{"code":"SASDDG5","status":"Published","type_of_curve":"Merged","angular_unit":"1/nm","project":{"title":"Octa-repeat domain of the mammalian prion protein mRNA forms stable A-helical hairpin structure rather than G-quadruplexes.","publication":{"title":"Octa-repeat domain of the mammalian prion protein mRNA forms stable A-helical hairpin structure rather than G-quadruplexes.","author_list":"Czech A, Konarev PV, Goebel I, Svergun DI, Wills PR, Ignatova Z","journal":"Sci Rep","doi":"10.1038/s41598-019-39213-2","pmid":"30792490","published_date":"2019 Feb 21"},"status":"released","submitted_date":"2018-03-29","released_date":"2019-02-25"},"pddf_data":"https://www.sasbdb.org/media/p_of_R_files/SASDDG5.out","intensities_data":"https://www.sasbdb.org/media/intensities_files/SASDDG5.dat","intensities_log_plot":"https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDDG5_dat_img.png","intensities_kratky_plot":"https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDDG5_kratky_img.png","pddf_plot":"https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDDG5_pofr_img.png","intensities_guinier_plot":"https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDDG5_guinier_img.png","sascif_data":"https://www.sasbdb.org/media/sascif/sascif_files/SASDDG5.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":"octo-repeat PrP mRNA","short_name":"PrPmRNA","sequence":"AACACUGGGGGCAGCCGAUACCCGGGGCAGGGCAGCCCUGGAGGCAACCGCUACCCACCUCAGGGCGGUGGUGGCUGGGGGCAGCCUCAUGGUGGUGGCUGGGGGCAGCCUCAUGGUGGUGGCUGGGGGCAGCCCCAUGGUGGUGGCUGGGGACAGCCUCAUGGUGGUGGCUGGGGUCAAGGAGGUGGCACCCAC\r\nCUCAGGGCGGUGGUGGCUGGGGGCC","organism":"human PrP ORF","uniprot_code":null,"uniprot_range_first":null,"uniprot_range_last":null,"oligomerization":"dimer","molecular_type":"RNA","uniprot_sequence":null,"mw":71.89,"total_mw":143.78,"number_molecules":2,"complex_state":false,"deuteration":null,"molecule_source":"biological","molecule_description":null}],"buffer":{"name":"10 mM Tris buffer","concentration_unit":null,"comment":null,"additive":null,"concentration":null,"pka":null,"ph":7.5,"deuteration":null},"purity_method":null,"name":"Mammalian prion protein mRNA (PrP mRNA wild type)","ext_coefficient":null,"contrast":null,"specific_vol":null,"dry_vol":null,"absorbption":null,"deuteration":null,"mixture":null},"contributor":[{"affiliation":[{"short_name":"EMBL-Hamburg","address":"Notkestraße 85, Geb. 25A, 22607 Hamburg, Deutschland, Germany","full_name":"European Molecular Biology Laboratory (EMBL) - Hamburg outstation","webpage":"http://www.embl-hamburg.de/index.php"}],"contributor_name":"Petr","contributor_surname":"Konarev","orcid":null}],"concentration_method":null,"concentration_unit":null,"date":"2016-11-04","storage_temperature":20.0,"cell_temperature":20.0,"exposure_time":0.05,"number_of_frames":20,"wavelength":0.124,"sample_detector_distance":3.1,"concentration_min":0.5,"concentration_max":4.0,"sample_volume":null,"flow_rate":null,"s_min":0.119,"s_max":3.788,"total_exposure_time":null,"seccolumn":null},"fits":[{"models":[{"model_plot":"https://www.sasbdb.org/media/pdb_file/images/SASDDG5_fit1_model1_img.png","software":"DAMFILT","pdb_link":[],"model_title":null,"type_of_model":"dummy","software_version":"5.0","model_data":"https://www.sasbdb.org/media/pdb_file/SASDDG5_fit1_model1.pdb","model_mw":null,"bead_radius":6.75,"log":null,"symmetry":null,"comment":null,"user":88}],"fit_unit":"1/A","fit_plot":"https://www.sasbdb.org/media/fitting_files/scattering_plots/SASDDG5_fit1_fit_img.png","software":"DAMMIF","chi_square_value":1.401,"p_value":0.025865,"fit_residual_plot":"SASDDG5_fit1_fitresiduals_img.png","fit_data":"https://www.sasbdb.org/media/fitting_files/SASDDG5_fit1.fir","fit_log":null,"software_version":null,"description":null}],"estimated_volume_method":null,"pddf_software":"ATSAS GNOM","pddf_software_version":"4.6","i0_calibration_standard":null,"description":null,"experiment_description":"Synchrotron SAXS data from solutions of mammalian prion protein mRNA (PrP mRNA wild type) in 10 mM Tris buffer, pH 7.5 were collected on the EMBL-P12 beam line at the PETRA III storage ring (DESY, 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 0.5 and 4 mg/ml were measured at 20°C. 20 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":"arbitrary","experimental_mw":130.0,"experimental_mw_error":null,"guinier_i0_mw":130.0,"guinier_i0_mw_error":20.0,"porod_mw":150.0,"porod_mw_error":null,"pddf_i0":24050.0,"pddf_i0_error":500.0,"guinier_i0":24740.0,"guinier_i0_error":775.0,"pddf_rg":7.35,"pddf_rg_error":0.05,"guinier_rg":7.35,"guinier_rg_error":0.28,"pddf_dmax":25.0,"pddf_dmax_error":1.0,"porod_volume":165.0,"porod_volume_error":null,"estimated_volume":null,"estimated_volume_error":null,"guinier_point_first":6,"guinier_point_last":26,"pddf_point_first":null,"pddf_point_last":null,"i0_calibration_standard_data":null,"intensities_log_log_plot":"SASDDG5_datloglog_img.png","symmetry":null,"last_modified":"2023-06-21T07:56:39.492710+02:00","bragg_peak":[]}