查看完整 summary.json 原文
{
"code": "SASDFT3",
"status": "Published",
"type_of_curve": "SEC-SAS",
"angular_unit": "1/A",
"project": {
"title": "A Dissection of Oligomerisation by the TRIM28 Tripartite Motif and the Interaction with Members of the Krab-ZFP Family.",
"publication": {
"title": "A Dissection of Oligomerisation by the TRIM28 Tripartite Motif and the Interaction with Members of the Krab-ZFP Family.",
"author_list": "Sun Y, Keown JR, Black MM, Raclot C, Demarais N, Trono D, Turelli P, Goldstone DC",
"journal": "J Mol Biol",
"doi": "10.1016/j.jmb.2019.05.002",
"pmid": "31078555",
"published_date": "2019 May 9"
},
"status": "released",
"submitted_date": "2019-03-06",
"released_date": "2019-05-16"
},
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},
"name": "Australian Synchrotron",
"city": "Melbourne",
"country": "Australia",
"beamline_name": "SAXS/WAXS",
"beam_geometry": "Point",
"type_of_source": "X-ray synchrotron",
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{
"long_name": "Transcription intermediary factor 1-beta",
"short_name": "TRIM28",
"sequence": "GPGEAQELLEHCGVCRERLRPERDPRLLPCLHSACSACLGPATPAAANNSGDGGSAGDGAMVDCPVCKQQCYSKDIVENYFMRDSGSKASSDSQDANQCCTSCEDNAPATSYCVECSEPLCETCVEAHQRVKYTKDHTVRSTGPAKTRDGERTVYCNVHKHEPLVLFCESCDTLTCRDCQLNAHKDHQYQFLEDAVRNQRKLLASLVKRLGDKHATLQKNTKEVRSSIRQVSDVQKRVQVDVKMAILQIMKELNKRGRVLVNDAQKVTEGQQERLERQHWTMTKIQKHQEHILRFASWALESDNNTALLLSKKLIYFQLHRALKMIVDPVEPHGEMKFQWDLNAWTKSAEAFGKIVAERPGTNS",
"organism": "Mus musculus",
"uniprot_code": "Q62318",
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"uniprot_range_last": 418,
"oligomerization": "dimer",
"molecular_type": "protein",
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"number_molecules": 2,
"complex_state": false,
"deuteration": null,
"molecule_source": "biological",
"molecule_description": null
},
{
"long_name": "Zinc finger protein 809 N-terminal MBP fusion",
"short_name": "MBP-ZFP809",
"sequence": "MLVIWINGDKGYNGLAQVGKKFEKDTGIKVTVEHPDKLEEKFPQVAATGDGPDIIFWAHDRFGGYAQSGLLAEITPDKAFQDKLYPFTWDAVRYNGKLIAYPIAVEALSLIYNKDLLPNPPKTWEEIPALDKELKAKGKSALMFNLQEPYFTWPLIAADGGYAFKYENGKYDIKDVGVDNAGAKAGLTFLVDLIKNKHMNADTDYSIAEAAFNKGETAMTINGPWAWSNIDTSKVNYGVTVLPTFKGQPSKPFVGVLSAGINAASPNKELAKEFLENYLLTDEGLEAVNKDKPLGAVALKSYEEELAKDPRIAATMENAQKGEIMPNIPQMSAFWYAVRTAVINAASGRQTVDEALKDAQTNGSTSGGGGSNNNPPTPTPSSGSGHHHHHHSAALEVLFQGPGMGLVSFEDVAVDFTLEEWQDLDAAQRTLYRDVMLETYSSLVFLDPCIAKPKLIFNLERGFGPWSLAEASSRSLP",
"organism": "Mus musculus",
"uniprot_code": "G3X9G7",
"uniprot_range_first": 1,
"uniprot_range_last": 74,
"oligomerization": "monomer",
"molecular_type": "protein",
"uniprot_sequence": "MGLVSFEDVAVDFTLEEWQDLDAAQRTLYRDVMLETYSSLVFLDPCIAKPKLIFNLERGF\nGPWSLAEASSRSLPGVHNVSTLSDTSKKIPKTRLRQLRKTNQKTPSEDTIEAELKARQEV\nSKGTTSRHRRAPVKSLCRKSQRTKNQTSYNDGNLYECKDCEKVFCNNSTLIKHYRRTHNV\nYKPYECDECSKMYYWKSDLTSHQKTHRQRKRIYECSECGKAFFRKSHLNAHERTHSGEKP\nYECTECRKAFYYKSDLTRHKKTHLGEKPFKCEECKKAFSRKSKLAIHQKKHTGEKPYECT\nECKKAFSHQSQLTAHRIAHSSENPYECKECNKSFHWKCQLTAHQKRHTGVTYFQEVVFQQ\nITVSDWTGNLSENGPHRPTWTWAYGIMDFVKAWSRCIIGGGL",
"mw": 52.099,
"total_mw": 52.099,
"number_molecules": 1,
"complex_state": false,
"deuteration": null,
"molecule_source": "biological",
"molecule_description": null
}
],
"buffer": {
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"concentration_unit": null,
"comment": null,
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"concentration": null,
"pka": null,
"ph": 8.0,
"deuteration": null
},
"purity_method": null,
"name": "Murine transcription intermediary factor 1-beta, TRIM28 RBCC assembly-null mutation R184D, complexed with the Krab domain of ZFP809 fused to an N-terminal MBP",
"ext_coefficient": null,
"contrast": null,
"specific_vol": null,
"dry_vol": null,
"absorbption": null,
"deuteration": null,
"mixture": null
},
"contributor": [
{
"affiliation": [
{
"short_name": null,
"address": "Auckland, New Zealand",
"full_name": "The University of Auckland",
