SASDB65

Tyrosine-protein phosphatase (YopH)/putative yopH targeting protein (SycH) heterotrimeric complex

Data type: SASBDB experimental data Status: Published Curve type: Single concentration Last updated: 2023-06-21T07:56:39.492710+02:00
▼

1. Samples, Components and Experimental Conditions Sample & Experiment

Sample 1 · Tyrosine-protein phosphatase (YopH)/putative yopH targeting protein (SycH) heterotrimeric complex

Concentration— – 1.0 mg/mlBuffer / pH50 mM HEPES 2mM TCEP / 6.8
Experimental temperature20.0 Facility / beamlinePETRA III / EMBL P12
Wavelength0.12 nmExposure0.05 s × 20

Molecular Components

ComponentType / organismUniProt and ConstructOligomeric StateMolecular weight
SycH putative yopH targeting protein
View sequence
MRTYSSLLEEFATELGLEEIETNELGHGAVTIDKIWVVHLAPINEKELVAFMRAGILTGQSQLYDILRKNLFSPLSGVIRCALDKDDHWLLWSQLNINDTSGTQLASVLTSLVDKAVTLSCEPTMKKEEDDHRPSSSHLLV
proteinYersinia pseudotuberculosisI3NIC81–141dimerMolecule count 215.763 kDa
Tyrosine-protein phosphatase YopH
View sequence
MNLSLSDLHRQVSRLVQQESGDCTGKLRGNVAANKETTFQGLTIASGARESEKVFAQTVLSHVANVVLTQEDTAKLLQSTVKHNLNNYDLRSVGNGNSVLVSLRSDQMTLQDAKVLLEAALRQESGARG
proteinYersinia pseudotuberculosisP085381–129monomerMolecule count 113.95 kDa

Experimental Curves

CurvePoints / columnsq rangeUncertainty qualityNegative-intensity pointsSource file
11797[3]0.066357–4.80806 1/nmHas uncertainty columnMissing 09sasbdb/entries/65/sasdb65/source/SASDB65.dat
▼

2. Measurements Reported by SASBDB Reported Results

MetricMethodValueUncertaintyUnit
dmaxP(r)12.5—nm
i0Guinier74475.0117.0—
i0P(r)74550.0130.0—
mwExperimental52.0—kDa
mwPorod55.8—kDa
porod_volumePorod89.2—nm³
rgGuinier2.960.13nm
rgP(r)3.010.013nm

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

▼

3. Source Fits and Models Source Fits & Models

▶

4. Source File Index Source Files

▶

5. Experiment Description and Publication Experiment & Publication

▼

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 HEPES 2mM TCEPBuffer concentration50.0 mM
pH6.8Additives2mM TCEP
Buffer description—
Purity measurement method—Extinction coefficient—
Absorbance—Scattering contrast—
Specific volume / dry volume— / —Mixture / deuteration— / —

