{"code":"SASDVT5","status":"Published","type_of_curve":"Single concentration","angular_unit":"1/nm","project":{"title":"The structure and function of the DNA binding domain of class B MpARF2 share more traits with class A AtARF5 than to that of class B AtARF1.","publication":{"title":"The structure and function of the DNA binding domain of class B MpARF2 share more traits with class A AtARF5 than to that of class B AtARF1.","author_list":"Crespo I, Malfois M, Rienstra J, Tarrés-Solé A, van den Berg W, Weijers D, Boer DR","journal":"Structure","doi":"10.1016/j.str.2025.02.006","pmid":"40086441","published_date":"2025 Mar 7"},"status":"released","submitted_date":"2024-08-01","released_date":"2024-12-09"},"pddf_data":"https://www.sasbdb.org/media/p_of_R_files/SASDVT5.out","intensities_data":"https://www.sasbdb.org/media/intensities_files/SASDVT5.dat","intensities_log_plot":"https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDVT5_dat_img.png","intensities_kratky_plot":"https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDVT5_kratky_img.png","pddf_plot":"https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDVT5_pofr_img.png","intensities_guinier_plot":"https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDVT5_guinier_img.png","sascif_data":"https://www.sasbdb.org/media/sascif/sascif_files/SASDVT5.sascif","experiment":{"instrument":{"detector":{"type":"CCD","name":"ADSC Quantum 210r","resolution":null},"name":"ALBA","city":"Cerdanyola del Vallès, Barcelona","country":"Spain","beamline_name":"BL11 - NCD","beam_geometry":"","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":"Auxin response factor","short_name":"MpARF3","sequence":"TGLDPQLWHACAGGMVQLPPVGAKVIYFPQGHGEQAATPPEFPRMMGPQ\r\nGTIGCRVVSVSFLADTETDEVYARIRLQPLEREAAMSIADSTLDADGGPS\r\nSPPPEKPASFAKTLTQSDANNGGGFSVPRYCAETIFPPLDYSIDPPVQTV\r\nLAKDVHGERWKFRHIYRGTPRRHLLTTGWSTFVNQKKLVAGDAIVFLRTA\r\nSGELCVGVRRSMRGTGGADSSTWSGGSSTSHHRPNRWEVKGTESFSDFLG\r\nNDSAAGGGSVSSAGSAAGPGGPRAGPGGSNSGPGIGIPGPSTTSSFARNR\r\nARVTAQSVLEAASLAVQGQPFEVVYYPRASTAEFCVKAQAVKAALDHTWF\r\nPGMRFKMAFETEDSSRISWFMGTISAVQPADSLWPKSPWRVLQVTWDEPD\r\nLLQGVSRVSPWQVELVSTLPGNSYSQSM","organism":"Marchantia polymorpha","uniprot_code":"A0A0G3FJH3","uniprot_range_first":52,"uniprot_range_last":470,"oligomerization":"monomer","molecular_type":"protein","uniprot_sequence":"MPGPSPGCGTMSGTNIKMEKSEESMGGGGKGWGGGRDRDSSSDGGGGSGENTGLDPQLWH\nACAGGMVQLPPVGAKVIYFPQGHGEQAATPPEFPRMMGPQGTIGCRVVSVSFLADTETDE\nVYARIRLQPLEREAAMSIADSTLDADGGPSSPPPEKPASFAKTLTQSDANNGGGFSVPRY\nCAETIFPPLDYSIDPPVQTVLAKDVHGERWKFRHIYRGTPRRHLLTTGWSTFVNQKKLVA\nGDAIVFLRTASGELCVGVRRSMRGTGGADSSTWSGGSSTSHHRPNRWEVKGTESFSDFLG\nNDSAAGGGSVSSAGSAAGPGGPRAGPGGSNSGPGIGIPGPSTTSSFARNRARVTAQSVLE\nAASLAVQGQPFEVVYYPRASTAEFCVKAQAVKAALDHTWFPGMRFKMAFETEDSSRISWF\nMGTISAVQPADSLWPKSPWRVLQVTWDEPDLLQGVSRVSPWQVELVSTLPMQLPPFSLPK\nKKLRAAQPSDMNMQGQGLMGMPITLPSVFGQINPWAHGLTMEEVTAGMQGARHDRVFGLA\nLSEKFRPGKLPGGFFSAAEGYYPDHAGRGGGGEPHLSAFPLQDRASNISSLISSLGSVPP\nSGDHGSAGALLVPAGSWSGGSANNKSASTQLVLFGQAINTDSNKSQPQHSGGSSCDGPSL\nQHLKEESSGKRKDSPSESNQNENFERGQKYMSGSLSNGKQSDLIVGEFQKWVPGLDKERG\nAGEKLAASPEILQSPQGAW","mw":45.502,"total_mw":45.502,"number_molecules":1,"complex_state":false,"deuteration":null,"molecule_source":"biological","molecule_description":"The protein construct used for SAXS contains an additional eight non-native amino acid C-terminal extension (GNSYSQSM)."