SASDVH2

Staphylococcal extracellular adherence protein (Eap) bound to human neutrophil elastase

Data type: SASBDB experimental data Status: Published Curve type: SEC-SAS Last updated: 2024-10-07T14:58:23.437373+02:00
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1. Samples, Components and Experimental Conditions Sample & Experiment

Sample 1 · Staphylococcal extracellular adherence protein (Eap) bound to human neutrophil elastase

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
Protein map
View sequence
AAKPLDKSSSTLHHGHSNIQIPYTITVNGTSQNILSSLTFNKNQNISYKDIENKVKSVLYFNRGISDIDLRLSKQAEYTVHFKNGTKRVIDLKSGIYTADLINTSDIKAISVNVDTKKQPKDKAKANVQVPYTITVNGTSQNILSNLTFNKNQNISYKDLEGKVKSVLESNRGITDVDLRLSKQAKYTVNFKNGTKKVIDLKSGIYTANLINSSDIKSININVDTKKHIENKAKRNYQVPYSINLNGTSTNILSNLSFSNKPWTNYKNLTSQIKSVLKHDRGISEQDLKYAKKAYYTVYFKNGGKRILQLNSKNYTANLVHAKDVKRIEITVKTGTKAKADRYVPYTIAVNGTSTPILSKLKISNKQLISYKYLNDKVKSVLKSERGISDLDLKFAKQAKYTVYFKNGKKQVVNLKSDIFTPNLFSAKDIKKIDIDVKQYTKSKKK
proteinStaphylococcus aureus (strain Mu50 / ATCC 700699)Q99QS132–478monomerMolecule count 150.322 kDa
Neutrophil elastase
View sequence
IVGGRRARPHAWPFMVSLQLRGGHFCGATLIAPNFVMSAAHCVANVNVRAVRVVLGAHNLSRREPTRQVFAVQRIFENGYDPVNLLNDIVILQLNGSATINANVQVAQLPAQGRRLGNGVQCLAMGWGLLGRNRGIASVLQELNVTVVTSLCRRSNVCTLVRGRQAGVCFGDSGSPLVCNGLIHGIASFVRGGCASGLYPDAFAPVAQFVNWIDSIIQ
proteinHomo sapiensP0824631–249tetramerMolecule count 423.295 kDa

Experimental Curves

CurvePoints / columnsq rangeUncertainty qualityNegative-intensity pointsSource file
1869[3]0.010389–0.450121 1/AHas uncertainty columnMissing 0164sasbdb/entries/h2/sasdvh2/source/SASDVH2.dat
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2. Measurements Reported by SASBDB Reported Results

