SASDVM2

Ternary complex consisted of Human Neutrophil elastase tetramer and S.aureus Protein map Eap4-domain-4 (Δ347-476Δ) (Complex: NE/Eap4/NE)

Data type: SASBDB experimental data Status: Published Curve type: SEC-SAS Last updated: 2024-10-07T14:58:22.659398+02:00
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1. Samples, Components and Experimental Conditions Sample & Experiment

Sample 1 · Ternary complex consisted of Human Neutrophil elastase tetramer and S.aureus Protein map Eap4-domain-4 (Δ347-476Δ) (Complex: NE/Eap4/NE)

Concentration— – 5.0 Buffer / pH20 mM HEPES, 140 mM NaCl / 7.4
Experimental temperature20.0 Facility / beamlineAdvanced Light Source (ALS) / 12.3.1 (SIBYLS)
Wavelength0.1127 nmExposure2.0 s × 660

Molecular Components

ComponentType / organismUniProt and ConstructOligomeric StateMolecular weight
Neutrophil elastase
View sequence
IVGGRRARPHAWPFMVSLQLRGGHFCGATLIAPNFVMSAAHCVANVNVRAVRVVLGAHNLSRREPTRQVFAVQRIFENGYDPVNLLNDIVILQLNGSATINANVQVAQLPAQGRRLGNGVQCLAMGWGLLGRNRGIASVLQELNVTVVTSLCRRSNVCTLVRGRQAGVCFGDSGSPLVCNGLIHGIASFVRGGCASGLYPDAFAPVAQFVNWIDSIIQ
proteinHomo sapiensP0824631–249tetramerMolecule count 423.295 kDa
Protein map
View sequence
GSTRYVPYTIAVNGTSTPILSKLKISNKQLISYKYLNDKVKSVLKSERGISDLDLKFAKQAKYTVYFKNGKKQVVNLKSDIFTPNLFSAKDIKKIDIDVKQYTKSK
proteinStaphylococcus aureus (strain Mu50 / ATCC 700699)Q99QS1374–476dimerMolecule count 212.056 kDa

Experimental Curves

CurvePoints / columnsq rangeUncertainty qualityNegative-intensity pointsSource file
1912[3]0.011402–0.472902 1/AHas uncertainty columnMissing 067sasbdb/entries/m2/sasdvm2/source/SASDVM2.dat
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2. Measurements Reported by SASBDB Reported Results

MetricMethodValueUncertaintyUnit
dmaxP(r)11.0—Å
i0Guinier81.8999—arbitrary
i0P(r)82.02—arbitrary
mwExperimental111.4—kDa
mwPorod96.0—kDa
porod_volumePorod163.0—ų
rgGuinier3.6820.241Å
rgP(r)3.67—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 HEPES, 140 mM NaClBuffer concentration—
pH7.4Additives—
Buffer description—
Purity measurement method—Extinction coefficient—
Absorbance—Scattering contrast—
Specific volume / dry volume— / —Mixture / deuteration— / —

Acquisition Conditions and Instrument

Measurement date2023-06-26Storage / measurement temperature4.0 / 20.0
Exposure time2.0Frames660
Wavelength0.1127Sample-to-detector distance2.1
SourceX-ray synchrotronDetectorPilatus3 X 2M
Facility / beamlineAdvanced Light Source (ALS) / 12.3.1 (SIBYLS) · Berkeley, CA, USA
q range0.114 – 4.729Sample volume / flow rate60.0 / 0.65

