{ "code": "SASDDF3", "status": "Published", "type_of_curve": "Single concentration", "angular_unit": "1/A", "project": { "title": "Structural Study of the Complex Formed by Ceruloplasmin and Macrophage Migration Inhibitory Factor.", "publication": { "title": "Structural Study of the Complex Formed by Ceruloplasmin and Macrophage Migration Inhibitory Factor.", "author_list": "Sokolov AV, Dadinova LA, Petoukhov MV, Bourenkov G, Dubova KM, Amarantov SV, Volkov VV, Kostevich VA, Gorbunov NP, Grudinina NA, Vasilyev VB, Samygina VR", "journal": "Biochemistry (Mosc)", "doi": "10.1134/S000629791806007X", "pmid": "30195326", "published_date": "2018 Jun" }, "status": "released", "submitted_date": "2018-02-06", "released_date": "2018-02-08" }, "pddf_data": "https://www.sasbdb.org/media/p_of_R_files/SASDDF3.out", "intensities_data": "https://www.sasbdb.org/media/intensities_files/SASDDF3.dat", "intensities_log_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDDF3_dat_img.png", "intensities_kratky_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDDF3_kratky_img.png", "pddf_plot": "https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDDF3_pofr_img.png", "intensities_guinier_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDDF3_guinier_img.png", "sascif_data": "https://www.sasbdb.org/media/sascif/sascif_files/SASDDF3.sascif", "experiment": { "instrument": { "detector": { "type": "linear", "name": "Braun OED 50M position-sensitive", "resolution": 0.0 }, "name": null, "city": "Moscow", "country": "Russian Federation", "beamline_name": "HECUS System-3", "beam_geometry": null, "type_of_source": "X-ray in house", "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": "Macrophage migration inhibitory factor", "short_name": "MIF", "sequence": ">sp|P14174|MIF_HUMAN Macrophage migration inhibitory factor OS=Homo sapiens GN=MIF PE=1 SV=4\r\nMPMFIVNTNVPRASVPDGFLSELTQQLAQATGKPPQYIAVHVVPDQLMAFGGSSEPCALC\r\nSLHSIGKIGGAQNRSYSKLLCGLLAERLRISPDRVYINYYDMNAANVGWNNSTFA", "organism": "Homo sapiens", "uniprot_code": "P14174", "uniprot_range_first": 1, "uniprot_range_last": 115, "oligomerization": "trimer", "molecular_type": "protein", "uniprot_sequence": "MPMFIVNTNVPRASVPDGFLSELTQQLAQATGKPPQYIAVHVVPDQLMAFGGSSEPCALC\nSLHSIGKIGGAQNRSYSKLLCGLLAERLRISPDRVYINYYDMNAANVGWNNSTFA", "mw": 12.476, "total_mw": 37.428, "number_molecules": 3, "complex_state": false, "deuteration": null, "molecule_source": "biological", "molecule_description": null }, { "long_name": "Ceruloplasmin", "short_name": "CP", "sequence": ">sp|P00450|CERU_HUMAN Ceruloplasmin OS=Homo sapiens GN=CP PE=1 