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{
"code": "SASDAS8",
"status": "Published",
"type_of_curve": "Single concentration",
"angular_unit": "1/nm",
"project": {
"title": "KSHV but not MHV-68 LANA induces a strong bend upon binding to terminal repeat viral DNA.",
"publication": {
"title": "KSHV but not MHV-68 LANA induces a strong bend upon binding to terminal repeat viral DNA.",
"author_list": "Ponnusamy R, Petoukhov MV, Correia B, Custodio TF, Juillard F, Tan M, Pires de Miranda M, Carrondo MA, Simas JP, Kaye KM, Svergun DI, McVey CE",
"journal": "Nucleic Acids Res",
"doi": "10.1093/nar/gkv987",
"pmid": "26424851",
"published_date": "2015 Nov 16"
},
"status": "released",
"submitted_date": "2015-07-06",
"released_date": "2016-03-17"
},
"pddf_data": "https://www.sasbdb.org/media/p_of_R_files/SASDAS8.out",
"intensities_data": "https://www.sasbdb.org/media/intensities_files/SASDAS8.dat",
"intensities_log_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDAS8_dat_img.png",
"intensities_kratky_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDAS8_kratky_img.png",
"pddf_plot": "https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDAS8_pofr_img.png",
"intensities_guinier_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDAS8_guinier_img.png",
"sascif_data": "https://www.sasbdb.org/media/sascif/sascif_files/SASDAS8.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": "kLBS1-2 DNA",
"short_name": null,
"sequence": null,
"organism": "unidentified herpesvirus",
"uniprot_code": null,
"uniprot_range_first": null,
"uniprot_range_last": null,
"oligomerization": "monomer",
"molecular_type": "DNA",
"uniprot_sequence": null,
"mw": 24.0,
"total_mw": 24.0,
"number_molecules": 1,
"complex_state": false,
"deuteration": null,
"molecule_source": "biological",
"molecule_description": null
},
{
"long_name": "ORF73 tetramer",
"short_name": "kLANA mutant K1109E",
"sequence": "SHPRYQQPPVPYRQIDDCPAKARPQHIFYRRFLGKDGRRDPKCQWKFAVIFWGNDPYGLKKLSQAFQFGGVKAGPVSCLPHPGPDQSPITYCVYVYCQNKDTSKKVQMARLAWEASHPLAGNLQSSIVKFKKPLPLTQ",
"organism": "Human herpesvirus 8",
"uniprot_code": "Q9QR71",
"uniprot_range_first": 1008,
"uniprot_range_last": 1150,
"oligomerization": "tetramer",
"molecular_type": "protein",
"uniprot_sequence": "MAPPGMRLRSGRSTGAPLTRGSCRKRNRSPERCDLGDDLHLQPRRKHVADSVDGRECGPH\nTLPIPGSPTVFTSGLPAFVSSPTLPVAPIPSPAPATPLPPPALLPPVTTSSSPIPPSHPV\nSPGTTDTHSPSPALPPTQSPESSQRPPLSSPTGRPDSSTPMRPPPSQQTTPPHSPTTPPP\nEPPSKSSPDSLAPSTLRSLRKRRLSSPQGPSTLNPICQSPPVSPPRCDFANRSVYPPWAT\nESPIYVGSSSDGDTPPRQPPTSPISIGSSSPSEGSWGDDTAMLVLLAEIAEEASKNEKEC\nSENNQAGEDNGDNEISKESQVDKDDNDNKDDEEEQETDEEDEEDDEEDDEEDDEEDDEED\nDEEDDEEDDEEEDEEEDEEEDEEEDEEEEEDEEDDDDEDNEDEEDDEEEDKKEDEEDGGD\nGNKTLSIQSSQQQQEPQQQEPQQQEPQQQEPQQQEPQQQEPQQQEPQQQEPQQREPQQRE\nPQQREPQQREPQQREPQQREPQQREPQQREPQQREPQQREPQQREPQQREPQQQEPQQQE\nPQQQEPQQQEPQQQEPQQQEPQQQEPQQQEPQQQEPQQQEPQQQEPQQQEPQQQDEQQQD\nEQQQDEQQQDEQQQDEQQQDEQQQDEQQQDEQEQQDEQQQDEQQQQDEQEQQEEQEQQEE\nQQQDEQQQDEQQQDEQQQDEQEQQDEQQQDEQQQQDEQEQQEEQEQQEEQEQQEEQEQQE\nEQEQELEEQEQELEEQEQELEEQEQELEEQEQELEEQEQELEEQEQELEEQEQELEEQEQ\nELEEQEQELEEQEQELEEQEQELEEQEQELEEQEQELEEQEQEQELEEVEEQEQEQEEQE\nLEEVEEQEQEQEEQEEQELEEVEEQEEQELEEVEEQEEQELEEVEEQEQQGVEQQEQETV\nEEPIILHGSSSEDEMEVDYPVVSTHEQIASSPPGDNTPDDDPQPGPSREYRYVLRTSPPH\nRPGVRMRRVPVTHPKKPHPRYQQPPVPYRQIDDCPAKARPQHIFYRRFLGKDGRRDPKCQ\nWKFAVIFWGNDPYGLKKLSQAFQFGGVKAGPVSCLPHPGPDQSPITYCVYVYCQNKDTSK\nKVQMARLAWEASHPLAGNLQSSIVKFKKPLPLTQPGENQGPGDSPQEMT",
"mw": 15.759,
"total_mw": 63.036,
"number_molecules": 4,
"complex_state": false,
"deuteration": null,
"molecule_source": "biological",
"molecule_description": null
},
{
"long_name": "ORF73 octamer",
"short_name": "kLANA",
"sequence": "SHPRYQQPPVPYRQIDDCPAKARPQHIFYRRFLGKDGRRDPKCQWKFAVIFWGNDPYGLKKLSQAFQFGGVKAGPVSCLPHPGPDQSPITYCVYVYCQNKDTSKKVQMARLAWEASHPLAGNLQSSIVKFKKPLPLTQ",
"organism": "Human herpesvirus 8",
"uniprot_code": "Q9QR71",
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"oligomerization": "octamer",
