{"code":"SASDBC9","status":"Published","type_of_curve":"Merged","angular_unit":"1/A","project":{"title":"Structural and biochemical analysis of <i>Escherichia coli</i> ObgE, a central regulator of bacterial persistence.","publication":{"title":"Structural and biochemical analysis of <i>Escherichia coli</i> ObgE, a central regulator of bacterial persistence.","author_list":"Gkekas S, Singh RK, Shkumatov AV, Messens J, Fauvart M, Verstraeten N, Michiels J, Versées W","journal":"J Biol Chem","doi":"10.1074/jbc.M116.761809","pmid":"28223358","published_date":"2017 Apr 7"},"status":"released","submitted_date":"2016-09-28","released_date":"2017-02-23"},"pddf_data":"https://www.sasbdb.org/media/p_of_R_files/SASDBC9.out","intensities_data":"https://www.sasbdb.org/media/intensities_files/SASDBC9.dat","intensities_log_plot":"https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDBC9_dat_img.png","intensities_kratky_plot":"https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDBC9_kratky_img.png","pddf_plot":"https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDBC9_pofr_img.png","intensities_guinier_plot":"https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDBC9_guinier_img.png","sascif_data":"https://www.sasbdb.org/media/sascif/sascif_files/SASDBC9.sascif","experiment":{"instrument":{"detector":{"type":null,"name":"Pilatus 100K","resolution":172.0},"name":null,"city":"Brussels","country":"Belgium","beamline_name":"Rigaku BioSAXS-2000","beam_geometry":"","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":"GTPase ObgE/CgtA","short_name":"ObgE_340","sequence":"MGSSHHHHHHSSGLVPRGSHMKFVDEASILVVAGDGGNGCVSFRREKYIPKGGPDGGDGGDGGDVWMEADENLNTLIDYR\r\nFEKSFRAERGQNGASRDCTGKRGKDVTIKVPVGTRVIDQGTGETMGDMTKHGQRLLVAKGGWHGLGNTRFKSSVNRTPRQ\r\nKTNGTPGDKRELLLELMLLADVGMLGMPNAGKSTFIRAVSAAKPKVADYPFTTLVPSLGVVRMDNEKSFVVADIPGLIEG\r\nAAEGAGLGIRFLKHLERCRVLLHLIDIDPIDGTDPVENARIIISELELYSQDLATKPRWLVFNKIDLLDKVEAEEKAKAI\r\nAEALGWEDKYYLISAASGLGVKDLCWDVMTFIIENPVA","organism":"Escherichia coli","uniprot_code":"P42641","uniprot_range_first":1,"uniprot_range_last":340,"oligomerization":"monomer","molecular_type":"protein","uniprot_sequence":"MKFVDEASILVVAGDGGNGCVSFRREKYIPKGGPDGGDGGDGGDVWMEADENLNTLIDYR\nFEKSFRAERGQNGASRDCTGKRGKDVTIKVPVGTRVIDQGTGETMGDMTKHGQRLLVAKG\nGWHGLGNTRFKSSVNRTPRQKTNGTPGDKRELLLELMLLADVGMLGMPNAGKSTFIRAVS\nAAKPKVADYPFTTLVPSLGVVRMDNEKSFVVADIPGLIEGAAEGAGLGIRFLKHLERCRV\nLLHLIDIDPIDGTDPVENARIIISELEKYSQDLATKPRWLVFNKIDLLDKVEAEEKAKAI\nAEALGWEDKYYLISAASGLGVKDLCWDVMTFIIENPVVQAEEAKQPEKVEFMWDDYHRQQ\nLEEIAEEDDEDWDDDWDEDDEEGVEFIYKR","mw":38.899,"total_mw":38.899,"number_molecules":1,"complex_state":false,"deuteration":null,"molecule_source":"biological","molecule_description":null}],"buffer":{"name":"20 mM Hepes, 300 mM NaCl, 250 mM imidazole, 5 mM MgCl2, 2 mM DTT, 400 uM GDP","concentration_unit":null,"comment":null,"additive":null,"concentration":null,"pka":null,"ph":7.5,"deuteration":null},"purity_method":null,"name":"GDP bound form of C-terminal deletion mutant of ObgE from E.coli (ObgE_340 with GDP)","ext_coefficient":null,"contrast":null,"specific_vol":null,"dry_vol":null,"absorbption":null,"deuteration":null,"mixture":null},"contributor":[{"affiliation":[{"short_name":"VUB","address":"Pleinlaan 