SASDC38

Truncated α-DsbA2 protein

Data type: SASBDB experimental data Status: Published Curve type: Single concentration Last updated: 2021-04-10T09:53:41.823307+02:00
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1. Samples, Components and Experimental Conditions Sample & Experiment

Sample 1 · Truncated α-DsbA2 protein

Concentration1.25 – 5.0 Buffer / pH25 mM TRIS, 150 mM NaCl / 7.5
Experimental temperature10.0 Facility / beamlineAustralian Synchrotron / SAXS/WAXS
Wavelength0.1033 nmExposure2.0 s × 8

Molecular Components

ComponentType / organismUniProt and ConstructOligomeric StateMolecular weight
DsbA-like disulfide oxidoreductase (thiol-disulfide exchange protein)
View sequence
SNAARDNVTKSKISQYKDQIFDLTYPYSGNENSSVIAVGFLDYSCGHCKAIKNDIKQLINDGKIKYIFRDAPILGNASLKAAKSALAVYFLNKEKYFDFHHAALSHKGEFSDESILDIVKNIGIDEDDFNDSIKDNADKIEQMINNSRLLVRDLGVGGTPFLIIGDSLFVGATDLNVLRKKVDELSHKQG
proteinWolbachia endosymbiont of Drosophila melanogasterQ73FL665–252monomerMolecule count 121.091 kDa

Experimental Curves

CurvePoints / columnsq rangeUncertainty qualityNegative-intensity pointsSource file
1296[3]0.0099553876–0.3995588124 1/AHas uncertainty columnMissing 02sasbdb/entries/38/sasdc38/source/SASDC38.dat
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2. Measurements Reported by SASBDB Reported Results

MetricMethodValueUncertaintyUnit
dmaxP(r)6.30.3Å
i0Guinier0.02150.00011/cm
i0P(r)0.02150.00011/cm
mwExperimental23.0—kDa
mwGuinier I(0)23.01.0kDa
mwPorod23.0—kDa
porod_volumePorod275.0—ų
rgGuinier1.870.01Å
rgP(r)1.880.01Å

These values are reported by SASBDB; SAXSdb did not recalculate them from the experimental curve.

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3. Source Fits and Models Source Fits & Models

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4. Source File Index Source Files

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5. Experiment Description and Publication Experiment & Publication

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6. Complete Source Record Complete Source Record

The following content comes directly from the SASBDB entry. Missing values are shown as “—”; SAXSdb does not infer undeclared units.

Open the original SASBDB entry

Buffer and Sample Properties

Buffer name25 mM TRIS, 150 mM NaClBuffer concentration—
pH7.5Additives—
Buffer description—
Purity measurement method—Extinction coefficient—
Absorbance—Scattering contrast—
Specific volume / dry volume— / —Mixture / deuteration— / —

Acquisition Conditions and Instrument

Measurement date2012-02-29Storage / measurement temperature4.0 / 10.0
Exposure time2.0Frames8
Wavelength0.1033Sample-to-detector distance1.575
SourceX-ray synchrotronDetectorPilatus 1M
Facility / beamlineAustralian Synchrotron / SAXS/WAXS · Melbourne, Australia
q range0.1 – 3.996Sample volume / flow rate— / —

Original SASBDB Plots

Experimental I(q)
Experimental I(q)
Experimental I(q), log-log
Experimental I(q), log-log
Guinier plot
Guinier plot
Kratky plot
Kratky plot
P(r) plot
P(r) plot

Downloadable Files

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full_entry_zip:source record and ZIP contents (6 items)
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pddf:source record
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All source fields (unfiltered)

Every source field is expanded here, including empty values, list members and fields already shown above.

