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{
"code": "SASDXV3",
"status": "Published",
"type_of_curve": "Single concentration",
"angular_unit": "1/A",
"project": {
"title": "DNA induces non-canonical dimerization of the farnesoid X receptor.",
"publication": {
"title": "DNA induces non-canonical dimerization of the farnesoid X receptor.",
"author_list": "Khan SH, Yennawar N, Okafor CD",
"journal": "Nucleic Acids Res",
"doi": "10.1093/nar/gkag087",
"pmid": "41728955",
"published_date": "2026 Feb 5"
},
"status": "released",
"submitted_date": "2025-04-16",
"released_date": "2026-02-26"
},
"pddf_data": "https://www.sasbdb.org/media/p_of_R_files/SASDXV3.out",
"intensities_data": "https://www.sasbdb.org/media/intensities_files/SASDXV3.dat",
"intensities_log_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDXV3_dat_img.png",
"intensities_kratky_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDXV3_kratky_img.png",
"pddf_plot": "https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDXV3_pofr_img.png",
"intensities_guinier_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDXV3_guinier_img.png",
"sascif_data": "https://www.sasbdb.org/media/sascif/sascif_files/SASDXV3.sascif",
"experiment": {
"instrument": {
"detector": {
"type": "Hybrid Photon Counting (HPC) X-ray detector",
"name": "Rigaku HyPix-3000",
"resolution": 100.0
},
"name": "Pennsylvania State University",
"city": "University Park, PA",
"country": "USA",
"beamline_name": "Rigaku BioSAXS-2000",
"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": "inverted repeat DNA",
"short_name": "IR1",
"sequence": "CCGAGGTCAATGACCTCG\r\nCCGAGGTCATTGACCTCG",
"organism": null,
"uniprot_code": null,
"uniprot_range_first": null,
"uniprot_range_last": null,
"oligomerization": "monomer",
"molecular_type": "DNA",
"uniprot_sequence": "",
"mw": 11.102,
"total_mw": 11.102,
"number_molecules": 1,
"complex_state": false,
"deuteration": null,
"molecule_source": "biological",
"molecule_description": ""
},
{
"long_name": "Isoform 3 of Bile acid receptor",
"short_name": "FXR",
"sequence": "KKPRMGASAGRIKGDELCVVCGDRASGYHYNALTCEGCKGFFRRSITKNAVYKCKNGGNCVMDMYMRRKCQECRLRKCKEMGMLAECMYTGLLTEIQCKSKRLRKNVKQHADQTVNEDSEGRDLRQVTSTTKSCREKTELTPDQQTLLHFIMDSYNKQRMPQEITNKILKEEFSAEENFLILTEMATNHVQVLVEFTKKLPGFQTLDHEDQIALLKGSAVEAMFLRSAEIFNKKLPSGHSDLLEERIRNSGISDEYITPMFSFYKSIGELKMTQEEYALLTAIVILSPDRQYIKDREAVEKLQEPLLDVLQKLCKIHQPENPQHFACLLGRLTELRTFNHHHAEMLMSWRVNDHKFT",
"organism": "Homo sapiens",
"uniprot_code": "Q96RI1",
"uniprot_range_first": 110,
"uniprot_range_last": 466,
"oligomerization": "dimer",
"molecular_type": "protein",
"uniprot_sequence": "MGSKMNLIEHSHLPTTDEFSFSENLFGVLTEQVAGPLGQNLEVEPYSQYSNVQFPQVQPQ\nISSSSYYSNLGFYPQQPEEWYSPGIYELRRMPAETLYQGETEVAEMPVTKKPRMGASAGR\nIKGDELCVVCGDRASGYHYNALTCEGCKGFFRRSITKNAVYKCKNGGNCVMDMYMRRKCQ\nECRLRKCKEMGMLAECMYTGLLTEIQCKSKRLRKNVKQHADQTVNEDSEGRDLRQVTSTT\nKSCREKTELTPDQQTLLHFIMDSYNKQRMPQEITNKILKEEFSAEENFLILTEMATNHVQ\nVLVEFTKKLPGFQTLDHEDQIALLKGSAVEAMFLRSAEIFNKKLPSGHSDLLEERIRNSG\nISDEYITPMFSFYKSIGELKMTQEEYALLTAIVILSPDRQYIKDREAVEKLQEPLLDVLQ\nKLCKIHQPENPQHFACLLGRLTELRTFNHHHAEMLMSWRVNDHKFTPLLCEIWDVQ",
"mw": 41.264,
"total_mw": 82.528,
"number_molecules": 2,
"complex_state": false,
"deuteration": null,
"molecule_source": "biological",