Acquisition Conditions and Instrument

Measurement date2016-08-01Storage / measurement temperature20.0 / 20.0
Exposure time0.05Frames20
Wavelength0.12Sample-to-detector distance3.1
SourceX-ray synchrotronDetectorPilatus 2M
Facility / beamlinePETRA III / EMBL P12 · DESY; Hamburg, Germany
q range0.066 – 4.808Sample 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
curvesasbdb/entries/65/sasdb65/source/SASDB65.datdownloaded8296485b2052cf15c5593e8f5425c54f5c3891ff6b12a8efeac073960e6c729074107DownloadView source fileSource site
full_entry_zipsasbdb/entries/65/sasdb65/source/SASDB65.zipdownloaded16551289cd24e03d4d8ca652a857ddc98034ec2ba90d3379a08ffd5520c78dc481032aDownloadView source fileSource site
pddfsasbdb/entries/65/sasdb65/source/SASDB65.outdownloaded11013637233c3b306939f9e2a5c29bfb6f64e6de501d9544760feef1a1d891cfdfad85DownloadView source fileSource site
sascifsasbdb/entries/65/sasdb65/source/SASDB65.sascifdownloaded582537950f946eca60fe1744a13c8039f3a11f9c03f509c756167b0377ff487c7f7bceDownloadView source fileSource site
summarysasbdb/entries/65/sasdb65/source/summary.jsondownloaded861286ee490a277f88a5f6fd831ac0fcbfb56dea9e335070490eb7a79930041fbdf8DownloadView source fileSource site
curve:source record
{
  "path": "/data/saxsdb/sasbdb/entries/65/sasdb65/source/SASDB65.dat",
  "role": "curve",
  "sha256": "85b2052cf15c5593e8f5425c54f5c3891ff6b12a8efeac073960e6c729074107",
  "size": 82964,
  "status": "downloaded",
  "url": "https://www.sasbdb.org/media/intensities_files/SASDB65.dat"
}
full_entry_zip:source record and ZIP contents (6 items)
{
  "path": "/data/saxsdb/sasbdb/entries/65/sasdb65/source/SASDB65.zip",
  "role": "full_entry_zip",
  "sha256": "89cd24e03d4d8ca652a857ddc98034ec2ba90d3379a08ffd5520c78dc481032a",
  "size": 165512,
  "status": "downloaded",
  "url": "https://www.sasbdb.org/media/zip_directories/SASDB65.zip",
  "zip_member_count": 6,
  "zip_members": [
    {
      "crc32": "58cbe66f",
      "name": "SASDB65/experimental_data/SASDB65.dat",
      "size": 82964
    },
    {
      "crc32": "373b27e1",
      "name": "SASDB65/pddf/SASDB65.out",
      "size": 110136
    },
    {
      "crc32": "b06cdc2d",
      "name": "SASDB65/SASDB65_fit1.fit",
      "size": 77521
    },
    {
      "crc32": "f1aa70ce",
      "name": "SASDB65/SASDB65_fit1_model1.pdb",
      "size": 258531
    },
    {
      "crc32": "f7df0a34",
      "name": "SASDB65/additional_files/SycH-YopH.pdb",
      "size": 252184
    },
    {
      "crc32": "6ff3aa08",
      "name": "SASDB65/additional_files/README.txt",
      "size": 74
    }
  ],
  "zip_validation": "central_directory_readable"
}
pddf:source record
{
  "path": "/data/saxsdb/sasbdb/entries/65/sasdb65/source/SASDB65.out",
  "role": "pddf",
  "sha256": "37233c3b306939f9e2a5c29bfb6f64e6de501d9544760feef1a1d891cfdfad85",
  "size": 110136,
  "status": "downloaded",
  "url": "https://www.sasbdb.org/media/p_of_R_files/SASDB65.out"
}
sascif:source record
{
  "path": "/data/saxsdb/sasbdb/entries/65/sasdb65/source/SASDB65.sascif",
  "role": "sascif",
  "sha256": "950f946eca60fe1744a13c8039f3a11f9c03f509c756167b0377ff487c7f7bce",
  "size": 582537,
  "status": "downloaded",
  "url": "https://www.sasbdb.org/media/sascif/sascif_files/SASDB65.sascif"
}
summary:source record
{
  "path": "/data/saxsdb/sasbdb/entries/65/sasdb65/source/summary.json",
  "sha256": "86ee490a277f88a5f6fd831ac0fcbfb56dea9e335070490eb7a79930041fbdf8",
  "size": 8612,
  "status": "downloaded",
  "url": "https://www.sasbdb.org/rest-api/entry/summary/SASDB65/"
}

