SASDE47

Aldehyde dehydrogenase 16 from Loktanella sp. (LsALDH16): 2 mg/ml

Data type: SASBDB experimental data Status: Published Curve type: Single concentration Last updated: 2019-12-06T13:07:15.624532+01:00
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1. Samples, Components and Experimental Conditions Sample & Experiment

Sample 1 · Aldehyde dehydrogenase 16 from Loktanella sp. (LsALDH16): 2 mg/ml

Concentration— – 2.0 Buffer / pH20 mM Tris-HCl, 100 mM NaCl, 2.0% glycerol, 0.5 mM Tris(3-hydroxypropyl)phosphine / 8.0
Experimental temperature10.0 Facility / beamlineAdvanced Light Source (ALS) / 12.3.1 (SIBYLS)
Wavelength0.127 nmExposure0.3 s × 32

Molecular Components

ComponentType / organismUniProt and ConstructOligomeric StateMolecular weight
Aldehyde dehydrogenase 16 from Loktanella sp.
View sequence
MTVKEIFETMDYGPAPESAKEAYAWLAEKGDFGHFIGGAWTAPGDLFATVNPATGQTLAQVSQATQADVDAAVKAARKAQPAWAKDGAARARVLYALARLLQKHARLFAVLETLDNGKPIREARDIDVPLAQRHFYHHAGYAQLMGTEMPDRAPLGVCGQVIPWNFPLLMLAWKIAPALAMGNTVVLKPAEWTPLTALLFADICGQAGVPAGVVNIVTGDGAVGEMIVTAQVDKVAFTGSTAVGRRIREATAGTGKALSLELGGKGPYVVCDDADIDSAVEGLVDAIWFNQGQVCCAGSRLLVQEGIADVFHAKLRARMDSLRIGDPLDKCIDIGAMVHPDQLARVRDMVAANTDGEVYQTAVPAGCYYPPTLISGLAPASPLMQQEIFGPVLVSTTFRTPAEAVEIANNTAYGLAASVWSENVNLALDLAPKLVAGIVWINGTNMMDAAAPFGGVRESGFGREGGWEGLAGYTRPAIATKSPAAVAAYTGDGAADGLDRTAKLYIGGKQTRPDGGYSRAVYGPKGKLLGHASLSNRKDLRNAVEAMNAASGWSRTTGHLRAQILYFIGENLSARADEFANRIKDMTGKDGKAEVAASIDRLFSAAAWADKYDGQVKGVPLRGVALAMKEPVGKIGILCPDAAPLLGLVSLMAPAIAMGNRVTLAASEAFPLAATDFYQVLDTSDVPAGVVNILTGAHADLAEPMARHLDLDAVWGLSGHAQVIEAASAGNLKRSWTGPFDPAHDHTRDILSHATEVKTIWVPYGA
proteinLoktanella sp. 3ANDIMAR09A0A0Q3EUQ31–766dimerMolecule count 280.704 kDa

Experimental Curves

CurvePoints / columnsq rangeUncertainty qualityNegative-intensity pointsSource file
1990[3]0.0131–0.564177 1/AHas uncertainty columnMissing 023sasbdb/entries/47/sasde47/source/SASDE47.dat
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2. Measurements Reported by SASBDB Reported Results

MetricMethodValueUncertaintyUnit
dmaxP(r)10.9—Å
i0Guinier267.760.78arbitrary
i0P(r)268.0—arbitrary
mwExperimental141.5—kDa
porod_volumePorod202.0—ų
rgGuinier3.561.0Å
rgP(r)3.55—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 Tris-HCl, 100 mM NaCl, 2.0% glycerol, 0.5 mM Tris(3-hydroxypropyl)phosphineBuffer concentration—
pH8.0Additives—
Buffer description—
Purity measurement method—Extinction coefficient—
Absorbance—Scattering contrast—
Specific volume / dry volume— / —Mixture / deuteration— / —

