{ "code": "SASDB74", "status": "Published", "type_of_curve": "Extrapolated to infinite dilution", "angular_unit": "1/nm", "project": { "title": "Calcium-Driven Folding of RTX Domain β-Rolls Ratchets Translocation of RTX Proteins through Type I Secretion Ducts.", "publication": { "title": "Calcium-Driven Folding of RTX Domain β-Rolls Ratchets Translocation of RTX Proteins through Type I Secretion Ducts.", "author_list": "Bumba L, Masin J, Macek P, Wald T, Motlova L, Bibova I, Klimova N, Bednarova L, Veverka V, Kachala M, Svergun DI, Barinka C, Sebo P", "journal": "Mol Cell", "doi": "10.1016/j.molcel.2016.03.018", "pmid": "27058787", "published_date": "2016 Apr 7" }, "status": "released", "submitted_date": "2016-02-21", "released_date": "2016-07-07" }, "pddf_data": "https://www.sasbdb.org/media/p_of_R_files/SASDB74.out", "intensities_data": "https://www.sasbdb.org/media/intensities_files/SASDB74.dat", "intensities_log_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDB74_dat_img.png", "intensities_kratky_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDB74_kratky_img.png", "pddf_plot": "https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDB74_pofr_img.png", "intensities_guinier_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDB74_guinier_img.png", "sascif_data": "https://www.sasbdb.org/media/sascif/sascif_files/SASDB74.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": "Adenylate cyclase toxin Block I-V", "short_name": "CyaA Block I-V", "sequence": "EGDIHMSPILGYWKIKGLVQPTRLLLEYLEEKYEEHLYERDEGDKWRNKKFELGLEFPNL\r\nPYYIDGDVKLTQSMAIIRYIADKHNMLGGCPKERAEISMLEGAVLDIRYGVSRIAYSKDF\r\nETLKVDFLSKLPEMLKMFEDRLCHKTYLNGDHVTHPDFMLYDALDVVLYMDPMCLDAFPK\r\nLVCFKKRIEAIPQIDKYLKSSKYIAWPLQGWQATFGGGDHPPKSDGSTSGSGHHHHHHSA\r\nGLVPRGSTAIGMKETAAAKFERQHMDSPDLGTGGGSGIEGRenlyfqglehvqhiiggagnd\r\nsitgnahdnflaggsgddrldggagndtlvggegqntviggagddvflqdlgvwsnqldg\r\ngagvdtvkynvhqpseerlermgdtgihadlqkgtvekwpalnlfsvdhvknienlhgsr\r\nlndriagddqdnelwghdgndtirgrggddilrgglgldtlygedgndiflqddetvsdd\r\nidggagldtvdysamihpgrivapheygfgieadlsrewvrkasalgvdyydnvrnvenv\r\nigtsmkdvligdaqantlmgqggddtvrggdgddllfggdgndmlygdagndtlygglgd\r\ndtleggagndwfgqtqarehdvlrggdgvdtvdysqtgahagiaagriglgiladlgagr\r\nvdklgeagssaydtvsgienvvgteladritgdaqanvlrgaggadvlaggegddvllgg\r\ndgddqlsgdagrdrlygeagddwffqdaanagnlldggdgrdtvdfsgpgrgldagakgv\r\nflslgkgfaslmdepetsnvlrnienavgsarddvligdaganvlnglagndvlsggagd\r\ndvllgdegsdllsgdagnddlfggqgddtylfgvgyghdtiyesggghdtirinagadql\r\nwfarqgndleirilgtddaltvhdwyrdadhrveiihaanqavdqagieklveamaqypd\r\np", "organism": "Bordetella pertussis", "uniprot_code": "P0DKX7", "uniprot_range_first": null, "uniprot_range_last": null, "oligomerization": "monomer", "molecular_type": "protein", "uniprot_sequence": "MQQSHQAGYANAADRESGIPAAVLDGIKAVAKEKNATLMFRLVNPHSTSLIAEGVATKGL\nGVHAKSSDWGLQAGYIPVNPNLSKLFGRAPEVIARADNDVNSSLAHGHTAVDLTLSKERL\nDYLRQAGLVTGMADGVVASNHAGYEQFEFRVKETSDGRYAVQYRRKGGDDFEAVKVIGNA\nAGIPLTADIDMFAIMPHLSNFRDSARSSVTSGDSVTDYLARTRRAASEATGGLDRERIDL\nLWKIARAGARSAVGTEARRQFRYDGDMNIGVITDFELEVRNALNRRAHAVGAQDVVQHGT\nEQNNPFPEADEKIFVVSATGESQMLTRGQLKEYIGQQRGEGYVFYENRAYGVAGKSLFDD\nGLGAAPGVPSGRSKFSPDVLETVPASPGLRRPSLGAVERQDSGYDSLDGVGSRSFSLGEV\nSDMAAVEAAELEMTRQVLHAGARQDDAEPGVSGASAHWGQRALQGAQAVAAAQRLVHAIA\nLMTQFGRAGSTNTPQEAASLSAAVFGLGEASSAVAETVSGFFRGSSRWAGGFGVAGGAMA\nLGGGIAAAVGAGMSLTDDAPAGQKAAAGAEIALQLTGGTVELASSIALALAAARGVTSGL\nQVAGASAGAAAGALAAALSPMEIYGLVQQSHYADQLDKLAQESSAYGYEGDALLAQLYRD\nKTAAEGAVAGVSAVLSTVGAAVSIAAAASVVGAPVAVVTSLLTGALNGILRGVQQPIIEK\nLANDYARKIDELGGPQAYFEKNLQARHEQLANSDGLRKMLADLQAGWNASSVIGVQTTEI\nSKSALELAAITGNADNLKSVDVFVDRFVQGERVAGQPVVLDVAAGGIDIASRKGERPALT\nFITPLAAPGEEQRRRTKTGKSEFTTFVEIVGKQDRWRIRDGAADTTIDLAKVVSQLVDAN\