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
codeSASDB65
statusPublished
type_of_curveSingle concentration
angular_unit1/nm
project.titleGlobal Disordering in Stereo-Specific Protein Association
project.publication.titleGlobal Disordering in Stereo-Specific Protein Association
project.publication.author_listGupta A, Reinartz I, Spilotros A, Jonna V, Hofer A, Svergun D, Schug A, Wolf-Watz M
project.publication.journalBiophysical Journal
project.publication.doi10.1016/j.bpj.2016.11.211
project.publication.pmidnull
project.publication.published_date2017 Feb
project.statusreleased
project.submitted_date2016-08-12
project.released_date2017-04-21
pddf_datahttps://www.sasbdb.org/media/p_of_R_files/SASDB65.out
intensities_datahttps://www.sasbdb.org/media/intensities_files/SASDB65.dat
intensities_log_plothttps://www.sasbdb.org/media/intensities_files/scattering_plots/SASDB65_dat_img.png
intensities_kratky_plothttps://www.sasbdb.org/media/intensities_files/scattering_plots/SASDB65_kratky_img.png
pddf_plothttps://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDB65_pofr_img.png
intensities_guinier_plothttps://www.sasbdb.org/media/intensities_files/scattering_plots/SASDB65_guinier_img.png
sascif_datahttps://www.sasbdb.org/media/sascif/sascif_files/SASDB65.sascif
experiment.instrument.detector.typenull
experiment.instrument.detector.namePilatus 2M
experiment.instrument.detector.resolutionnull
experiment.instrument.namePETRA III
experiment.instrument.cityDESY; Hamburg
experiment.instrument.countryGermany
experiment.instrument.beamline_nameEMBL P12
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_nameSycH putative yopH targeting protein
experiment.sample.molecule[0].short_nameSycH
experiment.sample.molecule[0].sequenceMRTYSSLLEEFATELGLEEIETNELGHGAVTIDKIWVVHLAPINEKELVAFMRAGILTGQSQLYDILRKNLFSPLSGVIRCALDKDDHWLLWSQLNINDTSGTQLASVLTSLVDKAVTLSCEPTMKKEEDDHRPSSSHLLV
experiment.sample.molecule[0].organismYersinia pseudotuberculosis
experiment.sample.molecule[0].uniprot_codeI3NIC8
experiment.sample.molecule[0].uniprot_range_first1
experiment.sample.molecule[0].uniprot_range_last141
experiment.sample.molecule[0].oligomerizationdimer
experiment.sample.molecule[0].molecular_typeprotein
experiment.sample.molecule[0].uniprot_sequenceMRTYSSLLEEFATELGLEEIETNELGHGAVTIDKIWVVHLAPINEKELVAFMRAGILTGQ SQLYDILRKNLFSPLSGVIRCALDKDDHWLLWSQLNINDTSGTQLASVLTSLVDKAVTLS CEPTMKKEEDDHRPSSSHLLV
experiment.sample.molecule[0].mw15.763
experiment.sample.molecule[0].total_mw31.526
experiment.sample.molecule[0].number_molecules2
experiment.sample.molecule[0].complex_statenull
experiment.sample.molecule[0].deuterationnull
experiment.sample.molecule[0].molecule_sourcebiological
experiment.sample.molecule[0].molecule_descriptionnull
experiment.sample.molecule[1].long_nameTyrosine-protein phosphatase YopH
experiment.sample.molecule[1].short_nameYopH
experiment.sample.molecule[1].sequenceMNLSLSDLHRQVSRLVQQESGDCTGKLRGNVAANKETTFQGLTIASGARESEKVFAQTVLSHVANVVLTQEDTAKLLQST VKHNLNNYDLRSVGNGNSVLVSLRSDQMTLQDAKVLLEAALRQESGARG
experiment.sample.molecule[1].organismYersinia pseudotuberculosis
experiment.sample.molecule[1].uniprot_codeP08538
experiment.sample.molecule[1].uniprot_range_first1
experiment.sample.molecule[1].uniprot_range_last129
experiment.sample.molecule[1].oligomerizationmonomer
experiment.sample.molecule[1].molecular_typeprotein