"webpage": "https://www.auckland.ac.nz"
}
],
"contributor_name": "Yunyuan",
"contributor_surname": "Sun",
"orcid": ""
}
],
"concentration_method": null,
"concentration_unit": null,
"date": "2017-08-10",
"storage_temperature": null,
"cell_temperature": 16.0,
"exposure_time": 1.0,
"number_of_frames": 48,
"wavelength": 0.113,
"sample_detector_distance": 3.3,
"concentration_min": 0.15,
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"sample_volume": null,
"flow_rate": null,
"s_min": 0.043,
"s_max": 2.843,
"total_exposure_time": null,
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},
"fits": [
{
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{
"model_plot": "https://www.sasbdb.org/media/pdb_file/images/SASDFT3_fit1_model1_img.png",
"software": "GASBOR",
"pdb_link": [],
"model_title": null,
"type_of_model": "dummy",
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"model_data": "https://www.sasbdb.org/media/pdb_file/SASDFT3_fit1_model1.pdb",
"model_mw": null,
"bead_radius": 1.9,
"log": "https://www.sasbdb.org/media/log_files/complex.log",
"symmetry": "p1",
"comment": null,
"user": 423
}
],
"fit_unit": "1/A",
"fit_plot": "https://www.sasbdb.org/media/fitting_files/scattering_plots/complex_fit_img.png",
"software": "GASBOR",
"chi_square_value": 0.69,
"p_value": 0.099471,
"fit_residual_plot": "complex_fitresiduals_img.png",
"fit_data": "https://www.sasbdb.org/media/fitting_files/SASDFT3_fit1.fir",
"fit_log": "https://www.sasbdb.org/media/fitting_files/log_files/complex.log",
"software_version": "2.3i",
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}
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"estimated_volume_method": null,
"pddf_software": "ATSAS GNOM",
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"description": null,
"experiment_description": "Synchrotron SAXS data from solutions of TRIM28 RBCC_R184D in complex with MBP-Krab ZFP809 in 10 mM Tris 300 mM NaCl 0.1 mM TCEP, pH 8 were collected using size-exclusion chromatography SAXS (SEC-SAXS) on the SAXS/WAXS beam line at the Australian Synchrotron (Melbourne, Australia) using a Pilatus 1M detector at a sample-detector distance of 3.3 m and at a wavelength of λ = 0.113 nm (l(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). SEC-SAXS was performed at 16 °C using the GE-Healthcare S200 5/150 analytical SEC column at a flow rate of 0.5 mL/min. Two successive 50 μL samples were loaded at 1:1 RBCC to MBP-Krab and 1:1.5 RBCC to MBP-Krab molar ratios, at concentrations of 11.2 and 14.3 mg/mL, respectively. The data were collected through the SEC peaks of each individual run as a series of 48 x 1 second exposures . The data were normalized to the intensity of the transmitted beam and radially averaged and the the scattering of an appropriate solvent-blank was subtracted. Both samples yielded identical scattering curves after buffer subtraction and therefore have been scaled and merged to generate the final SAXS profile displayed in this entry.",
"tags": [],
"intensity_unit": "1/cm",
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"guinier_i0_mw": null,
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"pddf_i0": 0.06258,
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"pddf_rg": 6.58,
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"guinier_rg": 6.38,
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"pddf_dmax": 22.0,
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"porod_volume": 252.0,
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"estimated_volume": null,
"estimated_volume_error": null,
"guinier_point_first": 3,
"guinier_point_last": 43,
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"i0_calibration_standard_data": null,
"intensities_log_log_plot": "SASDFT3_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
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