{ "code": "SASDDG8", "status": "Published", "type_of_curve": "Merged", "angular_unit": "1/nm", "project": { "title": "Integrin α6β4 Recognition of a Linear Motif of Bullous Pemphigoid Antigen BP230 Controls Its Recruitment to Hemidesmosomes.", "publication": { "title": "Integrin α6β4 Recognition of a Linear Motif of Bullous Pemphigoid Antigen BP230 Controls Its Recruitment to Hemidesmosomes.", "author_list": "Manso JA, Gómez-Hernández M, Carabias A, Alonso-García N, García-Rubio I, Kreft M, Sonnenberg A, de Pereda JM", "journal": "Structure", "doi": "10.1016/j.str.2019.03.016", "pmid": "31006587", "published_date": "2019 Jun 4" }, "status": "released", "submitted_date": "2018-06-07", "released_date": "2019-03-14" }, "pddf_data": "https://www.sasbdb.org/media/p_of_R_files/SASDDG8.out", "intensities_data": "https://www.sasbdb.org/media/intensities_files/SASDDG8.dat", "intensities_log_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDDG8_dat_img.png", "intensities_kratky_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDDG8_kratky_img.png", "pddf_plot": "https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDDG8_pofr_img.png", "intensities_guinier_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDDG8_guinier_img.png", "sascif_data": "https://www.sasbdb.org/media/sascif/sascif_files/SASDDG8.sascif", "experiment": { "instrument": { "detector": { "type": null, "name": "Pilatus 2M", "resolution": null }, "name": "PETRA III", "city": "DESY; Hamburg", "country": "Germany", "beamline_name": "EMBL P12", "beam_geometry": null, "type_of_source": "X-ray synchrotron", "point_source": null, "line_collimation": null, "sample_path_length": null, "line_collimation_slitlength": null, "line_collimation_integrationwidth": null, "xray_energy": null, "beam_profile_ah": null, "beam_profile_al": null }, "sample": { "molecule": [ { "long_name": "Integrin beta-4 (1436-1666) R1463A", "short_name": "B4 CS-FnIII-3,4", "sequence": "GSHM LPRDY\r\nSTLTSVSSHDSRLTAGVPDTPTALVFSALGPTSLRVSWQEPRCERPLQGYSVEYQLLNGG\r\nELHRLNIPNPAQTSVVVEDLLPNHSYVFRVRAQSQEGWGREREGVITIESQVHPQSPLCP \r\nLPGSAFTLSTPSAPGPLVFTALSPDSLQLSWERPRRPNGDIVGYLVTCEMAQGGGPATAF\r\nRVDGDSPESRLTVPGLSENVPYKFKVQARTTEGFGPEREGIITIES", "organism": "Homo sapiens", "uniprot_code": "P16144", "uniprot_range_first": 1436, "uniprot_range_last": 1666, "oligomerization": "monomer", "molecular_type": "protein", "uniprot_sequence": "MAGPRPSPWARLLLAALISVSLSGTLANRCKKAPVKSCTECVRVDKDCAYCTDEMFRDRR\nCNTQAELLAAGCQRESIVVMESSFQITEETQIDTTLRRSQMSPQGLRVRLRPGEERHFEL\nEVFEPLESPVDLYILMDFSNSMSDDLDNLKKMGQNLARVLSQLTSDYTIGFGKFVDKVSV\nPQTDMRPEKLKEPWPNSDPPFSFKNVISLTEDVDEFRNKLQGERISGNLDAPEGGFDAIL\nQTAVCTRDIGWRPDSTHLLVFSTESAFHYEADGANVLAGIMSRNDERCHLDTTGTYTQYR\nTQDYPSVPTLVRLLAKHNIIPIFAVTNYSYSYYEKLHTYFPVSSLGVLQEDSSNIVELLE\nEAFNRIRSNLDIRALDSPRGLRTEVTSKMFQKTRTGSFHIRRGEVGIYQVQLRALEHVDG\nTHVCQLPEDQKGNIHLKPSFSDGLKMDAGIICDVCTCELQKEVRSARCSFNGDFVCGQCV\nCSEGWSGQTCNCSTGSLSDIQPCLREGEDKPCSGRGECQCGHCVCYGEGRYEGQFCEYDN\nFQCPRTSGFLCNDRGRCSMGQCVCEPGWTGPSCDCPLSNATCIDSNGGICNGRGHCECGR\nCHCHQQSLYTDTICEINYSAIHPGLCEDLRSCVQCQAWGTGEKKGRTCEECNFKVKMVDE\nLKRAEEVVVRCSFRDEDDDCTYSYTMEGDGAPGPNSTVLVHKKKDCPPGSFWWLIPLLLL\nLLPLLALLLLLCWKYCACCKACLALLPCCNRGHMVGFKEDHYMLRENLMASDHLDTPMLR\nSGNLKGRDVVRWKVTNNMQRPGFATHAASINPTELVPYGLSLRLARLCTENLLKPDTREC\nAQLRQEVEENLNEVYRQISGVHKLQQTKFRQQPNAGKKQDHTIVDTVLMAPRSAKPALLK\nLTEKQVEQRAFHDLKVAPGYYTLTADQDARGMVEFQEGVELVDVRVPLFIRPEDDDEKQL\nLVEAIDVPAGTATLGRRLVNITIIKEQARDVVSFEQPEFSVSRGDQVARIPVIRRVLDGG\nKSQVSYRTQDGTAQGNRDYIPVEGELLFQPGEAWKELQVKLLELQEVDSLLRGRQVRRFH\nVQLSNPKFGAHLGQPHSTTIIIRDPDELDRSFTSQMLSSQPPPHGDLGAPQNPNAKAAGS\nRKIHFNWLPPSGKPMGYRVKYWIQGDSESEAHLLDSKVPSVELTNLYPYCDYEMKVCAYG\nAQGEGPYSSLVSCRTHQEVPSEPGRLAFNVVSSTVTQLSWAEPAETNGEITAYEVCYGLV\nNDDNRPIGPMKKVLVDNPKNRMLLIENLRESQPYRYTVKARNGAGWGPEREAIINLATQP\nKRPMSIPIIPDIPIVDAQSGEDYDSFLMYSDDVLRSPSGSQRPSVSDDTGCGWKFEPLLG\nEELDLRRVTWRLPPELIPRLSASSGRSSDAEAPHGPPDDGGAGGKGGSLPRSATPGPPGE\nHLVNGRMDFAFPGSTNSLHRMTTTSAAAYGTHLSPHVPHRVLSTSSTLTRDYNSLTRSEH\nSHSTTLPRDYSTLTSVSSHDSRLTAGVPDTPTRLVFSALGPTSLRVSWQEPRCERPLQGY\nSVEYQLLNGGELHRLNIPNPAQTSVVVEDLLPNHSYVFRVRAQSQEGWGREREGVITIES\nQVHPQSPLCPLPGSAFTLSTPSAPGPLVFTALSPDSLQLSWERPRRPNGDIVGYLVTCEM\nAQGGGPATAFRVDGDSPESRLTVPGLSENVPYKFKVQARTTEGFGPEREGIITIESQDGG\nPFPQLGSRAGLFQHPLQSEYSSITTTHTSATEPFLVDGLTLGAQHLEAGGSLTRHVTQEF\nVSRTLTTSGTLSTHMDQQFFQT", "mw": 25.52, "total_mw": 25.52, "number_molecules": 1, "complex_state": false, "deuteration": null, "molecule_source": "biological", "molecule_description": null } ], "buffer": { "name": "20 mM Sodium Phosphate 150 mM NaCl 5% glycerol 3 mM DTT", "concentration_unit": "mM", "comment": null, "additive": "150 mM NaCl, 5% glycerol, 3 mM DTT", "concentration": 20.0, "pka": null, "ph": 7.5, "deuteration": null }, "purity_method": null, "name": "Integrin beta4, fragment of the cytoplasmic region that includes the final part of the connecting segment and the third and fourth FnIII domains (FnIII-3,4). Point mutant R1463A", "ext_coefficient": null, "contrast": null, "specific_vol": null, "dry_vol": null, "absorbption": null, "deuteration": null, "mixture": null }, "contributor": [ { "affiliation": [ { "short_name": "USAL", "address": "Salamanca, Spain", "full_name": "La Universidad de Salamanca", "webpage": "http://www.usal.es" } ], "contributor_name": "Jose M", "contributor_surname": "de Pereda", "orcid": null } ], "concentration_method": null, "concentration_unit": null, "date": "2013-11-26", "storage_temperature": null, "cell_temperature": 10.0, "exposure_time": 0.05, "number_of_frames": 30, "wavelength": 0.124, "sample_detector_distance": 3.1, "concentration_min": 0.9, "concentration_max": 7.1, "sample_volume": null, "flow_rate": null, "s_min": 0.056, "s_max": 4.45, "total_exposure_time": null, "seccolumn": null }, "fits": [ { "models": [ { "model_plot": "https://www.sasbdb.org/media/pdb_file/images/SASDDG8_fit1_model1_img.png", "software": "DAMMIF", "pdb_link": [], "model_title": null, "type_of_model": "dummy", "software_version": "r9988", "model_data": "https://www.sasbdb.org/media/pdb_file/SASDDG8_fit1_model1.pdb", "model_mw": 24.9, "bead_radius": 1.5, "log": null, "symmetry": null, "comment": null, "user": 26 } ], "fit_unit": "1/A", "fit_plot": "https://www.sasbdb.org/media/fitting_files/scattering_plots/SASDDG8_fit1_fixed_fit_img.png", "software": "DAMMIF", "chi_square_value": 