{ "code": "SASDBN9", "status": "Published", "type_of_curve": "Single concentration", "angular_unit": "1/nm", "project": { "title": "YeeF, a polymorphic toxin from Bacillus subtilis, is a ribosomal RNase with promiscuous DNA binding property", "publication": null, "status": "released", "submitted_date": "2017-01-05", "released_date": "2021-09-20" }, "pddf_data": "https://www.sasbdb.org/media/p_of_R_files/SASDBN9.out", "intensities_data": "https://www.sasbdb.org/media/intensities_files/SASDBN9.dat", "intensities_log_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDBN9_dat_img.png", "intensities_kratky_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDBN9_kratky_img.png", "pddf_plot": "https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDBN9_pofr_img.png", "intensities_guinier_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDBN9_guinier_img.png", "sascif_data": "https://www.sasbdb.org/media/sascif/sascif_files/SASDBN9.sascif", "experiment": { "instrument": { "detector": { "type": "1D diode array detector", "name": "Mythen 1K", "resolution": 50.0 }, "name": "CSIR - Institute of Microbial Technology (IMTech)", "city": "Chandigarh", "country": "India", "beamline_name": "Anton Paar SAXSpace", "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": "Putative DNA binding protein", "short_name": "YeeF", "sequence": "M G S S H H H H H H S S G L V P R S H M A S IYKTKEGYTYTTDNYGRITSVKADLQLGEAKRN\r\nQYAQSHAGKPQDRKPDDDGGALIATQFKGSGQFDNIVPMNSQINRSGGRWYEMEQEWAKALKEEPPQKVN\r\nVNIKAIYKGDSLRPDKFIVKFRIGDADFEKVTIKNQSGG", "organism": "Bacillus subtilis subsp. spizizenii", "uniprot_code": "E0TU96", "uniprot_range_first": null, "uniprot_range_last": null, "oligomerization": "dimer", "molecular_type": "protein", "uniprot_sequence": "MKVLEVKTLLSEATDRAKEYKELRTQMVNLRKALKSVADLGDSEFSGKGASNIKAFYHDH\nVGVTDQWIDYIDMKIAFFNSIAGAAEDKGLSDAYIEESFLEHELANAHKKSKSIMSEQKK\nAMKDILNDIDNILPLDLFSTETFNDELADANDKRKKTLEKLDALDEDLKTEYALSEPNEQ\nFIKSDFQKLQEATGKGKNATPIHYNAKAYRESDIHKKKGDIEKRTEAYLKIKKEEAKERE\nIEKLKERLKNYDYADADEFYEMAKTIGYENLTAEQQRYFTQIENTRELEAGFKGVAVGLY\nDSGKDAVVGLWDMVTDPGGTVEAITGAVAHPIKTYEAISAAIEESYQKDMVNGDTYSRAR\nWVSYAVGTVVTSIVGTKGVGAVSKTGTATKVTTKVKTAASKSATAQKAITVSKQTIDHIK\nQKVNKGIEVSKKHVKTKLNQIGDLTLADILPYHPRHDLVPAGVPYNAVNGVTLKEGLQKF\nAKVILPKPYGTSSSGRRTPAPVVPPVTVKYGEHYARWSRKKVLKPNIIYKTKEGYTYTTD\nNYGRITSVKADLQLGEAKRNQYAQSHAGKPQDRKPDDDGGHLIATQFKGSGQFDNIVPMN\nSQINRSGGRWYEMEQEWAKALKEEPPQKVNVNIKAIYKGDSLRPDKFIVKFRIGDADFEK\nVTIKNQSGG", "mw": 18.402, "total_mw": 36.804, "number_molecules": 2, "complex_state": false, "deuteration": null, "molecule_source": "biological", "molecule_description": null }, { "long_name": "YezG, cognate immunity protein of YeeF", "short_name": "YezG", "sequence": "MDTPKMGDLYQRIANQINEMIPSEWENVYLYAEILDDSSEVYFYFNIPGKNEFLYSHNIPEHFNVSEDIY\r\nDDLLIELQESFEELREEYEKNNPETWTNLTLKLDRTGQFSIDYNYEDVIASELNGSQRKAVWVYKNLGLM\r\nPKRKTVRDFLEDYIKTNEGKI", "organism": "Bacillus subtilis subsp. spizizenii", "uniprot_code": "E0TU95", "uniprot_range_first": null, "uniprot_range_last": null, "oligomerization": "monomer", "molecular_type": "protein", "uniprot_sequence": "MDTPKMGDLYQRIANQINEMIPSEWENVYLYAEILDDSSEVYFYFNIPGKNEFLYSHNIP\nEHFNVSEDIYDDLLIELQESFEELREEYEKNNPETWTNLTLKLDRTGQFSIDYNYEDVIA\nSELNGSQRKAVWVYKNLGLMPKRKTVRDFLEDYIKTNEGKI", "mw": 19.234, "total_mw": 19.234, "number_molecules": 1, "complex_state": false, "deuteration": null, "molecule_source": "biological", "molecule_description": null } ], "buffer": { "name": "20 mM HEPES 150 mM NaCl", "concentration_unit": null, "comment": null, "additive": null, "concentration": null, "pka": null, "ph": 