{"code":"SASDUU5","status":"Published","type_of_curve":"Single concentration","angular_unit":"1/A","project":{"title":"A Simple Protocol for Visualization of RNA-Protein Complexes by Atomic Force Microscopy.","publication":{"title":"A Simple Protocol for Visualization of RNA-Protein Complexes by Atomic Force Microscopy.","author_list":"Tripepi A, Shakoor H, Klapetek P","journal":"Curr Protoc","doi":"10.1002/cpz1.70084","pmid":"39781608","published_date":"2025 Jan"},"status":"released","submitted_date":"2024-03-22","released_date":"2025-01-14"},"pddf_data":"https://www.sasbdb.org/media/p_of_R_files/SASDUU5.out","intensities_data":"https://www.sasbdb.org/media/intensities_files/SASDUU5.dat","intensities_log_plot":"https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDUU5_dat_img.png","intensities_kratky_plot":"https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDUU5_kratky_img.png","pddf_plot":"https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDUU5_pofr_img.png","intensities_guinier_plot":"https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDUU5_guinier_img.png","sascif_data":"https://www.sasbdb.org/media/sascif/sascif_files/SASDUU5.sascif","experiment":{"instrument":{"detector":{"type":null,"name":"Pilatus 100K","resolution":172.0},"name":"CEITEC","city":"Brno","country":"Czech Republic","beamline_name":"Rigaku BioSAXS-1000","beam_geometry":"","type_of_source":"X-ray in house","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":"Double-stranded RNA-binding protein Staufen homolog 1 (Δ1-177)","short_name":"Stau1_dsRBD3-end","sequence":"GSHMEENLNKSEISQVFEIALKRNLPVNFEVARESGPPHMKNFVTKVSVGEFVGEGEGKSKKISKKNAAIAVLEELKKLPPLPAVERVKPRIKKKTKPIVKPQTSPEYGQGINPISRLAQIQQAKKEKEPEYTLLTERGLPRRREFVMQVKVGNHTAEGTGTNKKVAKRNAAENMLEILGFKVPQAQPTKPALKSEEKTPIKKPGDGRKVTFFEPGSGDENGTSNKEDEFRMPYLSHQQLPAGILPMVPEVAQAVGVSQGHHTKDFTRAAPNPAKATVTAMIARELLYGGTSPTAETILKNNISSGHVPHGPLTRPSEQLDYLSRVQGFQVEYKDFPKNNKNEFVSLINCSSQPPLISHGIGKDVESCHDMAALNILKLLSELDQQSTEMPRTGNGPMSVCGRC","organism":"Homo sapiens","uniprot_code":"O95793","uniprot_range_first":178,"uniprot_range_last":577,"oligomerization":"dimer","molecular_type":"protein","uniprot_sequence":"MSQVQVQVQNPSAALSGSQILNKNQSLLSQPLMSIPSTTSSLPSENAGRPIQNSALPSAS\nITSTSAAAESITPTVELNALCMKLGKKPMYKPVDPYSRMQSTYNYNMRGGAYPPRYFYPF\nPVPPLLYQVELSVGGQQFNGKGKTRQAAKHDAAAKALRILQNEPLPERLEVNGRESEEEN\nLNKSEISQVFEIALKRNLPVNFEVARESGPPHMKNFVTKVSVGEFVGEGEGKSKKISKKN\nAAIAVLEELKKLPPLPAVERVKPRIKKKTKPIVKPQTSPEYGQGINPISRLAQIQQAKKE\nKEPEYTLLTERGLPRRREFVMQVKVGNHTAEGTGTNKKVAKRNAAENMLEILGFKVPQAQ\nPTKPALKSEEKTPIKKPGDGRKVTFFEPGSGDENGTSNKEDEFRMPYLSHQQLPAGILPM\nVPEVAQAVGVSQGHHTKDFTRAAPNPAKATVTAMIARELLYGGTSPTAETILKNNISSGH\nVPHGPLTRPSEQLDYLSRVQGFQVEYKDFPKNNKNEFVSLINCSSQPPLISHGIGKDVES\nCHDMAALNILKLLSELDQQSTEMPRTGNGPMSVCGRC","mw":44.387,"total_mw":88.774,"number_molecules":2,"complex_state":false,"deuteration":null,"molecule_source":"biological","molecule_description":"Double-stranded RNA-binding protein Staufen homolog 1 with truncated RNA-binding domain 2. The protein construct used for SAXS contains four additional non-native amino acids at the N-terminus (GSHM)."