experiment.sample.molecule[1].uniprot_sequenceMNLSLSDLHRQVSRLVQQESGDCTGKLRGNVAANKETTFQGLTIASGARESEKVFAQTVL SHVANVVLTQEDTAKLLQSTVKHNLNNYDLRSVGNGNSVLVSLRSDQMTLQDAKVLLEAA LRQESGARGHVSSHSHSALHAPGTPVREGLRSHLDPRTPPLPPRERPHTSGHHGAGEARA TAPSTVSPYGPEARAELSSRLTTLRNTLAPATNDPRYLQACGGEKLNRFRDIQCCRQTAV RADLNANYIQVGNTRTIACQYPLQSQLESHFRMLAENRTPVLAVLASSSEIANQRFGMPD YFRQSGTYGSITVESKMTQQVGLGDGIMADMYTLTIREAGQKTISVPVVHVGNWPDQTAV SSEVTKALASLVDQTAETKRNMYESKGSSAVGDDSKLRPVIHCRAGVGRTAQLIGAMCMN DSRNSQLSVEDMVSQMRVQRNGIMVQKDEQLDVLIKLAEGQGRPLLNS
experiment.sample.molecule[1].mw13.95
experiment.sample.molecule[1].total_mw13.95
experiment.sample.molecule[1].number_molecules1
experiment.sample.molecule[1].complex_statenull
experiment.sample.molecule[1].deuterationnull
experiment.sample.molecule[1].molecule_sourcebiological
experiment.sample.molecule[1].molecule_descriptionnull
experiment.sample.buffer.name50 mM HEPES 2mM TCEP
experiment.sample.buffer.concentration_unitmM
experiment.sample.buffer.commentnull
experiment.sample.buffer.additive2mM TCEP
experiment.sample.buffer.concentration50.0
experiment.sample.buffer.pkanull
experiment.sample.buffer.ph6.8
experiment.sample.buffer.deuterationnull
experiment.sample.purity_methodnull
experiment.sample.nameTyrosine-protein phosphatase (YopH)/putative yopH targeting protein (SycH) heterotrimeric complex
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_nameEMBL-Hamburg
experiment.contributor[0].affiliation[0].addressNotkestraße 85, Geb. 25A, 22607 Hamburg, Deutschland, Germany
experiment.contributor[0].affiliation[0].full_nameEuropean Molecular Biology Laboratory (EMBL) - Hamburg outstation
experiment.contributor[0].affiliation[0].webpagehttp://www.embl-hamburg.de/index.php
experiment.contributor[0].contributor_nameAlessandro
experiment.contributor[0].contributor_surnameSpilotros
experiment.contributor[0].orcidnull
experiment.concentration_methodnull
experiment.concentration_unitmg/ml
experiment.date2016-08-01
experiment.storage_temperature20.0
experiment.cell_temperature20.0
experiment.exposure_time0.05
experiment.number_of_frames20
experiment.wavelength0.12
experiment.sample_detector_distance3.1
experiment.concentration_minnull
experiment.concentration_max1.0
experiment.sample_volumenull
experiment.flow_ratenull
experiment.s_min0.066
experiment.s_max4.808
experiment.total_exposure_timenull
experiment.seccolumnnull
fits[0].models[0].model_plothttps://www.sasbdb.org/media/pdb_file/images/SASDB65_fit1_model1_img.png
fits[0].models[0].softwareCRYSOL
fits[0].models[0].pdb_link[]
fits[0].models[0].model_titlenull
fits[0].models[0].type_of_modelatomic
fits[0].models[0].software_version
fits[0].models[0].model_datahttps://www.sasbdb.org/media/pdb_file/SASDB65_fit1_model1.pdb
fits[0].models[0].model_mw45.45
fits[0].models[0].bead_radius1.9
fits[0].models[0].lognull
fits[0].models[0].symmetry
fits[0].models[0].comment
fits[0].models[0].user109
fits[0].fit_unit1/A
fits[0].fit_plothttps://www.sasbdb.org/media/fitting_files/scattering_plots/SASDB65_fit1_fit_img.png
fits[0].softwarenull
fits[0].chi_square_value1.27
fits[0].p_value0.0
fits[0].fit_residual_plotfit4columns464_fitresiduals_img.png
fits[0].fit_datahttps://www.sasbdb.org/media/fitting_files/SASDB65_fit1.fit
fits[0].fit_lognull
fits[0].software_versionnull
fits[0].descriptionnull
estimated_volume_methodnull
pddf_softwareATSAS GNOM
