SASDX42

IgA peptidase (A31-I1166; active site mutant E540A)

Data type: SASBDB experimental data Status: Published Curve type: Single concentration Last updated: 2025-07-21T18:12:24.155654+02:00

The results obtained from EOM analysis are made available in the full entry zip archive.

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1. Samples, Components and Experimental Conditions Sample & Experiment

Sample 1 · IgA peptidase (A31-I1166; active site mutant E540A)

Concentration— – 4.0 Buffer / pH50 mM Tris, 150 mM NaCl / 8.0
Experimental temperature20.0 Facility / beamlineESRF / BM29
Wavelength0.099 nmExposure4.0 s × 250

Molecular Components

ComponentType / organismUniProt and ConstructOligomeric StateMolecular weight
IgA protease (E540A)
View sequence
MASKPDIKVGDYVKMGVYNNASILWRCVSIDNNGPLMLADKIVDTLAYDAKTNDNSNSKSHSRSYKRDDYGSNYWKDSNMRSWLNSTAAEGKVDWLCGNPPKDGYVSGVGAYNEKAGFLNAFSKSEIAAMKTVTQRSLVSHPEYNKGIVDGDANSDLLYYTDISEAVANYDSSYFETTTEKVFLLDVKQANAVWKNLKGYYVAYNNDGMAWPYWLRTPVTDCNHDMRYISSSGQVGRYAPWYSDLGVRPAFYLDSEYFVTTSGSGSQSSPYIGSAPNKQEDDYTISEPAEDANPDWNVSTEQSIQLTLGPWYSNDGKYSNPTIPVYTIQKTRSDTENMVVVVCGEGYTKSQQGKFINDVKRLWQDAMKYEPYRSYADRFNVYALCTASESTFDNGGSTFFDVIVDKYNSPVISNNLHGSQWKNHIFERCIGPEFIEKIHDAHIKKKCDPNTIPSGSEYEPYYYVHDYIAQFAMVVNTKSDFGGAYNNREYGFHYFISPSDSYRASKTFAHAFGHGLLGLGDEYSNGYLLDDKELKSLNLSSVEDPEKIKWRQLLGFRNTYTCRNAYGSKMLVSSYECIMRDTNYQFCEVCRLQGFKRMSQLVKDVDLYVATPEVKEYTGAYSKPSDFTDLETSSYYNYTYNRNDRLLSGNSKSRFNTNMNGKKIELRTVIQNISDKNARQLKFKMWIKHSDGSVATDSSGNPLQTVQTFDIPVWNDKANFWPLGALDHIKSDFNSGLKSCSLIYQIPSDAQLKSGDTVAFQVLDENGNVLADDNTETQRYTTVSIQYKFEDGSEIPNTAGGTFTVPYGTKLDLTPAKTLYDYEFIKVDGLNKPIVSDGTVVTYYYKNKNEEHTHNLTLVAAKAATCTTAGNSAYYTCDGCDKWFADATGSVEITDKTSVKIPAPGHTAGTEWKSDDTNHWHECTVAGCGVIIESTKSAHTAGEWIVDTPATATTAGTKHKECTVCHRVLETQPIPSTGTELKIIAGDNQIYNKASGSDVTITCNGDFAKFTGIKVDGSVVDSSNYTAVSGSTVLTLKASYLGTLTDGSHTITFVYTDGEANANLTVRTAGSGHIHDYGTEWKSNADNHWHECNCGDKKDEAAHSFKWVVDKEATATKKGSKHEECKICGYKRSAVEILEHHHHHH
proteinThomasclavelia ramosaQ9AES231–1166monomerMolecule count 1127.857 kDa

Experimental Curves

CurvePoints / columnsq rangeUncertainty qualityNegative-intensity pointsSource file
11000[3]0.06285053–5.209716 1/nmHas uncertainty columnMissing 016sasbdb/entries/42/sasdx42/source/SASDX42.dat
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2. Measurements Reported by SASBDB Reported Results

MetricMethodValueUncertaintyUnit
dmaxP(r)27.9—nm
i0Guinier70.169—arbitrary
i0P(r)72.97—arbitrary
mwExperimental118.8—kDa
mwPorod119.0—kDa
porod_volumePorod190.0—nm³
rgGuinier5.650.035nm
rgP(r)6.433—nm