2 1050 Brussel ","full_name":"Vrije Universiteit Brussel","webpage":"http://www.vub.ac.be/"}],"contributor_name":"Alexander","contributor_surname":"Shkumatov","orcid":null}],"concentration_method":null,"concentration_unit":null,"date":"2015-02-01","storage_temperature":10.0,"cell_temperature":10.0,"exposure_time":1800.0,"number_of_frames":3,"wavelength":1.54,"sample_detector_distance":1.0,"concentration_min":1.0,"concentration_max":8.0,"sample_volume":null,"flow_rate":null,"s_min":0.08,"s_max":6.829,"total_exposure_time":null,"seccolumn":null},"fits":[{"models":[{"model_plot":"https://www.sasbdb.org/media/pdb_file/images/SASDBC9_fit1_model1_img.png","software":"DAMMIN","pdb_link":[],"model_title":null,"type_of_model":"dummy","software_version":"v2.7.2","model_data":"https://www.sasbdb.org/media/pdb_file/SASDBC9_fit1_model1.pdb","model_mw":37.72,"bead_radius":2.5,"log":"https://www.sasbdb.org/media/log_files/refine-1.pdb","symmetry":"P1","comment":"Average model generated by DAMAVER and used as a starting model for refinement with DAMMIN (r7897M)","user":104}],"fit_unit":"1/A","fit_plot":"https://www.sasbdb.org/media/fitting_files/scattering_plots/SASDBC9_fit1_fit_img.png","software":"DAMMIN","chi_square_value":0.606,"p_value":0.531,"fit_residual_plot":"SASDBC9_fit1_fitresiduals_img.png","fit_data":"https://www.sasbdb.org/media/fitting_files/SASDBC9_fit1.fir","fit_log":"https://www.sasbdb.org/media/fitting_files/log_files/refine_xwNoevO.log","software_version":"v2.7.2","description":null}],"estimated_volume_method":null,"pddf_software":"ATSAS GNOM","pddf_software_version":"GNOM v4.6","i0_calibration_standard":null,"description":null,"experiment_description":"SAXS data collected from solutions of the GDP bound form of the C-terminal deletion mutant of ObgE from E.coli (ObgE_340 with GDP) in 20 mM HEPES, 300 mM NaCl, 250 mM imidazole, 5 mM MgCl2, 2 mM DTT, 400 µM GDP, pH 7.5, were collected at the  Rigaku BioSAXS-2000 instrument\r\nusing a CCD detector at a sample-detector distance of 1.0 m and at a wavelength of λ = 0.154 nm (I(s) vs s, where s = 4πsinθ/λ and 2θ is the scattering angle). Data collection was performed at at 10°C at four different concentrations of 1, 2, 4 and 8 mg/ml with 30 min exposure each intermittent by reference buffer. Rigaku SAXSLab was used for data reduction. \r\nThe sample protein includes an N-terminal poly-histidine tag. Data was merged using PRIMUS from ATSAS package.","tags":[],"intensity_unit":null,"experimental_mw":39.1,"experimental_mw_error":null,"guinier_i0_mw":null,"guinier_i0_mw_error":null,"porod_mw":41.5,"porod_mw_error":null,"pddf_i0":1.04,"pddf_i0_error":0.01,"guinier_i0":1.01,"guinier_i0_error":0.01,"pddf_rg":3.17,"pddf_rg_error":0.4,"guinier_rg":2.95,"guinier_rg_error":0.04,"pddf_dmax":11.0,"pddf_dmax_error":1.0,"porod_volume":70673.0,"porod_volume_error":null,"estimated_volume":null,"estimated_volume_error":null,"guinier_point_first":14,"guinier_point_last":26,"pddf_point_first":null,"pddf_point_last":null,"i0_calibration_standard_data":null,"intensities_log_log_plot":"SASDBC9_datloglog_img.png","symmetry":null,"last_modified":"2019-12-06T13:07:15.624532+01:00","bragg_peak":[]}