Acquisition Conditions and Instrument

Measurement date2017-12-13Storage / measurement temperature— / 10.0
Exposure time0.3Frames32
Wavelength0.127Sample-to-detector distance1.5
SourceX-ray synchrotronDetectorPilatus3 X 2M
Facility / beamlineAdvanced Light Source (ALS) / 12.3.1 (SIBYLS) · Berkeley, CA, USA
q range0.131 – 5.642Sample 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 (4 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:156 field values
Field pathRaw value
codeSASDE47
statusPublished
type_of_curveSingle concentration
angular_unit1/A
project.titleCrystal Structure of Aldehyde Dehydrogenase 16 Reveals Trans-Hierarchical Structural Similarity and a New Dimer.
project.publication.titleCrystal Structure of Aldehyde Dehydrogenase 16 Reveals Trans-Hierarchical Structural Similarity and a New Dimer.
project.publication.author_listLiu LK, Tanner JJ
project.publication.journalJ Mol Biol
project.publication.doi10.1016/j.jmb.2018.11.030
project.publication.pmid30529746
project.publication.published_date2018 Dec 7
project.statusreleased
project.submitted_date2018-10-30
project.released_date2018-12-13
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sascif_datahttps://www.sasbdb.org/media/sascif/sascif_files/SASDE47.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_nameAldehyde dehydrogenase 16 from Loktanella sp.
experiment.sample.molecule[0].short_nameLsALDH16
experiment.sample.molecule[0].sequenceMTVKEIFETMDYGPAPESAKEAYAWLAEKGDFGHFIGGAWTAPGDLFATVNPATGQTLAQ VSQATQADVDAAVKAARKAQPAWAKDGAARARVLYALARLLQKHARLFAVLETLDNGKPI REARDIDVPLAQRHFYHHAGYAQLMGTEMPDRAPLGVCGQVIPWNFPLLMLAWKIAPALA MGNTVVLKPAEWTPLTALLFADICGQAGVPAGVVNIVTGDGAVGEMIVTAQVDKVAFTGS TAVGRRIREATAGTGKALSLELGGKGPYVVCDDADIDSAVEGLVDAIWFNQGQVCCAGSR LLVQEGIADVFHAKLRARMDSLRIGDPLDKCIDIGAMVHPDQLARVRDMVAANTDGEVYQ TAVPAGCYYPPTLISGLAPASPLMQQEIFGPVLVSTTFRTPAEAVEIANNTAYGLAASVW SENVNLALDLAPKLVAGIVWINGTNMMDAAAPFGGVRESGFGREGGWEGLAGYTRPAIAT KSPAAVAAYTGDGAADGLDRTAKLYIGGKQTRPDGGYSRAVYGPKGKLLGHASLSNRKDL RNAVEAMNAASGWSRTTGHLRAQILYFIGENLSARADEFANRIKDMTGKDGKAEVAASID RLFSAAAWADKYDGQVKGVPLRGVALAMKEPVGKIGILCPDAAPLLGLVSLMAPAIAMGN RVTLAASEAFPLAATDFYQVLDTSDVPAGVVNILTGAHADLAEPMARHLDLDAVWGLSGH AQVIEAASAGNLKRSWTGPFDPAHDHTRDILSHATEVKTIWVPYGA
experiment.sample.molecule[0].organismLoktanella sp. 3ANDIMAR09
experiment.sample.molecule[0].uniprot_codeA0A0Q3EUQ3
experiment.sample.molecule[0].uniprot_range_first1
experiment.sample.molecule[0].uniprot_range_last766
experiment.sample.molecule[0].oligomerizationdimer
experiment.sample.molecule[0].molecular_typeprotein
experiment.sample.molecule[0].uniprot_sequenceMTVKEIFETMDYGPAPESAKEAYAWLAEKGDFGHFIGGAWTAPGDLFATVNPATGQTLAQ VSQATQADVDAAVKAARKAQPAWAKDGAARARVLYALARLLQKHARLFAVLETLDNGKPI REARDIDVPLAQRHFYHHAGYAQLMGTEMPDRAPLGVCGQVIPWNFPLLMLAWKIAPALA MGNTVVLKPAEWTPLTALLFADICGQAGVPAGVVNIVTGDGAVGEMIVTAQVDKVAFTGS TAVGRRIREATAGTGKALSLELGGKGPYVVCDDADIDSAVEGLVDAIWFNQGQVCCAGSR LLVQEGIADVFHAKLRARMDSLRIGDPLDKCIDIGAMVHPDQLARVRDMVAANTDGEVYQ TAVPAGCYYPPTLISGLAPASPLMQQEIFGPVLVSTTFRTPAEAVEIANNTAYGLAASVW SENVNLALDLAPKLVAGIVWINGTNMMDAAAPFGGVRESGFGREGGWEGLAGYTRPAIAT KSPAAVAAYTGDGAADGLDRTAKLYIGGKQTRPDGGYSRAVYGPKGKLLGHASLSNRKDL RNAVEAMNAASGWSRTTGHLRAQILYFIGENLSARADEFANRIKDMTGKDGKAEVAASID RLFSAAAWADKYDGQVKGVPLRGVALAMKEPVGKIGILCPDAAPLLGLVSLMAPAIAMGN RVTLAASEAFPLAATDFYQVLDTSDVPAGVVNILTGAHADLAEPMARHLDLDAVWGLSGH AQVIEAASAGNLKRSWTGPFDPAHDHTRDILSHATEVKTIWVPYGA