SV=1\r\nMKILILGIFLFLCSTPAWAKEKHYYIGIIETTWDYASDHGEKKLISVDTEHSNIYLQNGP\r\nDRIGRLYKKALYLQYTDETFRTTIEKPVWLGFLGPIIKAETGDKVYVHLKNLASRPYTFH\r\nSHGITYYKEHEGAIYPDNTTDFQRADDKVYPGEQYTYMLLATEEQSPGEGDGNCVTRIYH\r\nSHIDAPKDIASGLIGPLIICKKDSLDKEKEKHIDREFVVMFSVVDENFSWYLEDNIKTYC\r\nSEPEKVDKDNEDFQESNRMYSVNGYTFGSLPGLSMCAEDRVKWYLFGMGNEVDVHAAFFH\r\nGQALTNKNYRIDTINLFPATLFDAYMVAQNPGEWMLSCQNLNHLKAGLQAFFQVQECNKS\r\nSSKDNIRGKHVRHYYIAAEEIIWNYAPSGIDIFTKENLTAPGSDSAVFFEQGTTRIGGSY\r\nKKLVYREYTDASFTNRKERGPEEEHLGILGPVIWAEVGDTIRVTFHNKGAYPLSIEPIGV\r\nRFNKNNEGTYYSPNYNPQSRSVPPSASHVAPTETFTYEWTVPKEVGPTNADPVCLAKMYY\r\nSAVDPTKDIFTGLIGPMKICKKGSLHANGRQKDVDKEFYLFPTVFDENESLLLEDNIRMF\r\nTTAPDQVDKEDEDFQESNKMHSMNGFMYGNQPGLTMCKGDSVVWYLFSAGNEADVHGIYF\r\nSGNTYLWRGERRDTANLFPQTSLTLHMWPDTEGTFNVECLTTDHYTGGMKQKYTVNQCRR\r\nQSEDSTFYLGERTYYIAAVEVEWDYSPQREWEKELHHLQEQNVSNAFLDKGEFYIGSKYK\r\nKVVYRQYTDSTFRVPVERKAEEEHLGILGPQLHADVGDKVKIIFKNMATRPYSIHAHGVQ\r\nTESSTVTPTLPGETLTYVWKIPERSGAGTEDSACIPWAYYSTVDQVKDLYSGLIGPLIVC\r\nRRPYLKVFNPRRKLEFALLFLVFDENESWYLDDNIKTYSDHPEKVNKDDEEFIESNKMHA\r\nINGRMFGNLQGLTMHVGDEVNWYLMGMGNEIDLHTVHFHGHSFQYKHRGVYSSDVFDIFP\r\nGTYQTLEMFPRTPGIWLLHCHVTDHIHAGMETTYTVLQNEDTKSG", "organism": "Homo sapiens", "uniprot_code": "P00450", "uniprot_range_first": 1, "uniprot_range_last": 1065, "oligomerization": "monomer", "molecular_type": "protein", "uniprot_sequence": "MKILILGIFLFLCSTPAWAKEKHYYIGIIETTWDYASDHGEKKLISVDTEHSNIYLQNGP\nDRIGRLYKKALYLQYTDETFRTTIEKPVWLGFLGPIIKAETGDKVYVHLKNLASRPYTFH\nSHGITYYKEHEGAIYPDNTTDFQRADDKVYPGEQYTYMLLATEEQSPGEGDGNCVTRIYH\nSHIDAPKDIASGLIGPLIICKKDSLDKEKEKHIDREFVVMFSVVDENFSWYLEDNIKTYC\nSEPEKVDKDNEDFQESNRMYSVNGYTFGSLPGLSMCAEDRVKWYLFGMGNEVDVHAAFFH\nGQALTNKNYRIDTINLFPATLFDAYMVAQNPGEWMLSCQNLNHLKAGLQAFFQVQECNKS\nSSKDNIRGKHVRHYYIAAEEIIWNYAPSGIDIFTKENLTAPGSDSAVFFEQGTTRIGGSY\nKKLVYREYTDASFTNRKERGPEEEHLGILGPVIWAEVGDTIRVTFHNKGAYPLSIEPIGV\nRFNKNNEGTYYSPNYNPQSRSVPPSASHVAPTETFTYEWTVPKEVGPTNADPVCLAKMYY\nSAVDPTKDIFTGLIGPMKICKKGSLHANGRQKDVDKEFYLFPTVFDENESLLLEDNIRMF\nTTAPDQVDKEDEDFQESNKMHSMNGFMYGNQPGLTMCKGDSVVWYLFSAGNEADVHGIYF\nSGNTYLWRGERRDTANLFPQTSLTLHMWPDTEGTFNVECLTTDHYTGGMKQKYTVNQCRR\nQSEDSTFYLGERTYYIAAVEVEWDYSPQREWEKELHHLQEQNVSNAFLDKGEFYIGSKYK\nKVVYRQYTDSTFRVPVERKAEEEHLGILGPQLHADVGDKVKIIFKNMATRPYSIHAHGVQ\nTESSTVTPTLPGETLTYVWKIPERSGAGTEDSACIPWAYYSTVDQVKDLYSGLIGPLIVC\nRRPYLKVFNPRRKLEFALLFLVFDENESWYLDDNIKTYSDHPEKVNKDDEEFIESNKMHA\nINGRMFGNLQGLTMHVGDEVNWYLMGMGNEIDLHTVHFHGHSFQYKHRGVYSSDVFDIFP\nGTYQTLEMFPRTPGIWLLHCHVTDHIHAGMETTYTVLQNEDTKSG", "mw": 122.204, "total_mw": 122.204, "number_molecules": 1, "complex_state": false, "deuteration": null, "molecule_source": "biological", "molecule_description": null } ], "buffer": { "name": "50mkm CuSO4, 100mM Hepes", "concentration_unit": null, "comment": null, "additive": null, "concentration": null, "pka": null, "ph": 7.4, "deuteration": null }, "purity_method": null, "name": "Macrophage migration inhibitory factor bound to Ceruloplasmin (MIF-CP complex)", "ext_coefficient": null, "contrast": null, "specific_vol": null, "dry_vol": null, "absorbption": null, "deuteration": null, "mixture": null }, "contributor": [ { "affiliation": [ { "short_name": "MSU", "address": "Moscow, Russia", "full_name": "Lomonosov Moscow State