Entry Database : PDB / ID : 7d6f Structure visualization Downloads & linksTitle The crystal structure of ARMS-PBM/MAGI2-PDZ4 ComponentsKinase D-interacting substrate of 220 kDa Membrane-associated guanylate kinase, WW and PDZ domain-containing protein 2 DetailsKeywords STRUCTURAL PROTEIN / PBM/PDZ interaction / scaffold protein / synaptic polaricityFunction / homology Function and homology informationFunction Domain/homology Component
ARMS-mediated activation / structural constituent of postsynaptic specialization / extrinsic component of postsynaptic membrane / type II activin receptor binding / neuroligin clustering involved in postsynaptic membrane assembly / podocyte development / positive regulation of synaptic vesicle clustering / slit diaphragm / beta-1 adrenergic receptor binding / structural constituent of postsynaptic density ... ARMS-mediated activation / structural constituent of postsynaptic specialization / extrinsic component of postsynaptic membrane / type II activin receptor binding / neuroligin clustering involved in postsynaptic membrane assembly / podocyte development / positive regulation of synaptic vesicle clustering / slit diaphragm / beta-1 adrenergic receptor binding / structural constituent of postsynaptic density / activin receptor binding / nerve growth factor signaling pathway / clathrin-dependent endocytosis / SMAD protein signal transduction / negative regulation of activin receptor signaling pathway / protein kinase regulator activity / dendrite morphogenesis / regulation of neurotransmitter receptor localization to postsynaptic specialization membrane / regulation of synaptic membrane adhesion / ciliary base / receptor clustering / SMAD binding / kinesin binding / positive regulation of phosphoprotein phosphatase activity / positive regulation of receptor internalization / photoreceptor outer segment / GABA-ergic synapse / bicellular tight junction / negative regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction / phosphatase binding / centriole / photoreceptor inner segment / negative regulation of cell migration / cellular response to nerve growth factor stimulus / PDZ domain binding / positive regulation of neuron projection development / cell-cell junction / signaling receptor complex adaptor activity / late endosome / in utero embryonic development / membrane => GO:0016020 / postsynaptic density / negative regulation of cell population proliferation / centrosome / glutamatergic synapse / synapse / dendrite / protein-containing complex binding / protein kinase binding / perinuclear region of cytoplasm / signal transduction / protein-containing complex / nucleus / plasma membrane / cytoplasm / cytosol Similarity search - Function KAP family P-loop domain / KAP family P-loop domain / Unstructured region on MAGI / Domain of unknown function DUF3447 / Guanylate kinase, conserved site / Guanylate kinase-like signature. / Guanylate kinase-like domain profile. / Guanylate kinase-like domain / Guanylate kinase/L-type calcium channel beta subunit / Guanylate kinase ... KAP family P-loop domain / KAP family P-loop domain / Unstructured region on MAGI / Domain of unknown function DUF3447 / Guanylate kinase, conserved site / Guanylate kinase-like signature. / Guanylate kinase-like domain profile. / Guanylate kinase-like domain / Guanylate kinase/L-type calcium channel beta subunit / Guanylate kinase / Guanylate kinase homologues. / WW domain / WW/rsp5/WWP domain signature. / WW domain superfamily / WW/rsp5/WWP domain profile. / Domain with 2 conserved Trp (W) residues / WW domain / Sterile alpha motif/pointed domain superfamily / PDZ domain / PDZ domain profile. / Domain present in PSD-95, Dlg, and ZO-1/2. / PDZ domain / Ankyrin repeats (3 copies) / PDZ superfamily / Ankyrin repeat profile. / Ankyrin repeat region circular profile. / ankyrin repeats / Ankyrin repeat / Ankyrin repeat-containing domain superfamily / P-loop containing nucleoside triphosphate hydrolase Similarity search - Domain/homology Kinase D-interacting substrate of 220 kDa / Membrane-associated guanylate kinase, WW and PDZ domain-containing protein 2 Similarity search - ComponentBiological species Mus