Ribonuclease E from Yersinia pestis

{
  "code": "SASDE62",
  "status": "Published",
  "type_of_curve": "Single concentration",
  "angular_unit": "1/A",
  "project": {
    "title": "A structural and biochemical comparison of Ribonuclease E homologues from pathogenic bacteria highlights species-specific properties.",
    "publication": {
      "title": "A structural and biochemical comparison of Ribonuclease E homologues from pathogenic bacteria highlights species-specific properties.",
      "author_list": "Mardle CE, Shakespeare TJ, Butt LE, Goddard LR, Gowers DM, Atkins HS, Vincent HA, Callaghan AJ",
      "journal": "Sci Rep",
      "doi": "10.1038/s41598-019-44385-y",
      "pmid": "31138855",
      "published_date": "2019 May 28"
    },
    "status": "released",
    "submitted_date": "2018-07-30",
    "released_date": "2019-05-28"
  },
  "pddf_data": "https://www.sasbdb.org/media/p_of_R_files/SASDE62.out",
  "intensities_data": "https://www.sasbdb.org/media/intensities_files/SASDE62.dat",
  "intensities_log_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDE62_dat_img.png",
  "intensities_kratky_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDE62_kratky_img.png",
  "pddf_plot": "https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDE62_pofr_img.png",
  "intensities_guinier_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDE62_guinier_img.png",
  "sascif_data": "https://www.sasbdb.org/media/sascif/sascif_files/SASDE62.sascif",
  "experiment": {
    "instrument": {
      "detector": {
        "type": null,
        "name": "Pilatus 2M",
        "resolution": null
      },
      "name": "Diamond Light Source",
      "city": "Didcot",
      "country": "UK",
      "beamline_name": "B21",
      "beam_geometry": "1 x 5 mm",
      "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": "Endoribonuclease E",
          "short_name": "RNase E",
          "sequence": "HHHHHHHHHHSGSSGHIEGRHMKRMLINATQQEELRVALVDGQRLYDLDIESPGHEQKKANIYKGKITRIEPSLEAAFVDYGAERHGFLPLKEISREYFPNNYSSHGRPNIKDVLREGQEVIVQVDKEERGNKGAALTTFISLAGSYLVLMPNNPRAGGISRRIEGDDRTELKEALSSLQLPDGMGLIVRTAGVGKSADALQWDLSFRLKHWDAIKKAAEGRPAPFLIHQESNVIVRAFRDYLRPDIGEILIDNPKVLELAKEHIAALGRPDFSSKIKLYSGEIPLFSHYQIESQIESAFQREVRLPSGGSIVIDTTEALTAIDINSARATRGGDIEETAFNTNLEAADEIARQLRLRDLGGLIVIDFIDMTPVRHQREVENRLRDAVRQDRARIQIGRISRFGLLEMSRQRLSPSLGESSHHVCPRCSGTGTVRDNESLSLSILRLIEEEALKENTHEVHAIVPVQIASYLLNEKRESVNAIEKRQGGVRAVIVPNDQMQTPHYSVLRVRKGEEVPSLSYLLPQLHEAEMAQPLEEATIERKRPEQPAL",
          "organism": "Yersinia pestis",
          "uniprot_code": "Q74TC3",
          "uniprot_range_first": 1,
          "uniprot_range_last": 529,
          "oligomerization": "tetramer",
          "molecular_type": "protein",
          "uniprot_sequence": "MKRMLINATQQEELRVALVDGQRLYDLDIESPGHEQKKANIYKGKITRIEPSLEAAFVDY\nGAERHGFLPLKEISREYFPNNYSSHGRPNIKDVLREGQEVIVQVDKEERGNKGAALTTFI\nSLAGSYLVLMPNNPRAGGISRRIEGDDRTELKEALSSLQLPDGMGLIVRTAGVGKSADAL\nQWDLSFRLKHWDAIKKAAEGRPAPFLIHQESNVIVRAFRDYLRPDIGEILIDNPKVLELA\nKEHIAALGRPDFSSKIKLYSGEIPLFSHYQIESQIESAFQREVRLPSGGSIVIDTTEALT\nAIDINSARATRGGDIEETAFNTNLEAADEIARQLRLRDLGGLIVIDFIDMTPVRHQREVE\nNRLRDAVRQDRARIQIGRISRFGLLEMSRQRLSPSLGESSHHVCPRCSGTGTVRDNESLS\nLSILRLIEEEALKENTHEVHAIVPVQIASYLLNEKRESVNAIEKRQGGVRAVIVPNDQMQ\nTPHYSVLRVRKGEEVPSLSYLLPQLHEAEMAQPLEEATIERKRPEQPALATFSLPTEVPP\nEEAPTVAKAKPAVATPAAVSTDVEQPGFFSRLFSGLKNMFGASAEAEVQPAEVVKTDTSE\nNRRNDRRNPRRQNNGRKERNDRTPREGRDNSSRDNTNRDNTNRDNTSRDNANRDGANRDN\nSNRDNSGRDNVSREGREDQRRNNRRPAQPTTTSQGQTEVVEADKAQREEQPQRRGDRQRR\nRQDEKRQAPQEIKADVAEAPVIEEVQPEQEERQQVMQRRQRRQLNQKVRIQSANDELNTL\nESPVSAPVAQVVVAEVQEEVKLLPQITAQTDDDSANERTTNNENGMPRRSRRSPRHLRVS\nGQRRRRYRDERYPAQSAMPLAGAFASPEMASGKVWVRYPVTPVVEQVVVEQIAIEQTTTV\nEQTAIVEQVSVANIVTAQLPVEQVQNTVAEQESSATPSVMTTPTVAVATAAVTLAPQHKP\nGGSSSSAAAVPGRAPIVAAVPVVAETTAAETVVAKTEAAIDAVAVVEPMAAVESIAAVET\nATVEPVVTEEPNVTEPAVAEPAIETDPVEETTSVVEIAPTVEPTPMIEDTAVVVAATVVD\nTTPETASTVQDDIVEETAVEAVNISETVAEETAITEPAAEAIATQQTTIAQETIAEPTVE\nTAIDVVAVVKQPAVAHPEGVVFKHFASAPMTKAPAPDYAPESPTKGHWERPTFDFSGKGS\nAGGHAAATQATAPATKPQSVE",
