{ "code": "SASDBJ7", "status": "Published", "type_of_curve": "Single concentration", "angular_unit": "1/nm", "project": { "title": "Convergent evolution of plant and animal embryo defences by hyperstable non-digestible storage proteins.", "publication": { "title": "Convergent evolution of plant and animal embryo defences by hyperstable non-digestible storage proteins.", "author_list": "Pasquevich MY, Dreon MS, Qiu JW, Mu H, Heras H", "journal": "Sci Rep", "doi": "10.1038/s41598-017-16185-9", "pmid": "29158565", "published_date": "2017 Nov 20" }, "status": "released", "submitted_date": "2016-11-04", "released_date": "2017-11-21" }, "pddf_data": "https://www.sasbdb.org/media/p_of_R_files/SASDBJ7.out", "intensities_data": "https://www.sasbdb.org/media/intensities_files/SASDBJ7.dat", "intensities_log_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDBJ7_dat_img.png", "intensities_kratky_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDBJ7_kratky_img.png", "pddf_plot": "https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDBJ7_pofr_img.png", "intensities_guinier_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDBJ7_guinier_img.png", "sascif_data": "https://www.sasbdb.org/media/sascif/sascif_files/SASDBJ7.sascif", "experiment": { "instrument": { "detector": { "type": null, "name": "MAR 165 CCD", "resolution": null }, "name": "Brazilian Synchrotron Light Laboratory", "city": "Campinas", "country": "Brazil", "beamline_name": "SAXS2 Beamline", "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": "Pomacea maculata perivitellin 1", "short_name": "PmPV1", "sequence": "MAATLVLLLAMSTLLTSGVEMIKHDLVFLEVDSGSCKENASKIFQDKSMIPGEVSGQVIG\r\nTSKFFAVLREQDLARMNLKDVKEVVPVTKLEDYLESWNASWRIHRDINETDLWLFKVSPN\r\nPKSKTLQQYDNQVRHGVRIAAPVMENFPNYILLSKGVFPPKYYIFINKKEEFPKDFRNIL\r\nDIFGGPGAVKVESLYVRILISWQ", "organism": "Pomacea maculata", "uniprot_code": null, "uniprot_range_first": null, "uniprot_range_last": null, "oligomerization": "dodecamer", "molecular_type": "protein", "uniprot_sequence": null, "mw": 23.184, "total_mw": 278.208, "number_molecules": 12, "complex_state": false, "deuteration": null, "molecule_source": "biological", "molecule_description": null } ], "buffer": { "name": "100 mM Phosphate Buffer", "concentration_unit": null, "comment": null, "additive": null, "concentration": null, "pka": null, "ph": 7.4, "deuteration": null }, "purity_method": null, "name": "Pomacea maculata perivitellin 1", "ext_coefficient": null, "contrast": null, "specific_vol": null, "dry_vol": null, "absorbption": null, "deuteration": null, "mixture": null }, "contributor": [ { "affiliation": [], "contributor_name": "Marcos", "contributor_surname": "Dreon", "orcid": null } ], "concentration_method": null, "concentration_unit": null, "date": "2015-03-26", "storage_temperature": null, "cell_temperature": 25.0, "exposure_time": 300.0, "number_of_frames": 5, "wavelength": 1.55, "sample_detector_distance": 1.51154, "concentration_min": 1.37, "concentration_max": 0.66, "sample_volume": null, "flow_rate": null, "s_min": 0.097, "s_max": 2.112, "total_exposure_time": null, "seccolumn": null }, "fits": [ { "models": [ { "model_plot": "https://www.sasbdb.org/media/pdb_file/images/SASDBJ7_fit1_model1_img.png", "software": "DAMMIF", "pdb_link": [], "model_title": null, "type_of_model": "dummy", "software_version": "", "model_data": "https://www.sasbdb.org/media/pdb_file/SASDBJ7_fit1_model1.pdb", "model_mw": 275.0, "bead_radius": 3.0, "log": null, "symmetry": "", "comment": "", "user": 128 } ], "fit_unit": null, "fit_plot": 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"https://www.sasbdb.org/media/fitting_files/SASDBJ7_fit2.fir", "fit_log": null, "software_version": null, "description": null }, { "models": [ { "model_plot": "https://www.sasbdb.org/media/pdb_file/images/SASDBJ7_fit3_model1_img.png", "software": "DAMMIF", "pdb_link": [], "model_title": null, "type_of_model": "dummy", "software_version": "", "model_data": "https://www.sasbdb.org/media/pdb_file/SASDBJ7_fit3_model1.pdb", "model_mw": 275.0, "bead_radius": 3.0, "log": null, "symmetry": "", "comment": "", "user": 128 } ], "fit_unit": null, "fit_plot": "https://www.sasbdb.org/media/fitting_files/scattering_plots/SASDBJ7_fit3_fit_img.png", "software": null, "chi_square_value": 11.318, "p_value": 0.000732, "fit_residual_plot": "SASDBJ7_fit3_fitresiduals_img.png", "fit_data": "https://www.sasbdb.org/media/fitting_files/SASDBJ7_fit3.fir", "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": null, "experiment_description": "Synchrotron SAXS data from Pomacea maculata perivitellin 1 in 100 mM phosphate Buffer, pH 7.4 were collected at the SAXS2 Beamline on the Brazilian Synchrotron Light Laboratory storage ring (Campinas, Brazil) using a MAR 165 CCD detector at a sample-detector distance of 1.5 m and at a wavelength of λ = 1.55 nm (I(s) vs s, where s = 4π sin θ/λ and 2θ is the scattering angle). Solute concentrations ranging between 1.4 and 0.7 mg/ml were measured at 25°C. Five successive 300 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 and the different curves were scaled for protein concentration.", "tags": [], "intensity_unit": null, "experimental_mw": 294.0, "experimental_mw_error": null, "guinier_i0_mw": null, "guinier_i0_mw_error": null, "porod_mw": 335.0, "porod_mw_error": null, "pddf_i0": 0.001938, "pddf_i0_error": null, "guinier_i0": 0.0019, "guinier_i0_error": 2e-05, "pddf_rg": 4.26, "pddf_rg_error": 0.002, "guinier_rg": 4.18, "guinier_rg_error": 0.07, "pddf_dmax": 14.32, "pddf_dmax_error": null, "porod_volume": 537.0, "porod_volume_error": null, "estimated_volume": null, "estimated_volume_error": null, "guinier_point_first": 3, "guinier_point_last": 28, "pddf_point_first": null, "pddf_point_last": null, "i0_calibration_standard_data": null, "intensities_log_log_plot": "SASDBJ7_datloglog_img.png", "symmetry": null, "last_modified": "2019-12-06T13:07:15.624532+01:00", "bragg_peak": [] }