7XGJ

Crystal structure of human MMP-2 catalytic domain in complex with inhibitor

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations
Protein Modification Annotation

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Metalloproteases (zincins) catalytic domain	8091369	3001975	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Metalloproteases (zincins) catalytic domain	8091369	3001975	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Metalloproteases (zincins) catalytic domain	8091369	3001975	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Metalloproteases (zincins) catalytic domain	8091369	3001975	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Metalloproteases (zincins) catalytic domain	8091369	3001975	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Metalloproteases (zincins) catalytic domain	8091369	3001975	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	PF00413	e7xgjA1	A: mixed a+b and a/b	X: Zincin-like	H: Metalloproteases (zincins) catalytic domain (From Topology)	T: Metalloproteases (zincins) catalytic domain	F: PF00413	ECOD (1.6)
B	PF00413	e7xgjB1	A: mixed a+b and a/b	X: Zincin-like	H: Metalloproteases (zincins) catalytic domain (From Topology)	T: Metalloproteases (zincins) catalytic domain	F: PF00413	ECOD (1.6)
C	PF00413	e7xgjC1	A: mixed a+b and a/b	X: Zincin-like	H: Metalloproteases (zincins) catalytic domain (From Topology)	T: Metalloproteases (zincins) catalytic domain	F: PF00413	ECOD (1.6)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C	Matrix metalloproteinase-2	peptidase activity catalytic activity, acting on a protein metallopeptidase activity hydrolase activity catalytic activity serine hydrolase activity serine-type peptidase activity serine-type endopeptidase activity endopeptidase activity protein binding binding fibronectin binding metalloendopeptidase activity cation binding peptidase activity catalytic activity, acting on a protein metallopeptidase activity hydrolase activity catalytic activity serine hydrolase activity serine-type peptidase activity serine-type endopeptidase activity endopeptidase activity protein binding binding fibronectin binding metalloendopeptidase activity cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding	response to stimulus response to chemical response to xenobiotic stimulus developmental process heart development multicellular organism development multicellular organismal process anatomical structure development animal organ development circulatory system development system development regulation of tube diameter regulation of biological process system process response to stimulus response to chemical response to xenobiotic stimulus developmental process heart development multicellular organism development multicellular organismal process anatomical structure development animal organ development circulatory system development system development regulation of tube diameter regulation of biological process system process regulation of tube size regulation of system process negative regulation of biological process biological regulation negative regulation of vasoconstriction circulatory system process regulation of blood circulation vascular process in circulatory system regulation of vasoconstriction regulation of multicellular organismal process blood vessel diameter maintenance regulation of biological quality negative regulation of multicellular organismal process vasoconstriction blood circulation regulation of anatomical structure size cellular response to stimulus regulation of cellular process cell surface receptor signaling pathway signaling cell surface receptor protein tyrosine kinase signaling pathway cell communication cellular process signal transduction enzyme-linked receptor protein signaling pathway ephrin receptor signaling pathway cellular component organization extracellular matrix organization cellular component organization or biogenesis extracellular structure organization external encapsulating structure organization organonitrogen compound catabolic process organonitrogen compound metabolic process catabolic process primary metabolic process protein catabolic process macromolecule catabolic process organic substance metabolic process metabolic process protein metabolic process macromolecule metabolic process organic substance catabolic process multi-multicellular organism process reproductive process parturition multi-organism reproductive process ossification direct ossification intramembranous ossification response to electrical stimulus response to abiotic stimulus gonad development reproductive system development female gonad development sex differentiation female sex differentiation development of primary female sexual characteristics developmental process involved in reproduction development of primary sexual characteristics reproductive structure development ovarian follicle development cellular response to stress response to stress response to fluid shear stress cellular response to fluid shear stress ovulation cycle process ovulation sexual reproduction female gamete generation gamete generation ovulation from ovarian follicle ovulation cycle rhythmic process multicellular organismal reproductive process cellular response to acid chemical cellular response to amino acid stimulus response to acid chemical response