{ "code": "SASDBT4", "status": "Published", "type_of_curve": "Other", "angular_unit": "1/nm", "project": { "title": "Bovine Serum Albumin measured by SEC-SAXS", "publication": null, "status": "released", "submitted_date": "2016-04-11", "released_date": "2016-04-14" }, "pddf_data": "https://www.sasbdb.org/media/p_of_R_files/SASDBT4.out", "intensities_data": "https://www.sasbdb.org/media/intensities_files/SASDBT4.dat", "intensities_log_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDBT4_dat_img.png", "intensities_kratky_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDBT4_kratky_img.png", "pddf_plot": "https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDBT4_pofr_img.png", "intensities_guinier_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDBT4_guinier_img.png", "sascif_data": "https://www.sasbdb.org/media/sascif/sascif_files/SASDBT4.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": "Bovine serum albumin, monomer", "short_name": "BSA monomer", "sequence": "DTHKSEIAHRFKDLGEEHFKGLVLIAFSQYLQQCPFDEHVKLVNELTEFA\r\nKTCVADESHAGCEKSLHTLFGDELCKVASLRETYGDMADCCEKQEPERNE\r\nCFLSHKDDSPDLPKLKPDPNTLCDEFKADEKKFWGKYLYEIARRHPYFYA\r\nPELLYYANKYNGVFQECCQAEDKGACLLPKIETMREKVLTSSARQRLRCA\r\nSIQKFGERALKAWSVARLSQKFPKAEFVEVTKLVTDLTKVHKECCHGDLL\r\nECADDRADLAKYICDNQDTISSKLKECCDKPLLEKSHCIAEVEKDAIPEN\r\nLPPLTADFAEDKDVCKNYQEAKDAFLGSFLYEYSRRHPEYAVSVLLRLAK\r\nEYEATLEECCAKDDPHACYSTVFDKLKHLVDEPQNLIKQNCDQFEKLGEY\r\nGFQNALIVRYTRKVPQVSTPTLVEVSRSLGKVGTRCCTKPESERMPCTED\r\nYLSLILNRLCVLHEKTPVSEKVTKCCTESLVNRRPCFSALTPDETYVPKA\r\nFDEKLFTFHADICTLPDTEKQIKKQTALVELLKHKPKATEEQLKTVMENF\r\nVAFVDKCCAADDKEACFAVEGPKLVVSTQTALA", "organism": "Bos taurus", "uniprot_code": "P02769", "uniprot_range_first": 25, "uniprot_range_last": 607, "oligomerization": "monomer", "molecular_type": "protein", "uniprot_sequence": "MKWVTFISLLLLFSSAYSRGVFRRDTHKSEIAHRFKDLGEEHFKGLVLIAFSQYLQQCPF\nDEHVKLVNELTEFAKTCVADESHAGCEKSLHTLFGDELCKVASLRETYGDMADCCEKQEP\nERNECFLSHKDDSPDLPKLKPDPNTLCDEFKADEKKFWGKYLYEIARRHPYFYAPELLYY\nANKYNGVFQECCQAEDKGACLLPKIETMREKVLASSARQRLRCASIQKFGERALKAWSVA\nRLSQKFPKAEFVEVTKLVTDLTKVHKECCHGDLLECADDRADLAKYICDNQDTISSKLKE\nCCDKPLLEKSHCIAEVEKDAIPENLPPLTADFAEDKDVCKNYQEAKDAFLGSFLYEYSRR\nHPEYAVSVLLRLAKEYEATLEECCAKDDPHACYSTVFDKLKHLVDEPQNLIKQNCDQFEK\nLGEYGFQNALIVRYTRKVPQVSTPTLVEVSRSLGKVGTRCCTKPESERMPCTEDYLSLIL\nNRLCVLHEKTPVSEKVTKCCTESLVNRRPCFSALTPDETYVPKAFDEKLFTFHADICTLP\nDTEKQIKKQTALVELLKHKPKATEEQLKTVMENFVAFVDKCCAADDKEACFAVEGPKLVV\nSTQTALA", "mw": 66.462, "total_mw": 66.462, "number_molecules": 1, "complex_state": false, "deuteration": null, "molecule_source": "biological", "molecule_description": null } ], "buffer": { "name": "20 mM Tris 142 mM NaCl 5 % Glycerol 1mM DTT", "concentration_unit": "mM", "comment": null, "additive": "142 mM NaCl, 5 % Glycerol, 1mM DTT", "concentration": 20.0, "pka": null, "ph": 7.0, "deuteration": null }, "purity_method": null, "name": "Bovine serum albumin monomer (measured by SEC-SAXS)", "ext_coefficient": null, "contrast": null, "specific_vol": null, "dry_vol": null, "absorbption": null, "deuteration": null, "mixture": null }, "contributor": [ { "affiliation": [ { "short_name": "EMBL", "address": "Grenoble, France", "full_name": "European Molecular Biology Laboratory (EMBL) - Grenoble