"molecule_description": ""
}
],
"buffer": {
"name": "50 mM HEPES, 150 mM NaCl, 5 % glycerol, 1 mM DTT, 20 µM CDCA",
"concentration_unit": null,
"comment": null,
"additive": null,
"concentration": null,
"pka": null,
"ph": 7.4,
"deuteration": null
},
"purity_method": null,
"name": "Farnesoid X receptor homo-dimer bound to inverted repeat DNA",
"ext_coefficient": null,
"contrast": null,
"specific_vol": null,
"dry_vol": null,
"absorbption": null,
"deuteration": null,
"mixture": null
},
"contributor": [
{
"affiliation": [
{
"short_name": "PSU",
"address": "Pennsylvania, USA",
"full_name": "Pennsylvania State University (PSU)",
"webpage": "https://www.psu.edu/"
}
],
"contributor_name": "Neela",
"contributor_surname": "Yennawar",
"orcid": ""
}
],
"concentration_method": null,
"concentration_unit": null,
"date": "2024-05-09",
"storage_temperature": 4.0,
"cell_temperature": 4.0,
"exposure_time": 600.0,
"number_of_frames": 6,
"wavelength": 0.154,
"sample_detector_distance": 4.955,
"concentration_min": null,
"concentration_max": 0.6,
"sample_volume": null,
"flow_rate": null,
"s_min": 0.034,
"s_max": 6.106,
"total_exposure_time": null,
"seccolumn": null
},
"fits": [
{
"models": [
{
"model_plot": "https://www.sasbdb.org/media/pdb_file/images/SASDXV3_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/SASDXV3_fit1_model1.pdb",
"model_mw": 93.05,
"bead_radius": null,
"log": null,
"symmetry": null,
"comment": null,
"user": 1001
}
],
"fit_unit": "1/A",
"fit_plot": "https://www.sasbdb.org/media/fitting_files/scattering_plots/SASDXV3_fit1_fixed_fit_img.png",
"software": "FoXS",
"chi_square_value": 1.939,
"p_value": 0.0001,
"fit_residual_plot": "SASDXV3_fit1_fitresiduals_img.png",
"fit_data": "https://www.sasbdb.org/media/fitting_files/SASDXV3_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": "Chenodeoxycholic acid (CDCA): https://www.ebi.ac.uk/chembl/explore/compound/CHEMBL240597",
"experiment_description": "SAXS data from solutions of farnesoid X receptor homo-dimer bound to inverted repeat DNA in 50 mM HEPES, 150 mM NaCl, 5 % glycerol, 1 mM DTT, 20 µM CDCA, pH 7.4 were collected on a Rigaku BioSAXS-2000 instrument (Pennsylvania State University, University Park, PA, USA) using a Rigaku HyPix-3000 detector at a sample-detector distance of 5.0 m and at a wavelength of λ = 0.154 nm (I(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). One solute concentration of 0.60 mg/ml was measured at 4°C. Six successive 600 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": 94.7,
"experimental_mw_error": null,
"guinier_i0_mw": null,
"guinier_i0_mw_error": null,
"porod_mw": null,
"porod_mw_error": null,
"pddf_i0": 6.051,
"pddf_i0_error": null,
"guinier_i0": 5.74754,
"guinier_i0_error": null,
"pddf_rg": 5.83,
"pddf_rg_error": null,
"guinier_rg": 5.05,
"guinier_rg_error": 0.078,
"pddf_dmax": 23.2,
"pddf_dmax_error": null,
"porod_volume": 120.0,
"porod_volume_error": null,
"estimated_volume": null,
"estimated_volume_error": null,
"guinier_point_first": 9,
"guinier_point_last": 28,
"pddf_point_first": null,
"pddf_point_last": null,
"i0_calibration_standard_data": null,
"intensities_log_log_plot": "SASDXV3_datloglog_img.png",
"symmetry": null,
"last_modified": "2026-02-26T13:30:46.344061+01:00",
"bragg_peak": []
}
