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SASDVE7

Hexameric L-threonine dehydratase biosynthetic (IlvA) from Staphylococcus aureus

Data type: SASBDB experimental data Status: Published Curve type: SEC-SAS Last updated: 2025-06-12T16:25:59.672984+02:00
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1. Samples, Components and Experimental Conditions Sample & Experiment

Sample 1 · Hexameric L-threonine dehydratase biosynthetic (IlvA) from Staphylococcus aureus

Concentration— – 1.2 Buffer / pH20 mM KPO4, 200 mM NaCl, 0.1 mM TCEP, / 7.5
Experimental temperature20.0 Facility / beamlineAdvanced Photon Source (APS), Argonne National Laboratory / BioCAT 18ID
Wavelength0.1033 nmExposure0.5 s × 3600

Molecular Components

ComponentType / organismUniProt and ConstructOligomeric StateMolecular weight
L-threonine dehydratase biosynthetic IlvA
View sequence
MTVKTTVSTKDIDEAFLRLKDIVKETPLQLDHYLSQKYDCKVYLKREDLQWVRSFKLRGAYNAISVLSDEAKSKGITCASAGNHAQGVAYTAKKLNLNAVIFMPVTTPLQKVNQVKFFGNSNVEVVLTGDTFDHCLAEALTYTSEHQMNFIDPFNNVHTISGQGTLAKEMLEQAKSDNVNFDYLFAAIGGGGLISGISTYFKTYSPTTKIIGVEPSGASSMYESVVVNNQVVTLPNIDKFVDGASVARVGDITFEIAKENVDDYVQVDEGAVCSTILDMYSKQAIVAEPAGALSVSALENYKDHIKGKTVVCVISGGNNDINRMKEIEERSLLYEEMKHYFILNFPQRPGALREFVNDVLGPQDDITKFEYLKKSSQNTGTVIIGIQLKDHDDLIQLKQRVNHFDPSNIYINENKMLYSLLILEHHHHHH
proteinStaphylococcus aureus (strain USA300)Q2FF63336–422hexamerMolecule count 848.002 kDa

Experimental Curves

CurvePoints / columnsq rangeUncertainty qualityNegative-intensity pointsSource file
11698[3]0.00292059962–0.420131363 1/AHas uncertainty columnMissing 0335sasbdb/entries/e7/sasdve7/source/SASDVE7.dat
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2. Measurements Reported by SASBDB Reported Results

MetricMethodValueUncertaintyUnit
dmaxP(r)17.1—Å
i0Guinier0.0100305—arbitrary
i0P(r)0.01009—arbitrary
mwExperimental320.9—kDa
mwGuinier I(0)320.9—kDa
mwPorod320.7—kDa
porod_volumePorod386.0—ų
rgGuinier5.0950.303Å
rgP(r)5.19—Å

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 name20 mM KPO4, 200 mM NaCl, 0.1 mM TCEP,Buffer concentration—
pH7.5Additives—
Buffer description—
Purity measurement method—Extinction coefficient—
Absorbance—Scattering contrast—
Specific volume / dry volume— / —Mixture / deuteration— / —

Acquisition Conditions and Instrument

Measurement date2022-10-14Storage / measurement temperature20.0 / 20.0
Exposure time0.5Frames3600
Wavelength0.1033Sample-to-detector distance3.663
SourceX-ray synchrotronDetectorEiger2 XE 9M
Facility / beamlineAdvanced Photon Source (APS), Argonne National Laboratory / BioCAT 18ID · Lemont, IL, USA
q range0.029 – 4.201Sample volume / flow rate300.0 / 0.6

