AMP/fumarate-bound neanderthal adenylosuccinate lyase (ADSL)

{
  "code": "SASDEN5",
  "status": "Published",
  "type_of_curve": "Single concentration",
  "angular_unit": "1/nm",
  "project": {
    "title": "Molecular comparison of Neanderthal and Modern Human adenylosuccinate lyase.",
    "publication": {
      "title": "Molecular comparison of Neanderthal and Modern Human adenylosuccinate lyase.",
      "author_list": "Van Laer B, Kapp U, Soler-Lopez M, Moczulska K, Pääbo S, Leonard G, Mueller-Dieckmann C",
      "journal": "Sci Rep",
      "doi": "10.1038/s41598-018-36195-5",
      "pmid": "30573755",
      "published_date": "2018 Dec 20"
    },
    "status": "released",
    "submitted_date": "2018-10-03",
    "released_date": "2019-01-16"
  },
  "pddf_data": null,
  "intensities_data": "https://www.sasbdb.org/media/intensities_files/SASDEN5.dat",
  "intensities_log_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDEN5_dat_img.png",
  "intensities_kratky_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDEN5_kratky_img.png",
  "pddf_plot": null,
  "intensities_guinier_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDEN5_guinier_img.png",
  "sascif_data": "https://www.sasbdb.org/media/sascif/sascif_files/SASDEN5.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": "Adenylosuccinate lyase",
          "short_name": "ADSL",
          "sequence": "GSHMAAGGDHGSPDSYRSPLASRYASPEMCFVFSDRYKFRTWR\r\nQLWLWLAEAEQTLGLPITDEQIQEMKSNLENIDFKMAAEEEKRLRHDVMAHVHTFGHCCP\r\nKAAGIIHLGATSCYVGDNTDLIILRNALDLLLPKLARVISRLADFAKERASLPTLGFTHF\r\nQPAQLTTVGKRCCLWIQDLCMDLQNLKRVRDDLRFRGVKGTTGTQASFLQLFEGDDHKVE\r\nQLDKMVTEKAGFKRAFIITGQTYTRKVDIEVLSVLASLGASVHKICTDIRLLANLKEMEE\r\nPFEKQQIGSSAMPYKRNPMRSERCCSLARHLMTLVMDPLQTASVQWFERTLDDSANRRIC\r\nLAEAFLTADTILNTLQNISEGLVVYPKVIERRIRQELPFMATENIIMAMVKAGGSRQDCH\r\nEKIRVLSQQAASVVKQEGGDNDLIERIQADAYFSPIHSQLDHLLDPSSFTGRASQQVQRF\r\nLEEEVYPLLKPYESVMKVKAELCL",
          "organism": "Homo sapiens neanderthalensis",
          "uniprot_code": "A0A384E0N4",
          "uniprot_range_first": 1,
          "uniprot_range_last": 487,
          "oligomerization": "tetramer",
          "molecular_type": "protein",
          "uniprot_sequence": "GSHMAAGGDHGSPDSYRSPLASRYASPEMCFVFSDRYKFRTWRQLWLWLAEAEQTLGLPI\nTDEQIQEMKSNLENIDFKMAAEEEKRLRHDVMAHVHTFGHCCPKAAGIIHLGATSCYVGD\nNTDLIILRNALDLLLPKLARVISRLADFAKERASLPTLGFTHFQPAQLTTVGKRCCLWIQ\nDLCMDLQNLKRVRDDLRFRGVKGTTGTQASFLQLFEGDDHKVEQLDKMVTEKAGFKRAFI\nITGQTYTRKVDIEVLSVLASLGASVHKICTDIRLLANLKEMEEPFEKQQIGSSAMPYKRN\nPMRSERCCSLARHLMTLVMDPLQTASVQWFERTLDDSANRRICLAEAFLTADTILNTLQN\nISEGLVVYPKVIERRIRQELPFMATENIIMAMVKAGGSRQDCHEKIRVLSQQAASVVKQE\nGGDNDLIERIQADAYFSPIHSQLDHLLDPSSFTGRASQQVQRFLEEEVYPLLKPYESVMK\nVKAELCL",
          "mw": 55.142,
          "total_mw": 220.568,
          "number_molecules": 4,
          "complex_state": false,
          "deuteration": null,
          "molecule_source": "biological",
          "molecule_description": ""
        }
      ],
      "buffer": {
        "name": "10 mM HEPES, 100 mM NaCl, 1 mM DTT, 1mM AMP, 1mM Fumarate",
        "concentration_unit": null,
        "comment": null,
        "additive": null,
        "concentration": null,
        "pka": null,
        "ph": 7.5,
        "deuteration": null
      },
      "purity_method": null,
      "name": "AMP/fumarate-bound neanderthal adenylosuccinate lyase (ADSL)",
      "ext_coefficient": null,
      "contrast": null,
      "specific_vol": null,
      "dry_vol": null,
      "absorbption": null,
      "deuteration": null,
      "mixture": null
    },
    "contributor": [
      {
        "affiliation": [
          {
            "short_name": "ESRF",
