2NZ6

Crystal structure of the PTPRJ inactivating mutant C1239S

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
Pharos: Disease Associations

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d2nz6a1	Alpha and beta proteins (a/b)	(Phosphotyrosine protein) phosphatases II	(Phosphotyrosine protein) phosphatases II	automated matches	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d2nz6a2	Artifacts	Tags	Tags	Tags	N-terminal Tags	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	(Phosphotyrosine protein) phosphatases II	8078043	3000304	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	Y_phosphatase	e2nz6A1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Flavoproteins/Phosphotyrosine protein phosphatases-like	T: (Phosphotyrosine protein) phosphatases II	F: Y_phosphatase	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.90.190.10	Alpha Beta	Alpha-Beta Complex	Protein-Tyrosine Phosphatase	Chain A	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00102	Protein-tyrosine phosphatase (Y_phosphatase)	Protein-tyrosine phosphatase	-	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Receptor-type tyrosine-protein phosphatase eta	protein binding binding signaling receptor binding platelet-derived growth factor receptor binding growth factor receptor binding phosphoric ester hydrolase activity hydrolase activity, acting on ester bonds phosphatase activity hydrolase activity catalytic activity delta-catenin binding cell adhesion molecule binding cadherin binding kinase binding protein binding binding signaling receptor binding platelet-derived growth factor receptor binding growth factor receptor binding phosphoric ester hydrolase activity hydrolase activity, acting on ester bonds phosphatase activity hydrolase activity catalytic activity delta-catenin binding cell adhesion molecule binding cadherin binding kinase binding enzyme binding protein kinase binding mitogen-activated protein kinase binding gamma-catenin binding phosphoprotein phosphatase activity catalytic activity, acting on a protein protein tyrosine phosphatase activity beta-catenin binding	multicellular organismal process regulation of body fluid levels wound healing response to stimulus hemostasis biological regulation blood coagulation response to stress coagulation regulation of biological quality response to wounding regulation of biological process cell adhesion regulation of cellular process multicellular organismal process regulation of body fluid levels wound healing response to stimulus hemostasis biological regulation blood coagulation response to stress coagulation regulation of biological quality response to wounding regulation of biological process cell adhesion regulation of cellular process regulation of cell adhesion cellular process cellular response to stimulus cell surface receptor signaling pathway signaling response to cytokine cytokine-mediated signaling pathway cell communication response to peptide response to chemical cellular response to cytokine stimulus signal transduction developmental process heart development multicellular organism development anatomical structure development animal organ development circulatory system development system development positive regulation of cell communication positive regulation of signal transduction positive regulation of biological process regulation of signal transduction intracellular signal transduction positive regulation of response to stimulus regulation of intracellular signal transduction intracellular signaling cassette regulation of calcium-mediated signaling positive regulation of calcium-mediated signaling positive regulation of cellular process regulation of signaling positive regulation of intracellular signal transduction regulation of response to stimulus calcium-mediated signaling regulation of cell communication positive regulation of signaling negative regulation of signaling negative regulation of biological process regulation of platelet-derived growth factor receptor signaling pathway negative regulation of cell communication cell surface receptor protein tyrosine kinase signaling pathway negative regulation of cellular process enzyme-linked receptor protein signaling pathway negative regulation of response to stimulus negative regulation of platelet-derived growth factor receptor signaling pathway platelet-derived growth factor receptor signaling pathway negative regulation of signal transduction regulation of catalytic activity negative regulation of catalytic activity regulation of transferase activity regulation of MAP kinase activity regulation of primary metabolic process negative regulation of kinase activity negative regulation of transferase activity regulation of phosphate metabolic process phosphate-containing compound metabolic process 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 primary metabolic process regulation of MAPK cascade regulation of molecular function regulation of kinase activity negative regulation of protein phosphorylation regulation of protein serine/threonine kinase activity macromolecule modification regulation of phosphorus metabolic process metabolic process macromolecule metabolic process regulation of metabolic process regulation of protein modification process regulation of protein phosphorylation negative regulation of intracellular signal transduction negative regulation of phosphate metabolic process negative regulation of protein serine/threonine kinase activity protein metabolic process negative regulation of macromolecule metabolic process 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 phosphorus metabolic process MAPK cascade regulation of phosphorylation negative regulation of phosphorylation negative regulation of MAPK cascade regulation of growth regulation of cellular component organization growth negative regulation of cell growth regulation of cell growth cell growth cellular component organization negative regulation of growth cellular component organization or biogenesis positive chemotaxis chemotaxis taxis response to external stimulus locomotion negative regulation of ERBB signaling pathway regulation of epidermal growth factor receptor signaling pathway epidermal growth factor receptor signaling pathway regulation of ERBB signaling pathway negative regulation of epidermal growth factor receptor signaling pathway ERBB signaling pathway regulation of localization import into cell positive regulation of cellular component organization transport vesicle-mediated transport localization positive regulation of endocytosis phagocytosis regulation of endocytosis regulation of transport regulation of phagocytosis regulation of vesicle-mediated transport establishment of localization positive regulation of phagocytosis positive regulation of transport endocytosis cell-substrate junction assembly positive regulation of cell-substrate junction organization cellular component biogenesis cellular component assembly cell junction assembly positive regulation of cell-substrate adhesion regulation of cell-substrate junction organization focal adhesion assembly positive regulation of focal adhesion assembly positive regulation of cellular component biogenesis regulation of cell-substrate adhesion positive regulation of cell adhesion cell-substrate adhesion positive regulation of cell-matrix adhesion regulation of cellular component biogenesis regulation of cell junction