pddf_software_versionnull
i0_calibration_standardnull
descriptionnull
experiment_descriptionX-ray synchrotron radiation scattering data from a solution of dimeric YopH protein in complex with the tyrosine-protein phosphatase, SycH, in 50 mM HEPES, 2 mM TCEP, pH 6.8 were collected on the P12 beam line of Petra-III (Hamburg, Germany) using a Pilatus 2M detector (I(s) vs s; s = 4π sin θ/λ, where 2θ is the scattering angle and λ=0.12 nm). One solute concentration of 1.00 mg/ml was measured using an exposure time of 1 s (recorded as 20 x 0.050 s frames). The data were normalized to the intensity of the transmitted beam and radially averaged and the scattering from the matched solvent-blank was subtracted. The data were scaled to protein concentration. The results presented here were obtained from a single concentration scattering curve.
tags[]
intensity_unitnull
experimental_mw52.0
experimental_mw_errornull
guinier_i0_mwnull
guinier_i0_mw_errornull
porod_mw55.8
porod_mw_errornull
pddf_i074550.0
pddf_i0_error130.0
guinier_i074475.0
guinier_i0_error117.0
pddf_rg3.01
pddf_rg_error0.013
guinier_rg2.96
guinier_rg_error0.13
pddf_dmax12.5
pddf_dmax_errornull
porod_volume89.2
porod_volume_errornull
estimated_volumenull
estimated_volume_errornull
guinier_point_first22
guinier_point_last115
pddf_point_firstnull
pddf_point_lastnull
i0_calibration_standard_datanull
intensities_log_log_plotSASDB65_datloglog_img.png
symmetrynull
last_modified2023-06-21T07:56:39.492710+02:00
bragg_peak[]
manifest.json:36 field values
Field pathRaw value
codeSASDB65
statussuccess
started_at2026-08-11T14:39:38.470285+00:00
finished_at2026-08-11T14:39:48.120805+00:00
source_last_modified2023-06-21T07:56:39.492710+02:00
files[0].statusdownloaded
files[0].urlhttps://www.sasbdb.org/rest-api/entry/summary/SASDB65/
files[0].path/data/saxsdb/sasbdb/entries/65/sasdb65/source/summary.json
files[0].size8612
files[0].sha25686ee490a277f88a5f6fd831ac0fcbfb56dea9e335070490eb7a79930041fbdf8
files[1].statusdownloaded
files[1].urlhttps://www.sasbdb.org/media/intensities_files/SASDB65.dat
files[1].path/data/saxsdb/sasbdb/entries/65/sasdb65/source/SASDB65.dat
files[1].size82964
files[1].sha25685b2052cf15c5593e8f5425c54f5c3891ff6b12a8efeac073960e6c729074107
files[1].rolecurve
files[2].statusdownloaded
files[2].urlhttps://www.sasbdb.org/media/p_of_R_files/SASDB65.out
files[2].path/data/saxsdb/sasbdb/entries/65/sasdb65/source/SASDB65.out
files[2].size110136
files[2].sha25637233c3b306939f9e2a5c29bfb6f64e6de501d9544760feef1a1d891cfdfad85
files[2].rolepddf
files[3].statusdownloaded
files[3].urlhttps://www.sasbdb.org/media/sascif/sascif_files/SASDB65.sascif
files[3].path/data/saxsdb/sasbdb/entries/65/sasdb65/source/SASDB65.sascif
files[3].size582537
files[3].sha256950f946eca60fe1744a13c8039f3a11f9c03f509c756167b0377ff487c7f7bce
files[3].rolesascif
files[4].statusdownloaded
files[4].urlhttps://www.sasbdb.org/media/zip_directories/SASDB65.zip
files[4].path/data/saxsdb/sasbdb/entries/65/sasdb65/source/SASDB65.zip
files[4].size165512
files[4].sha25689cd24e03d4d8ca652a857ddc98034ec2ba90d3379a08ffd5520c78dc481032a
files[4].rolefull_entry_zip
files[4].zip_member_count6
files[4].zip_validationcentral_directory_readable
View the complete summary.json source
{
  "code": "SASDB65",
  "status": "Published",
  "type_of_curve": "Single concentration",