            "address": "Grenoble, France",
            "full_name": "European Synchrotron Radiation Facility",
            "webpage": "http://www.esrf.eu/"
          }
        ],
        "contributor_name": "Bart",
        "contributor_surname": "Van Laer",
        "orcid": ""
      }
    ],
    "concentration_method": null,
    "concentration_unit": null,
    "date": "2016-07-24",
    "storage_temperature": 20.0,
    "cell_temperature": 20.0,
    "exposure_time": 1.0,
    "number_of_frames": 10,
    "wavelength": 0.099,
    "sample_detector_distance": 2.864,
    "concentration_min": null,
    "concentration_max": 5.0,
    "sample_volume": null,
    "flow_rate": null,
    "s_min": 0.047,
    "s_max": 3.804,
    "total_exposure_time": null,
    "seccolumn": null
  },
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    {
      "models": [
        {
          "model_plot": "https://www.sasbdb.org/media/pdb_file/images/SASDEN5_fit1_model1_img.png",
          "software": "PDB (Protein Data Bank)",
          "pdb_link": [
            {
              "pdb_code": "5nxa",
              "ext_code": "5NXA",
              "ext_type": "pdb",
              "difference_with_model": "derived"
            }
          ],
          "model_title": null,
          "type_of_model": "atomic",
          "software_version": null,
          "model_data": "https://www.sasbdb.org/media/pdb_file/SASDEN5_fit1_model1.pdb",
          "model_mw": 213.0,
          "bead_radius": null,
          "log": null,
          "symmetry": null,
          "comment": null,
          "user": 371
        }
      ],
      "fit_unit": "1/A",
      "fit_plot": "https://www.sasbdb.org/media/fitting_files/scattering_plots/nADSL-AICARFum_EFGH00_QmU78Fg_fit_img.png",
      "software": "CRYSOL",
      "chi_square_value": 3.171,
      "p_value": 0.0,
      "fit_residual_plot": null,
      "fit_data": "https://www.sasbdb.org/media/fitting_files/SASDEN5_fit1.fit",
      "fit_log": null,
      "software_version": null,
      "description": ""
    }
  ],
  "estimated_volume_method": null,
  "pddf_software": null,
  "pddf_software_version": null,
  "i0_calibration_standard": null,
  "description": null,
  "experiment_description": "Synchrotron SAXS data from solutions of AMP/fumarate-bound neanderthal adenylosuccinate lyase (ADSL) in 10 mM HEPES, 100 mM NaCl, 1 mM DTT, 1mM AMP, 1 mM Fumarate, pH 7.5 were collected on the BM29 beam line at the ESRF (Grenoble, France) using a Dectris Pilatus 1M detector at a sample-detector distance of 2.9 m and at a wavelength of λ = 0.099 nm (l(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). One solute concentration of 5.00 mg/ml was measured at 20°C. 10 successive 1 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": null,
  "experimental_mw": 168.0,
  "experimental_mw_error": null,
  "guinier_i0_mw": null,
  "guinier_i0_mw_error": null,
  "porod_mw": 161.0,
  "porod_mw_error": null,
  "pddf_i0": null,
  "pddf_i0_error": null,
  "guinier_i0": 152.55,
  "guinier_i0_error": 0.05,
  "pddf_rg": null,
  "pddf_rg_error": null,
  "guinier_rg": 3.65,
  "guinier_rg_error": 0.01,
  "pddf_dmax": null,
  "pddf_dmax_error": null,
  "porod_volume": 258.0,
  "porod_volume_error": null,
  "estimated_volume": null,
  "estimated_volume_error": null,
  "guinier_point_first": 6,
  "guinier_point_last": 66,
  "pddf_point_first": null,
  "pddf_point_last": null,
  "i0_calibration_standard_data": null,
  "intensities_log_log_plot": "SASDEN5_datloglog_img.png",
  "symmetry": null,
  "last_modified": "2022-03-31T21:46:29.624392+02:00",
  "bragg_peak": []
}

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