Entry Database : PDB / ID : 6nmw Structure visualization Downloads & linksTitle Crystal structure of the human Lyn SH3 domain ComponentsTyrosine-protein kinase Lyn Details Keywords ONCOPROTEIN / LYN kinase / Src family kinase / non-receptor tyrosine kinase / SH3 domainFunction / homology Function and homology informationFunction Domain/homology Component
C-X-C chemokine receptor CXCR4 signaling pathway / negative regulation of intracellular signal transduction / Fc receptor mediated stimulatory signaling pathway / response to sterol depletion / regulation of mast cell activation / positive regulation of stress-activated protein kinase signaling cascade / regulation of monocyte chemotaxis / negative regulation of myeloid leukocyte differentiation / eosinophil differentiation / positive regulation of Fc receptor mediated stimulatory signaling pathway ... C-X-C chemokine receptor CXCR4 signaling pathway / negative regulation of intracellular signal transduction / Fc receptor mediated stimulatory signaling pathway / response to sterol depletion / regulation of mast cell activation / positive regulation of stress-activated protein kinase signaling cascade / regulation of monocyte chemotaxis / negative regulation of myeloid leukocyte differentiation / eosinophil differentiation / positive regulation of Fc receptor mediated stimulatory signaling pathway / tolerance induction to self antigen / positive regulation of dendritic cell apoptotic process / positive regulation of oligodendrocyte progenitor proliferation / Fc receptor mediated inhibitory signaling pathway / regulation of B cell receptor signaling pathway / integrin alpha2-beta1 complex / negative regulation of toll-like receptor 2 signaling pathway / immune response-regulating cell surface receptor signaling pathway / positive regulation of mast cell proliferation / negative regulation of mast cell proliferation / glycosphingolipid binding / phosphorylation-dependent protein binding / positive regulation of aspartic-type endopeptidase activity involved in amyloid precursor protein catabolic process / negative regulation of toll-like receptor 4 signaling pathway / platelet degranulation / regulation of mast cell degranulation / dendritic cell differentiation / : / regulation of platelet aggregation / regulation of B cell apoptotic process / oligodendrocyte development / histamine secretion by mast cell / phosphatidylinositol 3-kinase activator activity / Signaling by Erythropoietin / Platelet Adhesion to exposed collagen / Erythropoietin activates STAT5 / Erythropoietin activates Phospholipase C gamma (PLCG) / interleukin-5-mediated signaling pathway / CD28 co-stimulation / negative regulation of immune response / regulation of release of sequestered calcium ion into cytosol / CD22 mediated BCR regulation / gamma-tubulin binding / response to carbohydrate / platelet-derived growth factor receptor binding / Fc epsilon receptor (FCERI) signaling / EPH-Ephrin signaling / toll-like receptor 4 signaling pathway / Regulation of KIT signaling / postsynaptic specialization, intracellular component / CTLA4 inhibitory signaling / leukocyte migration / EPHA-mediated growth cone collapse / Erythropoietin activates Phosphoinositide-3-kinase (PI3K) / Fc-gamma receptor signaling pathway involved in phagocytosis / Dectin-2 family / negative regulation of B cell proliferation / Fc-epsilon receptor signaling pathway / mitochondrial crista / stimulatory C-type lectin receptor signaling pathway / PECAM1 interactions / regulation of cell adhesion mediated by integrin / B cell homeostasis / FCGR activation / EPH-ephrin mediated repulsion of cells / response to axon injury / ephrin receptor signaling pathway / response to amino acid / Role of LAT2/NTAL/LAB on calcium mobilization / growth hormone receptor signaling pathway via JAK-STAT / hematopoietic progenitor cell differentiation / Erythropoietin activates RAS / Growth hormone receptor signaling / cellular response to retinoic acid / positive regulation of glial cell proliferation / Signaling