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 name50 mM Tris, 150 mM NaClBuffer concentration—
pH8.0Additives—
Buffer description—
Purity measurement method—Extinction coefficient—
Absorbance—Scattering contrast—
Specific volume / dry volume— / —Mixture / deuteration— / —

Acquisition Conditions and Instrument

Measurement date2023-05-23Storage / measurement temperature4.0 / 20.0
Exposure time4.0Frames250
Wavelength0.099Sample-to-detector distance2.867
SourceX-ray synchrotronDetectorPilatus3 2M
Facility / beamlineESRF / BM29 · Grenoble, France
q range0.063 – 5.21Sample 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

CategoryFileStatusSizeChecksumDownload and View
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full_entry_zipsasbdb/entries/42/sasdx42/source/SASDX42.zipdownloaded1656403b32a8840f5c57b0c830d54a7b467431ed352e02f4f532f6a6ac2154bacb25a7fDownloadView source fileSource site
pddfsasbdb/entries/42/sasdx42/source/SASDX42.outdownloaded479905159354e8b0983717278d4cafc2c644bf9177eb98fc021a80265b38507493792DownloadView source fileSource site
sascifsasbdb/entries/42/sasdx42/source/SASDX42.sascifnot_available——DownloadView source fileSource site
summarysasbdb/entries/42/sasdx42/source/summary.jsondownloaded1191468cea969ccc2a8e1133cf44daecde3dcc782066fda8beeb75c7ac6ca6d9675d2DownloadView source fileSource site
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full_entry_zip:source record and ZIP contents (11 items)
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pddf:source record
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sascif: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:208 field values
Field pathRaw value
codeSASDX42
statusPublished
type_of_curveSingle concentration
angular_unit1/nm
project.titleBiochemical and structural characterization of the human gut microbiome metallopeptidase IgAse provides insight into its unique specificity for the Fab' region of IgA1 and IgA2.
project.publication.titleBiochemical and structural characterization of the human gut microbiome metallopeptidase IgAse provides insight into its unique specificity for the Fab' region of IgA1 and IgA2.
project.publication.author_listRamírez-Larrota JS, Juyoux P, Guerra P, Eckhard U, Gomis-Rüth FX
project.publication.journalPLoS Pathog
project.publication.doi10.1371/journal.ppat.1013292
project.publication.pmid40627637
project.publication.published_date2025 Jul
project.statusreleased
project.submitted_date2025-02-27
project.released_date2025-06-18
pddf_datahttps://www.sasbdb.org/media/p_of_R_files/SASDX42.out
intensities_datahttps://www.sasbdb.org/media/intensities_files/SASDX42.dat
intensities_log_plothttps://www.sasbdb.org/media/intensities_files/scattering_plots/SASDX42_dat_img.png
intensities_kratky_plothttps://www.sasbdb.org/media/intensities_files/scattering_plots/SASDX42_kratky_img.png
pddf_plothttps://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDX42_pofr_img.png
intensities_guinier_plothttps://www.sasbdb.org/media/intensities_files/scattering_plots/SASDX42_guinier_img.png
sascif_datahttps://www.sasbdb.org/media/sascif/sascif_files/SASDX42.sascif
experiment.instrument.detector.typenull