7.5, "deuteration": null }, "purity_method": null, "name": "Putative DNA binding protein YeeF-CT in complex with the cognate immunity protein YezG from Bacillus subtilis", "ext_coefficient": null, "contrast": null, "specific_vol": null, "dry_vol": null, "absorbption": null, "deuteration": null, "mixture": null }, "contributor": [ { "affiliation": [ { "short_name": "CSIR", "address": "Chandigarh, India", "full_name": "CSIR-Institute of Microbial Technology", "webpage": "http://www.imtech.res.in/" } ], "contributor_name": "Krishan", "contributor_surname": "Gopal", "orcid": null } ], "concentration_method": null, "concentration_unit": null, "date": "2016-08-18", "storage_temperature": 4.0, "cell_temperature": 25.0, "exposure_time": 1800.0, "number_of_frames": 1, "wavelength": 0.15418, "sample_detector_distance": null, "concentration_min": null, "concentration_max": 7.5, "sample_volume": null, "flow_rate": null, "s_min": 0.121, "s_max": 7.001, "total_exposure_time": null, "seccolumn": null }, "fits": [ { "models": [ { "model_plot": "https://www.sasbdb.org/media/pdb_file/images/SASDBN9_fit1_model1_img.png", "software": "DAMMIN", "pdb_link": [], "model_title": null, "type_of_model": "dummy", "software_version": "2.7.2", "model_data": "https://www.sasbdb.org/media/pdb_file/SASDBN9_fit1_model1.pdb", "model_mw": 80.816, "bead_radius": 4.0, "log": "https://www.sasbdb.org/media/log_files/YeeF-CT_YezG.log", "symmetry": "", "comment": "", "user": 196 } ], "fit_unit": "1/A", "fit_plot": "https://www.sasbdb.org/media/fitting_files/scattering_plots/SASDBN9_fit1_fixed_fit_img.png", "software": "DAMMIN", "chi_square_value": 0.812, "p_value": 0.0, "fit_residual_plot": "SASDBN9_fit1_fitresiduals_img.png", "fit_data": "https://www.sasbdb.org/media/fitting_files/SASDBN9_fit1.fir", "fit_log": "https://www.sasbdb.org/media/fitting_files/log_files/YeeF-CT_YezG.log", "software_version": "2.7.2", "description": null } ], "estimated_volume_method": null, "pddf_software": "ATSAS GNOM", "pddf_software_version": "ATSAS 2.7.2", "i0_calibration_standard": null, "description": null, "experiment_description": "SAXS data from solutions of Putative DNA binding protein YeeF-CT complexed with the cognate immunity protein YezG from Bacillus subtilis in 20 mM HEPES 150 mM NaCl, pH 7.5 were collected on the IMTECH camera (Chandigarh, India) using a Diode 1D CMOS Mythen detector at a wavelength of λ = 0.15418 nm (I(s) vs s, where s = 4πsinθ/λ and 2θ is the scattering angle). A single solute concentration of 7.5 mg/ml was measured at 25°C for 1800 seconds. The data were normalized to the intensity of the transmitted beam and radially averaged; the scattering of the solvent-blank was subtracted to produce the final scattering profile for this entry.", "tags": [], "intensity_unit": null, "experimental_mw": 72.03, "experimental_mw_error": null, "guinier_i0_mw": null, "guinier_i0_mw_error": null, "porod_mw": 72.03, "porod_mw_error": null, "pddf_i0": 72150.0, "pddf_i0_error": 1510.0, "guinier_i0": 72749.0, "guinier_i0_error": 2036.0, "pddf_rg": 4.15, "pddf_rg_error": 0.09, "guinier_rg": 4.04, "guinier_rg_error": 0.18, "pddf_dmax": 14.1, "pddf_dmax_error": null, "porod_volume": 115.26, "porod_volume_error": null, "estimated_volume": null, "estimated_volume_error": null, "guinier_point_first": 2, "guinier_point_last": 32, "pddf_point_first": null, "pddf_point_last": null, "i0_calibration_standard_data": null, "intensities_log_log_plot": "SASDBN9_datloglog_img.png", "symmetry": null, "last_modified": "2021-09-20T13:31:35.716414+02:00", "bragg_peak": [] }