summary.json:182 field values
Field pathRaw value
codeSASDC38
statusPublished
type_of_curveSingle concentration
angular_unit1/A
project.titleThe atypical thiol-disulfide exchange protein α-DsbA2 from Wolbachia pipientis is a homotrimeric disulfide isomerase.
project.publication.titleThe atypical thiol-disulfide exchange protein α-DsbA2 from Wolbachia pipientis is a homotrimeric disulfide isomerase.
project.publication.author_listWalden PM, Whitten AE, Premkumar L, Halili MA, Heras B, King GJ, Martin JL
project.publication.journalActa Crystallogr D Struct Biol
project.publication.doi10.1107/S2059798318018442
project.publication.pmid30950399
project.publication.published_date2019 Mar 1
project.statusreleased
project.submitted_date2017-10-03
project.released_date2019-03-29
pddf_datahttps://www.sasbdb.org/media/p_of_R_files/SASDC38.out
intensities_datahttps://www.sasbdb.org/media/intensities_files/SASDC38.dat
intensities_log_plothttps://www.sasbdb.org/media/intensities_files/scattering_plots/SASDC38_dat_img.png
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sascif_datahttps://www.sasbdb.org/media/sascif/sascif_files/SASDC38.sascif
experiment.instrument.detector.typeDectris
experiment.instrument.detector.namePilatus 1M
experiment.instrument.detector.resolution172.0
experiment.instrument.nameAustralian Synchrotron
experiment.instrument.cityMelbourne
experiment.instrument.countryAustralia
experiment.instrument.beamline_nameSAXS/WAXS
experiment.instrument.beam_geometryPoint
experiment.instrument.type_of_sourceX-ray synchrotron
experiment.instrument.point_sourceTrue
experiment.instrument.line_collimationnull
experiment.instrument.sample_path_lengthnull
experiment.instrument.line_collimation_slitlengthnull
experiment.instrument.line_collimation_integrationwidthnull
experiment.instrument.xray_energynull
experiment.instrument.beam_profile_ahnull
experiment.instrument.beam_profile_alnull
experiment.sample.molecule[0].long_nameDsbA-like disulfide oxidoreductase (thiol-disulfide exchange protein)
experiment.sample.molecule[0].short_nameα-DsbA2
experiment.sample.molecule[0].sequenceSNAARDNVTKSKISQYKDQIFDLTYPYSGNENSSVIAVGFLDYSCGHCKAIKNDIKQLINDGKIKYIFRDAPILGNASLKAAKSALAVYFLNKEKYFDFHHAALSHKGEFSDESILDIVKNIGIDEDDFNDSIKDNADKIEQMINNSR LLVRDLGVGGTPFLIIGDSLFVGATDLNVLRKKVDELSHKQG
experiment.sample.molecule[0].organismWolbachia endosymbiont of Drosophila melanogaster
experiment.sample.molecule[0].uniprot_codeQ73FL6
experiment.sample.molecule[0].uniprot_range_first65
experiment.sample.molecule[0].uniprot_range_last252
experiment.sample.molecule[0].oligomerizationmonomer
experiment.sample.molecule[0].molecular_typeprotein
experiment.sample.molecule[0].uniprot_sequenceMSRISFLLILIIAIASLPIINNWLSNRSQMLNDDYIGEKLDNYISRNFDKIVKTLKEESI KSSYAARDNVTKSKISQYKDQIFDLTYPYSGNENSSVIAVGFLDYSCGHCKAIKNDIKQL INDGKIKYIFRDAPILGNASLKAAKSALAVYFLDKEKYFDFHHAALSHKGEFSDESILDI VKNIGIDEDDFNDSIKDNADKIEQMINNSRLLVRDLGVGGTPFLIIGDSLFVGATDLNVL RKKVDELSHKQG
experiment.sample.molecule[0].mw21.091
experiment.sample.molecule[0].total_mw21.093
experiment.sample.molecule[0].number_molecules1
experiment.sample.molecule[0].complex_stateFalse
experiment.sample.molecule[0].deuterationnull
experiment.sample.molecule[0].molecule_sourcebiological
experiment.sample.molecule[0].molecule_descriptionnull
experiment.sample.buffer.name25 mM TRIS, 150 mM NaCl
experiment.sample.buffer.concentration_unitnull
experiment.sample.buffer.commentnull
experiment.sample.buffer.additivenull
experiment.sample.buffer.concentrationnull
experiment.sample.buffer.pkanull
experiment.sample.buffer.ph7.5
experiment.sample.buffer.deuterationnull
experiment.sample.purity_methodnull