Outstation", "webpage": "https://www.embl.fr/" } ], "contributor_name": "Martha", "contributor_surname": "Brennich", "orcid": null } ], "concentration_method": null, "concentration_unit": "mg/ml", "date": "2016-02-22", "storage_temperature": 20.0, "cell_temperature": 20.0, "exposure_time": 1.0, "number_of_frames": 40, "wavelength": 0.93, "sample_detector_distance": 2.43, "concentration_min": null, "concentration_max": 10.0, "sample_volume": null, "flow_rate": null, "s_min": 0.132, "s_max": 4.865, "total_exposure_time": null, "seccolumn": null }, "fits": [ { "models": [ { "model_plot": "https://www.sasbdb.org/media/pdb_file/images/SASDBT4_fit1_model1_img.png", "software": "PDB (Protein Data Bank)", "pdb_link": [ { "pdb_code": "3v03", "ext_code": "3V03", "ext_type": "pdb", "difference_with_model": "identical" } ], "model_title": null, "type_of_model": "atomic", "software_version": "", "model_data": "https://www.sasbdb.org/media/pdb_file/SASDBT4_fit1_model1.pdb", "model_mw": 62.38, "bead_radius": 1.9, "log": null, "symmetry": "", "comment": "", "user": 119 } ], "fit_unit": "1/A", "fit_plot": "https://www.sasbdb.org/media/fitting_files/scattering_plots/SASDBT4_fit1_fixed_fit_img.png", "software": null, "chi_square_value": 2.41, "p_value": 0.0, "fit_residual_plot": "SASDBT4_fit1_fitresiduals_img.png", "fit_data": "https://www.sasbdb.org/media/fitting_files/SASDBT4_fit1.fit", "fit_log": null, "software_version": null, "description": null } ], "estimated_volume_method": null, "pddf_software": "ATSAS GNOM", "pddf_software_version": "5", "i0_calibration_standard": null, "description": null, "experiment_description": "Synchrotron SAXS data from solutions of monomeric bovine serum albumin in 20 mM Tris, 142 mM NaCl, 5 % Glycerol, 1mM DTT, pH 7 were collected on the BM29 SAXS beam line at the ESRF (Grenoble, France) using a 2D Photon counting Pilatus 1M-W pixel detector (I(s) vs s; s = 4π sin θ/λ, where 2θ is the scattering angle and λ=0.099 nm). Forty successive 1 s frames were collected through a BSA elution peak from a size-exclusion chromatography column (GE Healthcare Superdex 200 10/300 GL at 0.5 ml/min; initial load concentration = 10 mg/ml). The data were normalized to the intensity of the transmitted beam and radially averaged; the scattering of the solvent-blank (derived from the SEC running solvent) was subtracted and the individual solvent-corrected SAXS profiles were scaled and averaged.", "tags": [ "benchmark" ], "intensity_unit": null, "experimental_mw": 58.0, "experimental_mw_error": null, "guinier_i0_mw": null, "guinier_i0_mw_error": null, "porod_mw": 69.0, "porod_mw_error": null, "pddf_i0": 152.1, "pddf_i0_error": 0.04, "guinier_i0": 150.78, "guinier_i0_error": 0.072, "pddf_rg": 2.77, "pddf_rg_error": 0.008, "guinier_rg": 2.71, "guinier_rg_error": 0.02, "pddf_dmax": 8.15, "pddf_dmax_error": null, "porod_volume": 118.0, "porod_volume_error": null, "estimated_volume": null, "estimated_volume_error": null, "guinier_point_first": 1, "guinier_point_last": 45, "pddf_point_first": null, "pddf_point_last": null, "i0_calibration_standard_data": null, "intensities_log_log_plot": "SASDBT4_datloglog_img.png", "symmetry": null, "last_modified": "2020-08-17T10:26:30.598958+02:00", "bragg_peak": [] }