查看完整 summary.json 原文
{
"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": []
}查看完整 manifest.json 原文
{
"code": "SASDVZ7",
"status": "success",
"started_at": "2026-08-11T15:43:40.146638+00:00",
"finished_at": "2026-08-11T15:43:49.654689+00:00",
"source_last_modified": "2026-05-27T09:45:48.304259+02:00",
"files": [
{
"status": "downloaded",
"url": "https://www.sasbdb.org/rest-api/entry/summary/SASDVZ7/",
"path": "/data/saxsdb/sasbdb/entries/z7/sasdvz7/source/summary.json",
"size": 8283,
"sha256": "9d20b14b53e83a209d427c4c9d6018ac0caffdc83a991d796ef7691401675122"
},
{
"status": "downloaded",
"url": "https://www.sasbdb.org/media/intensities_files/SASDVZ7_fit1.dat",
"path": "/data/saxsdb/sasbdb/entries/z7/sasdvz7/source/SASDVZ7.dat",
"size": 50232,
"sha256": "3efa9759e5e02523430966697bcb073e0a4f4fc30d07c93cf489862e458b40ef",
"role": "curve"
},
{
"status": "downloaded",
"url": "https://www.sasbdb.org/media/p_of_R_files/SASDVZ7.out",
"path": "/data/saxsdb/sasbdb/entries/z7/sasdvz7/source/SASDVZ7.out",
"size": 107380,
"sha256": "866778138c7a1fdace10c7a8888cbdf882dbebc0aa9eaed6cf76f57d807fa87e",
"role": "pddf"
},
{
"status": "not_available",
"url": "https://www.sasbdb.org/media/sascif/sascif_files/SASDVZ7.sascif",
"path": "/data/saxsdb/sasbdb/entries/z7/sasdvz7/source/SASDVZ7.sascif",
"role": "sascif"
},
{
"status": "downloaded",
"url": "https://www.sasbdb.org/media/zip_directories/SASDVZ7.zip",
"path": "/data/saxsdb/sasbdb/entries/z7/sasdvz7/source/SASDVZ7.zip",
"size": 132040,
"sha256": "af67681a755941a292a7014677291610c5b47d2f2d49a24133741f6f79c7b7f1",
"role": "full_entry_zip",
"zip_member_count": 4,
"zip_validation": "central_directory_readable"
}
]
}
