Ratiometric matryoshka biosensor for Fe2+ – MDtxRGA_G149

{
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  "status": "Published",
  "type_of_curve": "SEC-SAS",
  "angular_unit": "1/nm",
  "project": {
    "title": "A Novel Biosensor for Ferrous Iron Developed via CoBiSe: A Computational Method for Rapid Biosensor Design",
    "publication": {
      "title": "A Novel Biosensor for Ferrous Iron Developed via CoBiSe: A Computational Method for Rapid Biosensor Design",
      "author_list": "Papadopoulos A, Anlauf M, Reiners J, Paik S, Krüger A, Lückel B, Bott M, Drepper T, Frunzke J, Gohlke H, Weidtkamp-Peters S, Smits S, Gertzen C",
      "journal": "ACS Sensors",
      "doi": "10.1021/acssensors.5c02481",
      "pmid": null,
      "published_date": "2026 Jan 11"
    },
    "status": "released",
    "submitted_date": "2025-02-26",
    "released_date": "2025-12-11"
  },
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  "intensities_kratky_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDWP9_kratky_img.png",
  "pddf_plot": "https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDWP9_pofr_img.png",
  "intensities_guinier_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDWP9_guinier_img.png",
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  "experiment": {
    "instrument": {
      "detector": {
        "type": null,
        "name": "Pilatus3 2M",
        "resolution": 0.172
      },
      "name": "ESRF",
      "city": "Grenoble",
      "country": "France",
      "beamline_name": "BM29",
      "beam_geometry": "point",
      "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": "Ratiometric matryoshka biosensor for Fe2+",
          "short_name": "MDtxRGA G149",
          "sequence": "MRGSHHHHHHHHHHGMASMTGGQQMGRDLYDDDDKDPGRMKDLVDTTEMYLRTIYELEEEGIVPLRARIAERLEQSGPTVSQTVARMERDGLVHVSPDRSLEMTPEGRSLAIAVMRKHRLAERLLTDIIGLDIHKVHDEACRWEHVMSDEVERRLVEVLDDVHRSPFGNPIPGLGEIGLDQADEPDSGPASHNVYITADKQKNGIKANFTVRHNVEDGSVQLADHYQQNTPIGDGPVLLPDNHYLSTQTKLSKDPNEKRDHMVLLEFVTAAGITHGMDELYGGTVSKGEENNMAIIKEFMRFKVHMEGSVNGHEFEIEGEGEGRPYEAFQTAKLKVTKGGPLPFTWDILSPQFMYGSKVYIKHPADIPDYFKLSFPEGFRWERVMIFEDGGIIHVNQDSSLQDGVFIYKVKLRGTNFPSDGPVMQKKTMGLEACEERMYPEDGALKSEYKEWLKLKDGGHYAAEVKTTYKAKKPVQLPGAYIVDIKLDIVSHNEDYTIVEQYERAEGRHSTGGMDELYKGGSASQGEELFTGVVPILVELDGDVNGHKFSVRGEGEGDATIGKLTLKFISTTGKLPVPWPTLVTTLTYGVQCFSRYPDHMKRHDFFKSAMPEGYVQERTISFKDDGKYKTRAVVKFEGDTLVNRIELKGTDFKEDGNILGHKLEYNFNNPVRAIDLPLGENLKARIVQLNEILQVDLEQFQALTDAGVEIGTEVDIINEQGRVVITHNGSSVELIDDLAHAVRVEKVEG",
          "organism": "synthetic construct",
          "uniprot_code": null,
          "uniprot_range_first": null,
          "uniprot_range_last": null,
          "oligomerization": "monomer",
          "molecular_type": "protein",
          "uniprot_sequence": "",
          "mw": 84.189,
          "total_mw": 84.189,
          "number_molecules": 1,
          "complex_state": false,
          "deuteration": null,
          "molecule_source": "biological",
          "molecule_description": "The sensor contains different domains:\r\n\r\n- DtxR (ferrous iron binding protein)  from Corynebacterium glutamicum\r\n- superfolder circularly permutated GFP (cpsfGFP (reporter fluorophore) from Aequorea victoria\r\n- LSSmApple (reference fluorophore) from Discosoma sp. \r\n\r\nand is constructed as:\r\n1-39 N-Terminal 10xHis, T7tag, enterokinase site/XpressTag, \r\n40-188 DtxR-N-terminus \r\n189-192 PASH Linker\r\n193-281 cpsfGFP-C-terminus\r\n282-284 GGT Linker\r\n285-519 LSSmApple\r\n520-522 GGS Linker\r\n523-666 cpsfGFP-N-terminus\r\n667-670 FNNP Linker\r\n671-749 DtxR-C-terminus"
