{ "code": "SASDA58", "status": "Published", "type_of_curve": "Single concentration", "angular_unit": "1/nm", "project": { "title": "Dimerization-Induced Allosteric Changes of the Oxyanion-Hole Loop Activate the Pseudorabies Virus Assemblin pUL26N, a Herpesvirus Serine Protease.", "publication": { "title": "Dimerization-Induced Allosteric Changes of the Oxyanion-Hole Loop Activate the Pseudorabies Virus Assemblin pUL26N, a Herpesvirus Serine Protease.", "author_list": "Zühlsdorf M, Werten S, Klupp BG, Palm GJ, Mettenleiter TC, Hinrichs W", "journal": "PLoS Pathog", "doi": "10.1371/journal.ppat.1005045", "pmid": "26161660", "published_date": "2015 Jul" }, "status": "released", "submitted_date": "2015-04-25", "released_date": "2015-07-17" }, "pddf_data": "https://www.sasbdb.org/media/p_of_R_files/SASDA58.out", "intensities_data": "https://www.sasbdb.org/media/intensities_files/SASDA58.dat", "intensities_log_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDA58_dat_img.png", "intensities_kratky_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDA58_kratky_img.png", "pddf_plot": "https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDA58_pofr_img.png", "intensities_guinier_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDA58_guinier_img.png", "sascif_data": "https://www.sasbdb.org/media/sascif/sascif_files/SASDA58.sascif", "experiment": { "instrument": { "detector": { "type": null, "name": "Pilatus 2M", "resolution": null }, "name": "PETRA III", "city": "DESY; Hamburg", "country": "Germany", "beamline_name": "EMBL P12", "beam_geometry": null, "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": "VP24", "short_name": "UL26N", "sequence": "MGSSHHHHHHSSGLVPRGSHMGPVYVSGYLALYDRDGGELALTREIVAAALPPAGPLPINIDHRPRCDIGAVLAVVDDDRGPFFLGVVNCPQLGAVLARAVGPDFFGDMRLSDEERLLYLLSNYLPSASLSSRRLAPGEAPDETLFAHVALCVIGRRVGTIVVYDASPEAAVAPFRQLSARARSELLARAAESPDRERVWHMSEEALTRALLSTAVNNMLLRDRWELVAARRREAGVRGHTYLQ", "organism": "Suid herpesvirus 1", "uniprot_code": "Q83417", "uniprot_range_first": 1, "uniprot_range_last": 224, "oligomerization": "dimer", "molecular_type": "protein", "uniprot_sequence": "MGPVYVSGYLALYDRDGGELALTREIVAAALPPAGPLPINIDHRPRCDIGAVLAVVDDDR\nGPFFLGVVNCPQLGAVLARAVGPDFFGDMRLSDEERLLYLLSNYLPSASLSSRRLAPGEA\nPDETLFAHVALCVIGRRVGTIVVYDASPEAAVAPFRQLSARARSELLARAAESPDRERVW\nHMSEEALTRALLSTAVNNMLLRDRWELVAARRREAGVRGHTYLQATMWAGLLPKSGASPA\nPGPSAAMAAPPSAAPGDYIFVPAAQYNQLVVNQRPAPSLESQLGAIVSAAMDRRHRRSPS\nPEPRPPARKRRYDDYAQDNAYYPGEAPPPASDLAAVVSSLQREISHLRAQQLRYPTPYYA\nPAAPPQLLPPGAVVGHPHPHHAAGALYPPMYAPQPGLHAPPPSPVAHAVPALPGLPGLQG\nLAAPVAHVPAQVVPQQPVVVQAQPVAVPAAAAAAPAPAPAAAAAAAAPVQAAAPAAPASA\nPQPPVQASVSAPADVSAGTIDASSAAVACQRGADIFVSQMMSQR", "mw": 26.608, "total_mw": 53.216, "number_molecules": 2, "complex_state": false, "deuteration": null, "molecule_source": "biological", "molecule_description": null } ], "buffer": { "name": "50 mM Tris/HCl 0.5 M NaCl 0.25 M imidazole 5% glycerol 50 mM urea 0.2 M MgCl2", "concentration_unit": "mM", "comment": null, "additive": "0.5 M NaCl, 0.25 M imidazole, 5% glycerol, 50 mM urea, 0.2 M MgCl2", "concentration": 50.0, "pka": null, "ph": 7.5, "deuteration": null }, "purity_method": null, "name": "UL26N of pseudorabies