{"code":"SASDEM6","status":"Published","type_of_curve":"Extrapolated to infinite dilution","angular_unit":"1/nm","project":{"title":"Molecular Fingerprints for a Novel Enzyme Family in <i>Actinobacteria</i> with Glucosamine Kinase Activity.","publication":{"title":"Molecular Fingerprints for a Novel Enzyme Family in <i>Actinobacteria</i> with Glucosamine Kinase Activity.","author_list":"Manso JA, Nunes-Costa D, Macedo-Ribeiro S, Empadinhas N, Pereira PJB","journal":"MBio","doi":"10.1128/mBio.00239-19","pmid":"31088917","published_date":"2019 May 14"},"status":"released","submitted_date":"2018-10-15","released_date":"2019-05-09"},"pddf_data":"https://www.sasbdb.org/media/p_of_R_files/SASDEM6.out","intensities_data":"https://www.sasbdb.org/media/intensities_files/SASDEM6.dat","intensities_log_plot":"https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDEM6_dat_img.png","intensities_kratky_plot":"https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDEM6_kratky_img.png","pddf_plot":"https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDEM6_pofr_img.png","intensities_guinier_plot":"https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDEM6_guinier_img.png","sascif_data":"https://www.sasbdb.org/media/sascif/sascif_files/SASDEM6.sascif","experiment":{"instrument":{"detector":{"type":"Dectris","name":"Pilatus 1M","resolution":172.0},"name":"ESRF","city":"Grenoble","country":"France","beamline_name":"BM29","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":"Glucosamine kinase","short_name":null,"sequence":"MTPNWSELVAAADPALVLPSGERRAEVAVPGPLRLDALLDLGEGHAVGVVRSADAARWTV\r\nPLVRDGAGGVRRSRPGDGTAEHLVAALARRGATPDAAFVLEAFTGAAPVTGERGIIVDQT\r\nNESVIVGECAVVKWAVRLPAEGEPGSPAAQRIAALARGGFTEMPRPWGLLTLAEGAQPVL\r\nLASVVAYLPGALDGWDWAVDDVRRLARGELTMDQALLPAAQLGTLTARMHAALAARGRTP\r\nATAADVAAWGVRMREELDEAVASVPGAEGERLKAWAPRIADVYAELDALAGTPLIDVHGD\r\nFHVGQILRADGRYAVVDFDGNPVLPADQRAARQPAALDVVGMTASLDHVGRVVVFRTPDV\r\nDPAPVRAWIAAAQRSFLDAYRTTLARLDADDLFDDRLLTPLRYAQEVREYLYAVRHLPHW\r\nVYVPDLSLTDLLPERLKDKKLAAALEHHHHHH","organism":"Streptacidiphilus jiangxiensis","uniprot_code":"A0A1H7TQR5","uniprot_range_first":null,"uniprot_range_last":null,"oligomerization":"monomer","molecular_type":"protein","uniprot_sequence":"MTPNWSELVAAADPALVLPSGERRAEVAVPGPLRLDALLDLGEGHAVGVVRSADAARWTV\nPLVRDGAGGVRRSRPGDGTAEHLVAALARRGATPDAAFVLEAFTGAAPVTGERGIIVDQT\nNESVIVGECAVVKWAVRLPAEGEPGSPAAQRIAALARGGFTEMPRPWGLLTLAEGAQPVL\nLASVVAYLPGALDGWDWAVDDVRRLARGELTMDQALLPAAQLGTLTARMHAALAARGRTP\nATAADVAAWGVRMREELDEAVASVPGAEGERLKAWAPRIADVYAELDALAGTPLIDVHGD\nFHVGQILRADGRYAVVDFDGNPVLPADQRAARQPAALDVVGMTASLDHVGRVVVFRTPDV\nDPAPVRAWIAAAQRSFLDAYRTTLARLDADDLFDDRLLTPLRYAQEVREYLYAVRHLPHW\nVYVPDLSLTDLLPERLKD","mw":48.377,"total_mw":48.377,"number_molecules":1,"complex_state":false,"deuteration":null,"molecule_source":"biological","molecule_description":null}],"buffer":{"name":"20 mM Tris-HCl, 150 mM NaCl, 10 mM MgCl2, 5 mM DTT, 0.2 M D-glucosamine","concentration_unit":null,"comment":null,"additive":null,"concentration":null,"pka":null,"ph":8.0,"deuteration":null},"purity_method":null,"name":"Glucosamine kinase from Streptacidiphilus jiangxiensis in presence of 0.2 M D-glucosamine","ext_coefficient":null,"contrast":null,"specific_vol":null,"dry_vol":null,"absorbption":null,"deuteration":null,"mixture":null},"contributor":[{"affiliation":[{"short_name":null,"address":null,"full_name":"Instituto