experiment.instrument.detector.namePilatus3 2M
experiment.instrument.detector.resolution0.172
experiment.instrument.nameESRF
experiment.instrument.cityGrenoble
experiment.instrument.countryFrance
experiment.instrument.beamline_nameBM29
experiment.instrument.beam_geometrypoint
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_nameIgA protease (E540A)
experiment.sample.molecule[0].short_nameIgAse
experiment.sample.molecule[0].sequenceMASKPDIKVGDYVKMGVYNNASILWRCVSIDNNGPLMLADKIVDTLAYDAKTNDNSNSKSHSRSYKRDDY GSNYWKDSNMRSWLNSTAAEGKVDWLCGNPPKDGYVSGVGAYNEKAGFLNAFSKSEIAAMKTVTQRSLVS HPEYNKGIVDGDANSDLLYYTDISEAVANYDSSYFETTTEKVFLLDVKQANAVWKNLKGYYVAYNNDGMA WPYWLRTPVTDCNHDMRYISSSGQVGRYAPWYSDLGVRPAFYLDSEYFVTTSGSGSQSSPYIGSAPNKQE DDYTISEPAEDANPDWNVSTEQSIQLTLGPWYSNDGKYSNPTIPVYTIQKTRSDTENMVVVVCGEGYTKS QQGKFINDVKRLWQDAMKYEPYRSYADRFNVYALCTASESTFDNGGSTFFDVIVDKYNSPVISNNLHGSQ WKNHIFERCIGPEFIEKIHDAHIKKKCDPNTIPSGSEYEPYYYVHDYIAQFAMVVNTKSDFGGAYNNREY GFHYFISPSDSYRASKTFAHAFGHGLLGLGDEYSNGYLLDDKELKSLNLSSVEDPEKIKWRQLLGFRNTY TCRNAYGSKMLVSSYECIMRDTNYQFCEVCRLQGFKRMSQLVKDVDLYVATPEVKEYTGAYSKPSDFTDL ETSSYYNYTYNRNDRLLSGNSKSRFNTNMNGKKIELRTVIQNISDKNARQLKFKMWIKHSDGSVATDSSG NPLQTVQTFDIPVWNDKANFWPLGALDHIKSDFNSGLKSCSLIYQIPSDAQLKSGDTVAFQVLDENGNVL ADDNTETQRYTTVSIQYKFEDGSEIPNTAGGTFTVPYGTKLDLTPAKTLYDYEFIKVDGLNKPIVSDGTV VTYYYKNKNEEHTHNLTLVAAKAATCTTAGNSAYYTCDGCDKWFADATGSVEITDKTSVKIPAPGHTAGT EWKSDDTNHWHECTVAGCGVIIESTKSAHTAGEWIVDTPATATTAGTKHKECTVCHRVLETQPIPSTGTE LKIIAGDNQIYNKASGSDVTITCNGDFAKFTGIKVDGSVVDSSNYTAVSGSTVLTLKASYLGTLTDGSHT ITFVYTDGEANANLTVRTAGSGHIHDYGTEWKSNADNHWHECNCGDKKDEAAHSFKWVVDKEATATKKGS KHEECKICGYKRSAVEILEHHHHHH
experiment.sample.molecule[0].organismThomasclavelia ramosa
experiment.sample.molecule[0].uniprot_codeQ9AES2
experiment.sample.molecule[0].uniprot_range_first31
experiment.sample.molecule[0].uniprot_range_last1166
experiment.sample.molecule[0].oligomerizationmonomer
experiment.sample.molecule[0].molecular_typeprotein
experiment.sample.molecule[0].uniprot_sequenceMTKKLMTKKITAIFLALYMAISVLPMTIQAASKPDIKVGDYVKMGVYNNASILWRCVSID NNGPLMLADKIVDTLAYDAKTNDNSNSKSHSRSYKRDDYGSNYWKDSNMRSWLNSTAAEG KVDWLCGNPPKDGYVSGVGAYNEKAGFLNAFSKSEIAAMKTVTQRSLVSHPEYNKGIVDG DANSDLLYYTDISEAVANYDSSYFETTTEKVFLLDVKQANAVWKNLKGYYVAYNNDGMAW PYWLRTPVTDCNHDMRYISSSGQVGRYAPWYSDLGVRPAFYLDSEYFVTTSGSGSQSSPY IGSAPNKQEDDYTISEPAEDANPDWNVSTEQSIQLTLGPWYSNDGKYSNPTIPVYTIQKT RSDTENMVVVVCGEGYTKSQQGKFINDVKRLWQDAMKYEPYRSYADRFNVYALCTASEST FDNGGSTFFDVIVDKYNSPVISNNLHGSQWKNHIFERCIGPEFIEKIHDAHIKKKCDPNT IPSGSEYEPYYYVHDYIAQFAMVVNTKSDFGGAYNNREYGFHYFISPSDSYRASKTFAHE FGHGLLGLGDEYSNGYLLDDKELKSLNLSSVEDPEKIKWRQLLGFRNTYTCRNAYGSKML VSSYECIMRDTNYQFCEVCRLQGFKRMSQLVKDVDLYVATPEVKEYTGAYSKPSDFTDLE TSSYYNYTYNRNDRLLSGNSKSRFNTNMNGKKIELRTVIQNISDKNARQLKFKMWIKHSD GSVATDSSGNPLQTVQTFDIPVWNDKANFWPLGALDHIKSDFNSGLKSCSLIYQIPSDAQ LKSGDTVAFQVLDENGNVLADDNTETQRYTTVSIQYKFEDGSEIPNTAGGTFTVPYGTKL DLTPAKTLYDYEFIKVDGLNKPIVSDGTVVTYYYKNKNEEHTHNLTLVAAKAATCTTAGN SAYYTCDGCDKWFADATGSVEITDKTSVKIPAPGHTAGTEWKSDDTNHWHECTVAGCGVI IESTKSAHTAGEWIVDTPATATTAGTKHKECTVCHRVLETQPIPSTGTELKIIAGDNQIY NKASGSDVTITCNGDFAKFTGIKVDGSVVDSSNYTAVSGSTVLTLKASYLGTLTDGSHTI TFVYTDGEANANLTVRTAGSGHIHDYGTEWKSNADNHWHECNCGDKKDEAAHSFKWVVDK EATATKKGSKHEECKICGYKRSAVEIPATGTSTAPTDTTKPNDTTKPGNTNGSEKSPQTG DNSNIFLWFALLFVSAAGVTGITAYNKKKKEHAE
