{"code":"SASDBV6","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/SASDBV6.out","intensities_data":"https://www.sasbdb.org/media/intensities_files/SASDBV6.dat","intensities_log_plot":"https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDBV6_dat_img.png","intensities_kratky_plot":"https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDBV6_kratky_img.png","pddf_plot":"https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDBV6_pofr_img.png","intensities_guinier_plot":"https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDBV6_guinier_img.png","sascif_data":"https://www.sasbdb.org/media/sascif/sascif_files/SASDBV6.sascif","experiment":{"instrument":{"detector":{"type":"CCD","name":"AVIEX PCCD170170","resolution":null},"name":"SOLEIL","city":"Saint-Aubin","country":"France","beamline_name":"SWING","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":"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 µM GppNHp","concentration_unit":null,"comment":null,"additive":null,"concentration":null,"pka":null,"ph":7.5,"deuteration":null},"purity_method":null,"name":"GppNHp bound form of C-terminal deletion mutant of ObgE from E.coli (ObgE_340 with GppNHp)","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":"2015-03-12","storage_temperature":10.0,"cell_temperature":10.0,"exposure_time":2.8,"number_of_frames":255,"wavelength":0.103,"sample_detector_distance":1.79,"concentration_min":7.0,"concentration_max":null,"sample_volume":null,"flow_rate":null,"s_min":0.062,"s_max":6.142,"total_exposure_time":null,"seccolumn":null},"fits":[{"models":[{"model_plot":"https://www.sasbdb.org/media/pdb_file/images/SASDBV6_fit1_model1_img.png","software":"DAMMIN","pdb_link":[],"model_title":null,"type_of_model":"dummy","software_version":"r7897M","model_data":"https://www.sasbdb.org/media/pdb_file/SASDBV6_fit1_model1.pdb","model_mw":34.2,"bead_radius":2.75,"log":"https://www.sasbdb.org/media/log_files/refine_NwPTf53.log","symmetry":"P1","comment":"","user":104}],"fit_unit":"1/A","fit_plot":"https://www.sasbdb.org/media/fitting_files/scattering_plots/SASDBV6_fit1_fit_img.png","software":null,"chi_square_value":6.78,"p_value":0.600511,"fit_residual_plot":"SASDBV6_fit1_fitresiduals_img.png","fit_data":"https://www.sasbdb.org/media/fitting_files/SASDBV6_fit1.fir","fit_log":null,"software_version":null,"description":null}],"estimated_volume_method":null,"pddf_software":"ATSAS GNOM","pddf_software_version":"G N O M   4.6","i0_calibration_standard":null,"description":"The sample protein includes an N-terminal poly-histidine tag; frames corresponding to the peak in HPLC-SAXS run were averaged using DATAVER v0.2 (r3709)","experiment_description":"Synchrotron SAXS data from solutions of the GppNHp bound form of the C-terminal deletion mutant of ObgE from E.coli (ObgE_340 with GppNHp) in 20 mM HEPES, 300 mM NaCl, 250 mM imidazole, 5 mM MgCl2, 2 mM DTT, 400 µM GppNHp, pH 7.5, were collected at the SWING beam line at the SOLEIL Synchrotron (Saint-Aubin, France) using a CCD AVIEX detector at a sample-detector distance of 2.0 m and at a wavelength of λ = 0.103 nm (I(s) vs s, where s = 4πsinθ/λ and 2θ is the scattering angle). Data collection was performed at at 10°C. 255 successive 2.8 second frames were collected through an HPLC-SEC elution peak. The data were normalized to the intensity of the transmitted beam and radially averaged; the scattering of the solvent-blank was subtracted and the different curves were scaled for protein concentration, then averaged to produce the final SAXS profile displayed in this entry.","tags":[],"intensity_unit":null,"experimental_mw":44.8,"experimental_mw_error":null,"guinier_i0_mw":null,"guinier_i0_mw_error":null,"porod_mw":42.0,"porod_mw_error":null,"pddf_i0":0.03857,"pddf_i0_error":1.2e-05,"guinier_i0":0.038495,"guinier_i0_error":2.1e-05,"pddf_rg":3.18,"pddf_rg_error":0.002,"guinier_rg":3.11,"guinier_rg_error":0.04,"pddf_dmax":11.4,"pddf_dmax_error":1.0,"porod_volume":72.0,"porod_volume_error":null,"estimated_volume":null,"estimated_volume_error":null,"guinier_point_first":18,"guinier_point_last":46,"pddf_point_first":null,"pddf_point_last":null,"i0_calibration_standard_data":null,"intensities_log_log_plot":"SASDBV6_datloglog_img.png","symmetry":null,"last_modified":"2019-12-06T13:07:15.624532+01:00","bragg_peak":[]}