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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pddfsasbdb/entries/m2/sasdvm2/source/SASDVM2.outdownloaded813850b36a21dcbd62d041f5402b3cbf2808f16ceafd3294ff451e9c0744a7793d684DownloadView source fileSource site
sascifsasbdb/entries/m2/sasdvm2/source/SASDVM2.sascifnot_available——DownloadView source fileSource site
summarysasbdb/entries/m2/sasdvm2/source/summary.jsondownloaded8007696c1c1a3963e4fee4a1629acc21bccb083cdf6ca848ac679d53eaa994e3ed8fDownloadView source fileSource site
curve:source record
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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:173 field values
Field pathRaw value
codeSASDVM2
statusPublished
type_of_curveSEC-SAS
angular_unit1/A
project.titleS. aureus Eap is a polyvalent inhibitor of neutrophil serine proteases.
project.publication.titleS. aureus Eap is a polyvalent inhibitor of neutrophil serine proteases.
project.publication.author_listMishra N, Gido CD, Herdendorf TJ, Hammel M, Hura GL, Fu ZQ, Geisbrecht BV
project.publication.journalJ Biol Chem
project.publication.doi10.1016/j.jbc.2024.107627
project.publication.pmid39098536
project.publication.published_date2024 Aug 3
project.statusreleased
project.submitted_date2024-06-17
project.released_date2024-07-22
pddf_datahttps://www.sasbdb.org/media/p_of_R_files/SASDVM2.out
intensities_datahttps://www.sasbdb.org/media/intensities_files/SASDVM2.dat
intensities_log_plothttps://www.sasbdb.org/media/intensities_files/scattering_plots/SASDVM2_dat_img.png
intensities_kratky_plothttps://www.sasbdb.org/media/intensities_files/scattering_plots/SASDVM2_kratky_img.png
pddf_plothttps://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDVM2_pofr_img.png
intensities_guinier_plothttps://www.sasbdb.org/media/intensities_files/scattering_plots/SASDVM2_guinier_img.png
sascif_datahttps://www.sasbdb.org/media/sascif/sascif_files/SASDVM2.sascif
experiment.instrument.detector.typenull
experiment.instrument.detector.namePilatus3 X 2M
experiment.instrument.detector.resolution172.0
experiment.instrument.nameAdvanced Light Source (ALS)
experiment.instrument.cityBerkeley, CA
experiment.instrument.countryUSA
experiment.instrument.beamline_name12.3.1 (SIBYLS)
experiment.instrument.beam_geometry
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_nameNeutrophil elastase
experiment.sample.molecule[0].short_nameNE
experiment.sample.molecule[0].sequenceIVGGRRARPHAWPFMVSLQLRGGHFCGATLIAPNFVMSAAHCVANVNVRAVRVVLGAHNLSRREPTRQVFAVQRIFENGYDPVNLLNDIVILQLNGSATINANVQVAQLPAQGRRLGNGVQCLAMGWGLLGRNRGIASVLQELNVTVVTSLCRRSNVCTLVRGRQAGVCFGDSGSPLVCNGLIHGIASFVRGGCASGLYPDAFAPVAQFVNWIDSIIQ
experiment.sample.molecule[0].organismHomo sapiens
experiment.sample.molecule[0].uniprot_codeP08246
experiment.sample.molecule[0].uniprot_range_first31
experiment.sample.molecule[0].uniprot_range_last249
experiment.sample.molecule[0].oligomerizationtetramer
experiment.sample.molecule[0].molecular_typeprotein
experiment.sample.molecule[0].uniprot_sequenceMTLGRRLACLFLACVLPALLLGGTALASEIVGGRRARPHAWPFMVSLQLRGGHFCGATLI APNFVMSAAHCVANVNVRAVRVVLGAHNLSRREPTRQVFAVQRIFENGYDPVNLLNDIVI LQLNGSATINANVQVAQLPAQGRRLGNGVQCLAMGWGLLGRNRGIASVLQELNVTVVTSL CRRSNVCTLVRGRQAGVCFGDSGSPLVCNGLIHGIASFVRGGCASGLYPDAFAPVAQFVN WIDSIIQRSEDNPCPHPRDPDPASRTH
experiment.sample.molecule[0].mw23.295
experiment.sample.molecule[0].total_mw93.18
experiment.sample.molecule[0].number_molecules4
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.molecule[1].long_nameProtein map
experiment.sample.molecule[1].short_nameEap4