"molecular_type": "protein",
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"mw": 15.759,
"total_mw": 126.072,
"number_molecules": 8,
"complex_state": false,
"deuteration": null,
"molecule_source": "biological",
"molecule_description": null
},
{
"long_name": "kLBS1-2 DNA two monomers",
"short_name": null,
"sequence": null,
"organism": "unidentified herpesvirus",
"uniprot_code": null,
"uniprot_range_first": null,
"uniprot_range_last": null,
"oligomerization": "dimer",
"molecular_type": "RNA",
"uniprot_sequence": null,
"mw": 24.0,
"total_mw": 48.0,
"number_molecules": 2,
"complex_state": true,
"deuteration": null,
"molecule_source": "biological",
"molecule_description": null
}
],
"buffer": {
"name": "25 mM Na/K Phosphate",
"concentration_unit": null,
"comment": null,
"additive": null,
"concentration": null,
"pka": null,
"ph": 7.5,
"deuteration": null
},
"purity_method": null,
"name": "kLANA 1008-1150 -- kLBS1-2 complex 8:2 (partially dissociated)",
"ext_coefficient": null,
"contrast": null,
"specific_vol": null,
"dry_vol": null,
"absorbption": null,
"deuteration": null,
"mixture": true
},
"contributor": [
{
"affiliation": [
{
"short_name": "EMBL-Hamburg",
"address": "Notkestraße 85, Geb. 25A, 22607 Hamburg, Deutschland, Germany",
"full_name": "European Molecular Biology Laboratory (EMBL) - Hamburg outstation",
"webpage": "http://www.embl-hamburg.de/index.php"
}
],
"contributor_name": "Maxim",
"contributor_surname": "Petoukhov",
"orcid": null
}
],
"concentration_method": null,
"concentration_unit": null,
"date": "2013-04-27",
"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": 0.4,
"sample_volume": null,
"flow_rate": null,
"s_min": 0.13,
"s_max": 4.609,
"total_exposure_time": null,
"seccolumn": null
},
"fits": [
{
"models": [
{
"model_plot": "https://www.sasbdb.org/media/pdb_file/images/kTR12_1KgYkK4_img.png",
"software": "oligomer",
"pdb_link": [],
"model_title": null,
"type_of_model": "mix",
"software_version": "",
"model_data": "https://www.sasbdb.org/media/pdb_file/SASDAS8_fit1_model1.pdb",
"model_mw": 43.85,
"bead_radius": 1.9,
"log": null,
"symmetry": "",
"comment": "",
"user": 102
},
{
"model_plot": "https://www.sasbdb.org/media/pdb_file/images/new_d8lintetr_img.png",
"software": "oligomer",
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"type_of_model": "atomic",
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"log": null,
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},
{
"model_plot": "https://www.sasbdb.org/media/pdb_file/images/new_kLANA_oct_TR11filt_img.png",
"software": "oligomer",
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"model_title": null,
"type_of_model": "mix",
"software_version": "",
"model_data": "https://www.sasbdb.org/media/pdb_file/SASDAS8_fit1_model3.pdb",
"model_mw": 155.4,
"bead_radius": 1.9,
"log": null,
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"user": 102
}
],
"fit_unit": "1/A",
"fit_plot": "https://www.sasbdb.org/media/fitting_files/scattering_plots/SASDAS8_fit1_fit_img.png",
"software": null,
"chi_square_value": 1.06,
"p_value": 0.050434,
"fit_residual_plot": null,
"fit_data": "https://www.sasbdb.org/media/fitting_files/SASDAS8_fit1.fit",
"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": "Study of oligomeric states of mLANA and kLANA and their complexes with DNA",
"experiment_description": null,
"tags": [],
"intensity_unit": null,
"experimental_mw": 150.0,
"experimental_mw_error": null,
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"porod_mw_error": null,
"pddf_i0": null,
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"pddf_dmax": 16.0,
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"guinier_point_first": null,
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"i0_calibration_standard_data": null,
"intensities_log_log_plot": "SASDAS8_datloglog_img.png",
"symmetry": null,
"last_modified": "2023-06-21T07:56:39.492710+02:00",
"bragg_peak": []
}