nGVLKHSIKLDVIGGDGDDVVLANASRIHYDGGAGTNTVSYAALGRQDSITVSADGERFNV\nRKQLNNANVYREGVATQTTAYGKRTENVQYRHVELARVGQLVEVDTLEHVQHIIGGAGND\nSITGNAHDNFLAGGSGDDRLDGGAGNDTLVGGEGQNTVIGGAGDDVFLQDLGVWSNQLDG\nGAGVDTVKYNVHQPSEERLERMGDTGIHADLQKGTVEKWPALNLFSVDHVKNIENLHGSR\nLNDRIAGDDQDNELWGHDGNDTIRGRGGDDILRGGLGLDTLYGEDGNDIFLQDDETVSDD\nIDGGAGLDTVDYSAMIHPGRIVAPHEYGFGIEADLSREWVRKASALGVDYYDNVRNVENV\nIGTSMKDVLIGDAQANTLMGQGGDDTVRGGDGDDLLFGGDGNDMLYGDAGNDTLYGGLGD\nDTLEGGAGNDWFGQTQAREHDVLRGGDGVDTVDYSQTGAHAGIAAGRIGLGILADLGAGR\nVDKLGEAGSSAYDTVSGIENVVGTELADRITGDAQANVLRGAGGADVLAGGEGDDVLLGG\nDGDDQLSGDAGRDRLYGEAGDDWFFQDAANAGNLLDGGDGRDTVDFSGPGRGLDAGAKGV\nFLSLGKGFASLMDEPETSNVLRNIENAVGSARDDVLIGDAGANVLNGLAGNDVLSGGAGD\nDVLLGDEGSDLLSGDAGNDDLFGGQGDDTYLFGVGYGHDTIYESGGGHDTIRINAGADQL\nWFARQGNDLEIRILGTDDALTVHDWYRDADHRVEIIHAANQAVDQAGIEKLVEAMAQYPD\nPGAAAAAPPAARVPDTLMQSLAVNWR", "mw": 70.0, "total_mw": 70.0, "number_molecules": 1, "complex_state": false, "deuteration": null, "molecule_source": "biological", "molecule_description": null } ], "buffer": { "name": "10 mM Tris HCl 150 mM NaCl 10 mM CaCl2", "concentration_unit": "mM", "comment": null, "additive": "150 mM NaCl, 10 mM CaCl2", "concentration": 10.0, "pka": null, "ph": 8.0, "deuteration": null }, "purity_method": null, "name": "CyaA Block I-V", "ext_coefficient": null, "contrast": null, "specific_vol": null, "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": "Michael", "contributor_surname": "Kachala", "orcid": null } ], "concentration_method": null, "concentration_unit": "mg/ml", "date": "2013-10-31", "storage_temperature": 10.0, "cell_temperature": 10.0, "exposure_time": 0.05, "number_of_frames": 20, "wavelength": 0.12, "sample_detector_distance": 3.1, "concentration_min": 1.1, "concentration_max": 4.4, "sample_volume": null, "flow_rate": null, "s_min": 0.029, "s_max": 4.488, "total_exposure_time": 1.0, "seccolumn": null }, "fits": [ { "models": [ { "model_plot": "https://www.sasbdb.org/media/pdb_file/images/SASDB74_fit1_model1_img.png", "software": "DAMMIF", "pdb_link": [], "model_title": null, "type_of_model": "dummy", "software_version": "", "model_data": "https://www.sasbdb.org/media/pdb_file/SASDB74_fit1_model1.pdb", "model_mw": 123.756, "bead_radius": 4.75, "log": null, "symmetry": "", "comment": "", "user": 3 } ], "fit_unit": "1/A", "fit_plot": "https://www.sasbdb.org/media/fitting_files/scattering_plots/SASDB74_fit1_fit_img.png", "software": null, "chi_square_value": 0.84, "p_value": 0.386088, "fit_residual_plot": "SASDB74_fit1_fitresiduals_img.png", "fit_data": "https://www.sasbdb.org/media/fitting_files/SASDB74_fit1.fir", "fit_log": null, "software_version": null, "description": null } ], "estimated_volume_method": null, "pddf_software": "ATSAS GNOM", "pddf_software_version": "GNOM 4.6", "i0_calibration_standard": "BSA", "description": null, "experiment_description": null, "tags": [], "intensity_unit": null, "experimental_mw": 91.0, "experimental_mw_error": null, "guinier_i0_mw": 91.0, "guinier_i0_mw_error": null, "porod_mw": 162.0, "porod_mw_error": null, "pddf_i0": 17070.0, "pddf_i0_error": null, "guinier_i0": 17551.0, "guinier_i0_error": null, "pddf_rg": 5.49, "pddf_rg_error": null, "guinier_rg": 5.55, "guinier_rg_error": null, "pddf_dmax": 17.15, "pddf_dmax_error": null, "porod_volume": 275.0, "porod_volume_error": null, "estimated_volume": null, "estimated_volume_error": null, "guinier_point_first": null, "guinier_point_last": null, "pddf_point_first": null, "pddf_point_last": null, "i0_calibration_standard_data": null, "intensities_log_log_plot": "SASDB74_datloglog_img.png", "symmetry": null, "last_modified": "2023-06-21T07:56:39.492710+02:00", "bragg_peak": [] }