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

CategoryFileStatusSizeChecksumDownload and View
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full_entry_zip：source record and ZIP contents (4 items)
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pddf：source record
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sascif：source record
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summary：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：156 field values
Field pathRaw value
codeSASDVE7
statusPublished
type_of_curveSEC-SAS
angular_unit1/A
project.titleIsoleucine Binding and Regulation of Escherichia coli and Staphylococcus aureus Threonine Dehydratase (IlvA).
project.publication.titleIsoleucine Binding and Regulation of Escherichia coli and Staphylococcus aureus Threonine Dehydratase (IlvA).
project.publication.author_listYun MK, Subramanian C, Miller K, Jackson P, Radka CD, Rock CO
project.publication.journalBiochemistry
project.publication.doi10.1021/acs.biochem.5c00168
project.publication.pmid40494512
project.publication.published_date2025 Jun 10
project.statusreleased
project.submitted_date2024-09-16
project.released_date2025-06-12
pddf_datahttps://www.sasbdb.org/media/p_of_R_files/SASDVE7.out
intensities_datahttps://www.sasbdb.org/media/intensities_files/SASDVE7.dat
intensities_log_plothttps://www.sasbdb.org/media/intensities_files/scattering_plots/SASDVE7_dat_img.png
intensities_kratky_plothttps://www.sasbdb.org/media/intensities_files/scattering_plots/SASDVE7_kratky_img.png
pddf_plothttps://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDVE7_pofr_img.png
intensities_guinier_plothttps://www.sasbdb.org/media/intensities_files/scattering_plots/SASDVE7_guinier_img.png
sascif_datahttps://www.sasbdb.org/media/sascif/sascif_files/SASDVE7.sascif
experiment.instrument.detector.typenull
experiment.instrument.detector.nameEiger2 XE 9M
experiment.instrument.detector.resolution72.0
experiment.instrument.nameAdvanced Photon Source (APS), Argonne National Laboratory
experiment.instrument.cityLemont, IL
experiment.instrument.countryUSA
experiment.instrument.beamline_nameBioCAT 18ID
experiment.instrument.beam_geometrynull
experiment.instrument.type_of_sourceX-ray synchrotron
experiment.instrument.point_sourcenull
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_nameL-threonine dehydratase biosynthetic IlvA
experiment.sample.molecule[0].short_nameSaIlvA
experiment.sample.molecule[0].sequenceMTVKTTVSTKDIDEAFLRLKDIVKETPLQLDHYLSQKYDCKVYLKREDLQWVRSFKLRGAYNAISVLSDEAKSKGITCASAGNHAQGVAYTAKKLNLNAVIFMPVTTPLQKVNQVKFFGNSNVEVVLTGDTFDHCLAEALTYTSEHQMNFIDPFNNVHTISGQGTLAKEMLEQAKSDNVNFDYLFAAIGGGGLISGISTYFKTYSPTTKIIGVEPSGASSMYESVVVNNQVVTLPNIDKFVDGASVARVGDITFEIAKENVDDYVQVDEGAVCSTILDMYSKQAIVAEPAGALSVSALENYKDHIKGKTVVCVISGGNNDINRMKEIEERSLLYEEMKHYFILNFPQRPGALREFVNDVLGPQDDITKFEYLKKSSQNTGTVIIGIQLKDHDDLIQLKQRVNHFDPSNIYINENKMLYSLLILEHHHHHH
experiment.sample.molecule[0].organismStaphylococcus aureus (strain USA300)
experiment.sample.molecule[0].uniprot_codeQ2FF63
experiment.sample.molecule[0].uniprot_range_first336
experiment.sample.molecule[0].uniprot_range_last422
experiment.sample.molecule[0].oligomerizationhexamer
experiment.sample.molecule[0].molecular_typeprotein
experiment.sample.molecule[0].uniprot_sequenceMTVKTTVSTKDIDEAFLRLKDIVKETPLQLDHYLSQKYDCKVYLKREDLQWVRSFKLRGA YNAISVLSDEAKSKGITCASAGNHAQGVAYTAKKLNLNAVIFMPVTTPLQKVNQVKFFGN SNVEVVLTGDTFDHCLAEALTYTSEHQMNFIDPFNNVHTISGQGTLAKEMLEQAKSDNVN FDYLFAAIGGGGLISGISTYFKTYSPTTKIIGVEPSGASSMYESVVVNNQVVTLPNIDKF VDGASVARVGDITFEIAKENVDDYVQVDEGAVCSTILDMYSKQAIVAEPAGALSVSALEN YKDHIKGKTVVCVISGGNNDINRMKEIEERSLLYEEMKHYFILNFPQRPGALREFVNDVL GPQDDITKFEYLKKSSQNTGTVIIGIQLKDHDDLIQLKQRVNHFDPSNIYINENKMLYSL LI