},{"long_name":"3'UTR fragment of ADP-ribosylation factor 1","short_name":"ARF1","sequence":"GGAGUGCCAGAAGCUGCCUCUUCGGAGGCAGUUUCUGGUACUCC","organism":"Homo sapiens","uniprot_code":null,"uniprot_range_first":null,"uniprot_range_last":null,"oligomerization":"monomer","molecular_type":"RNA","uniprot_sequence":"","mw":14.185,"total_mw":14.185,"number_molecules":1,"complex_state":false,"deuteration":null,"molecule_source":"biological","molecule_description":""}],"buffer":{"name":"50 mM TRIS, 300 mM NaCl, 3.8 mM β-mercaptoethanol","concentration_unit":null,"comment":null,"additive":null,"concentration":null,"pka":null,"ph":7.0,"deuteration":null},"purity_method":null,"name":"Human Double-stranded RNA-binding protein Staufen homolog 1 with truncated RNA-binding domain 2 bound to 3'UTR fragment of ADP-ribosylation factor 1","ext_coefficient":null,"contrast":null,"specific_vol":null,"dry_vol":null,"absorbption":null,"deuteration":null,"mixture":null},"contributor":[{"affiliation":[{"short_name":null,"address":null,"full_name":"CEITEC - Central European Institute of Technology, Masaryk University","webpage":"https://www.ceitec.eu/"}],"contributor_name":"Tomas","contributor_surname":"Klumpler","orcid":null}],"concentration_method":null,"concentration_unit":null,"date":"2020-05-04","storage_temperature":4.0,"cell_temperature":4.0,"exposure_time":3600.0,"number_of_frames":1,"wavelength":0.154,"sample_detector_distance":0.48,"concentration_min":null,"concentration_max":4.0,"sample_volume":100.0,"flow_rate":0.6,"s_min":0.092,"s_max":4.008,"total_exposure_time":null,"seccolumn":null},"fits":[{"models":[{"model_plot":"https://www.sasbdb.org/media/pdb_file/images/SASDUU5_fit1_model1_img.png","software":"CORAL","pdb_link":[],"model_title":null,"type_of_model":"mix","software_version":"ATSAS 2.8.4 (r10552)","model_data":"https://www.sasbdb.org/media/pdb_file/SASDUU5_fit1_model1.pdb","model_mw":101.6,"bead_radius":1.9,"log":null,"symmetry":null,"comment":null,"user":195}],"fit_unit":"1/A","fit_plot":"https://www.sasbdb.org/media/fitting_files/scattering_plots/SASDUU5_fit1_fixed_fit_img.png","software":"CORAL","chi_square_value":0.96,"p_value":0.055,"fit_residual_plot":"SASDUU5_fit1_fitresiduals_img.png","fit_data":"https://www.sasbdb.org/media/fitting_files/SASDUU5_fit1.fit","fit_log":"https://www.sasbdb.org/media/fitting_files/log_files/coral1_RfJ14E4.log","software_version":"ATSAS 2.8.4 (r10552)","description":""}],"estimated_volume_method":null,"pddf_software":"ATSAS GNOM","pddf_software_version":"5.0","i0_calibration_standard":null,"description":null,"experiment_description":"SAXS data from solutions of double-stranded RNA-binding protein Staufen homolog 1 with truncated RNA-binding domain 2 bound to the 3'UTR fragment of ADP-ribosylation factor 1 in 50 mM TRIS, 300 mM NaCl, 3.8 mM β-mercaptoethanol, pH 7 were collected using a Rigaku BioSAXS-1000 instrument at CEITEC (Brno, Czech Republic) equipped with a Pilatus 100K detector at a sample-detector distance of 0.5 m and at a wavelength of λ = 0.154 nm (I(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). One solute concentration of 4.00 mg/ml was measured at 4°C. One 3600 second frame was 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":94.2,"experimental_mw_error":null,"guinier_i0_mw":null,"guinier_i0_mw_error":null,"porod_mw":80.6,"porod_mw_error":null,"pddf_i0":0.7547,"pddf_i0_error":null,"guinier_i0":0.798389,"guinier_i0_error":null,"pddf_rg":4.62,"pddf_rg_error":null,"guinier_rg":4.908,"guinier_rg_error":0.886,"pddf_dmax":13.38,"pddf_dmax_error":null,"porod_volume":129.0,"porod_volume_error":null,"estimated_volume":null,"estimated_volume_error":null,"guinier_point_first":1,"guinier_point_last":21,"pddf_point_first":null,"pddf_point_last":null,"i0_calibration_standard_data":null,"intensities_log_log_plot":"SASDUU5_datloglog_img.png","symmetry":null,"last_modified":"2025-01-14T14:00:42.258741+01:00","bragg_peak":[]}