musculus (house mouse)Rattus norvegicus (Norway rat)Method X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution : 3.001 Å DetailsAuthors Ye, J. / Zhang, Y. / Zhong, Z. / Wang, C. CitationJournal : Neurochem.Int. / Year : 2021Title : Crystal structure of the PDZ4 domain of MAGI2 in complex with PBM of ARMS reveals a canonical PDZ recognition mode.Authors : Zhang, Y. / Zhong, Z. / Ye, J. / Wang, C. History Deposition Sep 30, 2020 Deposition site : PDBJ / Processing site : PDBJRevision 1.0 Nov 4, 2020 Provider : repository / Type : Initial releaseRevision 2.0 Sep 1, 2021 Group : Advisory / Atomic model ... Advisory / Atomic model / Author supporting evidence / Data collection / Database references / Derived calculations / Non-polymer description / Refinement description / Structure summary Category : atom_site / atom_site_anisotrop ... atom_site / atom_site_anisotrop / audit_author / chem_comp / citation_author / database_2 / entity / pdbx_entity_instance_feature / pdbx_entity_nonpoly / pdbx_entry_details / pdbx_nonpoly_scheme / pdbx_poly_seq_scheme / pdbx_refine_tls / pdbx_refine_tls_group / pdbx_struct_assembly_gen / pdbx_struct_assembly_prop / pdbx_struct_sheet_hbond / pdbx_validate_rmsd_angle / pdbx_validate_symm_contact / pdbx_validate_torsion / refine / refine_hist / refine_ls_shell / reflns / software / struct_asym / struct_conf / struct_sheet / struct_sheet_order / struct_sheet_range Item : _audit_author.name / _chem_comp.formula ... _audit_author.name / _chem_comp.formula / _chem_comp.formula_weight / _chem_comp.id / _chem_comp.mon_nstd_flag / _chem_comp.name / _chem_comp.pdbx_synonyms / _chem_comp.type / _citation_author.name / _database_2.pdbx_DOI / _database_2.pdbx_database_accession / _pdbx_poly_seq_scheme.auth_mon_id / _pdbx_refine_tls.L[1][1] / _pdbx_refine_tls.L[1][2] / _pdbx_refine_tls.L[1][3] / _pdbx_refine_tls.L[2][2] / _pdbx_refine_tls.L[2][3] / _pdbx_refine_tls.L[3][3] / _pdbx_refine_tls.S[1][1] / _pdbx_refine_tls.S[1][2] / _pdbx_refine_tls.S[1][3] / _pdbx_refine_tls.S[2][1] / _pdbx_refine_tls.S[2][2] / _pdbx_refine_tls.S[2][3] / _pdbx_refine_tls.S[3][1] / _pdbx_refine_tls.S[3][2] / _pdbx_refine_tls.S[3][3] / _pdbx_refine_tls.T[1][1] / _pdbx_refine_tls.T[1][2] / _pdbx_refine_tls.T[1][3] / _pdbx_refine_tls.T[2][2] / _pdbx_refine_tls.T[2][3] / _pdbx_refine_tls.T[3][3] / _pdbx_refine_tls.origin_x / _pdbx_refine_tls.origin_y / _pdbx_refine_tls.origin_z / _pdbx_struct_assembly_gen.asym_id_list / _pdbx_struct_assembly_prop.value / _refine.B_iso_max / _refine.B_iso_mean / _refine.B_iso_min / _refine.ls_R_factor_R_free / _refine.ls_R_factor_R_work / _refine.ls_R_factor_obs / _refine.ls_d_res_high / _refine.ls_number_reflns_R_free / _refine.ls_number_reflns_R_work / _refine.ls_number_reflns_obs / _refine.ls_percent_reflns_R_free / _refine.ls_percent_reflns_obs / _refine.overall_SU_ML / _refine.pdbx_ls_sigma_F / _refine.pdbx_overall_phase_error / _refine.pdbx_starting_model / _refine_hist.d_res_high / _refine_hist.number_atoms_solvent / _refine_hist.number_atoms_total / _refine_hist.pdbx_B_iso_mean_ligand / _refine_hist.pdbx_B_iso_mean_solvent / _refine_hist.pdbx_number_atoms_ligand / _refine_ls_shell.R_factor_R_free / _refine_ls_shell.R_factor_R_work / _refine_ls_shell.d_res_high / _refine_ls_shell.d_res_low / _refine_ls_shell.number_reflns_R_free / _refine_ls_shell.number_reflns_R_work / _refine_ls_shell.percent_reflns_obs / _reflns.B_iso_Wilson_estimate / _reflns.d_resolution_high / _reflns.pdbx_number_measured_all / _software.version / _struct_conf.end_auth_comp_id / _struct_conf.end_auth_seq_id / _struct_conf.end_label_comp_id / _struct_conf.end_label_seq_id / _struct_conf.pdbx_PDB_helix_length / _struct_sheet.number_strands Description : Real space R-factorDetails : To cut off the high resolution to 3.0 Angstrom when running the refinement program.Provider : author / Type : Coordinate replacementRevision 2.1 Nov 17, 2021 Group : 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.name Revision 2.2 Nov 29, 2023 Group : Data collection / Refinement descriptionCategory : chem_comp_atom / chem_comp_bond / pdbx_initial_refinement_model
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