to organic substance cellular response to chemical stimulus response to amino acid response to decreased oxygen levels response to hypoxia response to oxygen levels epithelium development prostate gland development gland development morphogenesis of an epithelium urogenital system development tissue development prostate gland epithelium morphogenesis prostate gland morphogenesis tissue morphogenesis anatomical structure morphogenesis gland morphogenesis animal organ morphogenesis response to hydrogen peroxide response to oxidative stress response to oxygen-containing compound response to reactive oxygen species response to inorganic substance response to cytokine cellular response to interleukin-1 cellular response to cytokine stimulus cellular response to organic substance response to interleukin-1 blood vessel maturation developmental maturation vasculature development anatomical structure maturation blood vessel development cell adhesion regulation of cell adhesion negative regulation of cellular process negative regulation of cell adhesion positive regulation of cell communication intrinsic apoptotic signaling pathway in response to oxidative stress neuron apoptotic process positive regulation of signal transduction regulation of oxidative stress-induced intrinsic apoptotic signaling pathway positive regulation of biological process regulation of signal transduction regulation of programmed cell death regulation of intrinsic apoptotic signaling pathway positive regulation of oxidative stress-induced neuron intrinsic apoptotic signaling pathway intracellular signal transduction positive regulation of apoptotic signaling pathway positive regulation of response to stimulus regulation of intracellular signal transduction intrinsic apoptotic signaling pathway positive regulation of neuron apoptotic process positive regulation of cellular process regulation of oxidative stress-induced neuron intrinsic apoptotic signaling pathway regulation of signaling positive regulation of programmed cell death regulation of apoptotic process positive regulation of intracellular signal transduction cell death positive regulation of apoptotic process neuron intrinsic apoptotic signaling pathway in response to oxidative stress apoptotic signaling pathway regulation of response to stimulus positive regulation of oxidative stress-induced intrinsic apoptotic signaling pathway regulation of cell communication positive regulation of intrinsic apoptotic signaling pathway apoptotic process programmed cell death regulation of neuron apoptotic process regulation of apoptotic signaling pathway positive regulation of signaling collagen catabolic process collagen metabolic process response to hormone response to endogenous stimulus response to estrogen cellular developmental process cell projection organization cell development neuron projection development regeneration response to axon injury neuron projection regeneration neurogenesis axon regeneration neuron differentiation cell differentiation response to wounding peripheral nervous system axon regeneration plasma membrane bounded cell projection organization nervous system development axon development generation of neurons neuron development blood vessel morphogenesis tube development angiogenesis tube morphogenesis anatomical structure formation involved in morphogenesis head development face morphogenesis head morphogenesis face development body morphogenesis formation of primary germ layer embryonic morphogenesis embryo development gastrulation endoderm development endoderm formation endodermal cell differentiation response to activity bone trabecula formation skeletal system development bone trabecula morphogenesis skeletal system morphogenesis trabecula formation trabecula morphogenesis regulation of vascular associated smooth muscle cell proliferation cell population proliferation positive regulation of vascular associated smooth muscle cell proliferation regulation of smooth muscle cell proliferation positive regulation of cell population proliferation smooth muscle cell proliferation positive regulation of smooth muscle cell proliferation regulation of cell population proliferation muscle cell proliferation vascular associated smooth muscle cell proliferation tissue remodeling response to retinoic acid response to lipid cellular component disassembly extracellular matrix disassembly female pregnancy embryo implantation response to organonitrogen compound response to nitrogen compound response to amyloid-beta response to mechanical stimulus response to external stimulus cellular response to oxidative stress cellular response to chemical stress cellular response to oxygen-containing compound cellular response to reactive oxygen species positive regulation of locomotion regulation of cell motility positive regulation of cell migration regulation of locomotion positive regulation of cell motility regulation of cell migration cell migration cell motility locomotion cell chemotaxis chemotaxis macrophage chemotaxis macrophage migration leukocyte migration taxis immune system process mononuclear cell migration myeloid leukocyte migration leukocyte chemotaxis cellular response to organic cyclic compound cellular response to lipid response to estradiol cellular response to estradiol stimulus response to organic cyclic