic process response to oxygen-containing compound cellular response to glucose stimulus intracellular glucose homeostasis cellular response to oxygen-containing compound response to hexose cellular response to carbohydrate stimulus cellular response to chemical stimulus cellular homeostasis response to monosaccharide response to carbohydrate chemical homeostasis response to glucose glucose homeostasis carbohydrate homeostasis cellular response to hexose stimulus intracellular chemical homeostasis cellular response to monosaccharide stimulus regulation of tube diameter regulation of tube size blood vessel diameter maintenance vasodilation heart valve development aortic valve development anatomical structure morphogenesis heart valve morphogenesis semi-lunar valve development aortic valve morphogenesis cellular response to oxidative stress cellular response to chemical stress cellular response to hydrogen peroxide response to reactive oxygen species response to hydrogen peroxide response to oxidative stress cellular response to reactive oxygen species cellular response to stress synaptic signaling cell-cell signaling synaptic signaling via neuropeptide response to mechanical stimulus response to external stimulus cellular response to mechanical stimulus cellular response to abiotic stimulus cellular response to external stimulus cellular response to environmental stimulus cardiac muscle cell membrane repolarization membrane repolarization regulation of membrane repolarization atrial cardiac muscle cell membrane repolarization regulation of cardiac muscle cell membrane repolarization regulation of atrial cardiac muscle cell membrane repolarization regulation of membrane potential cardiac conduction system development response to hormone response to endogenous stimulus response to peptide hormone response to insulin response to nitrogen compound regulation of systemic arterial blood pressure negative regulation of systemic arterial blood pressure negative regulation of blood pressure ribose phosphate metabolic process nucleotide biosynthetic process carbohydrate derivative metabolic process purine ribonucleotide biosynthetic process cyclic nucleotide metabolic process nucleobase-containing compound metabolic process ribonucleotide biosynthetic process purine nucleotide metabolic process ribonucleotide metabolic process nucleobase-containing small molecule metabolic process purine-containing compound biosynthetic process cyclic nucleotide biosynthetic process small molecule metabolic process ribose phosphate biosynthetic process nucleoside phosphate metabolic process carbohydrate derivative biosynthetic process cyclic purine nucleotide metabolic process nucleotide metabolic process nucleobase-containing compound biosynthetic process purine-containing compound metabolic process cGMP metabolic process organophosphate metabolic process organophosphate biosynthetic process nucleoside phosphate biosynthetic process purine ribonucleotide metabolic process cGMP biosynthetic process purine nucleotide biosynthetic process cell surface receptor signaling pathway receptor guanylyl cyclase signaling pathway enzyme-linked receptor protein signaling pathway cellular response to nitrogen compound response to angiotensin cellular response to peptide hormone stimulus cellular response to angiotensin cellular response to endogenous stimulus cellular response to hormone stimulus response to muscle stretch striated muscle adaptation muscle adaptation cardiac muscle adaptation cardiac muscle hypertrophy in response to stress muscle hypertrophy in response to stress	somatodendritic compartment cell body cellular anatomical structure perikaryon neuronal cell body apical part of cell cluster of actin-based cell projections brush border membrane-bounded organelle intracellular anatomical structure lytic vacuole vacuole intracellular membrane-bounded organelle intracellular organelle somatodendritic compartment cell body cellular anatomical structure perikaryon neuronal cell body apical part of cell cluster of actin-based cell projections brush border membrane-bounded organelle intracellular anatomical structure lytic vacuole vacuole intracellular membrane-bounded organelle intracellular organelle mast cell granule organelle cytoplasm lysosome perinuclear region of cytoplasm extracellular region extracellular space synapse cell junction glycinergic synapse protein-containing complex cell projection

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR011249	Metalloenzyme, LuxS/M16 peptidase-like	Homologous Superfamily
A, B	IPR001431	Peptidase M16, zinc-binding site	Binding Site
A, B	IPR007863	Peptidase M16, C-terminal	Domain
A, B	IPR054734	Coenzyme PQQ synthesis protein F-like, C-terminal lobe, domain 4	Domain
A, B	IPR011765	Peptidase M16, N-terminal	Domain
A, B	IPR050626	Peptidase M16	Family
A, B	IPR032632	Peptidase M16, middle/third domain	Domain
C, D	IPR030480	Natriuretic peptide, conserved site	Conserved Site
C, D	IPR050787	Natriuretic Peptide Hormone	Family
C, D	IPR002407	Natriuretic peptide, atrial type	Family
C, D	IPR000663	Natriuretic peptide	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B	Pharos: P14735	Alzheimer disease Presenile dementia atopic eczema large cell medulloblastoma malignant ependymoma osteosarcoma psoriasis atypical teratoid rhabdoid tumor glioblastoma lung cancer non-alcoholic fatty liver disease ovarian cancer schizophrenia amyotrophic lateral sclerosis dementia Alzheimer disease Presenile dementia atopic eczema large cell medulloblastoma malignant ependymoma osteosarcoma psoriasis atypical teratoid rhabdoid tumor glioblastoma lung cancer non-alcoholic fatty liver disease ovarian cancer schizophrenia amyotrophic lateral sclerosis dementia invasive ductal breast carcinoma lymphoplasmacytic lymphoma non-small cell lung carcinoma
C, D	Pharos: P01160	atrial fibrillation, familial, 6 dilated cardiomyopathy congestive heart failure melanoma familial atrial fibrillation aortic valve insufficiency hypertensive disorder coronary stenosis patent ductus arteriosus renal hypertension atrial standstill 2 Urination Disorders granular cell carcinoma skin cancer cirrhosis of liver atrial fibrillation, familial, 6 dilated cardiomyopathy congestive heart failure melanoma familial atrial fibrillation aortic valve insufficiency hypertensive disorder coronary stenosis patent ductus arteriosus renal hypertension atrial standstill 2 Urination Disorders granular cell carcinoma skin cancer cirrhosis of liver adenocarcinoma prostate cancer skin neoplasm atrial standstill ureteral obstruction cardiomyopathy myocardial infarction tubular adenocarcinoma lung benign neoplasm malignant ependymoma cribriform carcinoma myocardial ischemia heart failure psoriasis hypotensive disorder small cell lung carcinoma atypical teratoid rhabdoid tumor type 2 diabetes mellitus coronary artery disease cribriform carcinoma of breast acute kidney failure atrial fibrillation congenital diaphragmatic hernia medulloblastoma cutaneous melanoma dilated cardiomyopathy 1A ovarian cancer glioblastoma heart disease atrial fibrillation, familial, 1 small cell carcinoma large cell medulloblastoma

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.