Vaccinia primase D5 protein fragment containing the D5N and helicase domain

{
  "code": "SASDBU4",
  "status": "Published",
  "type_of_curve": "Single concentration",
  "angular_unit": "1/nm",
  "project": {
    "title": "Domain Organization of Vaccinia Virus Helicase-Primase D5.",
    "publication": {
      "title": "Domain Organization of Vaccinia Virus Helicase-Primase D5.",
      "author_list": "Hutin S, Ling WL, Round A, Effantin G, Reich S, Iseni F, Tarbouriech N, Schoehn G, Burmeister WP",
      "journal": "J Virol",
      "doi": "10.1128/JVI.00044-16",
      "pmid": "26912611",
      "published_date": "2016 May"
    },
    "status": "released",
    "submitted_date": "2016-04-11",
    "released_date": "2016-04-11"
  },
  "pddf_data": "https://www.sasbdb.org/media/p_of_R_files/SASDBU4.out",
  "intensities_data": "https://www.sasbdb.org/media/intensities_files/SASDBU4.dat",
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  "intensities_kratky_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDBU4_kratky_img.png",
  "pddf_plot": "https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDBU4_pofr_img.png",
  "intensities_guinier_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDBU4_guinier_img.png",
  "sascif_data": "https://www.sasbdb.org/media/sascif/sascif_files/SASDBU4.sascif",
  "experiment": {
    "instrument": {
      "detector": {
        "type": "Dectris",
        "name": "Pilatus 1M",
        "resolution": 172.0
      },
      "name": "ESRF",
      "city": "Grenoble",
      "country": "France",
      "beamline_name": "BM29",
      "beam_geometry": "",
      "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": "Primase D5 protein fragment containing the D5N and helicase domain",
          "short_name": "Vaccinia D5 323-785",
          "sequence": "GAMGNKLFNI AQRILDTNSV LLTERGDYIV WINNSWKFNS EEPLITKLIL SIRHQLPKEY\r\nSSELLCPRKR KTVEANIRDM LVDSVETDTY PDKLPFKNGV LDLVDGMFYS GDDAKKYTCT\r\nVSTGFKFDDT KFVEDSPEME ELMNIINDIQ PLTDENKKNR ELYEKTLSSC LCGATKGCLT\r\nFFFGETATGK STTKRLLKSA IGDLFVETGQ TILTDVLDKG PNPFIANMHL KRSVFCSELP  \r\nDFACSGSKKI RSDNIKKLTE PCVIGRPCFS NKINNRNHAT IIIDTNYKPV FDRIDNALMR\r\nRIAVVRFRTH FSQPSGREAA ENNDAYDKVK LLDEGLDGKI QNNRYRFAFL YLLVKWYKKY\r\nHVPIMKLYPT PEEIPDFAFY LKIGTLLVSS SVKHIPLMTD LSKKGYILYD NVVTLPLTTF\r\nQQKISKYFNS RLFGHDIESF INRHKKFANV SDEYLQYIFI EDISSP ",
          "organism": "Vaccinia virus",
          "uniprot_code": "P21010",
          "uniprot_range_first": 323,
          "uniprot_range_last": 785,
          "oligomerization": "hexamer",
          "molecular_type": "protein",
          "uniprot_sequence": "MDAAIRGNDVIFVLKTIGVPSACRQNEDPRFVEAFKCDELKRYIDNNPECTLFESLRDEE\nAYSIVRIFMDVDLDACLDEIDYLTAIQDFIIEVSNCVARFAFTECGAIHENVIKSMRSNF\nSLTKSTNRDKTSFHIIFLDTYTTMDTLIAMKRTLLELSRSSENPLTRSIDTAVYRRKTTL\nRVVGTRKNPNCDTIHVMQPPHDNIEDYLFTYVDMNNNSYYFSLQRRLEDLVPDKLWEPGF\nISFEDAIKRVSKIFINSIINFNDLDENNFTTVPLVIDYVTPCALCKKRSHKHPHQLSLEN\nGAIRIYKTGNPHSCKVKIVPLDGNKLFNIAQRILDTNSVLLTERGDYIVWINNSWKFNSE\nEPLITKLILSIRHQLPKEYSSELLCPRKRKTVEANIRDMLVDSVETDTYPDKLPFKNGVL\nDLVDGMFYSGDDAKKYTCTVSTGFKFDDTKFVEDSPEMEELMNIINDIQPLTDENKKNRE\nLYEKTLSSCLCGATKGCLTFFFGETATGKSTTKRLLKSAIGDLFVETGQTILTDVLDKGP\nNPFIANMHLKRSVFCSELPDFACSGSKKIRSDNIKKLTEPCVIGRPCFSNKINNRNHATI\nIIDTNYKPVFDRIDNALMRRIAVVRFRTHFSQPSGREAAENNDAYDKVKLLDEGLDGKIQ\nNNRYRFAFLYLLVKWYKKYHVPIMKLYPTPEEIPDFAFYLKIGTLLVSSSVKHIPLMTDL\nSKKGYILYDNVVTLPLTTFQQKISKYFNSRLFGHDIESFINRHKKFANVSDEYLQYIFIE\nDISSP",
          "mw": 53.48,
          "total_mw": 320.879,
          "number_molecules": 6,
          "complex_state": false,
          "deuteration": null,
          "molecule_source": "biological",
          "molecule_description": null
        }
      ],
      "buffer": {
        "name": "20 mM Tris 150 mM NaCL 5% glycerol 1mM DTT",
        "concentration_unit": "mM",
        "comment": null,
        "additive": "150 mM NaCL, 5% glycerol, 1mM DTT",
