{"code":"SASDBP2","status":"Published","type_of_curve":"Single concentration","angular_unit":"1/nm","project":{"title":"New conformations of linear polyubiquitin chains from crystallographic and solution-scattering studies expand the conformational space of polyubiquitin.","publication":{"title":"New conformations of linear polyubiquitin chains from crystallographic and solution-scattering studies expand the conformational space of polyubiquitin.","author_list":"Thach TT, Shin D, Han S, Lee S","journal":"Acta Crystallogr D Struct Biol","doi":"10.1107/S2059798316001510","pmid":"27050132","published_date":"2016 Apr"},"status":"released","submitted_date":"2015-10-16","released_date":"2016-04-07"},"pddf_data":"https://www.sasbdb.org/media/p_of_R_files/SASDBP2.out","intensities_data":"https://www.sasbdb.org/media/intensities_files/SASDBP2.dat","intensities_log_plot":"https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDBP2_dat_img.png","intensities_kratky_plot":"https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDBP2_kratky_img.png","pddf_plot":"https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDBP2_pofr_img.png","intensities_guinier_plot":"https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDBP2_guinier_img.png","sascif_data":"https://www.sasbdb.org/media/sascif/sascif_files/SASDBP2.sascif","experiment":{"instrument":{"detector":{"type":"CCD","name":"ADSC Quantum 315","resolution":315.0},"name":"Pohang Accelerator Laboratory","city":"Pohang","country":"South Korea","beamline_name":"5C","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":"Human linear tri-ubiquitin","short_name":"Triubiquitin","sequence":"MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG\r\n","organism":"Homo sapiens","uniprot_code":"Q5U5U6","uniprot_range_first":null,"uniprot_range_last":null,"oligomerization":"monomer","molecular_type":"protein","uniprot_sequence":"MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN\nIQKESTLHLVLRLRGGMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLI\nFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGMQIFVKTLTGKTITLEVEPSDTIENVKA\nKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGC","mw":25.658,"total_mw":25.658,"number_molecules":1,"complex_state":false,"deuteration":null,"molecule_source":"biological","molecule_description":null}],"buffer":{"name":"50 mM Tris 150mM NaCl 0.5 mM EDTA","concentration_unit":"mM","comment":null,"additive":"150mM NaCl, 0.5 mM EDTA","concentration":50.0,"pka":null,"ph":7.5,"deuteration":null},"purity_method":null,"name":"Human linear triubiquitin","ext_coefficient":null,"contrast":null,"specific_vol":null,"dry_vol":null,"absorbption":null,"deuteration":null,"mixture":null},"contributor":[{"affiliation":[{"short_name":null,"address":"Seoul, SK","full_name":"Sungkyunkwan University","webpage":"http://www.skku.edu/eng_home/index.jsp"}],"contributor_name":"Donghyuk","contributor_surname":"Shin","orcid":null},{"affiliation":[{"short_name":null,"address":"Seoul, SK","full_name":"Sungkyunkwan University","webpage":"http://www.skku.edu/eng_home/index.jsp"}],"contributor_name":"Trung","contributor_surname":"Thanh Thach","orcid":null}],"concentration_method":null,"concentration_unit":"mg/ml","date":"2014-11-03","storage_temperature":22.0,"cell_temperature":null,"exposure_time":60.0,"number_of_frames":5,"wavelength":1.907,"sample_detector_distance":1.4,"concentration_min":1.05,"concentration_max":4.2,"sample_volume":null,"flow_rate":null,"s_min":0.229,"s_max":2.24,"total_exposure_time":300.0,"seccolumn":null},"fits":[{"models":[{"model_plot":"https://www.sasbdb.org/media/pdb_file/images/SASDBP2_fit1_model1_img.png","software":"EOM/RANCH","pdb_link":[],"model_title":null,"type_of_model":"mix","software_version":"","model_data":"https://www.sasbdb.org/media/pdb_file/SASDBP2_fit1_model1.pdb","model_mw":25.67,"bead_radius":1.9,"log":null,"symmetry":"","comment":"","user":86},{"model_plot":"https://www.sasbdb.org/media/pdb_file/images/SASDBP2_fit1_model2_img.png","software":"EOM/RANCH","pdb_link":[],"model_title":null,"type_of_model":"mix","software_version":"","model_data":"https://www.sasbdb.org/media/pdb_file/SASDBP2_fit1_model2.pdb","model_mw":25.67,"bead_radius":1.9,"log":null,"symmetry":"","comment":"","user":86}],"fit_unit":"1/A","fit_plot":"https://www.sasbdb.org/media/fitting_files/scattering_plots/SASDBP2_fit1_fixed_fit_img.png","software":null,"chi_square_value":0.56,"p_value":0.0,"fit_residual_plot":null,"fit_data":"https://www.sasbdb.org/media/fitting_files/SASDBP2_fit1.fit","fit_log":null,"software_version":null,"description":null}],"estimated_volume_method":null,"pddf_software":"ATSAS GNOM","pddf_software_version":null,"i0_calibration_standard":null,"description":"Note: The displayed results show a merged data set derived from a concentration series. Data were normalised to protein concentration and the high angle data from highest concentration and low angle data from lowest concentration were merged to generate final SAXS profile. Because of the flexibility of linear-triubiquitin molecule, ensemble optimisation method, EOM, was performed. The models shown above are two triubiquitin examples from the final EOM output. All EOM models, the radius of gyration distribution and maximum particle dimension distribution can be found in the full entry zip archive.","experiment_description":null,"tags":[],"intensity_unit":null,"experimental_mw":27.05,"experimental_mw_error":null,"guinier_i0_mw":null,"guinier_i0_mw_error":null,"porod_mw":null,"porod_mw_error":null,"pddf_i0":409.5,"pddf_i0_error":5.6,"guinier_i0":402.7,"guinier_i0_error":1.8,"pddf_rg":2.6,"pddf_rg_error":0.05,"guinier_rg":2.45,"guinier_rg_error":0.04,"pddf_dmax":8.63,"pddf_dmax_error":null,"porod_volume":35.9,"porod_volume_error":null,"estimated_volume":null,"estimated_volume_error":null,"guinier_point_first":3,"guinier_point_last":34,"pddf_point_first":null,"pddf_point_last":null,"i0_calibration_standard_data":null,"intensities_log_log_plot":"SASDBP2_datloglog_img.png","symmetry":null,"last_modified":"2020-08-28T15:27:40.482221+02:00","bragg_peak":[]}