SASDGH6

Ubiquitin activating enzyme 5 (1.0 mg/ml)

Data type: SASBDB experimental data Status: Published Curve type: Single concentration Last updated: 2023-06-21T07:55:24.740692+02:00
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1. Samples, Components and Experimental Conditions Sample & Experiment

Sample 1 · Ubiquitin activating enzyme 5 (1.0 mg/ml)

Concentration— – 1.04 Buffer / pH20 mM Tris, 150 mM NaCl, 2 mM DTT / 7.5
Experimental temperature15.0 Facility / beamlinePETRA III / EMBL P12
Wavelength0.123982 nmExposure0.045 s × 50

Molecular Components

ComponentType / organismUniProt and ConstructOligomeric StateMolecular weight
Ubiquitin-like modifier-activating enzyme 5
View sequence
MGSSHHHHHHSSGLVPRGSMALKRMGIVSDYEKIRTFAVAIVGVGGVGSVTAEMLTRCGIGKLLLFDYDKVELANMNRLFFQPHQAGLSKVQAAEHTLRNINPDVLFEVHNYNITTVENFQHFMDRISNGGLEEGKPVDLVLSCVDNFEARMTINTACNELGQTWMESGVSENAVSGHIQLIIPGESACFACAPPLVVAANIDEKTLKREGVCAASLPTTMGVVAGILVQNVLKFLLNFGTVSFYLGYNAMQDFFPTMSMKPNPQCDDRNCRKQQEEYKKKVAALPKQEVIQEEEEIIHEDNEWGIELV
proteinHomo sapiensQ9GZZ957–346dimerMolecule count 234.194 kDa

Experimental Curves

CurvePoints / columnsq rangeUncertainty qualityNegative-intensity pointsSource file
12609[3]0.0889737–7.3176 1/nmHas uncertainty columnMissing 0110sasbdb/entries/h6/sasdgh6/source/SASDGH6.dat
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2. Measurements Reported by SASBDB Reported Results

MetricMethodValueUncertaintyUnit
dmaxP(r)10.0—nm
i0Guinier0.00492.7e-05arbitrary
i0P(r)0.004791—arbitrary
mwExperimental36.0—kDa
mwGuinier I(0)57.6—kDa
mwPorod48.4—kDa
porod_volumePorod81.6—nm³
rgGuinier2.870.03nm
rgP(r)2.79—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 name20 mM Tris, 150 mM NaCl, 2 mM DTTBuffer concentration—
pH7.5Additives—
Buffer description—
Purity measurement method—Extinction coefficient—
Absorbance—Scattering contrast—
Specific volume / dry volume— / —Mixture / deuterationTrue / —

Acquisition Conditions and Instrument

Measurement date2019-06-13Storage / measurement temperature15.0 / 15.0
Exposure time0.045Frames50
Wavelength0.123982Sample-to-detector distance3.0
SourceX-ray synchrotronDetectorPilatus 6M
Facility / beamlinePETRA III / EMBL P12 · DESY; Hamburg, Germany
q range0.089 – 7.318Sample 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