experiment.sample.nameTruncated α-DsbA2 protein
experiment.sample.ext_coefficientnull
experiment.sample.contrastnull
experiment.sample.specific_volnull
experiment.sample.dry_volnull
experiment.sample.absorbptionnull
experiment.sample.deuterationnull
experiment.sample.mixturenull
experiment.contributor[0].affiliation[0].short_nameANSTO
experiment.contributor[0].affiliation[0].addressKirrawee DC, NSW 2232, Australia
experiment.contributor[0].affiliation[0].full_nameAustralian Nuclear Science and Technology Organisation
experiment.contributor[0].affiliation[0].webpage
experiment.contributor[0].contributor_nameAndrew
experiment.contributor[0].contributor_surnameWhitten
experiment.contributor[0].orcidnull
experiment.concentration_methodnull
experiment.concentration_unitnull
experiment.date2012-02-29
experiment.storage_temperature4.0
experiment.cell_temperature10.0
experiment.exposure_time2.0
experiment.number_of_frames8
experiment.wavelength0.1033
experiment.sample_detector_distance1.575
experiment.concentration_min1.25
experiment.concentration_max5.0
experiment.sample_volumenull
experiment.flow_ratenull
experiment.s_min0.1
experiment.s_max3.996
experiment.total_exposure_timenull
experiment.seccolumnnull
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fits[0].models[0].softwareDAMMIN
fits[0].models[0].pdb_link[]
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fits[0].models[0].model_mw19.264
fits[0].models[0].bead_radius1.75
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fits[0].models[0].symmetryP1
fits[0].models[0].commentFiltered model from Damaver
fits[0].models[0].user111
fits[0].fit_unit1/A
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fits[0].softwareDAMMIN
fits[0].chi_square_value1.034
fits[0].p_value0.247123
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fits[1].models[0].softwareCORAL
fits[1].models[0].pdb_link[0].pdb_code6eez
fits[1].models[0].pdb_link[0].ext_code6eez
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fits[1].models[0].bead_radius1.9
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fits[1].models[0].comment
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fits[1].softwareCORAL
fits[1].chi_square_value3.88
fits[1].p_value0.0
fits[1].fit_residual_plotSASDC38_fit2_fitresiduals_img.png
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fits[1].fit_loghttps://www.sasbdb.org/media/fitting_files/log_files/run8.log
fits[1].software_version1.1
fits[1].descriptionnull
estimated_volume_methodnull
pddf_softwareATSAS GNOM
pddf_software_version4.6
i0_calibration_standardnull
descriptionnull
experiment_descriptionX-ray synchrotron radiation scattering data from the truncated version of α-DsbA2 from Wolbachia pipientis in 25 mM TRIS 150mM NaCl pH 7.5 were collected on the SAXS/WAXS beam line of the Australian Synchrotron (Melbourne, Australia) using a 2D Photon counting Pilatus 1M-W pixel detector (s = 4π sin θ/λ, where 2θ is the scattering angle). Eight successive 2 second frames were collected across solute concentrations of 1.25-5.00 mg/ml. The SAXS data displayed this entry was derived from a 1.25 mg/ml sample. The data were normalized to the intensity of the transmitted beam and radially averaged and the scattering of the solvent-blank was subtracted. The data were normalized to the intensity of the transmitted beam and radially averaged and the scattering of the solvent-blank was subtracted. The models and corresponding fits include those derived from dummy-atom modelling using DAMMIN (top) and rigid-body modelling using CORAL (bottom).
tags[]
intensity_unit1/cm
experimental_mw23.0
experimental_mw_errornull
guinier_i0_mw23.0
guinier_i0_mw_error1.0