virus", "ext_coefficient": null, "contrast": null, "specific_vol": null, "dry_vol": null, "absorbption": null, "deuteration": null, "mixture": null }, "contributor": [ { "affiliation": [ { "short_name": null, "address": "Domstraße 11 17489 Greifswald", "full_name": "Ernst-Moritz-Arndt-Universität Greifswald", "webpage": "http://www.uni-greifswald.de/" } ], "contributor_name": "Sebastiaan", "contributor_surname": "Werten", "orcid": null } ], "concentration_method": null, "concentration_unit": "mg/ml", "date": "2013-09-23", "storage_temperature": null, "cell_temperature": 10.0, "exposure_time": 0.05, "number_of_frames": 20, "wavelength": 0.12, "sample_detector_distance": 3.1, "concentration_min": null, "concentration_max": 9.83, "sample_volume": null, "flow_rate": null, "s_min": 0.068, "s_max": 4.437, "total_exposure_time": null, "seccolumn": null }, "fits": [ { "models": [ { "model_plot": "https://www.sasbdb.org/media/pdb_file/images/SASDA58_fit1_model1_img.png", "software": "PDB (Protein Data Bank)", "pdb_link": [ { "pdb_code": "4v07", "ext_code": "4V07", "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/SASDA58_fit1_model1.pdb", "model_mw": 47.55, "bead_radius": null, "log": null, "symmetry": "", "comment": "", "user": 60 } ], "fit_unit": "1/A", "fit_plot": "https://www.sasbdb.org/media/fitting_files/scattering_plots/SASDA58_fit1_fit_img.png", "software": null, "chi_square_value": 1.288, "p_value": 0.000196, "fit_residual_plot": "SASDA58_fit1_fitresiduals_img.png", "fit_data": "https://www.sasbdb.org/media/fitting_files/SASDA58_fit1.fit", "fit_log": null, "software_version": null, "description": null }, { "models": [ { "model_plot": "https://www.sasbdb.org/media/pdb_file/images/SASDA58_fit2_model1_img.png", "software": "DAMMIN", "pdb_link": [], "model_title": null, "type_of_model": "dummy", "software_version": "", "model_data": "https://www.sasbdb.org/media/pdb_file/SASDA58_fit2_model1.pdb", "model_mw": 46.78, "bead_radius": 2.25, "log": "https://www.sasbdb.org/media/log_files/UL26N.log", "symmetry": "", "comment": "", "user": 60 } ], "fit_unit": "1/A", "fit_plot": "https://www.sasbdb.org/media/fitting_files/scattering_plots/SASDA58_fit2_fit_img.png", "software": null, "chi_square_value": 1.196, "p_value": 0.58613, "fit_residual_plot": "SASDA58_fit2_fitresiduals_img.png", "fit_data": "https://www.sasbdb.org/media/fitting_files/SASDA58_fit2.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": null, "tags": [], "intensity_unit": null, "experimental_mw": 45.0, "experimental_mw_error": null, "guinier_i0_mw": null, "guinier_i0_mw_error": null, "porod_mw": 45.0, "porod_mw_error": null, "pddf_i0": 2982.0, "pddf_i0_error": null, "guinier_i0": 2964.0, "guinier_i0_error": null, "pddf_rg": 2.69, "pddf_rg_error": null, "guinier_rg": 2.62, "guinier_rg_error": null, "pddf_dmax": 10.6, "pddf_dmax_error": null, "porod_volume": 73.0, "porod_volume_error": null, "estimated_volume": null, "estimated_volume_error": null, "guinier_point_first": null, "guinier_point_last": null, "pddf_point_first": null, "pddf_point_last": null, "i0_calibration_standard_data": null, "intensities_log_log_plot": "SASDA58_datloglog_img.png", "symmetry": null, "last_modified": "2023-06-21T07:56:39.492710+02:00", "bragg_peak": [] }