experiment.sample.molecule[0].mw80.704
experiment.sample.molecule[0].total_mw161.408
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-HCl, 100 mM NaCl, 2.0% glycerol, 0.5 mM Tris(3-hydroxypropyl)phosphine
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.nameAldehyde dehydrogenase 16 from Loktanella sp. (LsALDH16): 2 mg/ml
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_nameMizzou
experiment.contributor[0].affiliation[0].addressColumbia, MO, USA
experiment.contributor[0].affiliation[0].full_nameUniversity of Missouri-Columbia
experiment.contributor[0].affiliation[0].webpagehttp://missouri.edu/
experiment.contributor[0].contributor_nameLi-Kai
experiment.contributor[0].contributor_surnameLiu
experiment.contributor[0].orcidhttps://orcid.org/0000-0001-9759-7250
experiment.concentration_methodnull
experiment.concentration_unitnull
experiment.date2017-12-13
experiment.storage_temperaturenull
experiment.cell_temperature10.0
experiment.exposure_time0.3
experiment.number_of_frames32
experiment.wavelength0.127
experiment.sample_detector_distance1.5
experiment.concentration_minnull
experiment.concentration_max2.0
experiment.sample_volumenull
experiment.flow_ratenull
experiment.s_min0.131
experiment.s_max5.642
experiment.total_exposure_timenull
experiment.seccolumnnull
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fits[0].models[0].softwarePyMOL
fits[0].models[0].pdb_link[]
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fits[0].models[0].commentnull
fits[0].models[0].user386
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fits[0].softwareFoXS
fits[0].chi_square_value0.130601
fits[0].p_value0.0
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fits[0].description
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pddf_softwareATSAS GNOM
pddf_software_version5.0
i0_calibration_standardnull
descriptionnull
experiment_descriptionSynchrotron SAXS data from solutions of aldehyde dehydrogenase 16 from Loktanella sp. (LsALDH16) in 20 mM Tris-HCl, 100 mM NaCl, 2.0% glycerol, 0.5 mM Tris(3-hydroxypropyl)phosphine, pH 8 were collected on the 12.3.1 (SIBYLS) beam line at the Advanced Light Source (ALS; Berkeley, CA, USA) using a Pilatus3 X 2M detector at a sample-detector distance of 1.5 m and at a wavelength of λ = 0.127 nm (l(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). One solute concentration of 2.00 mg/ml was measured at 10°C. 32 successive 0.300 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_mw141.5
experimental_mw_errornull
guinier_i0_mwnull
guinier_i0_mw_errornull
porod_mwnull
porod_mw_errornull
pddf_i0268.0
pddf_i0_errornull
guinier_i0267.76
guinier_i0_error0.78
pddf_rg3.55
pddf_rg_errornull
guinier_rg3.56
guinier_rg_error1.0
pddf_dmax10.9
pddf_dmax_errornull
porod_volume202.0
porod_volume_errornull
