{ "code": "SASDED2", "status": "Published", "type_of_curve": "Merged", "angular_unit": "1/nm", "project": { "title": "Solution model of the intrinsically disordered polyglutamine tract-binding protein-1.", "publication": { "title": "Solution model of the intrinsically disordered polyglutamine tract-binding protein-1.", "author_list": "Rees M, Gorba C, de Chiara C, Bui TT, Garcia-Maya M, Drake AF, Okazawa H, Pastore A, Svergun D, Chen YW", "journal": "Biophys J", "doi": "10.1016/j.bpj.2012.02.047", "pmid": "22500761", "published_date": "2012 Apr 4" }, "status": "released", "submitted_date": "2018-08-03", "released_date": "2018-08-07" }, "pddf_data": "https://www.sasbdb.org/media/p_of_R_files/SASDED2.out", "intensities_data": "https://www.sasbdb.org/media/intensities_files/SASDED2.csv", "intensities_log_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDED2_dat_img.png", "intensities_kratky_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDED2_kratky_img.png", "pddf_plot": "https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDED2_pofr_img.png", "intensities_guinier_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDED2_guinier_img.png", "sascif_data": "https://www.sasbdb.org/media/sascif/sascif_files/SASDED2.sascif", "experiment": { "instrument": { "detector": { "type": "Custom-built", "name": "Pilatus 1M-W", "resolution": 0.172 }, "name": "DORIS III, DESY", "city": "Hamburg", "country": "Germany", "beamline_name": "EMBL X33", "beam_geometry": "0.60", "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": "Polyglutamine-binding protein 1", "short_name": "PQBP-1", "sequence": ">sp|O60828|PQBP1_HUMAN Polyglutamine-binding protein 1 OS=Homo sapiens\r\nGPMPLPVALQTRLAKRGILKHLEPEPEEEIIAEDYDDDPVDYEATRLEGLPPSWYKVFDPSC\r\nGLPYYWNADTDLVSWLSPHDPNSVVTKSAKKLRSSNADAEEKLDRSHDKSDRGHDKSDRS\r\nHEKLDRGHDKSDRGHDKSDRDRERGYDKVDRERERDRERDRDRGYDKADREEGKERRHHR\r\nREELAPYPKSKKAVSRKDEELDPMDPSSYSDAPRGTWSTGLPKRNEAKTGADTTAAGPLF\r\nQQRPYPSPGAVLRANAEASRTKQQD", "organism": "Homo sapiens", "uniprot_code": "O60828", "uniprot_range_first": 1, "uniprot_range_last": 265, "oligomerization": "monomer", "molecular_type": "protein", "uniprot_sequence": "MPLPVALQTRLAKRGILKHLEPEPEEEIIAEDYDDDPVDYEATRLEGLPPSWYKVFDPSC\nGLPYYWNADTDLVSWLSPHDPNSVVTKSAKKLRSSNADAEEKLDRSHDKSDRGHDKSDRS\nHEKLDRGHDKSDRGHDKSDRDRERGYDKVDRERERDRERDRDRGYDKADREEGKERRHHR\nREELAPYPKSKKAVSRKDEELDPMDPSSYSDAPRGTWSTGLPKRNEAKTGADTTAAGPLF\nQQRPYPSPGAVLRANAEASRTKQQD", "mw": 30.626, "total_mw": 30.626, "number_molecules": 1, "complex_state": false, "deuteration": null, "molecule_source": "biological", "molecule_description": null } ], "buffer": { "name": "20 mM Tris, 150 mM NaCl, 1mM DTT,", "concentration_unit": null, "comment": null, "additive": null, "concentration": null, "pka": null, "ph": 7.0, "deuteration": null }, "purity_method": null, "name": "Polyglutamine tract-binding protein 1 (PQBP-1)", "ext_coefficient": null, "contrast": null, "specific_vol": null, "dry_vol": null, "absorbption": null, "deuteration": null, "mixture": null }, "contributor": [ { "affiliation": [ { "short_name": null, "address": "London, UK", "full_name": "King's College London", "webpage": "https://www.kcl.ac.uk" } ], "contributor_name": "Yu