The following content comes directly from the SASBDB entry. Missing values are shown as “—”; SAXSdb does not infer undeclared units.
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{
"code": "SASDDJ6",
"status": "Published",
"type_of_curve": "Extrapolated to infinite dilution",
"angular_unit": "1/A",
"project": {
"title": "Biosynthesis of mycobacterial methylmannose polysaccharides requires a unique 1-<i>O</i>-methyltransferase specific for 3-<i>O</i>-methylated mannosides.",
"publication": {
"title": "Biosynthesis of mycobacterial methylmannose polysaccharides requires a unique 1-<i>O</i>-methyltransferase specific for 3-<i>O</i>-methylated mannosides.",
"author_list": "Ripoll-Rozada J, Costa M, Manso JA, Maranha A, Miranda V, Sequeira A, Ventura MR, Macedo-Ribeiro S, Pereira PJB, Empadinhas N",
"journal": "Proc Natl Acad Sci U S A",
"doi": "10.1073/pnas.1813450116",
"pmid": "30606802",
"published_date": "2019 Jan 15"
},
"status": "released",
"submitted_date": "2018-05-14",
"released_date": "2019-01-04"
},
"pddf_data": "https://www.sasbdb.org/media/p_of_R_files/SASDDJ6.out",
"intensities_data": "https://www.sasbdb.org/media/intensities_files/SASDDJ6.dat",
"intensities_log_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDDJ6_dat_img.png",
"intensities_kratky_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDDJ6_kratky_img.png",
"pddf_plot": "https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDDJ6_pofr_img.png",
"intensities_guinier_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDDJ6_guinier_img.png",
"sascif_data": "https://www.sasbdb.org/media/sascif/sascif_files/SASDDJ6.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": "Methyltransferase domain protein",
"short_name": "Methyltransferase",
"sequence": "MTDIRDTDALFALADRVTGFMPADEGRTLYETAVRYLGDGVGVEIGTYCGKSTVLLGAAARQTGGVVFTVDHHHGSEEHQPGWEYHDPSLVDPVTGLFDTLPRLRHTLDEADLYDHVVAVVGKSAVVARGWRTPLRFLFIDGGHTEEAAQRDFDGWARWVEVGGALVIHDVFPDPKDGGQAPFHIYQRALNTGDFREVNAYGSMRVLERTSGIAGQPLKLAAALEHHHHHH",
"organism": "Mycolicibacterium hassiacum",
"uniprot_code": "K5B7F3",
"uniprot_range_first": 1,
"uniprot_range_last": 219,
"oligomerization": "dimer",
"molecular_type": "protein",
"uniprot_sequence": "MTDIRDTDALFALADRVTGFMPADEGRTLYETAVRYLGDGVGVEIGTYCGKSTVLLGAAA\nRQTGGVVFTVDHHHGSEEHQPGWEYHDPSLVDPVTGLFDTLPRLRHTLDEADLYDHVVAV\nVGKSAVVARGWRTPLRFLFIDGGHTEEAAQRDFDGWARWVEVGGALVIHDVFPDPKDGGQ\nAPFHIYQRALNTGDFREVNAYGSMRVLERTSGIAGQPL",
"mw": 25.409,
"total_mw": 50.818,
"number_molecules": 2,
"complex_state": false,
"deuteration": null,
"molecule_source": "biological",
"molecule_description": null
}
],
"buffer": {
"name": "20 mM bis-tris propane, 50 mM NaCl, 2 mM DTT, 5% (v/v) glycerol",
"concentration_unit": null,
"comment": null,
"additive": null,
"concentration": null,
"pka": null,
"ph": 7.5,
"deuteration": null
},
"purity_method": null,
"name": "SAM-dependent O-Methyltransferase from Mycobacterium hassiacum",
"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": "2017-06-21",
"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": 1.61,
"concentration_max": 3.22,
"sample_volume": null,