experiment.sample.molecule[0].mw48.002
experiment.sample.molecule[0].total_mw288.012
experiment.sample.molecule[0].number_molecules8
experiment.sample.molecule[0].complex_stateFalse
experiment.sample.molecule[0].deuterationnull
experiment.sample.molecule[0].molecule_sourcebiological
experiment.sample.molecule[0].molecule_description
experiment.sample.buffer.name20 mM KPO4, 200 mM NaCl, 0.1 mM TCEP,
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.nameHexameric L-threonine dehydratase biosynthetic (IlvA) from Staphylococcus aureus
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_namenull
experiment.contributor[0].affiliation[0].addressnull
experiment.contributor[0].affiliation[0].full_nameSt. Jude Children's Research Hospital
experiment.contributor[0].affiliation[0].webpagenull
experiment.contributor[0].contributor_nameMi-Kyung
experiment.contributor[0].contributor_surnameYun
experiment.contributor[0].orcidhttps://orcid.org/0000-0003-1213-5714
experiment.concentration_methodnull
experiment.concentration_unitnull
experiment.date2022-10-14
experiment.storage_temperature20.0
experiment.cell_temperature20.0
experiment.exposure_time0.5
experiment.number_of_frames3600
experiment.wavelength0.1033
experiment.sample_detector_distance3.663
experiment.concentration_minnull
experiment.concentration_max1.2
experiment.sample_volume300.0
experiment.flow_rate0.6
experiment.s_min0.029
experiment.s_max4.201
experiment.total_exposure_timenull
experiment.seccolumn47
fits[0].models[0].model_plothttps://www.sasbdb.org/media/pdb_file/images/SASDVE7_fit1_model1_img.png
fits[0].models[0].softwareChimera
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fits[0].models[0].bead_radiusnull
fits[0].models[0].lognull
fits[0].models[0].symmetrynull
fits[0].models[0].commentnull
fits[0].models[0].user1105
fits[0].fit_unit1/A
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fits[0].softwareFoXS
fits[0].chi_square_value1.370191
fits[0].p_value0.0
fits[0].fit_residual_plotSASDVE7_fit1_fitresiduals_img.png
fits[0].fit_datahttps://www.sasbdb.org/media/fitting_files/SASDVE7_fit1.fit
fits[0].fit_lognull
fits[0].software_versionnull
fits[0].description
estimated_volume_methodnull
pddf_softwareATSAS GNOM
pddf_software_version5.0
i0_calibration_standardnull
descriptionnull
experiment_descriptionnull
tags[]
intensity_unitarbitrary
experimental_mw320.9
experimental_mw_errornull
guinier_i0_mw320.9
guinier_i0_mw_errornull
porod_mw320.7
porod_mw_errornull
pddf_i00.01009
pddf_i0_errornull
guinier_i00.0100305
guinier_i0_errornull
pddf_rg5.19
pddf_rg_errornull
guinier_rg5.095
guinier_rg_error0.303
pddf_dmax17.1
pddf_dmax_errornull
porod_volume386.0
porod_volume_errornull
estimated_volumenull
estimated_volume_errornull
guinier_point_first11
guinier_point_last179
pddf_point_firstnull
pddf_point_lastnull
i0_calibration_standard_datanull
intensities_log_log_plotSASDVE7_datloglog_img.png
symmetrynull
last_modified2025-06-12T16:25:59.672984+02:00
bragg_peak[]
manifest.json：34 field values
Field pathRaw value
codeSASDVE7
statussuccess
started_at2026-08-11T15:28:26.854084+00:00
finished_at2026-08-11T15:28:35.815080+00:00
source_last_modified2025-06-12T16:25:59.672984+02:00
files[0].statusdownloaded
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View the complete summary.json source
{
  "code": "SASDVE7",
  "status": "Published",
  "type_of_curve": "SEC-SAS",
  "angular_unit": "1/A",
  "project": {
    "title": "Isoleucine Binding and Regulation of Escherichia coli and Staphylococcus aureus Threonine Dehydratase (IlvA).",
    "publication": {
      "title": "Isoleucine Binding and Regulation of Escherichia coli and Staphylococcus aureus Threonine Dehydratase (IlvA).",
