查看完整 summary.json 原文
{
"code": "SASDFR4",
"status": "Published",
"type_of_curve": "Extrapolated to infinite dilution",
"angular_unit": "1/A",
"project": {
"title": "Construction of a Quadrangular Tetramer and a Cage-Like Hexamer from Three-Helix Bundle-Linked Fusion Proteins.",
"publication": {
"title": "Construction of a Quadrangular Tetramer and a Cage-Like Hexamer from Three-Helix Bundle-Linked Fusion Proteins.",
"author_list": "Miyamoto T, Hayashi Y, Yoshida K, Watanabe H, Uchihashi T, Yonezawa K, Shimizu N, Kamikubo H, Hirota S",
"journal": "ACS Synth Biol",
"doi": "10.1021/acssynbio.9b00019",
"pmid": "30966743",
"published_date": "2019 Apr 16"
},
"status": "released",
"submitted_date": "2019-03-28",
"released_date": "2019-04-24"
},
"pddf_data": "https://www.sasbdb.org/media/p_of_R_files/SASDFR4.out",
"intensities_data": "https://www.sasbdb.org/media/intensities_files/SASDFR4.dat",
"intensities_log_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDFR4_dat_img.png",
"intensities_kratky_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDFR4_kratky_img.png",
"pddf_plot": "https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDFR4_pofr_img.png",
"intensities_guinier_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDFR4_guinier_img.png",
"sascif_data": "https://www.sasbdb.org/media/sascif/sascif_files/SASDFR4.sascif",
"experiment": {
"instrument": {
"detector": {
"type": "Pilatus",
"name": "Pilatus 200K",
"resolution": 172.0
},
"name": "Nara Institute of Science and Technology",
"city": "Ikoma",
"country": "Japan",
"beamline_name": "Rigaku Nano-Viewer",
"beam_geometry": null,
"type_of_source": "X-ray in house",
"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": "HP2042 form from Helicobacter pylori, N-terminal domain of syntaxin-1A from Rattus norvegicus, Trp repressor from Escherichia coli",
"short_name": "Fusion protein1",
"sequence": "MGSSHHHHHHSSGLVPRGSHMRDYSELEIFEGNPLDKWNDIIFHASKKASKKELERLLELLALCETFIEKEDLEEKFESFAKALRIDEELQQKIESRKTDIVIQSMANILSALFMDEFFEQVEEIRGFIDKIAENVEEVKRKHSAILASPNPDEKTKEELEELMSDIKKTANKVRSKLKSIEQSIEQEEGLNRSSADLRIRKTQHSTLSRKFVEVMSEYNATQSDYGSGSGRHQEWLRFVDLLKNAYQNDLHLPLLNLMLTPDEREALGTRVRIVEELLRGEMSQRELKNELGAGIATITRGSNSLKAAPVELRQWLEEVLLKSD",
"organism": "Helicobacter pylori, Rattus norvegicus, Escherichia coli",
"uniprot_code": null,
"uniprot_range_first": null,
"uniprot_range_last": null,
"oligomerization": "tetramer",
"molecular_type": "protein",
"uniprot_sequence": null,
"mw": 37.434,
"total_mw": 149.736,
"number_molecules": 4,
"complex_state": false,
"deuteration": null,
"molecule_source": "biological",
"molecule_description": null
}
],
"buffer": {
"name": "20 mM Tris-HCl 150 mM NaCl",
"concentration_unit": null,
"comment": null,
"additive": null,
"concentration": null,
"pka": null,
"ph": 8.0,
"deuteration": null
},
"purity_method": null,
"name": "HP2042 form from Helicobacter pylori, N-terminal domain of syntaxin-1A from Rattus norvegicus, Trp repressor from Escherichia coli (Domain A (PDB:3MLI)-Linker (PDB:1BR0)-Domain B (PDB:1WRT))",
"ext_coefficient": null,
"contrast": null,
"specific_vol": null,
"dry_vol": null,
"absorbption": null,
"deuteration": null,
"mixture": null
},
"contributor": [
{
"affiliation": [
{
"short_name": null,
"address": "Japan",
"full_name": "Nara Institute of Science and Technology",
"webpage": "http://www.naist.jp/en/"
}
],
"contributor_name": "Hironari",
"contributor_surname": "Kamikubo",
"orcid": "https://orcid.org/0000-0002-0878-6488"
}
],
"concentration_method": null,
"concentration_unit": null,
"date": "2016-12-08",
"storage_temperature": 4.0,
"cell_temperature": 20.0,
"exposure_time": 60.0,
"number_of_frames": 25,
"wavelength": 0.15418,
"sample_detector_distance": 0.75,
"concentration_min": 2.3,
"concentration_max": 8.3,
"sample_volume": null,
"flow_rate": null,
"s_min": 0.138,
"s_max": 3.003,
"total_exposure_time": null,
"seccolumn": null
},
"fits": [
{
"models": [
{
"model_plot": "https://www.sasbdb.org/media/pdb_file/images/SASDFR4_fit1_model1_img.png",
"software": "CORAL",
"pdb_link": [
{
"pdb_code": "3mli",
"ext_code": "3MLI",
"ext_type": "pdb",
"difference_with_model": "derived"
},
{
"pdb_code": "1br0",
"ext_code": "1BR0",
"ext_type": "pdb",
"difference_with_model": "derived"