porod_mw23.0
porod_mw_errornull
pddf_i00.0215
pddf_i0_error0.0001
guinier_i00.0215
guinier_i0_error0.0001
pddf_rg1.88
pddf_rg_error0.01
guinier_rg1.87
guinier_rg_error0.01
pddf_dmax6.3
pddf_dmax_error0.3
porod_volume275.0
porod_volume_errornull
estimated_volumenull
estimated_volume_errornull
guinier_point_first1
guinier_point_last45
pddf_point_firstnull
pddf_point_lastnull
i0_calibration_standard_datanull
intensities_log_log_plotSASDC38_datloglog_img.png
symmetrynull
last_modified2021-04-10T09:53:41.823307+02:00
bragg_peak[]
manifest.json:36 field values
Field pathRaw value
codeSASDC38
statussuccess
started_at2026-08-11T15:44:39.400067+00:00
finished_at2026-08-11T15:44:50.889042+00:00
source_last_modified2021-04-10T09:53:41.823307+02:00
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View the complete summary.json source
{
  "code": "SASDC38",
  "status": "Published",
  "type_of_curve": "Single concentration",
  "angular_unit": "1/A",
  "project": {
    "title": "The atypical thiol-disulfide exchange protein α-DsbA2 from Wolbachia pipientis is a homotrimeric disulfide isomerase.",
    "publication": {
      "title": "The atypical thiol-disulfide exchange protein α-DsbA2 from Wolbachia pipientis is a homotrimeric disulfide isomerase.",
      "author_list": "Walden PM, Whitten AE, Premkumar L, Halili MA, Heras B, King GJ, Martin JL",
      "journal": "Acta Crystallogr D Struct Biol",
      "doi": "10.1107/S2059798318018442",
      "pmid": "30950399",
      "published_date": "2019 Mar 1"
    },
    "status": "released",
    "submitted_date": "2017-10-03",
    "released_date": "2019-03-29"
  },
  "pddf_data": "https://www.sasbdb.org/media/p_of_R_files/SASDC38.out",
  "intensities_data": "https://www.sasbdb.org/media/intensities_files/SASDC38.dat",
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  "intensities_kratky_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDC38_kratky_img.png",
  "pddf_plot": "https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDC38_pofr_img.png",
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  "sascif_data": "https://www.sasbdb.org/media/sascif/sascif_files/SASDC38.sascif",
  "experiment": {
    "instrument": {
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        "type": "Dectris",
        "name": "Pilatus 1M",
        "resolution": 172.0
      },
      "name": "Australian  Synchrotron",
      "city": "Melbourne",
      "country": "Australia",
      "beamline_name": "SAXS/WAXS",
      "beam_geometry": "Point",
      "type_of_source": "X-ray synchrotron",
      "point_source": true,
      "line_collimation": null,
      "sample_path_length": null,
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      "line_collimation_integrationwidth": null,
      "xray_energy": null,
      "beam_profile_ah": null,
      "beam_profile_al": null
    },
    "sample": {
      "molecule": [
        {
          "long_name": "DsbA-like disulfide oxidoreductase (thiol-disulfide exchange protein)",
          "short_name": "α-DsbA2",
          "sequence": "SNAARDNVTKSKISQYKDQIFDLTYPYSGNENSSVIAVGFLDYSCGHCKAIKNDIKQLINDGKIKYIFRDAPILGNASLKAAKSALAVYFLNKEKYFDFHHAALSHKGEFSDESILDIVKNIGIDEDDFNDSIKDNADKIEQMINNSR\r\nLLVRDLGVGGTPFLIIGDSLFVGATDLNVLRKKVDELSHKQG",
          "organism": "Wolbachia endosymbiont of Drosophila melanogaster",
          "uniprot_code": "Q73FL6",
          "uniprot_range_first": 65,
          "uniprot_range_last": 252,
          "oligomerization": "monomer",
          "molecular_type": "protein",
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View the complete manifest.json source
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