The following content comes directly from the SASBDB entry. Missing values are shown as “—”; SAXSdb does not infer undeclared units.
Every source field is expanded here, including empty values, list members and fields already shown above.
View the complete summary.json source
{
"code": "SASDET4",
"status": "Published",
"type_of_curve": "Single concentration",
"angular_unit": "1/A",
"project": {
"title": "Structural basis for activation of plasma-membrane Ca<sup>2+</sup>-ATPase by calmodulin.",
"publication": {
"title": "Structural basis for activation of plasma-membrane Ca<sup>2+</sup>-ATPase by calmodulin.",
"author_list": "Nitsche J, Josts I, Heidemann J, Mertens HD, Maric S, Moulin M, Haertlein M, Busch S, Forsyth VT, Svergun DI, Uetrecht C, Tidow H",
"journal": "Commun Biol",
"doi": "10.1038/s42003-018-0203-7",
"pmid": "30511020",
"published_date": "2018"
},
"status": "released",
"submitted_date": null,
"released_date": "2018-12-03"
},
"pddf_data": "https://www.sasbdb.org/media/p_of_R_files/SASDET4.out",
"intensities_data": "https://www.sasbdb.org/media/intensities_files/SASDET4.dat",
"intensities_log_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDET4_dat_img.png",
"intensities_kratky_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDET4_kratky_img.png",
"pddf_plot": "https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDET4_pofr_img.png",
"intensities_guinier_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDET4_guinier_img.png",
"sascif_data": "https://www.sasbdb.org/media/sascif/sascif_files/SASDET4.sascif",
"experiment": {
"instrument": {
"detector": {
"type": "Array of 128 3-He position sensitive tubes",
"name": "MLZ",
"resolution": 8.0
},
"name": "Heinz Maier-Leibnitz Zentrum",
"city": "Garching",
"country": "Germany",
"beamline_name": "SANS-1",
"beam_geometry": null,
"type_of_source": "neutron source",
"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": "Membrane scaffold protein 1D1 (deuterated, 75%)",
"short_name": "d75-msp1d1",
"sequence": "GHHHHHHHDYDIPTTENLYFQGSTFSKLREQLGPVTQEFWDNLEKETEGLRQEM\r\nSKDLEEVKAKVQPYLDDFQKKWQEEMELYRQKVEPLRAELQEGARQKLHELQE\r\nKLSPLGEEMRDRARAHVDALRTHLAPYSDELRQRLAARLEALKENGGARLAEY\r\nHAKATEHLSTLSEKAKPALEDLRQGLLPVLESFKVSFLSALEEYTKKLNTQ",
"organism": null,
"uniprot_code": null,
"uniprot_range_first": null,
"uniprot_range_last": null,
"oligomerization": "dimer",
"molecular_type": "protein",
"uniprot_sequence": null,
"mw": 24.661,
"total_mw": 49.322,
"number_molecules": 0,
"complex_state": false,
"deuteration": 75.0,
"molecule_source": "biological",
"molecule_description": null
},
{
"long_name": "1-palmitoyl-2-palmitoleoyl-sn-glycero-3-phosphocholine (deuteration: 78% head, 92% acyl)",
"short_name": "d(78,92)-POPC",
"sequence": "C42H82NO8P",
"organism": "Escherichia coli",
"uniprot_code": null,
"uniprot_range_first": null,
"uniprot_range_last": null,
"oligomerization": "unknown",
"molecular_type": "other",
"uniprot_sequence": null,
"mw": 0.76,
"total_mw": 0.76,
"number_molecules": 124,
"complex_state": false,
"deuteration": null,
"molecule_source": "biological",
"molecule_description": null
},
{
"long_name": "Calcium-transporting ATPase 8, plasma membrane-type",
"short_name": "ACA8",