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full_entry_zip:source record and ZIP contents (6 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:185 field values
Field pathRaw value
codeSASDGH6
statusPublished
type_of_curveSingle concentration
angular_unit1/nm
project.titleStructure and dynamics of UBA5-UFM1 complex formation showing new insights in the UBA5 activation mechanism
project.publication.titleStructure and dynamics of UBA5-UFM1 complex formation showing new insights in the UBA5 activation mechanism
project.publication.author_listFuchs S, Kikhney A, Schubert R, Kaiser C, Liebau E, Svergun D, Betzel C, Perbandt M
project.publication.journalJournal of Structural Biology
project.publication.doi10.1016/j.jsb.2021.107796
project.publication.pmidnull
project.publication.published_date2021 Sep
project.statusreleased
project.submitted_date2021-04-11
project.released_date2021-07-13
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experiment.instrument.detector.typenull
experiment.instrument.detector.namePilatus 6M
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_nameUbiquitin-like modifier-activating enzyme 5
experiment.sample.molecule[0].short_nameUBA5
experiment.sample.molecule[0].sequenceMGSSHHHHHHSSGLVPRGSMALKRMGIVSDYEKIRTFAVAIVGVGGVGSVTAEMLTRCGIGKLLLFDYDKVELANMNRLFFQPHQAGLSKVQAAEHTLRNINPDVLFEVHNYNITTVENFQHFMDRISNGGLEEGKPVDLVLSCVDNFEARMTINTACNELGQTWMESGVSENAVSGHIQLIIPGESACFACAPPLVVAANIDEKTLKREGVCAASLPTTMGVVAGILVQNVLKFLLNFGTVSFYLGYNAMQDFFPTMSMKPNPQCDDRNCRKQQEEYKKKVAALPKQ EVIQEEEEIIHEDNEWGIELV
experiment.sample.molecule[0].organismHomo sapiens
experiment.sample.molecule[0].uniprot_codeQ9GZZ9
experiment.sample.molecule[0].uniprot_range_first57
experiment.sample.molecule[0].uniprot_range_last346
experiment.sample.molecule[0].oligomerizationdimer
experiment.sample.molecule[0].molecular_typeprotein
experiment.sample.molecule[0].uniprot_sequenceMAESVERLQQRVQELERELAQERSLQVPRSGDGGGGRVRIEKMSSEVVDSNPYSRLMALK RMGIVSDYEKIRTFAVAIVGVGGVGSVTAEMLTRCGIGKLLLFDYDKVELANMNRLFFQP HQAGLSKVQAAEHTLRNINPDVLFEVHNYNITTVENFQHFMDRISNGGLEEGKPVDLVLS CVDNFEARMTINTACNELGQTWMESGVSENAVSGHIQLIIPGESACFACAPPLVVAANID EKTLKREGVCAASLPTTMGVVAGILVQNVLKFLLNFGTVSFYLGYNAMQDFFPTMSMKPN PQCDDRNCRKQQEEYKKKVAALPKQEVIQEEEEIIHEDNEWGIELVSEVSEEELKNFSGP VPDLPEGITVAYTIPKKQEDSVTELTVEDSGESLEDLMAKMKNM
experiment.sample.molecule[0].mw34.194
experiment.sample.molecule[0].total_mw68.388
experiment.sample.molecule[0].number_molecules2
experiment.sample.molecule[0].complex_stateFalse
experiment.sample.molecule[0].deuterationnull
experiment.sample.molecule[0].molecule_sourcebiological
experiment.sample.molecule[0].molecule_descriptionnull
experiment.sample.buffer.name20 mM Tris, 150 mM NaCl, 2 mM DTT
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
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experiment.sample.purity_methodnull
experiment.sample.nameUbiquitin activating enzyme 5 (1.0 mg/ml)
experiment.sample.ext_coefficientnull
experiment.sample.contrastnull
experiment.sample.specific_volnull
experiment.sample.dry_volnull
experiment.sample.absorbptionnull
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experiment.sample.mixtureTrue
experiment.contributor[0].affiliation[0].short_namenull
experiment.contributor[0].affiliation[0].addressHamburg, Germany
experiment.contributor[0].affiliation[0].full_nameUniversity of Hamburg
experiment.contributor[0].affiliation[0].webpagehttps://www.uni-hamburg.de/
experiment.contributor[0].contributor_nameSebastian
experiment.contributor[0].contributor_surnameFuchs
experiment.contributor[0].orcid
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experiment.concentration_unitnull
experiment.date2019-06-13
experiment.storage_temperature15.0
experiment.cell_temperature15.0
experiment.exposure_time0.045
experiment.number_of_frames50
experiment.wavelength0.123982
experiment.sample_detector_distance3.0
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experiment.concentration_max1.04
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experiment.s_max7.318
experiment.total_exposure_timenull
experiment.seccolumnnull
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fits[0].p_value0.8183
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fits[0].description
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pddf_software_version5.0
i0_calibration_standardnull
descriptionnull
experiment_descriptionnull
tags[]
intensity_unitarbitrary
experimental_mw36.0
experimental_mw_errornull
guinier_i0_mw57.6
guinier_i0_mw_errornull
porod_mw48.4
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pddf_i00.004791
pddf_i0_errornull
guinier_i00.0049
guinier_i0_error2.7e-05
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pddf_rg_errornull
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pddf_dmax10.0
pddf_dmax_errornull
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estimated_volume_errornull
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pddf_point_firstnull
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i0_calibration_standard_datanull
intensities_log_log_plotSASDGH6_datloglog_img.png
symmetrynull
last_modified2023-06-21T07:55:24.740692+02:00
bragg_peak[]
manifest.json:36 field values
Field pathRaw value
codeSASDGH6
statussuccess
started_at2026-08-11T16:48:59.841203+00:00
finished_at2026-08-11T16:49:15.468862+00:00
source_last_modified2023-06-21T07:55:24.740692+02:00
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View the complete summary.json source
{
  "code": "SASDGH6",
  "status": "Published",
  "type_of_curve": "Single concentration",
  "angular_unit": "1/nm",
  "project": {
    "title": "Structure and dynamics of UBA5-UFM1 complex formation showing new insights in the UBA5 activation mechanism",
    "publication": {
      "title": "Structure and dynamics of UBA5-UFM1 complex formation showing new insights in the UBA5 activation mechanism",
      "author_list": "Fuchs S, Kikhney A, Schubert R, Kaiser C, Liebau E, Svergun D, Betzel C, Perbandt M",
      "journal": "Journal of Structural Biology",
      "doi": "10.1016/j.jsb.2021.107796",
      "pmid": null,
      "published_date": "2021 Sep"
    },
    "status": "released",
    "submitted_date": "2021-04-11",
    "released_date": "2021-07-13"
  },
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    },
    "sample": {
      "molecule": [
        {
          "long_name": "Ubiquitin-like modifier-activating enzyme 5",
          "short_name": "UBA5",
          "sequence": "MGSSHHHHHHSSGLVPRGSMALKRMGIVSDYEKIRTFAVAIVGVGGVGSVTAEMLTRCGIGKLLLFDYDKVELANMNRLFFQPHQAGLSKVQAAEHTLRNINPDVLFEVHNYNITTVENFQHFMDRISNGGLEEGKPVDLVLSCVDNFEARMTINTACNELGQTWMESGVSENAVSGHIQLIIPGESACFACAPPLVVAANIDEKTLKREGVCAASLPTTMGVVAGILVQNVLKFLLNFGTVSFYLGYNAMQDFFPTMSMKPNPQCDDRNCRKQQEEYKKKVAALPKQ EVIQEEEEIIHEDNEWGIELV",
          "organism": "Homo sapiens",
          "uniprot_code": "Q9GZZ9",
          "uniprot_range_first": 57,
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View the complete manifest.json source
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