experiment.sample.molecule[1].sequenceGSTRYVPYTIAVNGTSTPILSKLKISNKQLISYKYLNDKVKSVLKSERGISDLDLKFAKQAKYTVYFKNGKKQVVNLKSDIFTPNLFSAKDIKKIDIDVKQYTKSK
experiment.sample.molecule[1].organismStaphylococcus aureus (strain Mu50 / ATCC 700699)
experiment.sample.molecule[1].uniprot_codeQ99QS1
experiment.sample.molecule[1].uniprot_range_first374
experiment.sample.molecule[1].uniprot_range_last476
experiment.sample.molecule[1].oligomerizationdimer
experiment.sample.molecule[1].molecular_typeprotein
experiment.sample.molecule[1].uniprot_sequenceMKFKSLITTTLALGVIASTGANFNTNEASAAAKPLDKSSSTLHHGHSNIQIPYTITVNGT SQNILSSLTFNKNQNISYKDIENKVKSVLYFNRGISDIDLRLSKQAEYTVHFKNGTKRVI DLKSGIYTADLINTSDIKAISVNVDTKKQPKDKAKANVQVPYTITVNGTSQNILSNLTFN KNQNISYKDLEGKVKSVLESNRGITDVDLRLSKQAKYTVNFKNGTKKVIDLKSGIYTANL INSSDIKSININVDTKKHIENKAKRNYQVPYSINLNGTSTNILSNLSFSNKPWTNYKNLT SQIKSVLKHDRGISEQDLKYAKKAYYTVYFKNGGKRILQLNSKNYTANLVHAKDVKRIEI TVKTGTKAKADRYVPYTIAVNGTSTPILSKLKISNKQLISYKYLNDKVKSVLKSERGISD LDLKFAKQAKYTVYFKNGKKQVVNLKSDIFTPNLFSAKDIKKIDIDVKQYTKSKKK
experiment.sample.molecule[1].mw12.056
experiment.sample.molecule[1].total_mw24.112
experiment.sample.molecule[1].number_molecules2
experiment.sample.molecule[1].complex_stateFalse
experiment.sample.molecule[1].deuterationnull
experiment.sample.molecule[1].molecule_sourcebiological
experiment.sample.molecule[1].molecule_descriptionEap domain 4 of Protein Map
experiment.sample.buffer.name20 mM HEPES, 140 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.ph7.4
experiment.sample.buffer.deuterationnull
experiment.sample.purity_methodnull
experiment.sample.nameTernary complex consisted of Human Neutrophil elastase tetramer and S.aureus Protein map Eap4-domain-4 (Δ347-476Δ) (Complex: NE/Eap4/NE)
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_nameKansas State University
experiment.contributor[0].affiliation[0].webpagenull
experiment.contributor[0].contributor_nameNitin
experiment.contributor[0].contributor_surnameMishra
experiment.contributor[0].orcidhttps://orcid.org/0000-0001-8931-7351
experiment.concentration_methodnull
experiment.concentration_unitnull
experiment.date2023-06-26
experiment.storage_temperature4.0
experiment.cell_temperature20.0
experiment.exposure_time2.0
experiment.number_of_frames660
experiment.wavelength0.1127
experiment.sample_detector_distance2.1
experiment.concentration_minnull
experiment.concentration_max5.0
experiment.sample_volume60.0
experiment.flow_rate0.65
experiment.s_min0.114
experiment.s_max4.729
experiment.total_exposure_timenull
experiment.seccolumn40
fits[0].models[0].model_plothttps://www.sasbdb.org/media/pdb_file/images/SASDVM2_fit1_model1_img.png
fits[0].models[0].softwarePhenix
fits[0].models[0].pdb_link[]
fits[0].models[0].model_titlenull
fits[0].models[0].type_of_modelatomic
fits[0].models[0].software_versionnull
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fits[0].models[0].model_mw120.8
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].user1074
fits[0].fit_unit1/A
fits[0].fit_plothttps://www.sasbdb.org/media/fitting_files/scattering_plots/SASDVM2_fit1_fixed_fit_img.png
fits[0].softwareFoXS
fits[0].chi_square_value1.410757
fits[0].p_value0.0
fits[0].fit_residual_plotSASDVM2_fit1_fitresiduals_img.png
fits[0].fit_datahttps://www.sasbdb.org/media/fitting_files/SASDVM2_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_mw111.4
experimental_mw_errornull
guinier_i0_mwnull
guinier_i0_mw_errornull
porod_mw96.0
porod_mw_errornull
pddf_i082.02
pddf_i0_errornull
guinier_i081.8999
guinier_i0_errornull
pddf_rg3.67
pddf_rg_errornull