          "mw": 61.892,
          "total_mw": 247.568,
          "number_molecules": 4,
          "complex_state": false,
          "deuteration": null,
          "molecule_source": "biological",
          "molecule_description": null
        }
      ],
      "buffer": {
        "name": "10 mM DTT, 10 mM MgCl2, 0.5 M NaCl, 20 mM Tris",
        "concentration_unit": null,
        "comment": null,
        "additive": null,
        "concentration": null,
        "pka": null,
        "ph": 8.0,
        "deuteration": null
      },
      "purity_method": null,
      "name": "Ribonuclease E from Yersinia pestis",
      "ext_coefficient": null,
      "contrast": null,
      "specific_vol": null,
      "dry_vol": null,
      "absorbption": null,
      "deuteration": null,
      "mixture": null
    },
    "contributor": [
      {
        "affiliation": [
          {
            "short_name": null,
            "address": "Portsmouth, UK",
            "full_name": "University of Portsmouth",
            "webpage": "https://www.port.ac.uk"
          }
        ],
        "contributor_name": "A",
        "contributor_surname": "Callaghan",
        "orcid": ""
      }
    ],
    "concentration_method": null,
    "concentration_unit": null,
    "date": "2017-02-11",
    "storage_temperature": 21.0,
    "cell_temperature": 15.0,
    "exposure_time": 3.0,
    "number_of_frames": 640,
    "wavelength": 0.1,
    "sample_detector_distance": 4.014,
    "concentration_min": null,
    "concentration_max": 6.33,
    "sample_volume": null,
    "flow_rate": null,
    "s_min": 0.04,
    "s_max": 4.42,
    "total_exposure_time": null,
    "seccolumn": null
  },
  "fits": [],
  "estimated_volume_method": null,
  "pddf_software": "ATSAS GNOM",
  "pddf_software_version": "5.0",
  "i0_calibration_standard": null,
  "description": null,
  "experiment_description": "Synchrotron SAXS data from solutions of Ribonuclease E from Yersinia pestis in 10 mM DTT, 10 mM MgCl2, 0.5 M NaCl, 20 mM Tris, pH 8 were collected on the B21 beam line at the Diamond Light Source (Oxfordshire, UK) using a Pilatus 2M detector at a sample-detector distance of 4.0 m and at a wavelength of λ = 0.1 nm (l(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). One solute concentration of 6.33 mg/ml was measured at 15°C. 640 successive 3 second frames were collected. The data were normalized to the intensity of the transmitted beam and radially averaged; the scattering of the solvent-blank was subtracted.",
  "tags": [],
  "intensity_unit": "arbitrary",
  "experimental_mw": 277.0,
  "experimental_mw_error": null,
  "guinier_i0_mw": null,
  "guinier_i0_mw_error": null,
  "porod_mw": 294.0,
  "porod_mw_error": null,
  "pddf_i0": 0.02336,
  "pddf_i0_error": null,
  "guinier_i0": 0.02333,
  "guinier_i0_error": 5.7e-05,
  "pddf_rg": 5.07,
  "pddf_rg_error": null,
  "guinier_rg": 5.059,
  "guinier_rg_error": 0.01,
  "pddf_dmax": 16.44,
  "pddf_dmax_error": null,
  "porod_volume": 470.0,
  "porod_volume_error": null,
  "estimated_volume": null,
  "estimated_volume_error": null,
  "guinier_point_first": 19,
  "guinier_point_last": 90,
  "pddf_point_first": null,
  "pddf_point_last": null,
  "i0_calibration_standard_data": null,
  "intensities_log_log_plot": "SASDE62_datloglog_img.png",
  "symmetry": null,
  "last_modified": "2019-12-06T13:07:15.624532+01:00",
  "bragg_peak": []
}

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