      "author_list": "Yun MK, Subramanian C, Miller K, Jackson P, Radka CD, Rock CO",
      "journal": "Biochemistry",
      "doi": "10.1021/acs.biochem.5c00168",
      "pmid": "40494512",
      "published_date": "2025 Jun 10"
    },
    "status": "released",
    "submitted_date": "2024-09-16",
    "released_date": "2025-06-12"
  },
  "pddf_data": "https://www.sasbdb.org/media/p_of_R_files/SASDVE7.out",
  "intensities_data": "https://www.sasbdb.org/media/intensities_files/SASDVE7.dat",
  "intensities_log_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDVE7_dat_img.png",
  "intensities_kratky_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDVE7_kratky_img.png",
  "pddf_plot": "https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDVE7_pofr_img.png",
  "intensities_guinier_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDVE7_guinier_img.png",
  "sascif_data": "https://www.sasbdb.org/media/sascif/sascif_files/SASDVE7.sascif",
  "experiment": {
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      "detector": {
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        "name": "Eiger2 XE 9M",
        "resolution": 72.0
      },
      "name": "Advanced Photon Source (APS), Argonne National Laboratory",
      "city": "Lemont, IL",
      "country": "USA",
      "beamline_name": "BioCAT 18ID",
      "beam_geometry": null,
      "type_of_source": "X-ray synchrotron",
      "point_source": null,
      "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": "L-threonine dehydratase biosynthetic IlvA",
          "short_name": "SaIlvA",
          "sequence": "MTVKTTVSTKDIDEAFLRLKDIVKETPLQLDHYLSQKYDCKVYLKREDLQWVRSFKLRGAYNAISVLSDEAKSKGITCASAGNHAQGVAYTAKKLNLNAVIFMPVTTPLQKVNQVKFFGNSNVEVVLTGDTFDHCLAEALTYTSEHQMNFIDPFNNVHTISGQGTLAKEMLEQAKSDNVNFDYLFAAIGGGGLISGISTYFKTYSPTTKIIGVEPSGASSMYESVVVNNQVVTLPNIDKFVDGASVARVGDITFEIAKENVDDYVQVDEGAVCSTILDMYSKQAIVAEPAGALSVSALENYKDHIKGKTVVCVISGGNNDINRMKEIEERSLLYEEMKHYFILNFPQRPGALREFVNDVLGPQDDITKFEYLKKSSQNTGTVIIGIQLKDHDDLIQLKQRVNHFDPSNIYINENKMLYSLLILEHHHHHH",
          "organism": "Staphylococcus aureus (strain USA300)",
          "uniprot_code": "Q2FF63",
          "uniprot_range_first": 336,
          "uniprot_range_last": 422,
          "oligomerization": "hexamer",
          "molecular_type": "protein",
          "uniprot_sequence": "MTVKTTVSTKDIDEAFLRLKDIVKETPLQLDHYLSQKYDCKVYLKREDLQWVRSFKLRGA\nYNAISVLSDEAKSKGITCASAGNHAQGVAYTAKKLNLNAVIFMPVTTPLQKVNQVKFFGN\nSNVEVVLTGDTFDHCLAEALTYTSEHQMNFIDPFNNVHTISGQGTLAKEMLEQAKSDNVN\nFDYLFAAIGGGGLISGISTYFKTYSPTTKIIGVEPSGASSMYESVVVNNQVVTLPNIDKF\nVDGASVARVGDITFEIAKENVDDYVQVDEGAVCSTILDMYSKQAIVAEPAGALSVSALEN\nYKDHIKGKTVVCVISGGNNDINRMKEIEERSLLYEEMKHYFILNFPQRPGALREFVNDVL\nGPQDDITKFEYLKKSSQNTGTVIIGIQLKDHDDLIQLKQRVNHFDPSNIYINENKMLYSL\nLI",
          "mw": 48.002,
          "total_mw": 288.012,
          "number_molecules": 8,
          "complex_state": false,
          "deuteration": null,
          "molecule_source": "biological",
          "molecule_description": ""
        }
      ],
      "buffer": {
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        "concentration_unit": null,
        "comment": null,
        "additive": null,
        "concentration": null,
        "pka": null,
        "ph": 7.5,
        "deuteration": null
      },
      "purity_method": null,
      "name": "Hexameric L-threonine dehydratase biosynthetic (IlvA) from Staphylococcus aureus",
      "ext_coefficient": null,
      "contrast": null,
      "specific_vol": null,
      "dry_vol": null,
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View the complete manifest.json source
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