experiment.sample.molecule[0].mw127.857
experiment.sample.molecule[0].total_mw127.857
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_descriptionThe protein construct used for SAXS contains an additional C-terminal polyhistidine tag (LEHHHHHH).
experiment.sample.buffer.name50 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.ph8.0
experiment.sample.buffer.deuterationnull
experiment.sample.purity_methodnull
experiment.sample.nameIgA peptidase (A31-I1166; active site mutant E540A)
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_nameMolecular Biology Institute of Barcelona
experiment.contributor[0].affiliation[0].webpagenull
experiment.contributor[0].contributor_nameJuan Sebastián
experiment.contributor[0].contributor_surnameRamírez Larrota
experiment.contributor[0].orcid
experiment.concentration_methodnull
experiment.concentration_unitnull
experiment.date2023-05-23
experiment.storage_temperature4.0
experiment.cell_temperature20.0
experiment.exposure_time4.0
experiment.number_of_frames250
experiment.wavelength0.099
experiment.sample_detector_distance2.867
experiment.concentration_minnull
experiment.concentration_max4.0
experiment.sample_volumenull
experiment.flow_ratenull
experiment.s_min0.063
experiment.s_max5.21
experiment.total_exposure_timenull
experiment.seccolumnnull
fits[0].models[0].model_plothttps://www.sasbdb.org/media/pdb_file/images/SASDX42_fit1_model1_img.png
fits[0].models[0].softwareEOM/RANCH
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_mwnull
fits[0].models[0].bead_radius1.9
fits[0].models[0].lognull
fits[0].models[0].symmetrynull
fits[0].models[0].comment0.44 volume fraction
fits[0].models[0].user1196
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fits[0].models[1].software_versionnull
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fits[0].models[1].model_mwnull
fits[0].models[1].bead_radius1.9
fits[0].models[1].lognull
fits[0].models[1].symmetrynull
fits[0].models[1].comment0.11 volume fraction
fits[0].models[1].user1196
fits[0].models[2].model_plothttps://www.sasbdb.org/media/pdb_file/images/SASDX42_fit1_model3_img.png
fits[0].models[2].softwareEOM/RANCH
fits[0].models[2].pdb_link[]
fits[0].models[2].model_titlenull
fits[0].models[2].type_of_modelatomic
fits[0].models[2].software_versionnull
fits[0].models[2].model_datahttps://www.sasbdb.org/media/pdb_file/SASDX42_fit1_model3.cif
fits[0].models[2].model_mwnull
fits[0].models[2].bead_radius1.9
fits[0].models[2].lognull
fits[0].models[2].symmetrynull
fits[0].models[2].comment0.11 volume fraction
fits[0].models[2].user1196
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fits[0].models[3].softwareEOM/RANCH
fits[0].models[3].pdb_link[]
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fits[0].models[3].software_versionnull
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fits[0].models[3].model_mwnull
fits[0].models[3].bead_radius1.9
fits[0].models[3].lognull
fits[0].models[3].symmetrynull
fits[0].models[3].comment0.22 volume fraction
fits[0].models[3].user1196
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fits[0].models[4].softwareEOM/RANCH
fits[0].models[4].pdb_link[]
fits[0].models[4].model_titlenull