Wai", "contributor_surname": "Chen", "orcid": "http://orcid.org/0000-0001-7833-7533" } ], "concentration_method": null, "concentration_unit": null, "date": "2009-11-18", "storage_temperature": 20.0, "cell_temperature": 20.0, "exposure_time": 15.0, "number_of_frames": 8, "wavelength": 0.15, "sample_detector_distance": 2.7, "concentration_min": 7.0, "concentration_max": 13.0, "sample_volume": null, "flow_rate": null, "s_min": 0.077, "s_max": 6.208, "total_exposure_time": null, "seccolumn": null }, "fits": [ { "models": [], "fit_unit": "1/A", "fit_plot": "https://www.sasbdb.org/media/fitting_files/scattering_plots/SASDED2_fit1_fixed_fit_img.png", "software": "EOM/GAJOE", "chi_square_value": 0.857, "p_value": 0.0, "fit_residual_plot": "fit4columns1607_fitresiduals_img.png", "fit_data": "https://www.sasbdb.org/media/fitting_files/SASDED2_fit1.fit", "fit_log": "https://www.sasbdb.org/media/fitting_files/log_files/GA001_LZEuVwU.log", "software_version": null, "description": null }, { "models": [ { "model_plot": "https://www.sasbdb.org/media/pdb_file/images/SASDED2_fit2_model1_img.png", "software": "DAMMIF", "pdb_link": [], "model_title": null, "type_of_model": "dummy", "software_version": "1.1.0 r980", "model_data": "https://www.sasbdb.org/media/pdb_file/SASDED2_fit2_model1.pdb", "model_mw": 40.3, "bead_radius": 2.7, "log": null, "symmetry": null, "comment": null, "user": 342 } ], "fit_unit": "1/A", "fit_plot": "https://www.sasbdb.org/media/fitting_files/scattering_plots/SASDED2_fit2_fixed_fit_img.png", "software": "DAMMIF", "chi_square_value": 1.018081, "p_value": 0.058031, "fit_residual_plot": "SASDED2_fit2_fitresiduals_img.png", "fit_data": "https://www.sasbdb.org/media/fitting_files/SASDED2_fit2.fir", "fit_log": "https://www.sasbdb.org/media/fitting_files/log_files/SVD_1_4.log", "software_version": "1.1.0", "description": null } ], "estimated_volume_method": null, "pddf_software": "ATSAS GNOM", "pddf_software_version": "4.5a", "i0_calibration_standard": null, "description": null, "experiment_description": "Synchrotron SAXS data from solutions of polyglutamine tract-binding protein 1 (PQBP-1) in 20 mM Tris, 150 mM NaCl, 1mM DTT, pH 7 were collected on the EMBL X33 beam line at DORIS III (Hamburg, Germany) using a Pilatus 1M-W detector at a sample-detector distance of 2.7 m and at a wavelength of λ = 0.15 nm (l(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). Solute concentrations ranging between 7 and 13 mg/ml were measured at 20°C. Eight successive 15 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": [ "idp", "X33" ], "intensity_unit": "arbitrary", "experimental_mw": 30.6, "experimental_mw_error": null, "guinier_i0_mw": 30.0, "guinier_i0_mw_error": 3.0, "porod_mw": 35.0, "porod_mw_error": null, "pddf_i0": 40.75, "pddf_i0_error": null, "guinier_i0": 40.49, "guinier_i0_error": null, "pddf_rg": 3.82, "pddf_rg_error": null, "guinier_rg": 3.72, "guinier_rg_error": 0.2, "pddf_dmax": 13.0, "pddf_dmax_error": null, "porod_volume": 51.0, "porod_volume_error": null, "estimated_volume": null, "estimated_volume_error": null, "guinier_point_first": 30, "guinier_point_last": 97, "pddf_point_first": null, "pddf_point_last": null, "i0_calibration_standard_data": null, "intensities_log_log_plot": "SASDED2_datloglog_img.png", "symmetry": null, "last_modified": "2023-05-25T11:21:52.654103+02:00", "bragg_peak": [] }