查看完整 summary.json 原文
{
"code": "SASDW74",
"status": "Published",
"type_of_curve": "SEC-SAS",
"angular_unit": "1/nm",
"project": {
"title": "The CRISPR-Cas9 knockout DDC SH-SY5Y in vitro model for AADC deficiency provides insight into the pathogenicity of R347Q and L353P variants: a cross-sectional structural and functional analysis.",
"publication": {
"title": "The CRISPR-Cas9 knockout DDC SH-SY5Y in vitro model for AADC deficiency provides insight into the pathogenicity of R347Q and L353P variants: a cross-sectional structural and functional analysis.",
"author_list": "Carmona-Carmona CA, Bisello G, Franchini R, Lunardi G, Galavotti R, Perduca M, Ribeiro RP, Belviso BD, Giorgetti A, Caliandro R, Lievens PM, Bertoldi M",
"journal": "FEBS J",
"doi": "10.1111/febs.70120",
"pmid": "40318155",
"published_date": "2025 May 3"
},
"status": "released",
"submitted_date": "2024-12-20",
"released_date": "2025-04-02"
},
"pddf_data": "https://www.sasbdb.org/media/p_of_R_files/SASDW74.out",
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"sascif_data": "https://www.sasbdb.org/media/sascif/sascif_files/SASDW74.sascif",
"experiment": {
"instrument": {
"detector": {
"type": null,
"name": "Eiger 4M",
"resolution": 75.0
},
"name": "Diamond Light Source",
"city": "Didcot",
"country": "UK",
"beamline_name": "B21",
"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": "Aromatic-L-amino-acid decarboxylase (L353P)",
"short_name": "AADC",
"sequence": "MNASEFRRRGKEMVDYMANYMEGIEGRQVYPDVEPGYLRPLIPAAAPQEPDTFEDIINDVEKIIMPGVTHWHSPYFFAYFPTASSYPAMLADMLCGAIGCIGFSWAASPACTELETVMMDWLGKMLELPKAFLNEKAGEGGGVIQGSASEATLVALLAARTKVIHRLQAASPELTQAAIMEKLVAYSSDQAHSSVERAGLIGGVKLKAIPSDGNFAMRASALQEALERDKAAGLIPFFMVATLGTTTCCSFDNLLEVGPICNKEDIWLHVDAAYAGSAFICPEFRHLLNGVEFADSFNFNPHKWLLVNFDCSAMWVKKRTDLTGAFRLDPTYLKHSHQDSGLITDYRHWQIPPGRRFRSLKMWFVFRMYGVKGLQAYIRKHVQLSHEFESLVRQDPRFEICVEVILGLVCFRLKGSNKVNEALLQRINSAKKIHLVPCHLRDKFVLRFAICSRTVESAHVQRAWEHIKELAADVLRAE",
"organism": "Homo sapiens",
"uniprot_code": "P20711",
"uniprot_range_first": 1,
"uniprot_range_last": 478,
"oligomerization": "dimer",
"molecular_type": "protein",
"uniprot_sequence": "MNASEFRRRGKEMVDYMANYMEGIEGRQVYPDVEPGYLRPLIPAAAPQEPDTFEDIINDV\nEKIIMPGVTHWHSPYFFAYFPTASSYPAMLADMLCGAIGCIGFSWAASPACTELETVMMD\nWLGKMLELPKAFLNEKAGEGGGVIQGSASEATLVALLAARTKVIHRLQAASPELTQAAIM\nEKLVAYSSDQAHSSVERAGLIGGVKLKAIPSDGNFAMRASALQEALERDKAAGLIPFFMV\nATLGTTTCCSFDNLLEVGPICNKEDIWLHVDAAYAGSAFICPEFRHLLNGVEFADSFNFN\nPHKWLLVNFDCSAMWVKKRTDLTGAFRLDPTYLKHSHQDSGLITDYRHWQIPLGRRFRSL\nKMWFVFRMYGVKGLQAYIRKHVQLSHEFESLVRQDPRFEICVEVILGLVCFRLKGSNKVN\nEALLQRINSAKKIHLVPCHLRDKFVLRFAICSRTVESAHVQRAWEHIKELAADVLRAERE",
"mw": 53.624,
"total_mw": 107.248,
"number_molecules": 2,
"complex_state": false,
"deuteration": null,
"molecule_source": "biological",
"molecule_description": ""
}
],
"buffer": {
"name": "50 mM HEPES",
"concentration_unit": null,
"comment": null,
"additive": null,
"concentration": null,
"pka": null,
"ph": 7.4,
"deuteration": null
},
"purity_method": null,
"name": "Aromatic-L-amino-acid decarboxylase L353P bound to pyridoxal 5'-phosphate (PLP)",
"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": "National Research Council",
"webpage": null
}
],
"contributor_name": "Benny Danilo",
"contributor_surname": "Belviso",
