{ "code": "SASDDY4", "status": "Published", "type_of_curve": "Single concentration", "angular_unit": "1/nm", "project": { "title": "A General Small-Angle X-ray Scattering-Based Screening Protocol Validated for Protein-RNA Interactions.", "publication": { "title": "A General Small-Angle X-ray Scattering-Based Screening Protocol Validated for Protein-RNA Interactions.", "author_list": "Chen PC, Masiewicz P, Rybin V, Svergun D, Hennig J", "journal": "ACS Comb Sci", "doi": "10.1021/acscombsci.8b00007", "pmid": "29553252", "published_date": "2018 Apr 9" }, "status": "released", "submitted_date": "2018-03-15", "released_date": "2018-03-21" }, "pddf_data": "https://www.sasbdb.org/media/p_of_R_files/SASDDY4.out", "intensities_data": "https://www.sasbdb.org/media/intensities_files/SASDDY4.dat", "intensities_log_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDDY4_dat_img.png", "intensities_kratky_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDDY4_kratky_img.png", "pddf_plot": "https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDDY4_pofr_img.png", "intensities_guinier_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDDY4_guinier_img.png", "sascif_data": "https://www.sasbdb.org/media/sascif/sascif_files/SASDDY4.sascif", "experiment": { "instrument": { "detector": { "type": "Dectris", "name": "Pilatus 1M", "resolution": 172.0 }, "name": "ESRF", "city": "Grenoble", "country": "France", "beamline_name": "BM29", "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": "Protein sex-lethal mutant", "short_name": "Sxl10GS", "sequence": ">P19339 Sxl-mutant 123-294 with GAMA cleavage site and 10GS linker inserted between 204-205\r\nGAMASNTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSFGYAFVDFTSEMDSQ\r\nRAIKVLNGITVRNKRLKVSYARPGGGSGSGGGGSGESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQK\r\nNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEGGSQPLSVRLAEEHGK", "organism": "Drosophila melanogaster", "uniprot_code": "P19339", "uniprot_range_first": 123, "uniprot_range_last": 294, "oligomerization": "monomer", "molecular_type": "protein", "uniprot_sequence": "MYGNNNPGSNNNNGGYPPYGYNNKSSGGRGFGMSHSLPSGMSRYAFSPQDTEFSFPSSSS\nRRGYNDFPGCGGSGGNGGSANNLGGGNMCHLPPMASNNSLNNLCGLSLGSGGSDDLMNDP\nRASNTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSFGYAFVDFTSEMDSQ\nRAIKVLNGITVRNKRLKVSYARPGGESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQK\nNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEGGSQPLSVRLAEEHGKAKAAHF\nMSQMGVVPANVPPPPPQPPAHMAAAFNMMHRGRSIKSQQRFQNSHPYFDAKKFI", "mw": 20.432, "total_mw": 20.432, "number_molecules": 1, "complex_state": false, "deuteration": null, "molecule_source": "biological", "molecule_description": null } ], "buffer": { "name": "10 mM KP, 50 mM NaCl, 10 mM DTT", "concentration_unit": null, "comment": null, "additive": null, "concentration": null, "pka": null, "ph": 6.0, "deuteration": null }, "purity_method": null, "name": "Protein sex-lethal mutant with 10GS-linker", "ext_coefficient": null, "contrast": null, "specific_vol": null, "dry_vol": null, "absorbption": null, "deuteration": null, "mixture": null }, "contributor": [ { "affiliation": [ { "short_name": "EMBL", "address": "Heidelberg, Germany", "full_name": "European Molecular Biology Laboratory (EMBL) - Heidelberg", "webpage": "https://www.embl.de/" } ], "contributor_name": "Po-chia", "contributor_surname": "Chen", "orcid": null } ], "concentration_method": null, "concentration_unit": null, "date": "2017-02-02", "storage_temperature": 20.0, "cell_temperature": 20.0, "exposure_time": 1.0, "number_of_frames": 10, "wavelength": 0.09919, "sample_detector_distance": 2.867, "concentration_min": null, "concentration_max": 1.0, "sample_volume": null, "flow_rate": null, "s_min": 