{ "code": "SASDVZ7", "status": "Published", "type_of_curve": "SEC-SAS", "angular_unit": "1/A", "project": { "title": "Insights into the stereochemical mechanism of the B(12)-dependent radical SAM glutamine C- methyltransferase (QCMT).", "publication": { "title": "Insights into the stereochemical mechanism of the B(12)-dependent radical SAM glutamine C- methyltransferase (QCMT).", "author_list": "Bourdin T, Guillot A, Mauger M, Lefranc B, Gervason S, Glousieau M, Grimaldi S, Leprince J, Thureau A, Benjdia A, Berteau O", "journal": "Commun Biol", "doi": "10.1038/s42003-026-10234-8", "pmid": "42168528", "published_date": "2026 May 21" }, "status": "released", "submitted_date": "2024-05-17", "released_date": "2026-05-17" }, "pddf_data": "https://www.sasbdb.org/media/p_of_R_files/SASDVZ7.out", "intensities_data": "https://www.sasbdb.org/media/intensities_files/SASDVZ7_fit1.dat", "intensities_log_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDVZ7_fit1_dat_img.png", "intensities_kratky_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDVZ7_fit1_kratky_img.png", "pddf_plot": "https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDVZ7_pofr_img.png", "intensities_guinier_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDVZ7_fit1_guinier_img.png", "sascif_data": "https://www.sasbdb.org/media/sascif/sascif_files/SASDVZ7.sascif", "experiment": { "instrument": { "detector": { "type": null, "name": "Eiger 4M", "resolution": 75.0 }, "name": "SOLEIL", "city": "Saint-Aubin", "country": "France", "beamline_name": "SWING", "beam_geometry": null, "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": "B12-binding domain/radical SAM domain protein, MJ_0865 family", "short_name": "QCMTMe", "sequence": "MDITIFSPGIYTYGAMLIGGVLRDAGHEVTLTRTPEVPEGSLLLASLFST\r\nQHLLDPKIRSLVRRHRERGGTVYVGGPVSAVPEIVLRELAPDAVVVGEGE\r\nETVVRLAEEGASETLPGIAYLDGDQAVVTAPAPPAPIDRPLPLIPEDIGS\r\nQSIRGASAYIETHRGCIGGCTFCQVPRFFGREVRSRPLESIIEEVKAFRA\r\nAGAKRLSISGGTGSLYGSHGCEMNPGAFIALLRGMAEVMGPKNVSAPDIR\r\nVDCITDEILDAIRQYTIGWVFFGIESGSNRVLRQMGKGATVREVEEAVER\r\nCREHGLHVAGSFIVGYPGETERDYEATKDLVAALSLDDVFISSAEPIPGT\r\nPLADLVIRTPRDKNPAFMPHTGEYRALHLTESEARCFDLMMHADMYRPQI\r\nRLVTDEVYAAYLAEAKKQGEDIRAATELILRYAQR", "organism": "Methanoculleus thermophilus", "uniprot_code": "WP_0669576", "uniprot_range_first": 1, "uniprot_range_last": 435, "oligomerization": "monomer", "molecular_type": "protein", "uniprot_sequence": "MDITIFSPGIYTYGAMLIGGVLRDAGHEVTLTRTPEVPEGSLLLASLFSTQHLLDPKIRS\r\nLVRRHRERGGTVYVGGPVSAVPEIVLRELAPDAVVVGEGEETVVRLAEEGASETLPGIAY\r\nLDGDQAVVTAPAPPAPIDRPLPLIPEDIGSQSIRGASAYIETHRGCIGGCTFCQVPRFFG\r\nREVRSRPLESIIEEVKAFRAAGAKRLSISGGTGSLYGSHGCEMNPGAFIALLRGMAEVMG\r\nPKNVSAPDIRVDCITDEILDAIRQYTIGWVFFGIESGSNRVLRQMGKGATVREVEEAVER\r\nCREHGLHVAGSFIVGYPGETERDYEATKDLVAALSLDDVFISSAEPIPGTPLADLVIRTP\r\nRDKNPAFMPHTGEYRALHLTESEARCFDLMMHADMYRPQIRLVTDEVYAAYLAEAKKQGE\r\nDIRAATELILRYAQR", "mw": 49.962, "total_mw": 49.962, "number_molecules": 1, "complex_state": false, "deuteration": null, "molecule_source": "biological", "molecule_description": "Apo protein with an Fe-S cluster. The protein construct used for SAXS contains an additional amino acid extension at the N-terminus (MASWSHPQFEKSGGGGGENLYFQGH)." } ], "buffer": { "name": "50 mM Tris, 300 mM NaCl, 5% glycerol", "concentration_unit": null, "comment": null, "additive": null, "concentration": null, "pka": null, "ph": 8.0, "deuteration": null }, "purity_method": null, "name": "Glutamine C‐methyltransferase with cobalamin from Methanoculleus thermophilus", "ext_coefficient": null, "contrast": null, "specific_vol": null, "dry_vol": null, "absorbption": null, "deuteration": null, "mixture": null }, "contributor": [ { "affiliation": [ { "short_name": "Soleil", "address": "Saint-Aubin, France", "full_name": "Soleil Synchrotron", "webpage": "http://www.synchrotron-soleil.fr/" } ], "contributor_name": "Aurélien", "contributor_surname": "Thureau", "orcid": null } ], "concentration_method": null, "concentration_unit": null, "date": "2024-09-18", "storage_temperature": 6.0, "cell_temperature": 20.0, "exposure_time": 0.99, "number_of_frames": 646, "wavelength": 0.1033, "sample_detector_distance": 2.0, "concentration_min": null, "concentration_max": 5.0, "sample_volume": 50.0, "flow_rate": 0.25, "s_min": 0.036, "s_max": 5.0, "total_exposure_time": null, "seccolumn": 46 }, "fits": [ { "models": [ { "model_plot": "https://www.sasbdb.org/media/pdb_file/images/SASDVZ7_fit1_model1_img.png", "software": "AlphaFold", "pdb_link": [], "model_title": null, "type_of_model": "atomic", "software_version": null, "model_data": "https://www.sasbdb.org/media/pdb_file/SASDVZ7_fit1_model1.pdb", "model_mw": 54.41, "bead_radius": null, "log": null, "symmetry": null, "comment": null, "user": 91 } ], "fit_unit": "1/A", "fit_plot": "https://www.sasbdb.org/media/fitting_files/scattering_plots/SASDVZ7_fit1_fixed_fit_img.png", "software": "CRYSOL", "chi_square_value": 0.983, "p_value": 0.0638, "fit_residual_plot": "SASDVZ7_fit1_fitresiduals_img.png", "fit_data": "https://www.sasbdb.org/media/fitting_files/SASDVZ7_fit1.fit", "fit_log": null, "software_version": null, "description": "" } ], "estimated_volume_method": null, "pddf_software": "ATSAS GNOM", "pddf_software_version": null, "i0_calibration_standard": null, "description": null, "experiment_description": "Synchrotron SAXS data from solutions of glutamine C‐methyltransferase with cobalamin in 50 mM Tris, 300 mM NaCl, 5% glycerol, pH 8 were collected on the SWING beam line at SOLEIL (Saint-Aubin, France) using a Eiger 4M detector at a sample-detector distance of 2 m and at a wavelength of λ = 0.1033 nm (I(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). In-line size-exclusion chromatography (SEC) SAS was employed. The SEC parameters were as follows: A 50.00 μl sample at 5 mg/ml was injected at a 0.25 ml/min flow rate onto a Cytiva Superdex 200 5/150 column at 20°C. 646 successive 0.990 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.", "tags": [], "intensity_unit": "arbitrary", "experimental_mw": 51.6, "experimental_mw_error": null, "guinier_i0_mw": null, "guinier_i0_mw_error": null, "porod_mw": 49.0, "porod_mw_error": null, "pddf_i0": 0.03073, "pddf_i0_error": null, "guinier_i0": 0.0215079, "guinier_i0_error": null, "pddf_rg": 2.54, "pddf_rg_error": null, "guinier_rg": 2.54, "guinier_rg_error": 0.067, "pddf_dmax": 10.1, "pddf_dmax_error": null, "porod_volume": 78.0, "porod_volume_error": null, "estimated_volume": null, "estimated_volume_error": null, "guinier_point_first": 4, "guinier_point_last": 96, "pddf_point_first": null, "pddf_point_last": null, "i0_calibration_standard_data": null, "intensities_log_log_plot": "SASDVZ7_fit1_datloglog_img.png", "symmetry": null, "last_modified": "2026-05-27T09:45:48.304259+02:00", "bragg_peak": [] }