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{
"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": "https://www.sasbdb.org/media/fitting_files/scattering_plots/SASDBJ7_fit1_fit_img.png",
"software": null,
"chi_square_value": 11.066,
"p_value": 0.0,
"fit_residual_plot": "SASDBJ7_fit1_fitresiduals_img.png",
"fit_data": "https://www.sasbdb.org/media/fitting_files/SASDBJ7_fit1.fir",
"fit_log": null,
"software_version": null,
"description": null
},
{
"models": [
{
"model_plot": "https://www.sasbdb.org/media/pdb_file/images/SASDBJ7_fit2_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_fit2_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_fit2_fit_img.png",
"software": null,
"chi_square_value": 11.134,
"p_value": 0.000732,
"fit_residual_plot": "SASDBJ7_fit2_fitresiduals_img.png",
"fit_data": "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": []
}
