{ "code": "SASDBD7", "status": "Published", "type_of_curve": "Single concentration", "angular_unit": "1/A", "project": { "title": "Destabilization of the PCNA trimer mediated by its interaction with the NEIL1 DNA glycosylase.", "publication": { "title": "Destabilization of the PCNA trimer mediated by its interaction with the NEIL1 DNA glycosylase.", "author_list": "Prakash A, Moharana K, Wallace SS, Doublié S", "journal": "Nucleic Acids Res", "doi": "10.1093/nar/gkw1282", "pmid": "27994037", "published_date": "2017 Mar 17" }, "status": "released", "submitted_date": "2016-11-04", "released_date": "2017-01-03" }, "pddf_data": "https://www.sasbdb.org/media/p_of_R_files/SASDBD7.out", "intensities_data": "https://www.sasbdb.org/media/intensities_files/SASDBD7.dat", "intensities_log_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDBD7_dat_img.png", "intensities_kratky_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDBD7_kratky_img.png", "pddf_plot": "https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDBD7_pofr_img.png", "intensities_guinier_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDBD7_guinier_img.png", "sascif_data": "https://www.sasbdb.org/media/sascif/sascif_files/SASDBD7.sascif", "experiment": { "instrument": { "detector": { "type": null, "name": "Pilatus3 X 2M", "resolution": 172.0 }, "name": "Advanced Light Source (ALS)", "city": "Berkeley, CA", "country": "USA", "beamline_name": "12.3.1 (SIBYLS)", "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": "Proliferating cell nuclear antigen", "short_name": null, "sequence": "MHHHHHHMFEARLVQGSILKKVLEALKDLINEACWDISSSGVNLQSMDSSHVSLVQLTLRSEGFDTYRCDRNLAMGVNLTSMSKILKCAGNEDIITLRAEDNADTLALVFEAPNQEKVSDYEMKLMDLDVEQLGIPEQEYSCVVKMPSGEFACICRDLSHIGDAVVISCAKDGVKFSASGELGNGNIKLSQTSNVDKEEEAVTIEMNEPVQLTFALRYLNFFTKATPLSSTVTLSMSADVPLVVEYKIADMGHLKYYLAPKIEDEEGS", "organism": "Homo sapiens", "uniprot_code": "P12004", "uniprot_range_first": null, "uniprot_range_last": null, "oligomerization": "trimer", "molecular_type": "protein", "uniprot_sequence": "MFEARLVQGSILKKVLEALKDLINEACWDISSSGVNLQSMDSSHVSLVQLTLRSEGFDTY\nRCDRNLAMGVNLTSMSKILKCAGNEDIITLRAEDNADTLALVFEAPNQEKVSDYEMKLMD\nLDVEQLGIPEQEYSCVVKMPSGEFARICRDLSHIGDAVVISCAKDGVKFSASGELGNGNI\nKLSQTSNVDKEEEAVTIEMNEPVQLTFALRYLNFFTKATPLSSTVTLSMSADVPLVVEYK\nIADMGHLKYYLAPKIEDEEGS", "mw": 29.669, "total_mw": 89.007, "number_molecules": 3, "complex_state": false, "deuteration": null, "molecule_source": "biological", "molecule_description": null } ], "buffer": { "name": "25mM HEPES 100mM NaCl 1mM DTT", "concentration_unit": null, "comment": null, "additive": null, "concentration": null, "pka": null, "ph": 7.5, "deuteration": null }, "purity_method": null, "name": "Human Proliferating Cell Nuclear Antigen (PCNA)", "ext_coefficient": null, "contrast": null, "specific_vol": null, "dry_vol": null, "absorbption": null, "deuteration": null, "mixture": null }, "contributor": [ { "affiliation": [ { "short_name": null, "address": "Burlington, VT, USA", "full_name": "University of Vermont", "webpage": "https://www.uvm.edu/" } ], "contributor_name": "Kedar", "contributor_surname": "Moharana", "orcid": null } ], "concentration_method": null, "concentration_unit": null, "date": "2016-01-20", "storage_temperature": 4.0, "cell_temperature": 10.0, "exposure_time": 0.2, "number_of_frames": 24, "wavelength": 0.1127, "sample_detector_distance": 1.4, "concentration_min": 1.0, "concentration_max": 6.0, "sample_volume": null, "flow_rate": null, "s_min": 0.164, "s_max": 5.285, "total_exposure_time": null, "seccolumn": null }, "fits": [ { "models": [ { "model_plot": "https://www.sasbdb.org/media/pdb_file/images/SASDBD7_fit1_model1_img.png", "software": "GASBOR", "pdb_link": [], "model_title": null, "type_of_model": "dummy", "software_version": "", "model_data": "https://www.sasbdb.org/media/pdb_file/SASDBD7_fit1_model1.pdb", "model_mw": null, "bead_radius": 1.9, "log": null, "symmetry": "", "comment": "", "user": 177 } ], "fit_unit": "1/A", "fit_plot": "https://www.sasbdb.org/media/fitting_files/scattering_plots/SASDBD7_fit1_fit_img.png", "software": null, "chi_square_value": 0.75, "p_value": 0.000214, "fit_residual_plot": "SASDBD7_fit1_fitresiduals_img.png", "fit_data": "https://www.sasbdb.org/media/fitting_files/SASDBD7_fit1.fir", "fit_log": null, "software_version": null, "description": null } ], "estimated_volume_method": null, "pddf_software": "ATSAS GNOM", "pddf_software_version": "ATSAS GNOM 5.0", "i0_calibration_standard": null, "description": "Experimental MW reported here is from SAXSMoW. PCNA was used to calibrate forward intensity for MW estimation of other scatterers.", "experiment_description": null, "tags": [], "intensity_unit": null, "experimental_mw": 85.9, "experimental_mw_error": null, "guinier_i0_mw": null, "guinier_i0_mw_error": null, "porod_mw": 75.414, "porod_mw_error": null, "pddf_i0": 486.2, "pddf_i0_error": 1.008, "guinier_i0": 483.2, "guinier_i0_error": 1.4, "pddf_rg": 3.439, "pddf_rg_error": 0.052, "guinier_rg": 3.44, "guinier_rg_error": 0.025, "pddf_dmax": 9.72, "pddf_dmax_error": 0.18, "porod_volume": 128.2, "porod_volume_error": null, "estimated_volume": null, "estimated_volume_error": null, "guinier_point_first": 2, "guinier_point_last": 39, "pddf_point_first": null, "pddf_point_last": null, "i0_calibration_standard_data": null, "intensities_log_log_plot": "SASDBD7_datloglog_img.png", "symmetry": null, "last_modified": "2019-12-06T13:07:15.624532+01:00", "bragg_peak": [] }