"sequence": "HHHHHHHHENLYFQGS\r\nMTSLLKSSPGRRRGGDVESGKSEHADSDSDTFYIPSKNASIERLQQWRKAALVLNASRRF\r\nRYTLDLKKEQETREMRQKIRSHAHALLAANRFMDMGRESGVEKTTGPATPAGDFGITPEQ\r\nLVIMSKDHNSGALEQYGGTQGLANLLKTNPEKGISGDDDDLLKRKTIYGSNTYPRKKGKG\r\nFLRFLWDACHDLTLIILMVAAVASLALGIKTEGIKEGWYDGGSIAFAVILVIVVTAVSDY\r\nKQSLQFQNLNDEKRNIHLEVLRGGRRVEISIYDIVVGDVIPLNIGNQVPADGVLISGHSL\r\nALDESSMTGESKIVNKDANKDPFLMSGCKVADGNGSMLVTGVGVNTEWGLLMASISEDNG\r\nEETPLQVRLNGVATFIGSIGLAVAAAVLVILLTRYFTGHTKDNNGGPQFVKGKTKVGHVI\r\nDDVVKVLTVAVTIVVVAVPEGLPLAVTLTLAYSMRKMMADKALVRRLSACETMGSATTIC\r\nSDKTGTLTLNQMTVVESYAGGKKTDTEQLPATITSLVVEGISQNTTGSIFVPEGGGDLEY\r\nSGSPTEKAILGWGVKLGMNFETARSQSSILHAFPFNSEKKRGGVAVKTADGEVHVHWKGA\r\nSEIVLASCRSYIDEDGNVAPMTDDKASFFKNGINDMAGRTLRCVALAFRTYEAEKVPTGE\r\nELSKWVLPEDDLILLAIVGIKDPCRPGVKDSVVLCQNAGVKVRMVTGDNVQTARAIALEC\r\nGILSSDADLSEPTLIEGKSFREMTDAERDKISDKISVMGRSSPNDKLLLVQSLRRQGHVV\r\nAVTGDGTNDAPALHEADIGLAMGIAGTEVAKESSDIIILDDNFASVVKVVRWGRSVYANI\r\nQKFIQFQLTVNVAALVINVVAAISSGDVPLTAVQLLWVNLIMDTLGALALATEPPTDHLM\r\nGRPPVGRKEPLITNIMWRNLLIQAIYQVSVLLTLNFRGISILGLEHEVHEHATRVKNTII\r\nFNAFVLCQAFNEFNARKPDEKNIFKGVIKNRLFMGIIVITLVLQVIIVEFLGKFASTTKL\r\nNWKQWLICVGIGVISWPLALVGKFIPVPAAPISNKLKVLKFWGKKKNSSGEGSL",
"organism": "Arabidopsis thaliana",
"uniprot_code": "Q9LF79",
"uniprot_range_first": null,
"uniprot_range_last": null,
"oligomerization": "monomer",
"molecular_type": "protein",
"uniprot_sequence": "MTSLLKSSPGRRRGGDVESGKSEHADSDSDTFYIPSKNASIERLQQWRKAALVLNASRRF\nRYTLDLKKEQETREMRQKIRSHAHALLAANRFMDMGRESGVEKTTGPATPAGDFGITPEQ\nLVIMSKDHNSGALEQYGGTQGLANLLKTNPEKGISGDDDDLLKRKTIYGSNTYPRKKGKG\nFLRFLWDACHDLTLIILMVAAVASLALGIKTEGIKEGWYDGGSIAFAVILVIVVTAVSDY\nKQSLQFQNLNDEKRNIHLEVLRGGRRVEISIYDIVVGDVIPLNIGNQVPADGVLISGHSL\nALDESSMTGESKIVNKDANKDPFLMSGCKVADGNGSMLVTGVGVNTEWGLLMASISEDNG\nEETPLQVRLNGVATFIGSIGLAVAAAVLVILLTRYFTGHTKDNNGGPQFVKGKTKVGHVI\nDDVVKVLTVAVTIVVVAVPEGLPLAVTLTLAYSMRKMMADKALVRRLSACETMGSATTIC\nSDKTGTLTLNQMTVVESYAGGKKTDTEQLPATITSLVVEGISQNTTGSIFVPEGGGDLEY\nSGSPTEKAILGWGVKLGMNFETARSQSSILHAFPFNSEKKRGGVAVKTADGEVHVHWKGA\nSEIVLASCRSYIDEDGNVAPMTDDKASFFKNGINDMAGRTLRCVALAFRTYEAEKVPTGE\nELSKWVLPEDDLILLAIVGIKDPCRPGVKDSVVLCQNAGVKVRMVTGDNVQTARAIALEC\nGILSSDADLSEPTLIEGKSFREMTDAERDKISDKISVMGRSSPNDKLLLVQSLRRQGHVV\nAVTGDGTNDAPALHEADIGLAMGIAGTEVAKESSDIIILDDNFASVVKVVRWGRSVYANI\nQKFIQFQLTVNVAALVINVVAAISSGDVPLTAVQLLWVNLIMDTLGALALATEPPTDHLM\nGRPPVGRKEPLITNIMWRNLLIQAIYQVSVLLTLNFRGISILGLEHEVHEHATRVKNTII\nFNAFVLCQAFNEFNARKPDEKNIFKGVIKNRLFMGIIVITLVLQVIIVEFLGKFASTTKL\nNWKQWLICVGIGVISWPLALVGKFIPVPAAPISNKLKVLKFWGKKKNSSGEGSL",
"mw": 118.209,
"total_mw": 118.209,
"number_molecules": 1,
"complex_state": false,
"deuteration": null,
"molecule_source": "biological",
"molecule_description": null
},
{
"long_name": "Calmodulin-7 (deuterated 75%)",
"short_name": "d75-Cam7",
"sequence": null,
"organism": "Arabidopsis thaliana",
"uniprot_code": "P59220",
"uniprot_range_first": null,
"uniprot_range_last": null,
"oligomerization": "monomer",
"molecular_type": "protein",
"uniprot_sequence": "MADQLTDDQISEFKEAFSLFDKDGDGCITTKELGTVMRSLGQNPTEAELQDMINEVDADG\nNGTIDFPEFLNLMARKMKDTDSEEELKEAFRVFDKDQNGFISAAELRHVMTNLGEKLTDE\nEVDEMIREADVDGDGQINYEEFVKVMMAK",
"mw": null,
"total_mw": null,
"number_molecules": 1,
"complex_state": true,
"deuteration": 75.0,
"molecule_source": "biological",
"molecule_description": null
}
],
"buffer": {
"name": "30 mM Tris, 150 mM NaCl, 1mM MgCl2, 1 mM CaCl2",
"concentration_unit": null,
"comment": null,
"additive": null,
"concentration": null,
"pka": null,
"ph": 7.5,
"deuteration": null
},
"purity_method": null,
"name": "ACA8 complex with Calmodulin (75% deuterated) in stealth nanodisc (SANS, 100% D2O)",