assembly positive regulation of cell junction assembly cell junction organization cell-matrix adhesion regulation of cell-matrix adhesion cell-substrate junction organization regulation of focal adhesion assembly regulation of cell-substrate junction assembly negative regulation of vascular permeability regulation of vascular permeability system process circulatory system process vascular process in circulatory system blood circulation cellular response to nitrogen compound response to peptide hormone insulin receptor signaling pathway regulation of cellular response to insulin stimulus cellular response to endogenous stimulus response to hormone cellular response to hormone stimulus response to endogenous stimulus regulation of insulin receptor signaling pathway 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 negative regulation of cellular response to insulin stimulus negative regulation of insulin receptor signaling pathway response to insulin cellular response to insulin stimulus positive regulation of locomotion regulation of cell motility macrophage migration positive regulation of chemotaxis positive regulation of cell migration cell migration regulation of immune system process regulation of mononuclear cell migration positive regulation of immune system process regulation of leukocyte chemotaxis positive regulation of macrophage migration regulation of leukocyte migration positive regulation of leukocyte chemotaxis granulocyte migration leukocyte migration regulation of locomotion regulation of response to external stimulus macrophage chemotaxis regulation of granulocyte chemotaxis regulation of macrophage migration positive regulation of response to external stimulus positive regulation of cell motility regulation of cell migration myeloid leukocyte migration positive regulation of mononuclear cell migration cell motility cell chemotaxis regulation of macrophage chemotaxis positive regulation of leukocyte migration regulation of chemotaxis immune system process granulocyte chemotaxis mononuclear cell migration positive regulation of macrophage chemotaxis leukocyte chemotaxis immune response-regulating cell surface receptor signaling pathway regulation of antigen receptor-mediated signaling pathway negative regulation of antigen receptor-mediated signaling pathway immune response-activating signaling pathway immune response-regulating signaling pathway positive regulation of immune response immune response-activating cell surface receptor signaling pathway immune response regulation of T cell receptor signaling pathway T cell receptor signaling pathway negative regulation of T cell receptor signaling pathway negative regulation of immune system process regulation of immune response antigen receptor-mediated signaling pathway activation of immune response negative regulation of locomotion negative regulation of cell motility negative regulation of cell migration regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction negative regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction phosphatidylinositol 3-kinase/protein kinase B signal transduction regulation of Fc receptor mediated stimulatory signaling pathway Fc receptor mediated stimulatory signaling pathway positive regulation of Fc receptor mediated stimulatory signaling pathway chemical homeostasis homeostatic process glucose homeostasis carbohydrate homeostasis cellular developmental process hemopoiesis B cell activation cell activation cell development mononuclear cell differentiation lymphocyte differentiation lymphocyte activation leukocyte activation B cell differentiation cell differentiation leukocyte differentiation nervous system development neurogenesis central nervous system development gliogenesis oligodendrocyte differentiation glial cell differentiation blood vessel morphogenesis tube development angiogenesis vasculature development anatomical structure morphogenesis tube morphogenesis anatomical structure formation involved in morphogenesis blood vessel development positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction positive regulation of MAPK cascade platelet morphogenesis cell morphogenesis myeloid cell differentiation platelet formation vasculogenesis negative regulation of cell population proliferation cell population proliferation regulation of cell population proliferation protein dephosphorylation dephosphorylation peptidyl-tyrosine dephosphorylation regulation of cell activation positive regulation of platelet activation positive regulation of cell activation regulation of multicellular organismal process regulation of platelet activation positive regulation of multicellular organismal process platelet activation regulation of tumor necrosis factor production positive regulation of macromolecule biosynthetic process positive regulation of metabolic process positive regulation of tumor necrosis factor superfamily cytokine production positive regulation of biosynthetic process cytokine production regulation of cytokine production positive regulation of macromolecule metabolic process regulation of biosynthetic process tumor necrosis factor superfamily cytokine production positive regulation of tumor necrosis factor production gene expression macromolecule biosynthetic process tumor necrosis factor production regulation of gene expression regulation of tumor necrosis factor superfamily cytokine production biosynthetic process positive regulation of gene expression regulation of macromolecule biosynthetic process positive regulation of cytokine production detection of stimulus contact inhibition detection of cell density detection of biotic stimulus response to biotic stimulus positive regulation of phosphorylation positive regulation of protein metabolic process peptidyl-tyrosine modification positive regulation of phosphate metabolic process positive regulation of peptidyl-tyrosine phosphorylation positive regulation of protein modification process peptidyl-amino acid modification positive regulation of protein phosphorylation positive regulation of phosphorus metabolic process regulation of peptidyl-tyrosine phosphorylation peptidyl-tyrosine phosphorylation	membrane-bounded organelle intracellular anatomical structure membrane intracellular vesicle intracellular membrane-bounded organelle endomembrane system specific granule membrane intracellular organelle cytoplasmic vesicle membrane cellular anatomical structure bounding membrane of organelle vesicle membrane cytoplasmic vesicle organelle membrane-bounded organelle intracellular anatomical structure membrane intracellular vesicle intracellular membrane-bounded organelle endomembrane system specific granule membrane intracellular organelle cytoplasmic vesicle membrane cellular anatomical structure bounding membrane of organelle vesicle membrane cytoplasmic vesicle organelle secretory granule secretory vesicle cytoplasm vesicle organelle membrane secretory granule membrane specific granule cell-cell junction anchoring junction cell junction extracellular exosome extracellular vesicle extracellular organelle extracellular region extracellular space extracellular membrane-bounded organelle ruffle cell leading edge plasma membrane leading edge membrane plasma membrane bounded cell projection cell periphery cell projection ruffle membrane plasma membrane region cell projection membrane cell surface immunological synapse