},
{
"pdb_code": "1wrt",
"ext_code": "1WRT",
"ext_type": "pdb",
"difference_with_model": "derived"
}
],
"model_title": null,
"type_of_model": "mix",
"software_version": null,
"model_data": "https://www.sasbdb.org/media/pdb_file/SASDFR4_fit1_model1.pdb",
"model_mw": 148.0,
"bead_radius": 1.9,
"log": "https://www.sasbdb.org/media/log_files/tet401.log",
"symmetry": null,
"comment": null,
"user": 432
}
],
"fit_unit": "1/A",
"fit_plot": "https://www.sasbdb.org/media/fitting_files/scattering_plots/tet401-1_fixed_fit_img.png",
"software": "CORAL",
"chi_square_value": 0.1,
"p_value": 0.046149,
"fit_residual_plot": "tet401-1_fitresiduals_img.png",
"fit_data": "https://www.sasbdb.org/media/fitting_files/SASDFR4_fit1.fit",
"fit_log": "https://www.sasbdb.org/media/fitting_files/log_files/tet401.log",
"software_version": "5",
"description": ""
}
],
"estimated_volume_method": null,
"pddf_software": "ATSAS GNOM",
"pddf_software_version": "5.0",
"i0_calibration_standard": null,
"description": null,
"experiment_description": "SAXS data from solutions of the fusion protein1 in 20 mM Tris-HCl, 150 mM KCl, pH 8.0 were collected using a Nano-Viewer (Rigaku, Japan) at NAIST (Nara, Japan) equipped with a Pilatus 200K detector at a sample-detector distance of 0.75 m and at a wavelength of λ = 0.15418 nm (I(s) vs s, where s = 4πsinθ/λ and 2θ is the scattering angle). Twenty-five successive 60 second frames were collected at a sample temperature of 20°C. Solute concentrations ranging between 2.3 and 8.3 mg/ml were measured. The data were normalized to the intensity of the direct beam and radially averaged. The scattering from the solvent-blank was subtracted. The scattering profile in this entry represents an extrapolation to infinite dilution.",
"tags": [],
"intensity_unit": "arbitrary",
"experimental_mw": 177.0,
"experimental_mw_error": null,
"guinier_i0_mw": 177.0,
"guinier_i0_mw_error": 4.0,
"porod_mw": 237.0,
"porod_mw_error": null,
"pddf_i0": 37.39,
"pddf_i0_error": 0.9,
"guinier_i0": 37.24,
"guinier_i0_error": 1.5,
"pddf_rg": 5.24,
"pddf_rg_error": 2.0,
"guinier_rg": 5.11,
"guinier_rg_error": 0.3,
"pddf_dmax": 20.0,
"pddf_dmax_error": null,
"porod_volume": 379.0,
"porod_volume_error": null,
"estimated_volume": null,
"estimated_volume_error": null,
"guinier_point_first": 1,
"guinier_point_last": 10,
"pddf_point_first": null,
"pddf_point_last": null,
"i0_calibration_standard_data": null,
"intensities_log_log_plot": "SASDFR4_datloglog_img.png",
"symmetry": null,
"last_modified": "2019-12-06T13:07:15.624532+01:00",
"bragg_peak": []
}查看完整 manifest.json 原文
{
"code": "SASDFR4",
"status": "success",
"started_at": "2026-08-11T14:29:22.550512+00:00",
"finished_at": "2026-08-11T14:29:32.510076+00:00",
"source_last_modified": "2019-12-06T13:07:15.624532+01:00",
"files": [
{
"status": "downloaded",
"url": "https://www.sasbdb.org/rest-api/entry/summary/SASDFR4/",
"path": "/data/saxsdb/sasbdb/entries/r4/sasdfr4/source/summary.json",
"size": 8358,
"sha256": "0c5bf50efa312482591e4d3a19fc10fcf07a86205368b306348e3674da7b2ac9"
},
{
"status": "downloaded",
"url": "https://www.sasbdb.org/media/intensities_files/SASDFR4.dat",
"path": "/data/saxsdb/sasbdb/entries/r4/sasdfr4/source/SASDFR4.dat",
"size": 14134,
"sha256": "667ce3e0c3361b6030c0d99a59d7dbda898f3f091a7e53e4e1f57a2a416d57ca",
"role": "curve"
},
{
"status": "downloaded",
"url": "https://www.sasbdb.org/media/p_of_R_files/SASDFR4.out",
"path": "/data/saxsdb/sasbdb/entries/r4/sasdfr4/source/SASDFR4.out",
"size": 25518,
"sha256": "e9ec45747a2523da6e4eade2ae47e2d384a06c1eab447be3139c75f72b1e012b",
"role": "pddf"
},
{
"status": "downloaded",
"url": "https://www.sasbdb.org/media/sascif/sascif_files/SASDFR4.sascif",
"path": "/data/saxsdb/sasbdb/entries/r4/sasdfr4/source/SASDFR4.sascif",
"size": 1031436,
"sha256": "a2c72b67a7034b3268b5a033c18bc30814554fe9e544c8b61358594f71df6277",
"role": "sascif"
},
{
"status": "downloaded",
"url": "https://www.sasbdb.org/media/zip_directories/SASDFR4.zip",
"path": "/data/saxsdb/sasbdb/entries/r4/sasdfr4/source/SASDFR4.zip",
"size": 174474,
"sha256": "febf33b9bbd25532248b434b655be8d9dce49a63ae1b236ed8d4b3df0acefadd",
"role": "full_entry_zip",
"zip_member_count": 4,
"zip_validation": "central_directory_readable"
}
]
}