"flow_rate": null,
"s_min": 0.078,
"s_max": 4.939,
"total_exposure_time": null,
"seccolumn": null
},
"fits": [
{
"models": [
{
"model_plot": "https://www.sasbdb.org/media/pdb_file/images/SASDDJ6_fit1_model1_img.png",
"software": "MODELLER",
"pdb_link": [],
"model_title": null,
"type_of_model": "atomic",
"software_version": null,
"model_data": "https://www.sasbdb.org/media/pdb_file/SASDDJ6_fit1_model1.pdb",
"model_mw": 50.79,
"bead_radius": null,
"log": null,
"symmetry": null,
"comment": null,
"user": 320
}
],
"fit_unit": "1/A",
"fit_plot": "https://www.sasbdb.org/media/fitting_files/scattering_plots/SASDDJ6_fit1_fit_img.png",
"software": "CRYSOL",
"chi_square_value": 3.664,
"p_value": 0.0,
"fit_residual_plot": "SASDDJ6_fit1_fitresiduals_img.png",
"fit_data": "https://www.sasbdb.org/media/fitting_files/SASDDJ6_fit1.fit",
"fit_log": "https://www.sasbdb.org/media/fitting_files/log_files/MeT2_model00.log",
"software_version": "v. 28",
"description": null
},
{
"models": [
{
"model_plot": "https://www.sasbdb.org/media/pdb_file/images/SASDDJ6_fit2_model1_img.png",
"software": "DAMMIF",
"pdb_link": [],
"model_title": null,
"type_of_model": "dummy",
"software_version": "r8972",
"model_data": "https://www.sasbdb.org/media/pdb_file/SASDDJ6_fit2_model1.pdb",
"model_mw": 51.0,
"bead_radius": 1.8,
"log": null,
"symmetry": null,
"comment": null,
"user": 320
}
],
"fit_unit": "1/A",
"fit_plot": "https://www.sasbdb.org/media/fitting_files/scattering_plots/SASDDJ6_fit2_fit_img.png",
"software": "DAMMIF",
"chi_square_value": 8.443,
"p_value": 0.0,
"fit_residual_plot": "SASDDJ6_fit2_fitresiduals_img.png",
"fit_data": "https://www.sasbdb.org/media/fitting_files/SASDDJ6_fit2.fir",
"fit_log": "https://www.sasbdb.org/media/fitting_files/log_files/Met50_dammif030_05.log",
"software_version": "r8972",
"description": null
}
],
"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 Mycobacterium hassiacum Methyltransferase in 20 mM bis-tris propane (pH 7.5), 50 mM NaCl, 5% glycerol and 2 mM DTT were collected on the BM29 BIOSAXS beam line at the ESRF synchrotron (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 , the range of momentum transfer 0.036 < s < 4.939 nm-1 was covered (l(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). Solute concentrations ranging between 1.6 and 12.9 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": 44.855,
"experimental_mw_error": null,
"guinier_i0_mw": 44.855,
"guinier_i0_mw_error": null,
"porod_mw": 54.0,
"porod_mw_error": null,
"pddf_i0": 42.46,
"pddf_i0_error": null,
"guinier_i0": 42.58,
"guinier_i0_error": 0.05,
"pddf_rg": 2.56,
"pddf_rg_error": null,
"guinier_rg": 2.57,
"guinier_rg_error": 0.02,
"pddf_dmax": 8.5,
"pddf_dmax_error": null,
"porod_volume": 86.4,
"porod_volume_error": null,
"estimated_volume": null,
"estimated_volume_error": null,
"guinier_point_first": 10,
"guinier_point_last": 85,
"pddf_point_first": null,
"pddf_point_last": null,
"i0_calibration_standard_data": null,
"intensities_log_log_plot": "SASDDJ6_datloglog_img.png",
"symmetry": null,
"last_modified": "2019-12-06T13:07:15.624532+01:00",
"bragg_peak": []
}