by CSF3 (G-CSF) / positive regulation of tyrosine phosphorylation of STAT protein / regulation of cytokine production / lipopolysaccharide-mediated signaling pathway / negative regulation of inflammatory response to antigenic stimulus / GPVI-mediated activation cascade / EPHB-mediated forward signaling / T cell costimulation / extrinsic component of cytoplasmic side of plasma membrane / CD209 (DC-SIGN) signaling / ephrin receptor binding / response to hormone / FCERI mediated Ca+2 mobilization / erythrocyte differentiation / FCGR3A-mediated IL10 synthesis / regulation of ERK1 and ERK2 cascade / negative regulation of MAP kinase activity / negative regulation of protein phosphorylation / Signaling by phosphorylated juxtamembrane, extracellular and kinase domain KIT mutants / Antigen activates B Cell Receptor (BCR) leading to generation of second messengers / Regulation of signaling by CBL / Cell surface interactions at the vascular wall / FCGR3A-mediated phagocytosis / FCERI mediated MAPK activation / phosphoprotein binding Similarity search - Function Tyrosine-protein kinase Lyn, SH3 domain / Tyrosine-protein kinase Lyn, SH2 domain / SH3 Domains / SH3 domain / SH2 domain / Src homology 2 (SH2) domain profile. / Src homology 2 domains / SH2 domain / Src homology 3 domains / SH3 type barrels. ... Tyrosine-protein kinase Lyn, SH3 domain / Tyrosine-protein kinase Lyn, SH2 domain / SH3 Domains / SH3 domain / SH2 domain / Src homology 2 (SH2) domain profile. / Src homology 2 domains / SH2 domain / Src homology 3 domains / SH3 type barrels. / SH2 domain superfamily / SH3-like domain superfamily / Src homology 3 (SH3) domain profile. / SH3 domain / Tyrosine-protein kinase, catalytic domain / Tyrosine kinase, catalytic domain / Tyrosine protein kinases specific active-site signature. / Tyrosine-protein kinase, active site / Protein tyrosine and serine/threonine kinase / Serine-threonine/tyrosine-protein kinase, catalytic domain / Roll / Protein kinase, ATP binding site / Protein kinases ATP-binding region signature. / Protein kinase domain profile. / Protein kinase domain / Protein kinase-like domain superfamily / Mainly Beta Similarity search - Domain/homologyBiological species Homo sapiens (human)Method X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution : 1.199 Å DetailsAuthors Berndt, S. / Gurevich, V.V. / Iverson, T.M. Funding support United States, 3items Details Hide detailsOrganization Grant number Country National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS) GM120569 United States National Institutes of Health/National Human Genome Research Institute (NIH/NHGRI) GMI122491 United States National Institutes of Health/National Human Genome Research Institute (NIH/NHGRI) DA043680 United States
CitationJournal : PLoS ONE / Year : 2019Title : Crystal structure of the SH3 domain of human Lyn non-receptor tyrosine kinase.Authors : Berndt, S. / Gurevich, V.V. / Iverson, T.M. History Deposition Jan 12, 2019 Deposition site : RCSB / Processing site : RCSBRevision 1.0 Apr 17, 2019 Provider : repository / Type : Initial releaseRevision 1.1 Apr 24, 2019 Group : Data collection / Database references / Category : citation / citation_authorItem : _citation.country / _citation.journal_abbrev ... _citation.country / _citation.journal_abbrev / _citation.journal_id_CSD / _citation.journal_id_ISSN / _citation.journal_volume / _citation.page_first / _citation.page_last / _citation.pdbx_database_id_DOI / _citation.pdbx_database_id_PubMed / _citation.title / _citation.year / _citation_author.identifier_ORCID Revision 1.2 Dec 18, 2019 Group : Author supporting evidence / Category : pdbx_audit_support / Item : _pdbx_audit_support.funding_organizationRevision 1.3 Oct 11, 2023 Group : Data collection / Database references / Refinement descriptionCategory : chem_comp_atom / chem_comp_bond ... chem_comp_atom / chem_comp_bond / database_2 / pdbx_initial_refinement_model Item : _database_2.pdbx_DOI / _database_2.pdbx_database_accession
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