Entry Database : PDB / ID : 4xbm Structure visualization Downloads & linksTitle X-ray crystal structure of Notch ligand Delta-like 1 ComponentsDelta-like protein 1 Details Keywords SIGNALING PROTEIN / ectodomain EGF-like repeat Ligand C2 domainFunction / homology Function and homology informationFunction Domain/homology Component
cerebellar molecular layer formation / regulation of skeletal muscle tissue growth / Notch signaling pathway involved in arterial endothelial cell fate commitment / skin epidermis development / proximal tubule development / negative regulation of epidermal cell differentiation / regulation of vascular endothelial growth factor signaling pathway / somite specification / lateral inhibition / loop of Henle development ... cerebellar molecular layer formation / regulation of skeletal muscle tissue growth / Notch signaling pathway involved in arterial endothelial cell fate commitment / skin epidermis development / proximal tubule development / negative regulation of epidermal cell differentiation / regulation of vascular endothelial growth factor signaling pathway / somite specification / lateral inhibition / loop of Henle development / skeletal muscle tissue growth / retina morphogenesis in camera-type eye / endothelial tip cell fate specification / MECP2 regulates transcription of neuronal ligands / nephron development / cerebellar Purkinje cell layer structural organization / negative regulation of cardiac muscle cell differentiation / marginal zone B cell differentiation / negative regulation of inner ear auditory receptor cell differentiation / regulation of somitogenesis / positive regulation of skeletal muscle tissue growth / compartment pattern specification / neuron fate specification / Constitutive Signaling by NOTCH1 t(7;9)(NOTCH1:M1580_K2555) Translocation Mutant / negative regulation of myeloid cell differentiation / negative regulation of glial cell apoptotic process / left/right axis specification / proximal/distal pattern formation / Tat protein binding / type B pancreatic cell development / neuronal stem cell population maintenance / astrocyte development / clathrin-dependent endocytosis / cell fate determination / negative regulation of myoblast differentiation / determination of left/right symmetry / Notch binding / regulation of growth / negative regulation of epithelial cell differentiation / organ growth / spinal cord development / negative regulation of interleukin-10 production / positive regulation of Notch signaling pathway / negative regulation of Notch signaling pathway / positive regulation of sprouting angiogenesis / heart looping / regulation of cell division / plasma membrane => GO:0005886 / positive regulation of endocytosis / negative regulation of cell differentiation / inner ear development / hemopoiesis / negative regulation of neuron differentiation / regulation of neurogenesis / regulation of cell adhesion / somitogenesis / energy homeostasis / Notch signaling pathway / Constitutive Signaling by NOTCH1 HD Domain Mutants / NOTCH2 Activation and Transmission of Signal to the Nucleus / Activated NOTCH1 Transmits Signal to the Nucleus / NOTCH3 Activation and Transmission of Signal to the Nucleus / adherens junction / Constitutive Signaling by NOTCH1 PEST Domain Mutants / Constitutive Signaling by NOTCH1 HD+PEST Domain Mutants / regulation of blood pressure / retina development in camera-type eye / cytoplasmic vesicle / scaffold protein binding / cell differentiation / membrane raft / apical plasma membrane / negative regulation of cell population proliferation / calcium ion binding / positive regulation of cell population proliferation / positive regulation of transcription by RNA polymerase II / extracellular region / plasma membrane Similarity search - Function Laminin - #140 / Immunoglobulin-like - #3510 / Delta/Serrate/lag-2 (DSL) protein / Notch ligand, N-terminal domain / Delta serrate ligand / N terminus of Notch ligand C2-like domain / DSL domain profile. / delta serrate ligand / EGF-like, conserved site / Human growth factor-like EGF ... Laminin - #140 / Immunoglobulin-like - #3510 / Delta/Serrate/lag-2 (DSL) protein / Notch ligand, N-terminal domain / Delta serrate ligand / N terminus of Notch ligand C2-like domain / DSL domain profile. / delta serrate ligand / EGF-like, conserved site / Human growth factor-like EGF / Laminin / Laminin / EGF-like domain / EGF-type aspartate/asparagine hydroxylation site / EGF-like calcium-binding, conserved site / Calcium-binding EGF-like domain signature. / Aspartic acid and asparagine hydroxylation site. / EGF-like calcium-binding domain / Calcium-binding EGF-like domain / Epidermal growth factor-like domain. / EGF-like domain profile. / Growth factor receptor cysteine-rich domain superfamily / EGF-like domain signature 2. / EGF-like domain signature 1. / EGF-like domain / Ribbon / Immunoglobulin-like / Sandwich / Mainly Beta Similarity search - Domain/homologyBiological species Homo sapiens (human)Method X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / molecular replacement / Resolution : 3.2 Å DetailsAuthors Kershaw, N.J. / Burgess, A.W. / Church, N.L. / Luo, C.S. / Adam, T.E. Funding support Australia, 1items Details Hide detailsOrganization Grant number Country National Health and Medical Research Council (NHMRC, Australia) 487922 Australia
CitationJournal : Biochem.J. / Year : 2015Title : Notch ligand delta-like1: X-ray crystal structure and binding affinity.Authors : Kershaw, N.J. / Church, N.L. / Griffin, M.D. / Luo, C.S. / Adams, T.E. / Burgess, A.W. History Deposition Dec 17, 2014 Deposition site : RCSB / Processing site : RCSBRevision 1.0 Mar 11, 2015 Provider : repository / Type : Initial releaseRevision 1.1 May 20, 2015 Group : Database referencesRevision 1.2 May 27, 2015 Group : Data collection / Structure summaryRevision 1.3 Sep 6, 2017 Group : Author supporting evidence / Data collection ... Author supporting evidence / Data collection / Database references / Derived calculations / Source and taxonomy / Structure summary Category : citation / diffrn_source ... citation / diffrn_source / entity / entity_src_gen / pdbx_audit_support / pdbx_struct_assembly / pdbx_struct_oper_list Item : _citation.journal_id_CSD / _diffrn_source.pdbx_synchrotron_site ... _citation.journal_id_CSD / _diffrn_source.pdbx_synchrotron_site / _entity.pdbx_description / _entity.src_method / _entity_src_gen.pdbx_alt_source_flag / _pdbx_audit_support.funding_organization / _pdbx_struct_assembly.oligomeric_details / _pdbx_struct_oper_list.symmetry_operation Revision 1.4 Jan 8, 2020 Group : Author supporting evidence / Data collection / Category : chem_comp / pdbx_audit_supportItem : _chem_comp.type / _pdbx_audit_support.funding_organizationRevision 1.5 Jul 29, 2020 Group : Data collection / Derived calculations / Structure summaryCategory : chem_comp / entity ... chem_comp / entity / pdbx_chem_comp_identifier / pdbx_entity_nonpoly / struct_conn / struct_site / struct_site_gen Item : _chem_comp.name / _chem_comp.type ... _chem_comp.name / _chem_comp.type / _entity.pdbx_description / _pdbx_entity_nonpoly.name / _struct_conn.pdbx_role Description : Carbohydrate remediation / Provider : repository / Type : RemediationRevision 1.6 Sep 27, 2023 Group : Data collection / Database references ... Data collection / Database references / Refinement description / Structure summary Category : chem_comp / chem_comp_atom ... chem_comp / chem_comp_atom / chem_comp_bond / database_2 / pdbx_initial_refinement_model Item : _chem_comp.pdbx_synonyms / _database_2.pdbx_DOI / _database_2.pdbx_database_accession
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