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR016130	Protein-tyrosine phosphatase, active site	Active Site
A	IPR041201	PTPRJ, transmembrane domain	Domain
A	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
A	IPR003595	Protein-tyrosine phosphatase, catalytic	Domain
A	IPR050713	Receptor-type Tyrosine-protein Phosphatases/Ushers	Family
A	IPR029021	Protein-tyrosine phosphatase-like	Homologous Superfamily
A	IPR003961	Fibronectin type III	Domain
A	IPR000242	Tyrosine-specific protein phosphatase, PTPase domain	Domain
A	IPR000387	Tyrosine-specific protein phosphatases domain	Domain
A	IPR036116	Fibronectin type III superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: Q12913	childhood acute lymphoblastic leukemia colorectal cancer interstitial cystitis malignant colon neoplasm MALT lymphoma pancreatic intraductal papillary-mucinous carcinoma chronic obstructive pulmonary disease endogenous depression juvenile dermatomyositis malignant ependymoma medulloblastoma pancreatic intraductal papillary-mucinous neoplasm colon carcinoma hypertensive disorder large cell medulloblastoma childhood acute lymphoblastic leukemia colorectal cancer interstitial cystitis malignant colon neoplasm MALT lymphoma pancreatic intraductal papillary-mucinous carcinoma chronic obstructive pulmonary disease endogenous depression juvenile dermatomyositis malignant ependymoma medulloblastoma pancreatic intraductal papillary-mucinous neoplasm colon carcinoma hypertensive disorder large cell medulloblastoma malignant mesothelioma ovarian cancer pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia

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.