{"code":"SASDX54","status":"Published","type_of_curve":"Co-flow SEC-SAS","angular_unit":"1/A","project":{"title":"Structural features within precursor microRNA-20a regulate Dicer-TRBP processing","publication":{"title":"Structural features within precursor microRNA-20a regulate Dicer-TRBP processing","author_list":"Liu Y, Harkner C, Westwood M, Munsayac A, Keane S","journal":"Journal of Molecular Biology","doi":"10.1016/j.jmb.2025.169317","pmid":null,"published_date":"2025 Jul"},"status":"released","submitted_date":"2025-04-28","released_date":"2025-07-03"},"pddf_data":"https://www.sasbdb.org/media/p_of_R_files/SASDX54.out","intensities_data":"https://www.sasbdb.org/media/intensities_files/SASDX54.dat","intensities_log_plot":"https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDX54_dat_img.png","intensities_kratky_plot":"https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDX54_kratky_img.png","pddf_plot":"https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDX54_pofr_img.png","intensities_guinier_plot":"https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDX54_guinier_img.png","sascif_data":"https://www.sasbdb.org/media/sascif/sascif_files/SASDX54.sascif","experiment":{"instrument":{"detector":{"type":null,"name":"Eiger2 XE 9M","resolution":72.0},"name":"Advanced Photon Source (APS), Argonne National Laboratory","city":"Lemont, IL","country":"USA","beamline_name":"BioCAT 18ID","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":"Precursor microRNA 20a","short_name":"pre-miR-20a","sequence":"GGUAGCACUAAAGUGCUUAUAGUGCAGGUAGUGUUUAGUUAUCUACUGCAUUAUGAGCACUUAAAGUACUGCC","organism":"Homo sapiens","uniprot_code":null,"uniprot_range_first":null,"uniprot_range_last":null,"oligomerization":"monomer","molecular_type":"RNA","uniprot_sequence":"","mw":23.481,"total_mw":23.481,"number_molecules":1,"complex_state":false,"deuteration":null,"molecule_source":"biological","molecule_description":"NMR/SAXS construct of pre-miR-20a. An additional non-native G-C base pair is added at the ends of the RNA to stabilize the fold."}],"buffer":{"name":"50 mM potassium phosphate buffer, 1 mM MgCl2, 50 mM NaCl, 5 mM BME","concentration_unit":null,"comment":null,"additive":null,"concentration":null,"pka":null,"ph":7.5,"deuteration":null},"purity_method":null,"name":"Precursor microRNA 20a (pre-miR-20a)","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":"University of Michigan","webpage":null}],"contributor_name":"Aldrex","contributor_surname":"Munsayac","orcid":"https://orcid.org/0000-0001-7268-020X"}],"concentration_method":null,"concentration_unit":null,"date":"2022-10-08","storage_temperature":4.0,"cell_temperature":22.0,"exposure_time":0.5,"number_of_frames":36,"wavelength":0.1033,"sample_detector_distance":3.663,"concentration_min":null,"concentration_max":1.3,"sample_volume":260.0,"flow_rate":0.6,"s_min":0.029,"s_max":4.201,"total_exposure_time":null,"seccolumn":3},"fits":[{"models":[{"model_plot":"https://www.sasbdb.org/media/pdb_file/images/SASDX54_fit1_model1_img.png","software":"AMBER","pdb_link":[],"model_title":null,"type_of_model":"atomic","software_version":null,"model_data":"https://www.sasbdb.org/media/pdb_file/SASDX54_fit1_model1.pdb","model_mw":22.54,"bead_radius":null,"log":null,"symmetry":null,"comment":null,"user":788}],"fit_unit":"1/A","fit_plot":"https://www.sasbdb.org/media/fitting_files/scattering_plots/SASDX54_fit1_fitfoxs_img.png","software":"FoXS","chi_square_value":0.878543,"p_value":0.811,"fit_residual_plot":"SASDX54_fit1_fitfoxsresiduals_img.png","fit_data":"https://www.sasbdb.org/media/fitting_files/SASDX54_fit1.dat","fit_log":null,"software_version":null,"description":""},{"models":[{"model_plot":null,"software":"DENSS","pdb_link":[],"model_title":null,"type_of_model":"density","software_version":null,"model_data":"https://www.sasbdb.org/media/pdb_file/SASDX54_fit2_model1.mrc","model_mw":null,"bead_radius":null,"log":null,"symmetry":null,"comment":null,"user":788}],"fit_unit":"1/A","fit_plot":"https://www.sasbdb.org/media/fitting_files/scattering_plots/SASDX54_fit2_fixed_fit_img.png","software":"DENSS","chi_square_value":0.0201,"p_value":1.0,"fit_residual_plot":"SASDX54_fit2_fitresiduals_img.png","fit_data":"https://www.sasbdb.org/media/fitting_files/SASDX54_fit2.fit","fit_log":null,"software_version":null,"description":""}],"estimated_volume_method":null,"pddf_software":"ATSAS GNOM","pddf_software_version":"5.0","i0_calibration_standard":null,"description":"NMR/SAXS construct of pre-miR-20a. An additional non-native G-C base pair is added at the ends of the RNA to stabilize the fold.","experiment_description":"Synchrotron SAXS data from solutions of precursor microRNA 20a in 50 mM potassium phosphate buffer, 1 mM MgCl2, 50 mM NaCl, 5 mM BME, pH 7.5 were collected on the BioCAT 18ID beam line at the Advanced Photon Source (APS), Argonne National Laboratory (Lemont, IL, USA) using a Eiger2 XE 9M detector at a sample-detector distance of 3.7 m and at a wavelength of λ = 0.1033 nm (I(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). In-line size-exclusion chromatography (SEC) SAS was employed. The SEC parameters were as follows: A 260.00 μl sample at 1.3 mg/ml was injected at a 0.60 ml/min flow rate onto a GE Superdex 75 Increase 10/300 column at 22°C. 36 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":25.2,"experimental_mw_error":null,"guinier_i0_mw":null,"guinier_i0_mw_error":null,"porod_mw":null,"porod_mw_error":null,"pddf_i0":0.008425,"pddf_i0_error":null,"guinier_i0":0.0084136,"guinier_i0_error":null,"pddf_rg":3.13,"pddf_rg_error":null,"guinier_rg":3.057,"guinier_rg_error":0.17,"pddf_dmax":11.2,"pddf_dmax_error":null,"porod_volume":32.0,"porod_volume_error":null,"estimated_volume":null,"estimated_volume_error":null,"guinier_point_first":11,"guinier_point_last":244,"pddf_point_first":null,"pddf_point_last":null,"i0_calibration_standard_data":null,"intensities_log_log_plot":"SASDX54_datloglog_img.png","symmetry":null,"last_modified":"2025-07-03T00:12:17.108560+02:00","bragg_peak":[]}