}],"buffer":{"name":"20 mM Tris-HCl, 150 mM NaCl, 1 mM DTT","concentration_unit":null,"comment":null,"additive":null,"concentration":null,"pka":null,"ph":8.0,"deuteration":null},"purity_method":null,"name":"Marchantia polymorpha Auxin Response Factor 3","ext_coefficient":null,"contrast":null,"specific_vol":null,"dry_vol":null,"absorbption":null,"deuteration":null,"mixture":null},"contributor":[{"affiliation":[{"short_name":null,"address":"Barcelona, Spain","full_name":"ALBA - Cells","webpage":"https://www.cells.es"}],"contributor_name":"Isidro","contributor_surname":"Crespo","orcid":"https://orcid.org/0000-0001-7698-1720"}],"concentration_method":null,"concentration_unit":null,"date":"2019-12-03","storage_temperature":4.0,"cell_temperature":20.0,"exposure_time":0.5,"number_of_frames":20,"wavelength":0.1,"sample_detector_distance":2.56,"concentration_min":null,"concentration_max":3.5,"sample_volume":null,"flow_rate":null,"s_min":0.236,"s_max":5.82,"total_exposure_time":null,"seccolumn":null},"fits":[{"models":[{"model_plot":"https://www.sasbdb.org/media/pdb_file/images/SASDVT5_fit1_model1_img.png","software":"GASBOR","pdb_link":[],"model_title":null,"type_of_model":"dummy","software_version":"GASBOR 2.3i (r10552)","model_data":"https://www.sasbdb.org/media/pdb_file/SASDVT5_fit1_model1.pdb","model_mw":null,"bead_radius":null,"log":"https://www.sasbdb.org/media/log_files/Mp3sM-35.log","symmetry":"P1","comment":null,"user":1088}],"fit_unit":"1/A","fit_plot":"https://www.sasbdb.org/media/fitting_files/scattering_plots/SASDVT5_fit1_fixed_fit_img.png","software":"GASBOR","chi_square_value":0.98,"p_value":0.0,"fit_residual_plot":"SASDVT5_fit1_fitresiduals_img.png","fit_data":"https://www.sasbdb.org/media/fitting_files/SASDVT5_fit1.fir","fit_log":"https://www.sasbdb.org/media/fitting_files/log_files/Mp3sM-35.log","software_version":"GASBOR 2.3i (r10552)","description":""},{"models":[{"model_plot":"https://www.sasbdb.org/media/pdb_file/images/SASDVT5_fit2_model1_img.png","software":"SwissModel","pdb_link":[],"model_title":null,"type_of_model":"atomic","software_version":null,"model_data":"https://www.sasbdb.org/media/pdb_file/SASDVT5_fit2_model1.pdb","model_mw":44.44,"bead_radius":null,"log":"https://www.sasbdb.org/media/log_files/report.html","symmetry":null,"comment":null,"user":1088}],"fit_unit":"1/A","fit_plot":"https://www.sasbdb.org/media/fitting_files/scattering_plots/SASDVT5_fit2_fixed_fit_img.png","software":"CRYSOL","chi_square_value":0.747,"p_value":0.0,"fit_residual_plot":"SASDVT5_fit2_fitresiduals_img.png","fit_data":"https://www.sasbdb.org/media/fitting_files/SASDVT5_fit2.fit","fit_log":"https://www.sasbdb.org/media/fitting_files/log_files/3_5mgmlAverage69-2000_MpARF3_Mp2base.log","software_version":"ATSAS 3.3.0 (r14945)","description":""}],"estimated_volume_method":null,"pddf_software":"ATSAS GNOM","pddf_software_version":"5.0","i0_calibration_standard":null,"description":"CAUTION: Dmax appears underestimated.","experiment_description":"Synchrotron SAXS data from solutions of M. polymorpha auxin response factor 3 in 20 mM Tris-HCl, 150 mM NaCl, 1 mM DTT, pH 8 were collected on the BL11 - NCD beam line at ALBA (Cerdanyola del Vallès, Barcelona, Spain) using a ADSC Quantum 210r detector at a sample-detector distance of 2.6 m and at a wavelength of λ = 0.1 nm (I(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). One solute concentration of 3.50 mg/ml was measured at 20°C. 20 successive 0.500 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.","tags":[],"intensity_unit":"arbitrary","experimental_mw":42.64,"experimental_mw_error":null,"guinier_i0_mw":null,"guinier_i0_mw_error":null,"porod_mw":36.9,"porod_mw_error":null,"pddf_i0":1.593,"pddf_i0_error":null,"guinier_i0":1.69425,"guinier_i0_error":null,"pddf_rg":2.375,"pddf_rg_error":null,"guinier_rg":2.6,"guinier_rg_error":0.018,"pddf_dmax":6.16,"pddf_dmax_error":null,"porod_volume":59.0,"porod_volume_error":null,"estimated_volume":null,"estimated_volume_error":null,"guinier_point_first":1,"guinier_point_last":92,"pddf_point_first":null,"pddf_point_last":null,"i0_calibration_standard_data":null,"intensities_log_log_plot":"SASDVT5_datloglog_img.png","symmetry":null,"last_modified":"2025-03-20T11:11:00.318393+01:00","bragg_peak":[]}