The InvC-ATP synthase, surface presentation of antigens and oxygen-regulated invasion protein (ISO) complex

{
  "code": "SASDEJ7",
  "status": "Published",
  "type_of_curve": "SEC-SAS",
  "angular_unit": "1/nm",
  "project": {
    "title": "Molecular Organization of Soluble Type III Secretion System Sorting Platform Complexes.",
    "publication": {
      "title": "Molecular Organization of Soluble Type III Secretion System Sorting Platform Complexes.",
      "author_list": "Bernal I, Börnicke J, Heidemann J, Svergun D, Horstmann JA, Erhardt M, Tuukkanen A, Uetrecht C, Kolbe M",
      "journal": "J Mol Biol",
      "doi": "10.1016/j.jmb.2019.07.004",
      "pmid": "31288030",
      "published_date": "2019 Sep 6"
    },
    "status": "released",
    "submitted_date": "2018-11-02",
    "released_date": "2019-09-13"
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  "experiment": {
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      "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,
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      "beam_profile_al": null
    },
    "sample": {
      "molecule": [
        {
          "long_name": "Surface presentation of antigens protein SpaO SpaO(SPOA2)",
          "short_name": "SpaOc",
          "sequence": "METLDIQHIEEENNTTET AETLPGLNQLPVKLEFVLYRKNVTLAELEA \r\nMGQQQLLSLPTNAELNVEIMANGVLLGNGELVQMNDTLGVEIHEWLSESGNGESAWSHPQFEK",
          "organism": "Salmonella enterica subsp. enterica serovar Typhimurium",
          "uniprot_code": "P40699",
          "uniprot_range_first": 203,
          "uniprot_range_last": 303,
          "oligomerization": "dimer",
          "molecular_type": "protein",
          "uniprot_sequence": "MSLRVRQIDRREWLLAQTATECQRHGREATLEYPTRQGMWVRLSDAEKRWSAWIKPGDWL\nEHVSPALAGAAVSAGAEHLVVPWLAATERPFELPVPHLSCRRLCVENPVPGSALPEGKLL\nHIMSDRGGLWFEHLPELPAVGGGRPKMLRWPLRFVIGSSDTQRSLLGRIGIGDVLLIRTS\nRAEVYCYAKKLGHFNRVEGGIIVETLDIQHIEEENNTTETAETLPGLNQLPVKLEFVLYR\nKNVTLAELEAMGQQQLLSLPTNAELNVEIMANGVLLGNGELVQMNDTLGVEIHEWLSESG\nNGE",
          "mw": 12.374,
          "total_mw": 24.748,
          "number_molecules": 2,
          "complex_state": false,
          "deuteration": null,
          "molecule_source": "biological",
          "molecule_description": null
        },
        {
          "long_name": "Surface presentation of antigens protein SpaO(SPOA1,2)",
          "short_name": "SpaO",
          "sequence": "MSLRVRQIDRREWLLAQTATECQRHGREATLEYPTRQGMWVRLSDAEKRW \r\nSAWIKPGDWLEHVSPALAGAAVSAGAEHLVVPWLAATERPFELPVPHLSC \r\nRRLCVENPVPGSALPEGKLLHIMSDRGGLWFEHLPELPAVGGGRPKMLRW \r\nPLRFVIGSSDTQRSLLGRIGIGDVLLIRTSRAEVYCYAKKLGHFNRVEGG \r\nIIVETLDIQHIEEENNTTETAETLPGLNQLPVKLEFVLYRKNVTLAELEA \r\nMGQQQLLSLPTNAELNVEIMANGVLLGNGELVQMNDTLGVEIHEWLSESG \r\nNGE",
          "organism": "Salmonella enterica subsp. enterica serovar Typhimurium",
          "uniprot_code": "P40699",
          "uniprot_range_first": 1,
          "uniprot_range_last": 303,
          "oligomerization": "monomer",
          "molecular_type": "protein",