MetricMethodValueUncertaintyUnit
dmaxP(r)10.57—Å
i0Guinier15.1681—arbitrary
i0P(r)14.09—arbitrary
mwExperimental103.4—kDa
mwPorod110.0—kDa
porod_volumePorod152.0—ų
rgGuinier4.1242.306Å
rgP(r)3.85—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 date2023-12-06Storage / 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 range0.104 – 4.501Sample 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/h2/sasdvh2/source/SASDVH2.outdownloaded3787868650d907648cf4bf46584c6041c1cfd9a1b8849ef665516ebd6713f774db399DownloadView source fileSource site
sascifsasbdb/entries/h2/sasdvh2/source/SASDVH2.sascifnot_available——DownloadView source fileSource site
summarysasbdb/entries/h2/sasdvh2/source/summary.jsondownloaded1197307b810f87ef3a8ae666793fa58fec6cb1d0750d9a371fa98877ea80db0470bb0DownloadView source fileSource site
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full_entry_zip:source record and ZIP contents (11 items)
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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:258 field values
Field pathRaw value
codeSASDVH2
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/SASDVH2.out
intensities_datahttps://www.sasbdb.org/media/intensities_files/SASDVH2.dat
intensities_log_plothttps://www.sasbdb.org/media/intensities_files/scattering_plots/SASDVH2_dat_img.png
intensities_kratky_plothttps://www.sasbdb.org/media/intensities_files/scattering_plots/SASDVH2_kratky_img.png
pddf_plothttps://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDVH2_pofr_img.png
intensities_guinier_plothttps://www.sasbdb.org/media/intensities_files/scattering_plots/SASDVH2_guinier_img.png
sascif_datahttps://www.sasbdb.org/media/sascif/sascif_files/SASDVH2.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_nameProtein map
experiment.sample.molecule[0].short_nameEap
experiment.sample.molecule[0].sequenceAAKPLDKSSSTLHHGHSNIQIPYTITVNGTSQNILSSLTFNKNQNISYKDIENKVKSVLYFNRGISDIDLRLSKQAEYTVHFKNGTKRVIDLKSGIYTADLINTSDIKAISVNVDTKKQPKDKAKANVQVPYTITVNGTSQNILSNLTFNKNQNISYKDLEGKVKSVLESNRGITDVDLRLSKQAKYTVNFKNGTKKVIDLKSGIYTANLINSSDIKSININVDTKKHIENKAKRNYQVPYSINLNGTSTNILSNLSFSNKPWTNYKNLTSQIKSVLKHDRGISEQDLKYAKKAYYTVYFKNGGKRILQLNSKNYTANLVHAKDVKRIEITVKTGTKAKADRYVPYTIAVNGTSTPILSKLKISNKQLISYKYLNDKVKSVLKSERGISDLDLKFAKQAKYTVYFKNGKKQVVNLKSDIFTPNLFSAKDIKKIDIDVKQYTKSKKK
experiment.sample.molecule[0].organismStaphylococcus aureus (strain Mu50 / ATCC 700699)
experiment.sample.molecule[0].uniprot_codeQ99QS1
experiment.sample.molecule[0].uniprot_range_first32
experiment.sample.molecule[0].uniprot_range_last478
experiment.sample.molecule[0].oligomerizationmonomer
experiment.sample.molecule[0].molecular_typeprotein
experiment.sample.molecule[0].uniprot_sequenceMKFKSLITTTLALGVIASTGANFNTNEASAAAKPLDKSSSTLHHGHSNIQIPYTITVNGT SQNILSSLTFNKNQNISYKDIENKVKSVLYFNRGISDIDLRLSKQAEYTVHFKNGTKRVI DLKSGIYTADLINTSDIKAISVNVDTKKQPKDKAKANVQVPYTITVNGTSQNILSNLTFN KNQNISYKDLEGKVKSVLESNRGITDVDLRLSKQAKYTVNFKNGTKKVIDLKSGIYTANL INSSDIKSININVDTKKHIENKAKRNYQVPYSINLNGTSTNILSNLSFSNKPWTNYKNLT SQIKSVLKHDRGISEQDLKYAKKAYYTVYFKNGGKRILQLNSKNYTANLVHAKDVKRIEI TVKTGTKAKADRYVPYTIAVNGTSTPILSKLKISNKQLISYKYLNDKVKSVLKSERGISD LDLKFAKQAKYTVYFKNGKKQVVNLKSDIFTPNLFSAKDIKKIDIDVKQYTKSKKK
experiment.sample.molecule[0].mw50.322
experiment.sample.molecule[0].total_mw50.322
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_descriptionExtracellular adherence protein
experiment.sample.molecule[1].long_nameNeutrophil elastase
experiment.sample.molecule[1].short_nameNE
experiment.sample.molecule[1].sequenceIVGGRRARPHAWPFMVSLQLRGGHFCGATLIAPNFVMSAAHCVANVNVRAVRVVLGAHNLSRREPTRQVFAVQRIFENGYDPVNLLNDIVILQLNGSATINANVQVAQLPAQGRRLGNGVQCLAMGWGLLGRNRGIASVLQELNVTVVTSLCRRSNVCTLVRGRQAGVCFGDSGSPLVCNGLIHGIASFVRGGCASGLYPDAFAPVAQFVNWIDSIIQ
experiment.sample.molecule[1].organismHomo sapiens
experiment.sample.molecule[1].uniprot_codeP08246
experiment.sample.molecule[1].uniprot_range_first31
experiment.sample.molecule[1].uniprot_range_last249
experiment.sample.molecule[1].oligomerizationtetramer
experiment.sample.molecule[1].molecular_typeprotein
experiment.sample.molecule[1].uniprot_sequenceMTLGRRLACLFLACVLPALLLGGTALASEIVGGRRARPHAWPFMVSLQLRGGHFCGATLI APNFVMSAAHCVANVNVRAVRVVLGAHNLSRREPTRQVFAVQRIFENGYDPVNLLNDIVI LQLNGSATINANVQVAQLPAQGRRLGNGVQCLAMGWGLLGRNRGIASVLQELNVTVVTSL CRRSNVCTLVRGRQAGVCFGDSGSPLVCNGLIHGIASFVRGGCASGLYPDAFAPVAQFVN WIDSIIQRSEDNPCPHPRDPDPASRTH
experiment.sample.molecule[1].mw23.295
experiment.sample.molecule[1].total_mw93.18
experiment.sample.molecule[1].number_molecules4
experiment.sample.molecule[1].complex_stateFalse
experiment.sample.molecule[1].deuterationnull
experiment.sample.molecule[1].molecule_sourcebiological
experiment.sample.molecule[1].molecule_description
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.nameStaphylococcal extracellular adherence protein (Eap) bound to human neutrophil elastase
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.date2023-12-06
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_min0.104
experiment.s_max4.501
experiment.total_exposure_timenull
experiment.seccolumn18
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fits[0].models[0].model_mw143.6
fits[0].models[0].bead_radiusnull
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fits[0].models[0].symmetrynull
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fits[0].softwareFoXS
fits[0].chi_square_value0.742485
fits[0].p_value0.0535
fits[0].fit_residual_plotSASDVH2_fit1_fitfoxsresiduals_img.png
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fits[1].softwareFoXS
fits[1].chi_square_value0.660854
fits[1].p_value0.0535
fits[1].fit_residual_plotSASDVH2_fit2_fitfoxsresiduals_img.png
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fits[2].softwareFoXS
fits[2].chi_square_value0.660097
fits[2].p_value0.0535
fits[2].fit_residual_plotSASDVH2_fit3_fitfoxsresiduals_img.png
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fits[2].fit_lognull
fits[2].software_versionnull
fits[2].description
estimated_volume_methodnull
pddf_softwareATSAS GNOM
pddf_software_version5.0
i0_calibration_standardnull
descriptionnull
experiment_descriptionnull
tags[]
intensity_unitarbitrary
experimental_mw103.4
experimental_mw_errornull
guinier_i0_mwnull
guinier_i0_mw_errornull
porod_mw110.0
porod_mw_errornull
pddf_i014.09
pddf_i0_errornull
guinier_i015.1681
guinier_i0_errornull
pddf_rg3.85
pddf_rg_errornull
guinier_rg4.124
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manifest.json:34 field values
Field pathRaw value
codeSASDVH2
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View the complete summary.json source
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    "title": "S. aureus Eap is a polyvalent inhibitor of neutrophil serine proteases.",
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      "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",
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