0.035, "s_max": 4.942, "total_exposure_time": null, "seccolumn": null }, "fits": [ { "models": [ { "model_plot": "https://www.sasbdb.org/media/pdb_file/images/SASDDY4_fit1_model1_img.png", "software": "EOM/RANCH", "pdb_link": [], "model_title": null, "type_of_model": "mix", "software_version": "2.1", "model_data": "https://www.sasbdb.org/media/pdb_file/SASDDY4_fit1_model1.pdb", "model_mw": 20.05, "bead_radius": 1.9, "log": null, "symmetry": null, "comment": null, "user": 297 }, { "model_plot": "https://www.sasbdb.org/media/pdb_file/images/SASDDY4_fit1_model2_img.png", "software": "EOM/RANCH", "pdb_link": [], "model_title": null, "type_of_model": "mix", "software_version": "2.1", "model_data": "https://www.sasbdb.org/media/pdb_file/SASDDY4_fit1_model2.pdb", "model_mw": 20.05, "bead_radius": 1.9, "log": null, "symmetry": null, "comment": null, "user": 297 }, { "model_plot": "https://www.sasbdb.org/media/pdb_file/images/SASDDY4_fit1_model3_img.png", "software": "EOM/RANCH", "pdb_link": [], "model_title": null, "type_of_model": "mix", "software_version": "2.1", "model_data": "https://www.sasbdb.org/media/pdb_file/SASDDY4_fit1_model3.pdb", "model_mw": 20.05, "bead_radius": 1.9, "log": null, "symmetry": null, "comment": null, "user": 297 }, { "model_plot": "https://www.sasbdb.org/media/pdb_file/images/SASDDY4_fit1_model4_img.png", "software": "EOM/RANCH", "pdb_link": [], "model_title": null, "type_of_model": "mix", "software_version": "2.1", "model_data": "https://www.sasbdb.org/media/pdb_file/SASDDY4_fit1_model4.pdb", "model_mw": 20.05, "bead_radius": 1.9, "log": null, "symmetry": null, "comment": null, "user": 297 }, { "model_plot": "https://www.sasbdb.org/media/pdb_file/images/SASDDY4_fit1_model5_img.png", "software": "EOM/RANCH", "pdb_link": [], "model_title": null, "type_of_model": "mix", "software_version": "2.1", "model_data": "https://www.sasbdb.org/media/pdb_file/SASDDY4_fit1_model5.pdb", "model_mw": 20.05, "bead_radius": 1.9, "log": null, "symmetry": null, "comment": null, "user": 297 } ], "fit_unit": "1/A", "fit_plot": "https://www.sasbdb.org/media/fitting_files/scattering_plots/SASDDY4_fit1_fixed_fit_img.png", "software": "EOM/GAJOE", "chi_square_value": 1.642, "p_value": 0.675072, "fit_residual_plot": "fit4columns1338_fitresiduals_img.png", "fit_data": "https://www.sasbdb.org/media/fitting_files/SASDDY4_fit1.fit", "fit_log": "https://www.sasbdb.org/media/fitting_files/log_files/mut-apo_eom.log", "software_version": "2.1", "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 Protein sex-lethal mutant with 10GS-linker in 10 mM KP, 50 mM NaCl, 10 mM DTT, pH 6 were collected on the BM29 beam line at the ESRF (Grenoble, France) using a Pilatus 1M detector at a sample-detector distance of 2.9 m and at a wavelength of λ = 0.09919 nm (l(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). One solute concentration of 1.00 mg/ml was measured at 20°C. 10 successive 1 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": 16.0, "experimental_mw_error": null, "guinier_i0_mw": null, "guinier_i0_mw_error": null, "porod_mw": 15.85, "porod_mw_error": null, "pddf_i0": 22.77, "pddf_i0_error": 0.05, "guinier_i0": 22.66, "guinier_i0_error": 0.02, "pddf_rg": 2.18, "pddf_rg_error": 0.009, "guinier_rg": 2.12, "guinier_rg_error": 0.05, "pddf_dmax": 7.4, "pddf_dmax_error": null, "porod_volume": 26.95, "porod_volume_error": null, "estimated_volume": null, "estimated_volume_error": null, "guinier_point_first": 12, "guinier_point_last": 121, "pddf_point_first": null, "pddf_point_last": null, "i0_calibration_standard_data": null, "intensities_log_log_plot": "SASDDY4_datloglog_img.png", "symmetry": null, "last_modified": "2020-08-28T15:27:59.340668+02:00", "bragg_peak": [] }