          "uniprot_sequence": "MSLRVRQIDRREWLLAQTATECQRHGREATLEYPTRQGMWVRLSDAEKRWSAWIKPGDWL\nEHVSPALAGAAVSAGAEHLVVPWLAATERPFELPVPHLSCRRLCVENPVPGSALPEGKLL\nHIMSDRGGLWFEHLPELPAVGGGRPKMLRWPLRFVIGSSDTQRSLLGRIGIGDVLLIRTS\nRAEVYCYAKKLGHFNRVEGGIIVETLDIQHIEEENNTTETAETLPGLNQLPVKLEFVLYR\nKNVTLAELEAMGQQQLLSLPTNAELNVEIMANGVLLGNGELVQMNDTLGVEIHEWLSESG\nNGE",
          "mw": 33.793,
          "total_mw": 33.793,
          "number_molecules": 1,
          "complex_state": false,
          "deuteration": null,
          "molecule_source": "biological",
          "molecule_description": null
        },
        {
          "long_name": "Oxygen-regulated invasion protein OrgB",
          "short_name": "OrgB",
          "sequence": "MLKNIPIPSPLSPVEGILIKRKTLERYFSIERLEQQAHQRAKRILREAEEEAKTLRMYAY\r\nQEGYEQGMIDALQQVAAYLTDNQTMAWKWMEKIQIYARELFSAAVDHPETLLTVLDEWLR\r\nDFDKPEGQLFLTLPVNAKKDHQKLMVLLMENWPGTFNLKYHQEQRFIMSCGDQIAEFSPE\r\nQFVETAVGVIKHHLDELPQDCRTISDNAINALIDEWKTKTQAEVIR",
          "organism": "Salmonella enterica subsp. enterica serovar Typhimurium",
          "uniprot_code": "P0CL45",
          "uniprot_range_first": 1,
          "uniprot_range_last": 226,
          "oligomerization": "dimer",
          "molecular_type": "protein",
          "uniprot_sequence": "MLKNIPIPSPLSPVEGILIKRKTLERYFSIERLEQQAHQRAKRILREAEEEAKTLRMYAY\nQEGYEQGMIDALQQVAAYLTDNQTMAWKWMEKIQIYARELFSAAVDHPETLLTVLDEWLR\nDFDKPEGQLFLTLPVNAKKDHQKLMVLLMENWPGTFNLKYHQEQRFIMSCGDQIAEFSPE\nQFVETAVGVIKHHLDELPQDCRTISDNAINALIDEWKTKTQAEVIR",
          "mw": 26.46,
          "total_mw": 52.924,
          "number_molecules": 2,
          "complex_state": false,
          "deuteration": null,
          "molecule_source": "biological",
          "molecule_description": null
        },
        {
          "long_name": "ATP synthase  InvC",
          "short_name": "InvC",
          "sequence": "MKTPRLLQYLAYPQKITGPIIEAELRDVAIGELCEIRRGWHQKQVVARAQVVGLQRERTV\r\nLSLIGNAQGLSRDVVLYPTGRALSAWVGYSVLGAVLDPTGKIVERFTPEVAPISEERVID\r\nVAPPSYASRVGVREPLITGVRAIDGLLTCGVGQRMGIFASAGCGKTMLMHMLIEQTEADV\r\nFVIGLIGERGREVTEFVDMLRASHKKEKCVLVFATSDFPSVDRCNAAQLATTVAEYFRDQ\r\nGKRVVLFIDSMTRYARALRDVALASGERPARRGYPASVFDNLPRLLERPGATSEGSITAF\r\nYTVLLESEEEADPMADEIRSILDGHLYLSRKLAGQGHYPAIDVLKSVSRVFGQVTTPTHA\r\nEQASAVRKLMTRLEELQLFIDLGEYRPGENIDNDRAMQMRDSLKAWLCQPVAQYSSFDDT\r\nLSGMNAFADQN",
          "organism": "Salmonella enterica subsp. enterica serovar Typhimurium",
          "uniprot_code": "E8XL22",
          "uniprot_range_first": 1,
          "uniprot_range_last": 431,
          "oligomerization": "monomer",
          "molecular_type": "protein",
          "uniprot_sequence": "MKTPRLLQYLAYPQKITGPIIEAELRDVAIGELCEIRRGWHQKQVVARAQVVGLQRERTV\nLSLIGNAQGLSRDVVLYPTGRALSAWVGYSVLGAVLDPTGKIVERFTPEVAPISEERVID\nVAPPSYASRVGVREPLITGVRAIDGLLTCGVGQRMGIFASAGCGKTMLMHMLIEQTEADV\nFVIGLIGERGREVTEFVDMLRASHKKEKCVLVFATSDFPSVDRCNAAQLATTVAEYFRDQ\nGKRVVLFIDSMTRYARALRDVALASGERPARRGYPASVFDNLPRLLERPGATSEGSITAF\nYTVLLESEEEADPMADEIRSILDGHLYLSRKLAGQGHYPAIDVLKSVSRVFGQVTTPTHA\nEQASAVRKLMTRLEELQLFIDLGEYRPGENIDNDRAMQMRDSLKAWLCQPVAQYSSFDDT\nLSGMNAFADQN",
          "mw": 47.61,
          "total_mw": 47.61,
          "number_molecules": 1,
          "complex_state": false,
          "deuteration": null,
          "molecule_source": "biological",
          "molecule_description": null
        }