University", "webpage": "http://www.msu.ru" } ], "contributor_name": "Liubov", "contributor_surname": "Dadinova", "orcid": null } ], "concentration_method": null, "concentration_unit": null, "date": "2015-12-22", "storage_temperature": 20.0, "cell_temperature": 20.0, "exposure_time": 5400.0, "number_of_frames": 1, "wavelength": 0.154, "sample_detector_distance": 0.28, "concentration_min": 5.0, "concentration_max": 10.0, "sample_volume": null, "flow_rate": null, "s_min": 0.191, "s_max": 2.488, "total_exposure_time": null, "seccolumn": null }, "fits": [ { "models": [ { "model_plot": "https://www.sasbdb.org/media/pdb_file/images/SASDDF3_fit1_model1_img.png", "software": "ClusPro", "pdb_link": [], "model_title": null, "type_of_model": "atomic", "software_version": null, "model_data": "https://www.sasbdb.org/media/pdb_file/SASDDF3_fit1_model1.pdb", "model_mw": 155.1, "bead_radius": 1.9, "log": null, "symmetry": null, "comment": null, "user": 35 } ], "fit_unit": "1/A", "fit_plot": "https://www.sasbdb.org/media/fitting_files/scattering_plots/SASDDF3_fit1_fit_img.png", "software": "CRYSOL", "chi_square_value": 2.224, "p_value": 0.004219, "fit_residual_plot": "SASDDF3_fit1_fitresiduals_img.png", "fit_data": "https://www.sasbdb.org/media/fitting_files/SASDDF3_fit1.fit", "fit_log": "https://www.sasbdb.org/media/fitting_files/log_files/model202.log", "software_version": "5,0", "description": null } ], "estimated_volume_method": null, "pddf_software": "ATSAS GNOM", "pddf_software_version": "5.0", "i0_calibration_standard": null, "description": null, "experiment_description": "SAXS data from solutions of macrophage migration inhibitory factor bound to Ceruloplasmin (MIF-CP complex) in 50mM CuSO4, 100mM HEPES, pH 7.4 were collected using a HECUS System-3 instrument (Moscow, Russian Federation) with a linear Braun OED 50M position-sensitive detector at a sample to detector distance of 0.3 m and at a wavelength of λ = 0.154 nm (l(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). Solute concentrations ranging between 5 and 10 mg/ml were measured at 20°C. One 5400 second frame was 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": 138.0, "experimental_mw_error": null, "guinier_i0_mw": 138.0, "guinier_i0_mw_error": 7.0, "porod_mw": 142.5, "porod_mw_error": null, "pddf_i0": 14030.0, "pddf_i0_error": 1554.0, "guinier_i0": 13053.0, "guinier_i0_error": 755.0, "pddf_rg": 3.94, "pddf_rg_error": 0.5, "guinier_rg": 3.56, "guinier_rg_error": 0.3, "pddf_dmax": 14.41, "pddf_dmax_error": 0.5, "porod_volume": 228.0, "porod_volume_error": null, "estimated_volume": null, "estimated_volume_error": null, "guinier_point_first": 4, "guinier_point_last": 22, "pddf_point_first": null, "pddf_point_last": null, "i0_calibration_standard_data": null, "intensities_log_log_plot": "SASDDF3_datloglog_img.png", "symmetry": null, "last_modified": "2019-12-06T13:07:15.624532+01:00", "bragg_peak": [] }