        "concentration": 20.0,
        "pka": null,
        "ph": 7.0,
        "deuteration": null
      },
      "purity_method": null,
      "name": "Vaccinia primase D5 protein fragment containing the D5N and helicase domain",
      "ext_coefficient": null,
      "contrast": null,
      "specific_vol": null,
      "dry_vol": null,
      "absorbption": null,
      "deuteration": null,
      "mixture": null
    },
    "contributor": [
      {
        "affiliation": [],
        "contributor_name": "Stephanie",
        "contributor_surname": "Hutin",
        "orcid": null
      }
    ],
    "concentration_method": null,
    "concentration_unit": "mg/ml",
    "date": "2014-09-26",
    "storage_temperature": 20.0,
    "cell_temperature": 20.0,
    "exposure_time": 2.0,
    "number_of_frames": 2000,
    "wavelength": 0.93,
    "sample_detector_distance": 2.43,
    "concentration_min": 1.42,
    "concentration_max": 2.2,
    "sample_volume": null,
    "flow_rate": null,
    "s_min": 0.155,
    "s_max": 4.969,
    "total_exposure_time": null,
    "seccolumn": null
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          "model_title": null,
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          "software_version": "r3709",
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          "model_mw": 370.5,
          "bead_radius": 3.0,
          "log": null,
          "symmetry": "",
          "comment": "",
          "user": 124
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      ],
      "fit_unit": "1/A",
      "fit_plot": "https://www.sasbdb.org/media/fitting_files/scattering_plots/SASDBU4_fit1_fit_img.png",
      "software": null,
      "chi_square_value": 1.05,
      "p_value": 4e-06,
      "fit_residual_plot": "SASDBU4_fit1_fitresiduals_img.png",
      "fit_data": "https://www.sasbdb.org/media/fitting_files/SASDBU4_fit1.fir",
      "fit_log": null,
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  "estimated_volume_method": null,
  "pddf_software": "ATSAS GNOM",
  "pddf_software_version": null,
  "i0_calibration_standard": null,
  "description": null,
  "experiment_description": "X-ray synchrotron radiation scattering data from solutions of the primase D5 protein fragment from Vaccinia virus containing the D5N and helicase domain in 20 mM Tris 150 mM NaCL, 5% glycerol, 1mM DTT pH 7 on the BM29 SAXS beam line at the ESRF (Grenoble, France) using a 2D Photon counting Pilatus 1M-W pixel detector (I(s) vs s; s = 4π sin θ/λ, where 2θ is the scattering angle and λ=0.1 nm). A solute concentration of 1.42 mg/ml was measured using 2000 successive 2 second frames. The data were normalized to the intensity of the transmitted beam and radially averaged. The scattering of the solvent-blank was subtracted and the different curves were scaled and averaged.",
  "tags": [],
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  "experimental_mw": 345.0,
  "experimental_mw_error": null,
  "guinier_i0_mw": null,
  "guinier_i0_mw_error": null,
  "porod_mw": null,
  "porod_mw_error": null,
  "pddf_i0": 29.0,
  "pddf_i0_error": 0.04,
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  "guinier_i0_error": 0.04,
  "pddf_rg": 4.7,
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  "guinier_rg_error": 0.03,
  "pddf_dmax": 14.5,
  "pddf_dmax_error": null,
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  "porod_volume_error": null,
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  "estimated_volume_error": null,
  "guinier_point_first": 2,
  "guinier_point_last": 24,
  "pddf_point_first": null,
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  "intensities_log_log_plot": "SASDBU4_datloglog_img.png",
  "symmetry": null,
  "last_modified": "2019-12-06T13:07:15.624532+01:00",
  "bragg_peak": []
}

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