"ext_coefficient": null,
"contrast": -3.32,
"specific_vol": 0.744,
"dry_vol": null,
"absorbption": null,
"deuteration": null,
"mixture": null
},
"contributor": [
{
"affiliation": [
{
"short_name": "EMBL-Hamburg",
"address": "Notkestraße 85, Geb. 25A, 22607 Hamburg, Deutschland, Germany",
"full_name": "European Molecular Biology Laboratory (EMBL) - Hamburg outstation",
"webpage": "http://www.embl-hamburg.de/index.php"
}
],
"contributor_name": "Haydyn",
"contributor_surname": "Mertens",
"orcid": null
}
],
"concentration_method": "A280",
"concentration_unit": null,
"date": "2017-08-28",
"storage_temperature": 10.0,
"cell_temperature": 10.0,
"exposure_time": 7200.0,
"number_of_frames": 1,
"wavelength": 5.0,
"sample_detector_distance": 5.5,
"concentration_min": 3.2,
"concentration_max": 3.2,
"sample_volume": null,
"flow_rate": null,
"s_min": 0.119,
"s_max": 2.336,
"total_exposure_time": 7200.0,
"seccolumn": null
},
"fits": [
{
"models": [
{
"model_plot": "https://www.sasbdb.org/media/pdb_file/images/SASDET4_fit1_model1_img.png",
"software": "EOM/GAJOE",
"pdb_link": [],
"model_title": null,
"type_of_model": "mix",
"software_version": "2.1",
"model_data": "https://www.sasbdb.org/media/pdb_file/SASDET4_fit1_model1.pdb",
"model_mw": 116.6,
"bead_radius": 1.9,
"log": null,
"symmetry": null,
"comment": "selected ensemble member",
"user": 12
}
],
"fit_unit": "1/A",
"fit_plot": "https://www.sasbdb.org/media/fitting_files/scattering_plots/SASDET4_fit1_fixed_fit_img.png",
"software": "EOM/GAJOE",
"chi_square_value": 1.677,
"p_value": 0.9879,
"fit_residual_plot": "SASDET4_fit1_fitresiduals_img.png",
"fit_data": "https://www.sasbdb.org/media/fitting_files/SASDET4_fit1.fit",
"fit_log": "https://www.sasbdb.org/media/fitting_files/log_files/logFile_001_1_DadJu4H.log",
"software_version": "2.1",
"description": ""
}
],
"estimated_volume_method": null,
"pddf_software": "ATSAS GNOM",
"pddf_software_version": "5.0",
"i0_calibration_standard": null,
"description": "ACA8 protein complex with Calmodulin (75% deuterated) encapsulated in a partially deuterated \"stealth-nanodisc\": (sND). The Calmodulin and disc components (MSP1D1 scaffold protein - 75% deuterated, and POPC lipid - heads/tails 78% and 92% deuterated) are effectively matched out at 100% D2O. Thus the expected molecular weight should correspond to that of the ACA8 protein alone (~118 kDa). Data measured using a single instrument configuration: 5.5 m (sample-detector distances) with a fixed neutron wavelength (λ) of 5 Å.",
"experiment_description": null,
"tags": [],
"intensity_unit": "arbitrary",
"experimental_mw": 136.0,
"experimental_mw_error": 10.0,
"guinier_i0_mw": null,
"guinier_i0_mw_error": null,
"porod_mw": 136.0,
"porod_mw_error": 10.0,
"pddf_i0": 0.1,
"pddf_i0_error": 0.01,
"guinier_i0": 0.092,
"guinier_i0_error": 0.001,
"pddf_rg": 4.58,
"pddf_rg_error": 0.01,
"guinier_rg": 4.28,
"guinier_rg_error": 0.01,
"pddf_dmax": 15.0,
"pddf_dmax_error": 0.5,
"porod_volume": 217.0,
"porod_volume_error": 20.0,
"estimated_volume": null,
"estimated_volume_error": null,
"guinier_point_first": 2,
"guinier_point_last": 11,
"pddf_point_first": 3,
"pddf_point_last": 97,
"i0_calibration_standard_data": null,
"intensities_log_log_plot": "SASDET4_datloglog_img.png",
"symmetry": null,
"last_modified": "2020-08-28T15:27:58.991882+02:00",
"bragg_peak": []
}