  "angular_unit": "1/nm",
  "project": {
    "title": "Global Disordering in Stereo-Specific Protein Association",
    "publication": {
      "title": "Global Disordering in Stereo-Specific Protein Association",
      "author_list": "Gupta A, Reinartz I, Spilotros A, Jonna V, Hofer A, Svergun D, Schug A, Wolf-Watz M",
      "journal": "Biophysical Journal",
      "doi": "10.1016/j.bpj.2016.11.211",
      "pmid": null,
      "published_date": "2017 Feb"
    },
    "status": "released",
    "submitted_date": "2016-08-12",
    "released_date": "2017-04-21"
  },
  "pddf_data": "https://www.sasbdb.org/media/p_of_R_files/SASDB65.out",
  "intensities_data": "https://www.sasbdb.org/media/intensities_files/SASDB65.dat",
  "intensities_log_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDB65_dat_img.png",
  "intensities_kratky_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDB65_kratky_img.png",
  "pddf_plot": "https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDB65_pofr_img.png",
  "intensities_guinier_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDB65_guinier_img.png",
  "sascif_data": "https://www.sasbdb.org/media/sascif/sascif_files/SASDB65.sascif",
  "experiment": {
    "instrument": {
      "detector": {
        "type": null,
        "name": "Pilatus 2M",
        "resolution": null
      },
      "name": "PETRA III",
      "city": "DESY; Hamburg",
      "country": "Germany",
      "beamline_name": "EMBL P12",
      "beam_geometry": null,
      "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": "SycH putative yopH targeting protein",
          "short_name": "SycH",
          "sequence": "MRTYSSLLEEFATELGLEEIETNELGHGAVTIDKIWVVHLAPINEKELVAFMRAGILTGQSQLYDILRKNLFSPLSGVIRCALDKDDHWLLWSQLNINDTSGTQLASVLTSLVDKAVTLSCEPTMKKEEDDHRPSSSHLLV",
          "organism": "Yersinia pseudotuberculosis",
          "uniprot_code": "I3NIC8",
          "uniprot_range_first": 1,
          "uniprot_range_last": 141,
          "oligomerization": "dimer",
          "molecular_type": "protein",
          "uniprot_sequence": "MRTYSSLLEEFATELGLEEIETNELGHGAVTIDKIWVVHLAPINEKELVAFMRAGILTGQ\nSQLYDILRKNLFSPLSGVIRCALDKDDHWLLWSQLNINDTSGTQLASVLTSLVDKAVTLS\nCEPTMKKEEDDHRPSSSHLLV",
          "mw": 15.763,
          "total_mw": 31.526,
          "number_molecules": 2,
          "complex_state": null,
          "deuteration": null,
          "molecule_source": "biological",
          "molecule_description": null
        },
        {
          "long_name": "Tyrosine-protein phosphatase YopH",
          "short_name": "YopH",
          "sequence": "MNLSLSDLHRQVSRLVQQESGDCTGKLRGNVAANKETTFQGLTIASGARESEKVFAQTVLSHVANVVLTQEDTAKLLQST\r\nVKHNLNNYDLRSVGNGNSVLVSLRSDQMTLQDAKVLLEAALRQESGARG",
          "organism": "Yersinia pseudotuberculosis",
          "uniprot_code": "P08538",
          "uniprot_range_first": 1,
          "uniprot_range_last": 129,
          "oligomerization": "monomer",
          "molecular_type": "protein",
          "uniprot_sequence": "MNLSLSDLHRQVSRLVQQESGDCTGKLRGNVAANKETTFQGLTIASGARESEKVFAQTVL\nSHVANVVLTQEDTAKLLQSTVKHNLNNYDLRSVGNGNSVLVSLRSDQMTLQDAKVLLEAA\nLRQESGARGHVSSHSHSALHAPGTPVREGLRSHLDPRTPPLPPRERPHTSGHHGAGEARA\nTAPSTVSPYGPEARAELSSRLTTLRNTLAPATNDPRYLQACGGEKLNRFRDIQCCRQTAV\nRADLNANYIQVGNTRTIACQYPLQSQLESHFRMLAENRTPVLAVLASSSEIANQRFGMPD\nYFRQSGTYGSITVESKMTQQVGLGDGIMADMYTLTIREAGQKTISVPVVHVGNWPDQTAV\nSSEVTKALASLVDQTAETKRNMYESKGSSAVGDDSKLRPVIHCRAGVGRTAQLIGAMCMN\nDSRNSQLSVEDMVSQMRVQRNGIMVQKDEQLDVLIKLAEGQGRPLLNS",