      ],
      "buffer": {
        "name": "10 mM Tris-HCl, 50 mM NaCl",
        "concentration_unit": null,
        "comment": null,
        "additive": null,
        "concentration": null,
        "pka": null,
        "ph": 8.0,
        "deuteration": null
      },
      "purity_method": null,
      "name": "The InvC-ATP synthase, surface presentation of antigens and oxygen-regulated invasion protein (ISO) complex",
      "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": "Anne",
        "contributor_surname": "Tuukkanen",
        "orcid": null
      }
    ],
    "concentration_method": null,
    "concentration_unit": null,
    "date": "2017-04-12",
    "storage_temperature": 20.0,
    "cell_temperature": 20.0,
    "exposure_time": 1.0,
    "number_of_frames": 3600,
    "wavelength": 0.124,
    "sample_detector_distance": 3.0,
    "concentration_min": 1.0,
    "concentration_max": null,
    "sample_volume": null,
    "flow_rate": null,
    "s_min": 0.118,
    "s_max": 2.856,
    "total_exposure_time": null,
    "seccolumn": null
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  "fits": [],
  "estimated_volume_method": null,
  "pddf_software": "ATSAS GNOM",
  "pddf_software_version": "5.0",
  "i0_calibration_standard": null,
  "description": "SEC-SAXS was performed at 20°C using the following parameters: Column type, XXXX; Flow rate: XXXX mL/min; Total acquisition time: 60 min (3600 x 1 s frames); Injection concentration: XXXX mg/mL; Injection volume: XXXX μL.",
  "experiment_description": "Synchrotron SAXS data from solutions of ISO complex in 10 mM Tris-HCl, 50 mM NaCl, pH 8.0 were collected on the EMBL P12 beam line using size exclusion chromatography SAXS (SEC-SAXS) at the PETRA III storage ring (Hamburg, Germany) using a Pilatus 2M detector at a sample-detector distance of 3 m and at a wavelength of λ = 0.124 nm (l(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). The data obtained through the sample SEC-SAXS elution peak were normalized to the intensity of the transmitted beam and radially averaged; the scattering of the solvent-blank was subtracted and the individual subtracted data sets were scaled and averaged to generate the scattering profile displayed in this entry.",
  "tags": [],
  "intensity_unit": "arbitrary",
  "experimental_mw": 185.0,
  "experimental_mw_error": null,
  "guinier_i0_mw": null,
  "guinier_i0_mw_error": null,
  "porod_mw": 188.0,
  "porod_mw_error": null,
  "pddf_i0": 4593.0,
  "pddf_i0_error": null,
  "guinier_i0": 4176.6,
  "guinier_i0_error": 77.0,
  "pddf_rg": 6.957,
  "pddf_rg_error": 0.7,
  "guinier_rg": 6.03,
  "guinier_rg_error": 0.13,
  "pddf_dmax": 22.7,
  "pddf_dmax_error": 2.3,
  "porod_volume": 301.93,
  "porod_volume_error": null,
  "estimated_volume": null,
  "estimated_volume_error": null,
  "guinier_point_first": 5,
  "guinier_point_last": 40,
  "pddf_point_first": null,
  "pddf_point_last": null,
  "i0_calibration_standard_data": null,
  "intensities_log_log_plot": "SASDEJ7_datloglog_img.png",
  "symmetry": null,
  "last_modified": "2023-06-21T07:56:39.492710+02:00",
  "bragg_peak": []
}

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