        }
      ],
      "buffer": {
        "name": "20 mM MOPS, 250 mM KCl,",
        "concentration_unit": null,
        "comment": null,
        "additive": null,
        "concentration": null,
        "pka": null,
        "ph": 7.0,
        "deuteration": null
      },
      "purity_method": null,
      "name": "Ratiometric matryoshka biosensor for Fe2+ – MDtxRGA_G149",
      "ext_coefficient": null,
      "contrast": null,
      "specific_vol": null,
      "dry_vol": null,
      "absorbption": null,
      "deuteration": null,
      "mixture": null
    },
    "contributor": [
      {
        "affiliation": [
          {
            "short_name": null,
            "address": "Düsseldorf, Germany",
            "full_name": "Heinrich Heine University Düsseldorf",
            "webpage": "https://www.uni-duesseldorf.de"
          }
        ],
        "contributor_name": "Jens",
        "contributor_surname": "Reiners",
        "orcid": ""
      }
    ],
    "concentration_method": null,
    "concentration_unit": null,
    "date": "2024-11-15",
    "storage_temperature": 20.0,
    "cell_temperature": 20.0,
    "exposure_time": 2.0,
    "number_of_frames": 1200,
    "wavelength": 0.099,
    "sample_detector_distance": 2.827,
    "concentration_min": null,
    "concentration_max": 4.0,
    "sample_volume": 100.0,
    "flow_rate": 0.6,
    "s_min": 0.085,
    "s_max": 2.507,
    "total_exposure_time": null,
    "seccolumn": 1
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          "model_title": null,
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          "bead_radius": null,
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          "symmetry": "P1",
          "comment": null,
          "user": 402
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      ],
      "fit_unit": "1/A",
      "fit_plot": "https://www.sasbdb.org/media/fitting_files/scattering_plots/SASDWP9_fit1_fixed_fit_img.png",
      "software": "CRYSOL",
      "chi_square_value": 1.084,
      "p_value": 0.3843,
      "fit_residual_plot": "SASDWP9_fit1_fitresiduals_img.png",
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      "fit_log": "https://www.sasbdb.org/media/fitting_files/log_files/fold_241017_af3_mdtxrga_g149_model_0.log",
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  "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 Ratiometric matryoshka biosensor for Fe2+ (MDtxRGA_G149) in 20 mM MOPS, 250 mM KCl, pH 7 were collected on the BM29 beam line at the ESRF (Grenoble, France) using a Pilatus3 2M detector at a sample-detector distance of 2.8 m and at a wavelength of λ = 0.099 nm (I(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). In-line size-exclusion chromatography (SEC) SAS was employed. The SEC parameters were as follows: A 100.00 μl sample at 4 mg/ml was injected at a 0.60 ml/min flow rate onto a GE Superdex 200 Increase 10/300 column at 20°C. 1200 successive 2 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": [],
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  "guinier_rg_error": 0.055,
  "pddf_dmax": 12.37,
  "pddf_dmax_error": null,
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  "estimated_volume_error": null,
  "guinier_point_first": 1,
  "guinier_point_last": 58,
  "pddf_point_first": null,
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  "i0_calibration_standard_data": null,
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  "symmetry": null,
  "last_modified": "2026-01-21T11:35:46.133284+01:00",
  "bragg_peak": []
}

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