          "mw": 13.95,
          "total_mw": 13.95,
          "number_molecules": 1,
          "complex_state": null,
          "deuteration": null,
          "molecule_source": "biological",
          "molecule_description": null
        }
      ],
      "buffer": {
        "name": "50 mM HEPES 2mM TCEP",
        "concentration_unit": "mM",
        "comment": null,
        "additive": "2mM TCEP",
        "concentration": 50.0,
        "pka": null,
        "ph": 6.8,
        "deuteration": null
      },
      "purity_method": null,
      "name": "Tyrosine-protein phosphatase (YopH)/putative yopH targeting protein (SycH) heterotrimeric complex",
      "ext_coefficient": null,
      "contrast": null,
      "specific_vol": null,
      "dry_vol": null,
      "absorbption": null,
      "deuteration": null,
      "mixture": null
    },
    "contributor": [
      {
        "affiliation": [
          {
            "short_name": "EMBL-Hamburg",
            "address": "Notkestraße 85, Geb. 25A, 22607 Hamburg, Deutschland, Germany",
            "full_name": "European Molecular Biology Laboratory (EMBL) - Hamburg outstation",
            "webpage": "http://www.embl-hamburg.de/index.php"
          }
        ],
        "contributor_name": "Alessandro",
        "contributor_surname": "Spilotros",
        "orcid": null
      }
    ],
    "concentration_method": null,
    "concentration_unit": "mg/ml",
    "date": "2016-08-01",
    "storage_temperature": 20.0,
    "cell_temperature": 20.0,
    "exposure_time": 0.05,
    "number_of_frames": 20,
    "wavelength": 0.12,
    "sample_detector_distance": 3.1,
    "concentration_min": null,
    "concentration_max": 1.0,
    "sample_volume": null,
    "flow_rate": null,
    "s_min": 0.066,
    "s_max": 4.808,
    "total_exposure_time": null,
    "seccolumn": null
  },
  "fits": [
    {
      "models": [
        {
          "model_plot": "https://www.sasbdb.org/media/pdb_file/images/SASDB65_fit1_model1_img.png",
          "software": "CRYSOL",
          "pdb_link": [],
          "model_title": null,
          "type_of_model": "atomic",
          "software_version": "",
          "model_data": "https://www.sasbdb.org/media/pdb_file/SASDB65_fit1_model1.pdb",
          "model_mw": 45.45,
          "bead_radius": 1.9,
          "log": null,
          "symmetry": "",
          "comment": "",
          "user": 109
        }
      ],
      "fit_unit": "1/A",
      "fit_plot": "https://www.sasbdb.org/media/fitting_files/scattering_plots/SASDB65_fit1_fit_img.png",
      "software": null,
      "chi_square_value": 1.27,
      "p_value": 0.0,
      "fit_residual_plot": "fit4columns464_fitresiduals_img.png",
      "fit_data": "https://www.sasbdb.org/media/fitting_files/SASDB65_fit1.fit",
      "fit_log": null,
      "software_version": null,
      "description": null
    }
  ],
  "estimated_volume_method": null,
  "pddf_software": "ATSAS GNOM",
  "pddf_software_version": null,
  "i0_calibration_standard": null,
  "description": null,