de Biomedicina y Biotecnología de Cantabria (IBBTEC-CSIC-Universidad de Cantabria)","webpage":null}],"contributor_name":"Jose A","contributor_surname":"Manso","orcid":"https://orcid.org/0000-0002-2565-6239"}],"concentration_method":null,"concentration_unit":null,"date":"2017-11-20","storage_temperature":10.0,"cell_temperature":10.0,"exposure_time":1.0,"number_of_frames":10,"wavelength":0.09919,"sample_detector_distance":2.867,"concentration_min":1.25,"concentration_max":5.0,"sample_volume":null,"flow_rate":null,"s_min":0.057,"s_max":4.934,"total_exposure_time":null,"seccolumn":null},"fits":[{"models":[{"model_plot":"https://www.sasbdb.org/media/pdb_file/images/SASDEM6_fit1_model1_img.png","software":"PDB (Protein Data Bank)","pdb_link":[{"pdb_code":"6hwj","ext_code":"6HWJ","ext_type":"pdb","difference_with_model":"identical"}],"model_title":null,"type_of_model":"atomic","software_version":null,"model_data":"https://www.sasbdb.org/media/pdb_file/SASDEM6_fit1_model1.pdb","model_mw":45.17,"bead_radius":null,"log":null,"symmetry":null,"comment":"Volume fraction for this structure was of 1.0 as determined OLIGOMER","user":320}],"fit_unit":"1/A","fit_plot":"https://www.sasbdb.org/media/fitting_files/scattering_plots/gluk01_02M_GlcN_zero_OLIGOMER_SASBDB_2nVzqoL_fit_img.png","software":"OLIGOMER","chi_square_value":7.4,"p_value":0.0,"fit_residual_plot":"gluk01_02M_GlcN_zero_OLIGOMER_SASBDB_2nVzqoL_fitresiduals_img.png","fit_data":"https://www.sasbdb.org/media/fitting_files/SASDEM6_fit1.fit","fit_log":null,"software_version":null,"description":""}],"estimated_volume_method":null,"pddf_software":"ATSAS GNOM","pddf_software_version":"5.0","i0_calibration_standard":null,"description":null,"experiment_description":"Synchrotron SAXS data from solutions of Streptacidiphilus jiangxiensis glucosamine kinase in presence of 0.2 M D-glucosamine in 20 mM Tris-HCl (pH 8.0), 150 mM NaCl, 10 mM MgCl2 and 5 mM DTT were collected on the BM29 BIOSAXS beam line at the ESRF (Grenoble, France) using a Pilatus 1M detector at a sample-detector distance of 2.867 m and at a wavelength of λ = 0.0992 nm (l(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle; s-range = 0.0385 < s < 4.934 nm-1). Solute concentrations ranging between 1.25 and 5.0 mg/ml were measured at 10°C. 10 successive 1 second frames were collected. The data were normalized to the intensity of the transmitted beam and radially averaged; the scattering of the solvent-blank was subtracted. The low angle data collected at lower concentrations were extrapolated to infinite dilution.","tags":[],"intensity_unit":"arbitrary","experimental_mw":36.8,"experimental_mw_error":null,"guinier_i0_mw":36.8,"guinier_i0_mw_error":null,"porod_mw":48.9,"porod_mw_error":null,"pddf_i0":33.67,"pddf_i0_error":null,"guinier_i0":33.48,"guinier_i0_error":0.05,"pddf_rg":2.6,"pddf_rg_error":null,"guinier_rg":2.57,"guinier_rg_error":0.02,"pddf_dmax":8.0,"pddf_dmax_error":null,"porod_volume":78.29,"porod_volume_error":null,"estimated_volume":null,"estimated_volume_error":null,"guinier_point_first":8,"guinier_point_last":96,"pddf_point_first":null,"pddf_point_last":null,"i0_calibration_standard_data":null,"intensities_log_log_plot":"SASDEM6_datloglog_img.png","symmetry":null,"last_modified":"2019-12-06T13:07:15.624532+01:00","bragg_peak":[]}