"orcid": "https://orcid.org/0000-0003-2880-1064"
}
],
"concentration_method": null,
"concentration_unit": null,
"date": "2021-07-07",
"storage_temperature": 20.0,
"cell_temperature": 20.0,
"exposure_time": 3.0,
"number_of_frames": 620,
"wavelength": 0.1,
"sample_detector_distance": 3.7,
"concentration_min": null,
"concentration_max": 4.0,
"sample_volume": 50.0,
"flow_rate": 0.16,
"s_min": 0.045,
"s_max": 3.4,
"total_exposure_time": null,
"seccolumn": 19
},
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{
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"software": "DAMMIN",
"pdb_link": [],
"model_title": null,
"type_of_model": "dummy",
"software_version": "3.0.2",
"model_data": "https://www.sasbdb.org/media/pdb_file/SASDW74_fit1_model1.pdb",
"model_mw": 86.19,
"bead_radius": 2.5,
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"symmetry": null,
"comment": null,
"user": 930
}
],
"fit_unit": "1/A",
"fit_plot": "https://www.sasbdb.org/media/fitting_files/scattering_plots/SASDW74_fit1_fixed_fit_img.png",
"software": "DAMMIN",
"chi_square_value": 1.288,
"p_value": 0.0007,
"fit_residual_plot": "SASDW74_fit1_fitresiduals_img.png",
"fit_data": "https://www.sasbdb.org/media/fitting_files/SASDW74_fit1.fir",
"fit_log": "https://www.sasbdb.org/media/fitting_files/log_files/dammin_P1_refinement.log",
"software_version": null,
"description": ""
}
],
"estimated_volume_method": null,
"pddf_software": "ATSAS GNOM",
"pddf_software_version": "5.0",
"i0_calibration_standard": null,
"description": "Pyridoxal 5'-phosphate: https://www.ebi.ac.uk/chebi/searchId.do?chebiId=CHEBI:18405. CAUTION: Data used to calculate p(r) have been significantly truncated at both low- and high-s.",
"experiment_description": "Synchrotron SAXS data from solutions of aromatic-L-amino-acid decarboxylase (L353P) bound to pyridoxal 5'-phosphate in 50 mM HEPES, pH 7.4 were collected on the B21 beam line at the Diamond Light Source (Didcot, UK) using a Eiger 4M detector at a sample-detector distance of 3.7 m and at a wavelength of λ = 0.1 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 4 mg/ml was injected at a 0.16 ml/min flow rate onto a Shodex KW403-4F column at 20°C. 620 successive 3 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": 109.0,
"experimental_mw_error": null,
"guinier_i0_mw": null,
"guinier_i0_mw_error": null,
"porod_mw": 111.356,
"porod_mw_error": null,
"pddf_i0": 0.1592,
"pddf_i0_error": 0.0002,
"guinier_i0": 0.167542,
"guinier_i0_error": null,
"pddf_rg": 2.91,
"pddf_rg_error": null,
"guinier_rg": 3.088,
"guinier_rg_error": 0.002,
"pddf_dmax": 8.79,
"pddf_dmax_error": null,
"porod_volume": 151.97,
"porod_volume_error": null,
"estimated_volume": null,
"estimated_volume_error": null,
"guinier_point_first": 19,
"guinier_point_last": 275,
"pddf_point_first": null,
"pddf_point_last": null,
"i0_calibration_standard_data": null,
"intensities_log_log_plot": "SASDW74_datloglog_img.png",
"symmetry": null,
"last_modified": "2025-05-08T08:55:23.578994+02:00",
"bragg_peak": []
}查看完整 manifest.json 原文
{
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"status": "success",
"started_at": "2026-08-11T14:15:44.003120+00:00",
"finished_at": "2026-08-11T14:15:52.635385+00:00",
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