  "experiment_description": "X-ray synchrotron radiation scattering data from a solution of dimeric YopH protein in complex with the tyrosine-protein phosphatase, SycH, in 50 mM HEPES, 2 mM TCEP, pH 6.8 were collected on the P12 beam line of Petra-III (Hamburg, Germany) using a Pilatus 2M detector (I(s) vs s; s = 4π sin θ/λ, where 2θ is the scattering angle and λ=0.12 nm). One solute concentration of 1.00 mg/ml was measured using an exposure time of 1 s (recorded as 20 x 0.050 s frames). The data were normalized to the intensity of the transmitted beam and radially averaged and the scattering from the matched solvent-blank was subtracted. The data were scaled to protein concentration. The results presented here were obtained from a single concentration scattering curve.",
  "tags": [],
  "intensity_unit": null,
  "experimental_mw": 52.0,
  "experimental_mw_error": null,
  "guinier_i0_mw": null,
  "guinier_i0_mw_error": null,
  "porod_mw": 55.8,
  "porod_mw_error": null,
  "pddf_i0": 74550.0,
  "pddf_i0_error": 130.0,
  "guinier_i0": 74475.0,
  "guinier_i0_error": 117.0,
  "pddf_rg": 3.01,
  "pddf_rg_error": 0.013,
  "guinier_rg": 2.96,
  "guinier_rg_error": 0.13,
  "pddf_dmax": 12.5,
  "pddf_dmax_error": null,
  "porod_volume": 89.2,
  "porod_volume_error": null,
  "estimated_volume": null,
  "estimated_volume_error": null,
  "guinier_point_first": 22,
  "guinier_point_last": 115,
  "pddf_point_first": null,
  "pddf_point_last": null,
  "i0_calibration_standard_data": null,
  "intensities_log_log_plot": "SASDB65_datloglog_img.png",
  "symmetry": null,
  "last_modified": "2023-06-21T07:56:39.492710+02:00",
  "bragg_peak": []
}
View the complete manifest.json source
{
  "code": "SASDB65",
  "status": "success",
  "started_at": "2026-08-11T14:39:38.470285+00:00",
  "finished_at": "2026-08-11T14:39:48.120805+00:00",
  "source_last_modified": "2023-06-21T07:56:39.492710+02:00",
  "files": [
    {
      "status": "downloaded",
      "url": "https://www.sasbdb.org/rest-api/entry/summary/SASDB65/",
      "path": "/data/saxsdb/sasbdb/entries/65/sasdb65/source/summary.json",
      "size": 8612,
      "sha256": "86ee490a277f88a5f6fd831ac0fcbfb56dea9e335070490eb7a79930041fbdf8"
    },
    {
      "status": "downloaded",
      "url": "https://www.sasbdb.org/media/intensities_files/SASDB65.dat",
      "path": "/data/saxsdb/sasbdb/entries/65/sasdb65/source/SASDB65.dat",
      "size": 82964,
      "sha256": "85b2052cf15c5593e8f5425c54f5c3891ff6b12a8efeac073960e6c729074107",
      "role": "curve"
    },
    {
      "status": "downloaded",
      "url": "https://www.sasbdb.org/media/p_of_R_files/SASDB65.out",
      "path": "/data/saxsdb/sasbdb/entries/65/sasdb65/source/SASDB65.out",
      "size": 110136,
      "sha256": "37233c3b306939f9e2a5c29bfb6f64e6de501d9544760feef1a1d891cfdfad85",
      "role": "pddf"
    },
    {
      "status": "downloaded",
      "url": "https://www.sasbdb.org/media/sascif/sascif_files/SASDB65.sascif",
      "path": "/data/saxsdb/sasbdb/entries/65/sasdb65/source/SASDB65.sascif",
      "size": 582537,
      "sha256": "950f946eca60fe1744a13c8039f3a11f9c03f509c756167b0377ff487c7f7bce",
      "role": "sascif"
    },
    {
      "status": "downloaded",
      "url": "https://www.sasbdb.org/media/zip_directories/SASDB65.zip",
      "path": "/data/saxsdb/sasbdb/entries/65/sasdb65/source/SASDB65.zip",
      "size": 165512,
      "sha256": "89cd24e03d4d8ca652a857ddc98034ec2ba90d3379a08ffd5520c78dc481032a",
      "role": "full_entry_zip",
      "zip_member_count": 6,
      "zip_validation": "central_directory_readable"
    }
  ]
}