compound response to nicotine response to light stimulus cellular response to radiation response to UV cellular response to environmental stimulus cellular response to UV-A cellular response to light stimulus response to radiation cellular response to abiotic stimulus cellular response to UV response to UV-A proteolysis luteinization response to hyperoxia response to increased oxygen levels	cell periphery extracellular matrix external encapsulating structure collagen-containing extracellular matrix cellular anatomical entity intracellular anatomical structure sarcomere intracellular organelle organelle intracellular non-membrane-bounded organelle contractile muscle fiber cytoplasm supramolecular fiber myofibril cell periphery extracellular matrix external encapsulating structure collagen-containing extracellular matrix cellular anatomical entity intracellular anatomical structure sarcomere intracellular organelle organelle intracellular non-membrane-bounded organelle contractile muscle fiber cytoplasm supramolecular fiber myofibril supramolecular polymer supramolecular complex non-membrane-bounded organelle extracellular region extracellular space membrane-bounded organelle mitochondrion intracellular membrane-bounded organelle plasma membrane membrane nucleus
D, E, F	GZS-ASN-ASP-ALA-LEU-IML-EOE-NH2	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C	IPR021158	Peptidase M10A, cysteine switch, zinc binding site	Binding Site
A, B, C	IPR000562	Fibronectin type II domain	Domain
A, B, C	IPR021190	Peptidase M10A	Family
A, B, C	IPR006026	Peptidase, metallopeptidase	Domain
A, B, C	IPR033739	Peptidase M10A, catalytic domain	Domain
A, B, C	IPR018486	Hemopexin, conserved site	Conserved Site
A, B, C	IPR036375	Hemopexin-like domain superfamily	Homologous Superfamily
A, B, C	IPR036943	Fibronectin type II domain superfamily	Homologous Superfamily
A, B, C	IPR036365	PGBD-like superfamily	Homologous Superfamily
A, B, C	IPR001818	Peptidase M10, metallopeptidase	Domain
A, B, C	IPR013806	Kringle-like fold	Homologous Superfamily
A, B, C	IPR024079	Metallopeptidase, catalytic domain superfamily	Homologous Superfamily
A, B, C	IPR018487	Hemopexin-like repeats	Repeat
A, B, C	IPR000585	Hemopexin-like domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C	Pharos: P08253	glioblastoma Marfan syndrome rheumatoid arthritis thoracic aortic aneurysm oral submucous fibrosis nasopharyngeal carcinoma testicular germ cell tumor extrahepatic cholestasis breast carcinoma cirrhosis of liver myocardial infarction aortic aneurysm Neointima diabetic polyneuropathy lupus nephritis glioblastoma Marfan syndrome rheumatoid arthritis thoracic aortic aneurysm oral submucous fibrosis nasopharyngeal carcinoma testicular germ cell tumor extrahepatic cholestasis breast carcinoma cirrhosis of liver myocardial infarction aortic aneurysm Neointima diabetic polyneuropathy lupus nephritis bone disease pulmonary emphysema colorectal cancer alcoholic liver cirrhosis osteosarcoma calcinosis pulmonary fibrosis giant cell glioblastoma hypertensive disorder multicentric osteolysis, nodulosis, and arthropathy cutaneous leishmaniasis aortic disease diabetic autonomic neuropathy diabetic neuropathy bone cancer pancreatic intraductal papillary-mucinous carcinoma drug-induced liver injury malignant glioma pilocytic astrocytoma malignant pancreatic neoplasm psoriasis cancer subependymal giant cell astrocytoma adrenal cortex adenoma hypospadias ulcerative colitis interstitial lung disease cystic fibrosis X-linked mixed deafness with perilymphatic gusher intracerebral hemorrhage lung cancer pancreatic intraductal papillary-mucinous neoplasm Duchenne muscular dystrophy malignant mesothelioma primitive neuroectodermal tumor fetal growth restriction malignant tumor of nasopharynx breast disease stomach disease hepatocellular carcinoma adrenal cortex carcinoma Torg-Winchester syndrome idiopathic interstitial pneumonia diabetes mellitus intervertebral disc degenerative disorder Kienbock disease atopic eczema lung carcinoma Becker muscular dystrophy pancreatic ductal adenocarcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia Emery-Dreifuss muscular dystrophy breast cancer prostate disease medulloblastoma alcohol abuse colorectal carcinoma nasopharyngeal neoplasm intestinal disease astrocytic tumor oligodendroglioma liver disease atypical teratoid rhabdoid tumor osteonecrosis lung disease ovarian cancer

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
D, E, F	EOE
D, E, F	GZS
D, E, F	IML	Parent Component: ILE RESID: AA0336 PSI-MOD : N-methyl-L-isoleucine MOD:00341
D, E, F	NH2	RESID: AA0336 , AA0081 , AA0083 , AA0084 , AA0086 , AA0087 , AA0088 , AA0090 , AA0091 , AA0092 , AA0093 , AA0095 , AA0096 , AA0097 , AA0098 , AA0099 , AA0100 PSI-MOD : N-methyl-L-isoleucine MOD:00341 , L-alanine amide MOD:00090 , L-asparagine amide MOD:00092 , L-aspartic acid 1-amide MOD:00093 , L-glutamine amide MOD:00095 , L-glutamic acid 1-amide MOD:00096 , glycine amide MOD:00097 , L-isoleucine amide MOD:00099 , L-leucine amide MOD:00100 , L-lysine amide MOD:00101 , L-methionine amide MOD:00102 , L-proline amide MOD:00104 , L-serine amide MOD:00105 , L-threonine amide MOD:00106 , L-tryptophan amide MOD:00107 , L-tyrosine amide MOD:00108 , L-valine amide MOD:00109

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 R01GM133198.