1.024, "p_value": 0.665832, "fit_residual_plot": "SASDDG8_fit1_fitresiduals_img.png", "fit_data": "https://www.sasbdb.org/media/fitting_files/SASDDG8_fit1.fir", "fit_log": "https://www.sasbdb.org/media/fitting_files/log_files/B460_R1463A_dammif_06.log", "software_version": "r9988", "description": null }, { "models": [], "fit_unit": "1/A", "fit_plot": "https://www.sasbdb.org/media/fitting_files/scattering_plots/SASDDG8_fit2_fixed_fit_img.png", "software": "EOM/GAJOE", "chi_square_value": 1.032, "p_value": 0.665832, "fit_residual_plot": "SASDDG8_fit2_fitresiduals_img.png", "fit_data": "https://www.sasbdb.org/media/fitting_files/SASDDG8_fit2.fit", "fit_log": "https://www.sasbdb.org/media/fitting_files/log_files/EOM_B460_R1463A_logFile_002_1.log", "software_version": "2.1", "description": null } ], "estimated_volume_method": null, "pddf_software": "ATSAS GNOM", "pddf_software_version": "5.0", "i0_calibration_standard": null, "description": "Synchrotron SAXS data from solutions of a fragment of the cytoplasmic region of the human integrin Beta4 subunit. This fragment includes the final part of a region named the \"connecting segment\" the third and fourth fibronectin type III domains (FnIII-3,4). The protein contains the point mutation R1463A. Samples at different solute concentration in the range 0.9 – 7.1 mg/ml were obtained by 2-fold serial dilution and were measured.", "experiment_description": "Synchrotron SAXS data from solutions of the integrin beta4 fragment (point mutant R1463A) in 20 mM sodium phosphate 150 mM NaCl 5% glycerol 3 mM DTT, pH 7.5 were collected on the EMBL P12 beam line at the PETRA III storage ring (Hamburg, Germany) using a Pilatus 2M detector at a sample-detector distance of 3.1 m and at a wavelength of λ = 0.124 nm (l(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). Solute concentrations ranging between 0.9 and 7.1 mg/ml were measured at 10°C. 30 successive 0.050 second frames were collected. The data were normalized to the intensity of the transmitted beam and radially averaged; the scattering of the solvent-blank was subtracted. The low angle data collected at lower concentration were merged with the highest concentration high angle data to yield the final composite scattering curve.", "tags": [], "intensity_unit": "1/cm", "experimental_mw": 22.71, "experimental_mw_error": null, "guinier_i0_mw": null, "guinier_i0_mw_error": null, "porod_mw": 24.1, "porod_mw_error": null, "pddf_i0": 0.01637, "pddf_i0_error": null, "guinier_i0": 0.0164, "guinier_i0_error": null, "pddf_rg": 2.444, "pddf_rg_error": null, "guinier_rg": 2.417, "guinier_rg_error": null, "pddf_dmax": 9.5, "pddf_dmax_error": null, "porod_volume": 36.1, "porod_volume_error": null, "estimated_volume": null, "estimated_volume_error": null, "guinier_point_first": 1, "guinier_point_last": 184, "pddf_point_first": null, "pddf_point_last": null, "i0_calibration_standard_data": null, "intensities_log_log_plot": "SASDDG8_datloglog_img.png", "symmetry": null, "last_modified": "2023-06-21T07:56:39.492710+02:00", "bragg_peak": [] }