{ "code": "SASDCP8", "status": "Published", "type_of_curve": "Single concentration", "angular_unit": "1/A", "project": { "title": "The SAXS Analysis of the human GTPase Rab1a", "publication": null, "status": "released", "submitted_date": "2017-10-29", "released_date": "2024-10-29" }, "pddf_data": "https://www.sasbdb.org/media/p_of_R_files/SASDCP8.out", "intensities_data": "https://www.sasbdb.org/media/intensities_files/SASDCP8.dat", "intensities_log_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDCP8_dat_img.png", "intensities_kratky_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDCP8_kratky_img.png", "pddf_plot": "https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDCP8_pofr_img.png", "intensities_guinier_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDCP8_guinier_img.png", "sascif_data": "https://www.sasbdb.org/media/sascif/sascif_files/SASDCP8.sascif", "experiment": { "instrument": { "detector": { "type": "CCD", "name": "AVIEX PCCD170170", "resolution": null }, "name": "SOLEIL", "city": "Saint-Aubin", "country": "France", "beamline_name": "SWING", "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": "Ras-related protein Rab-1A", "short_name": "Rab1a", "sequence": "MSSMNPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQ\r\nERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAK\r\nEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRMGPGATAGGAEKSNVKIQSTPVKQSGGGCCHHHHHH", "organism": "Homo sapiens", "uniprot_code": "P62820", "uniprot_range_first": null, "uniprot_range_last": null, "oligomerization": "monomer", "molecular_type": "protein", "uniprot_sequence": "MSSMNPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTI\nKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKL\nLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRMGPGA\nTAGGAEKSNVKIQSTPVKQSGGGCC", "mw": 23.5, "total_mw": 23.5, "number_molecules": 1, "complex_state": false, "deuteration": null, "molecule_source": "biological", "molecule_description": null } ], "buffer": { "name": "300 mM NaCl, 2 mM 2-mercaptoethanol and 30 mM Tris-HCl", "concentration_unit": null, "comment": null, "additive": null, "concentration": null, "pka": null, "ph": 7.5, "deuteration": null }, "purity_method": null, "name": "Ras-related protein Rab-1A", "ext_coefficient": null, "contrast": null, "specific_vol": null, "dry_vol": null, "absorbption": null, "deuteration": null, "mixture": null }, "contributor": [ { "affiliation": [ { "short_name": null, "address": "Cachan, France", "full_name": "CNRS UMR8113, ENS Paris-Saclay", "webpage": "http://lbpa.ens-paris-saclay.fr/" } ], "contributor_name": "Wenhua", "contributor_surname": "Zhang", "orcid": null } ], "concentration_method": null, "concentration_unit": null, "date": "2015-11-17", "storage_temperature": null, "cell_temperature": 15.0, "exposure_time": 1.2, "number_of_frames": 240, "wavelength": 0.103, "sample_detector_distance": 1.2, "concentration_min": 2.0, "concentration_max": 6.0, "sample_volume": null, "flow_rate": null, "s_min": 0.169, "s_max": 6.125, "total_exposure_time": null, "seccolumn": null }, "fits": [ { "models": [ { "model_plot": "https://www.sasbdb.org/media/pdb_file/images/SASDCP8_fit1_model1_img.png", "software": "DAMMIF", "pdb_link": [], "model_title": null, "type_of_model": "dummy", "software_version": "2.8.2", "model_data": "https://www.sasbdb.org/media/pdb_file/SASDCP8_fit1_model1.pdb", "model_mw": 24.2, "bead_radius": 1.4, "log": "https://www.sasbdb.org/media/log_files/Rab1-df.log", "symmetry": "P1", "comment": "", "user": 84 } ], "fit_unit": "1/A", "fit_plot": "https://www.sasbdb.org/media/fitting_files/scattering_plots/SASDCP8_fit1_fixed_fit_img.png", "software": "DAMMIF", "chi_square_value": 1.745, "p_value": 5e-06, "fit_residual_plot": "SASDCP8_fit1_fitresiduals_img.png", "fit_data": "https://www.sasbdb.org/media/fitting_files/SASDCP8_fit1.fir", "fit_log": "https://www.sasbdb.org/media/fitting_files/log_files/Rab1-df.log", "software_version": "2.8.2", "description": null } ], "estimated_volume_method": null, "pddf_software": "ATSAS GNOM", "pddf_software_version": "2.8.2", "i0_calibration_standard": null, "description": null, "experiment_description": "Synchrotron SAXS data from solutions of Ras-related protein Rab-1A in 300 mM NaCl, 2 mM 2-mercaptoethanol and 30 mM Tris-HCl, pH 7.5, were collected at the SWING beam line at the SOLEIL storage ring (Saint-Aubin, France) using a CCD AVIEX detector at a sample-detector distance of 1.2 m and at a wavelength of λ = 0.103 nm (I(s) vs s, where s = 4πsinθ/λ and 2θ is the scattering angle). Solute concentrations ranging between 2 and 6 mg/ml were measured at 15°C. 240 successive 1.2second 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": "1/cm", "experimental_mw": 24.0, "experimental_mw_error": null, "guinier_i0_mw": null, "guinier_i0_mw_error": null, "porod_mw": 24.0, "porod_mw_error": null, "pddf_i0": 0.01385, "pddf_i0_error": 1.4e-05, "guinier_i0": 0.01366, "guinier_i0_error": 1.3e-05, "pddf_rg": 2.54, "pddf_rg_error": 0.006, "guinier_rg": 2.38, "guinier_rg_error": 0.004, "pddf_dmax": 10.2, "pddf_dmax_error": null, "porod_volume": 36.1, "porod_volume_error": null, "estimated_volume": null, "estimated_volume_error": null, "guinier_point_first": 11, "guinier_point_last": 59, "pddf_point_first": null, "pddf_point_last": null, "i0_calibration_standard_data": null, "intensities_log_log_plot": "SASDCP8_datloglog_img.png", "symmetry": null, "last_modified": "2024-10-31T15:53:47.550615+01:00", "bragg_peak": [] }