fits[0].models[4].type_of_modelatomic
fits[0].models[4].software_versionnull
fits[0].models[4].model_datahttps://www.sasbdb.org/media/pdb_file/SASDX42_fit1_model5.cif
fits[0].models[4].model_mwnull
fits[0].models[4].bead_radius1.9
fits[0].models[4].lognull
fits[0].models[4].symmetrynull
fits[0].models[4].comment0.11 volume fraction
fits[0].models[4].user1196
fits[0].fit_unit1/A
fits[0].fit_plothttps://www.sasbdb.org/media/fitting_files/scattering_plots/SASDX42_fit1_fixed_fit_img.png
fits[0].softwareEOM/GAJOE
fits[0].chi_square_value1.541
fits[0].p_value0.0139
fits[0].fit_residual_plotSASDX42_fit1_fitresiduals_img.png
fits[0].fit_datahttps://www.sasbdb.org/media/fitting_files/SASDX42_fit1.fit
fits[0].fit_loghttps://www.sasbdb.org/media/fitting_files/log_files/logFile_001_1_9MVb3vS.log
fits[0].software_version2.1
fits[0].description
estimated_volume_methodnull
pddf_softwareATSAS GNOM
pddf_software_version5.0
i0_calibration_standardnull
descriptionThe results obtained from EOM analysis are made available in the full entry zip archive.
experiment_descriptionSynchrotron SAXS data from solutions of IgA peptidase in 50 mM Tris, 150 mM NaCl, pH 8 were collected on the BM29 beam line at the ESRF (Grenoble, France) using a Pilatus3 2M detector at a sample-detector distance of 2.9 m and at a wavelength of λ = 0.099 nm (I(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). One solute concentration of 4.00 mg/ml was measured at 20°C. 250 successive 4 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[]
intensity_unitarbitrary
experimental_mw118.8
experimental_mw_errornull
guinier_i0_mwnull
guinier_i0_mw_errornull
porod_mw119.0
porod_mw_errornull
pddf_i072.97
pddf_i0_errornull
guinier_i070.169
guinier_i0_errornull
pddf_rg6.433
pddf_rg_errornull
guinier_rg5.65
guinier_rg_error0.035
pddf_dmax27.9
pddf_dmax_errornull
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bragg_peak[]
manifest.json:34 field values
Field pathRaw value
codeSASDX42
statussuccess
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View the complete summary.json source
{
  "code": "SASDX42",
  "status": "Published",
  "type_of_curve": "Single concentration",
  "angular_unit": "1/nm",
  "project": {
    "title": "Biochemical and structural characterization of the human gut microbiome metallopeptidase IgAse provides insight into its unique specificity for the Fab' region of IgA1 and IgA2.",
    "publication": {
      "title": "Biochemical and structural characterization of the human gut microbiome metallopeptidase IgAse provides insight into its unique specificity for the Fab' region of IgA1 and IgA2.",
      "author_list": "Ramírez-Larrota JS, Juyoux P, Guerra P, Eckhard U, Gomis-Rüth FX",
      "journal": "PLoS Pathog",
      "doi": "10.1371/journal.ppat.1013292",
      "pmid": "40627637",
      "published_date": "2025 Jul"
    },
    "status": "released",
    "submitted_date": "2025-02-27",
    "released_date": "2025-06-18"
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            "address": null,
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View the complete manifest.json source
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