guinier_rg3.682
guinier_rg_error0.241
pddf_dmax11.0
pddf_dmax_errornull
porod_volume163.0
porod_volume_errornull
estimated_volumenull
estimated_volume_errornull
guinier_point_first2
guinier_point_last39
pddf_point_firstnull
pddf_point_lastnull
i0_calibration_standard_datanull
intensities_log_log_plotSASDVM2_datloglog_img.png
symmetrynull
last_modified2024-10-07T14:58:22.659398+02:00
bragg_peak[]
manifest.json:34 field values
Field pathRaw value
codeSASDVM2
statussuccess
started_at2026-08-11T16:35:10.226246+00:00
finished_at2026-08-11T16:35:20.206214+00:00
source_last_modified2024-10-07T14:58:22.659398+02:00
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View the complete summary.json source
{
  "code": "SASDVM2",
  "status": "Published",
  "type_of_curve": "SEC-SAS",
  "angular_unit": "1/A",
  "project": {
    "title": "S. aureus Eap is a polyvalent inhibitor of neutrophil serine proteases.",
    "publication": {
      "title": "S. aureus Eap is a polyvalent inhibitor of neutrophil serine proteases.",
      "author_list": "Mishra N, Gido CD, Herdendorf TJ, Hammel M, Hura GL, Fu ZQ, Geisbrecht BV",
      "journal": "J Biol Chem",
      "doi": "10.1016/j.jbc.2024.107627",
      "pmid": "39098536",
      "published_date": "2024 Aug 3"
    },
    "status": "released",
    "submitted_date": "2024-06-17",
    "released_date": "2024-07-22"
  },
  "pddf_data": "https://www.sasbdb.org/media/p_of_R_files/SASDVM2.out",
  "intensities_data": "https://www.sasbdb.org/media/intensities_files/SASDVM2.dat",
  "intensities_log_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDVM2_dat_img.png",
  "intensities_kratky_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDVM2_kratky_img.png",
  "pddf_plot": "https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDVM2_pofr_img.png",
  "intensities_guinier_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDVM2_guinier_img.png",
  "sascif_data": "https://www.sasbdb.org/media/sascif/sascif_files/SASDVM2.sascif",
  "experiment": {
    "instrument": {
      "detector": {
        "type": null,
        "name": "Pilatus3 X 2M",
        "resolution": 172.0
      },
      "name": "Advanced Light Source (ALS)",
      "city": "Berkeley, CA",
      "country": "USA",
      "beamline_name": "12.3.1 (SIBYLS)",
      "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": "Neutrophil elastase",
          "short_name": "NE",
          "sequence": "IVGGRRARPHAWPFMVSLQLRGGHFCGATLIAPNFVMSAAHCVANVNVRAVRVVLGAHNLSRREPTRQVFAVQRIFENGYDPVNLLNDIVILQLNGSATINANVQVAQLPAQGRRLGNGVQCLAMGWGLLGRNRGIASVLQELNVTVVTSLCRRSNVCTLVRGRQAGVCFGDSGSPLVCNGLIHGIASFVRGGCASGLYPDAFAPVAQFVNWIDSIIQ",
          "organism": "Homo sapiens",
          "uniprot_code": "P08246",
          "uniprot_range_first": 31,
          "uniprot_range_last": 249,
          "oligomerization": "tetramer",
          "molecular_type": "protein",
          "uniprot_sequence": "MTLGRRLACLFLACVLPALLLGGTALASEIVGGRRARPHAWPFMVSLQLRGGHFCGATLI\nAPNFVMSAAHCVANVNVRAVRVVLGAHNLSRREPTRQVFAVQRIFENGYDPVNLLNDIVI\nLQLNGSATINANVQVAQLPAQGRRLGNGVQCLAMGWGLLGRNRGIASVLQELNVTVVTSL\nCRRSNVCTLVRGRQAGVCFGDSGSPLVCNGLIHGIASFVRGGCASGLYPDAFAPVAQFVN\nWIDSIIQRSEDNPCPHPRDPDPASRTH",
          "mw": 23.295,
          "total_mw": 93.18,
          "number_molecules": 4,
          "complex_state": false,
          "deuteration": null,
          "molecule_source": "biological",
          "molecule_description": ""
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View the complete manifest.json source
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