{ "code": "SASDDD5", "status": "Published", "type_of_curve": "Single concentration", "angular_unit": "1/nm", "project": { "title": "Conformational States of ABC Transporter MsbA in a Lipid Environment Investigated by Small-Angle Scattering Using Stealth Carrier Nanodiscs.", "publication": { "title": "Conformational States of ABC Transporter MsbA in a Lipid Environment Investigated by Small-Angle Scattering Using Stealth Carrier Nanodiscs.", "author_list": "Josts I, Nitsche J, Maric S, Mertens HD, Moulin M, Haertlein M, Prevost S, Svergun DI, Busch S, Forsyth VT, Tidow H", "journal": "Structure", "doi": "10.1016/j.str.2018.05.007", "pmid": "29937358", "published_date": "2018 Aug 7" }, "status": "released", "submitted_date": null, "released_date": "2018-06-27" }, "pddf_data": "https://www.sasbdb.org/media/p_of_R_files/SASDDD5.out", "intensities_data": "https://www.sasbdb.org/media/intensities_files/SASDDD5.dat", "intensities_log_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDDD5_dat_img.png", "intensities_kratky_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDDD5_kratky_img.png", "pddf_plot": "https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDDD5_pofr_img.png", "intensities_guinier_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDDD5_guinier_img.png", "sascif_data": "https://www.sasbdb.org/media/sascif/sascif_files/SASDDD5.sascif", "experiment": { "instrument": { "detector": { "type": null, "name": "Pilatus 2M", "resolution": null }, "name": "PETRA III", "city": "DESY; Hamburg", "country": "Germany", "beamline_name": "EMBL P12", "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": "Lipid A export ATP-binding/permease protein MsbA", "short_name": "MsbA", "sequence": "MHHHHHHGENLYFQGSHNDKDLSTWQTFRRLWPTIAPFKAGLIVAGVALILNAASDTFMLSLLKPLLDDGFGKTD\r\nRSVLVWMPLVVIGLMILRGITSYVSSYCISWVSGKVVMTMRRRLFGHMMGMPVSFFDKQS\r\nTGTLLSRITYDSEQVASSSSGALITVVREGASIIGLFIMMFYYSWQLSIILIVLAPIVSI\r\nAIRVVSKRFRNISKNMQNTMGQVTTSAEQMLKGHKEVLIFGGQEVETKRFDKVSNRMRLQ\r\nGMKMVSASSISDPIIQLIASLALAFVLYAASFPSVMDSLTAGTITVVFSSMIALMRPLKS\r\nLTNVNAQFQRGMAACQTLFTILDSEQEKDEGKRVIERATGDVEFRNVTFTYPGRDVPALR\r\nNINLKIPAGKTVALVGRSGSGKSTIASLITRFYDIDEGEILMDGHDLREYTLASLRNQVA\r\nLVSQNVHLFNDTVANNIAYARTEQYSREQIEEAARMAYAMDFINKMDNGLDTVIGENGVL\r\nLSGGQRQRIAIARALLRDSPILILDEATSALDTESERAIQAALDELQKNRTSLVIAHRLS\r\nTIEKADEIVVVEDGVIVERGTHNDLLEHRGVYAQLHKMQFGQ", "organism": "Escherichia coli", "uniprot_code": "P60752", "uniprot_range_first": null, "uniprot_range_last": null, "oligomerization": "dimer", "molecular_type": "protein", "uniprot_sequence": "MHNDKDLSTWQTFRRLWPTIAPFKAGLIVAGVALILNAASDTFMLSLLKPLLDDGFGKTD\nRSVLVWMPLVVIGLMILRGITSYVSSYCISWVSGKVVMTMRRRLFGHMMGMPVSFFDKQS\nTGTLLSRITYDSEQVASSSSGALITVVREGASIIGLFIMMFYYSWQLSIILIVLAPIVSI\nAIRVVSKRFRNISKNMQNTMGQVTTSAEQMLKGHKEVLIFGGQEVETKRFDKVSNRMRLQ\nGMKMVSASSISDPIIQLIASLALAFVLYAASFPSVMDSLTAGTITVVFSSMIALMRPLKS\nLTNVNAQFQRGMAACQTLFTILDSEQEKDEGKRVIERATGDVEFRNVTFTYPGRDVPALR\nNINLKIPAGKTVALVGRSGSGKSTIASLITRFYDIDEGEILMDGHDLREYTLASLRNQVA\nLVSQNVHLFNDTVANNIAYARTEQYSREQIEEAARMAYAMDFINKMDNGLDTVIGENGVL\nLSGGQRQRIAIARALLRDSPILILDEATSALDTESERAIQAALDELQKNRTSLVIAHRLS\nTIEKADEIVVVEDGVIVERGTHNDLLEHRGVYAQLHKMQFGQ", "mw": 66.279, "total_mw": 132.558, "number_molecules": 2, "complex_state": false, "deuteration": 0.0, "molecule_source": "biological", "molecule_description": null }, { "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 } ], "buffer": { "name": "30 mM Tris, 150 mM NaCl", "concentration_unit": null, "comment": "nanodisc buffer", "additive": null, "concentration": null, "pka": null, "ph": 7.5, "deuteration": null }, "purity_method": null, "name": "MsbA in stealth nanodisc (SAXS)", "ext_coefficient": null, "contrast": 2.644, "specific_vol": 0.745, "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": "2017-09-08", "storage_temperature": 10.0, "cell_temperature": 10.0, "exposure_time": 0.05, "number_of_frames": 20, "wavelength": 0.124, "sample_detector_distance": 3.3, "concentration_min": 1.0, "concentration_max": 2.7, "sample_volume": null, "flow_rate": null, "s_min": 0.025, "s_max": 5.064, "total_exposure_time": 1.0, "seccolumn": null }, "fits": [], "estimated_volume_method": null, "pddf_software": "ATSAS GNOM", "pddf_software_version": "2.8.3", "i0_calibration_standard": "water", "description": "MsbA ABC transporter protein encapsulated in a partially deuterated \"stealth-nanodisc\": (sND). Disc components (MSP1D1 scaffold protein - 75% deuterated, and POPC lipid - heads/tails 78% and 92% deuterated). The expected molecular weight for this protein-lipid complex should correspond to that of the MsbA protein (~132 kDa) + 2 x MSP1D1 (2 x 24.7 kDa) + the contribution of the POPC lipids (760 Da per monomer).", "experiment_description": null, "tags": [], "intensity_unit": "1/cm", "experimental_mw": 206.6, "experimental_mw_error": 20.0, "guinier_i0_mw": null, "guinier_i0_mw_error": null, "porod_mw": 379.0, "porod_mw_error": 40.0, "pddf_i0": 0.13, "pddf_i0_error": 0.003, "guinier_i0": 0.125, "guinier_i0_error": 0.003, "pddf_rg": 4.75, "pddf_rg_error": 0.1, "guinier_rg": 4.78, "guinier_rg_error": 0.2, "pddf_dmax": 16.0, "pddf_dmax_error": 0.5, "porod_volume": 607.0, "porod_volume_error": 60.0, "estimated_volume": null, "estimated_volume_error": null, "guinier_point_first": 10, "guinier_point_last": 80, "pddf_point_first": 4, "pddf_point_last": 784, "i0_calibration_standard_data": null, "intensities_log_log_plot": "SASDDD5_datloglog_img.png", "symmetry": null, "last_modified": "2023-06-21T07:56:39.492710+02:00", "bragg_peak": [] }