estimated_volumenull
estimated_volume_errornull
guinier_point_first6
guinier_point_last42
pddf_point_firstnull
pddf_point_lastnull
i0_calibration_standard_datanull
intensities_log_log_plotSASDE47_datloglog_img.png
symmetrynull
last_modified2019-12-06T13:07:15.624532+01:00
bragg_peak[]
manifest.json:36 field values
Field pathRaw value
codeSASDE47
statussuccess
started_at2026-08-11T15:21:40.230530+00:00
finished_at2026-08-11T15:21:50.169690+00:00
source_last_modified2019-12-06T13:07:15.624532+01:00
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View the complete summary.json source
{
  "code": "SASDE47",
  "status": "Published",
  "type_of_curve": "Single concentration",
  "angular_unit": "1/A",
  "project": {
    "title": "Crystal Structure of Aldehyde Dehydrogenase 16 Reveals Trans-Hierarchical Structural Similarity and a New Dimer.",
    "publication": {
      "title": "Crystal Structure of Aldehyde Dehydrogenase 16 Reveals Trans-Hierarchical Structural Similarity and a New Dimer.",
      "author_list": "Liu LK, Tanner JJ",
      "journal": "J Mol Biol",
      "doi": "10.1016/j.jmb.2018.11.030",
      "pmid": "30529746",
      "published_date": "2018 Dec 7"
    },
    "status": "released",
    "submitted_date": "2018-10-30",
    "released_date": "2018-12-13"
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    "sample": {
      "molecule": [
        {
          "long_name": "Aldehyde dehydrogenase 16 from Loktanella sp.",
          "short_name": "LsALDH16",
          "sequence": "MTVKEIFETMDYGPAPESAKEAYAWLAEKGDFGHFIGGAWTAPGDLFATVNPATGQTLAQ\r\nVSQATQADVDAAVKAARKAQPAWAKDGAARARVLYALARLLQKHARLFAVLETLDNGKPI\r\nREARDIDVPLAQRHFYHHAGYAQLMGTEMPDRAPLGVCGQVIPWNFPLLMLAWKIAPALA\r\nMGNTVVLKPAEWTPLTALLFADICGQAGVPAGVVNIVTGDGAVGEMIVTAQVDKVAFTGS\r\nTAVGRRIREATAGTGKALSLELGGKGPYVVCDDADIDSAVEGLVDAIWFNQGQVCCAGSR\r\nLLVQEGIADVFHAKLRARMDSLRIGDPLDKCIDIGAMVHPDQLARVRDMVAANTDGEVYQ\r\nTAVPAGCYYPPTLISGLAPASPLMQQEIFGPVLVSTTFRTPAEAVEIANNTAYGLAASVW\r\nSENVNLALDLAPKLVAGIVWINGTNMMDAAAPFGGVRESGFGREGGWEGLAGYTRPAIAT\r\nKSPAAVAAYTGDGAADGLDRTAKLYIGGKQTRPDGGYSRAVYGPKGKLLGHASLSNRKDL\r\nRNAVEAMNAASGWSRTTGHLRAQILYFIGENLSARADEFANRIKDMTGKDGKAEVAASID\r\nRLFSAAAWADKYDGQVKGVPLRGVALAMKEPVGKIGILCPDAAPLLGLVSLMAPAIAMGN\r\nRVTLAASEAFPLAATDFYQVLDTSDVPAGVVNILTGAHADLAEPMARHLDLDAVWGLSGH\r\nAQVIEAASAGNLKRSWTGPFDPAHDHTRDILSHATEVKTIWVPYGA",
          "organism": "Loktanella sp. 3ANDIMAR09",
          "uniprot_code": "A0A0Q3EUQ3",
          "uniprot_range_first": 1,
          "uniprot_range_last": 766,
          "oligomerization": "dimer",
          "molecular_type": "protein",
          "uniprot_sequence": "MTVKEIFETMDYGPAPESAKEAYAWLAEKGDFGHFIGGAWTAPGDLFATVNPATGQTLAQ\nVSQATQADVDAAVKAARKAQPAWAKDGAARARVLYALARLLQKHARLFAVLETLDNGKPI\nREARDIDVPLAQRHFYHHAGYAQLMGTEMPDRAPLGVCGQVIPWNFPLLMLAWKIAPALA\nMGNTVVLKPAEWTPLTALLFADICGQAGVPAGVVNIVTGDGAVGEMIVTAQVDKVAFTGS\nTAVGRRIREATAGTGKALSLELGGKGPYVVCDDADIDSAVEGLVDAIWFNQGQVCCAGSR\nLLVQEGIADVFHAKLRARMDSLRIGDPLDKCIDIGAMVHPDQLARVRDMVAANTDGEVYQ\nTAVPAGCYYPPTLISGLAPASPLMQQEIFGPVLVSTTFRTPAEAVEIANNTAYGLAASVW\nSENVNLALDLAPKLVAGIVWINGTNMMDAAAPFGGVRESGFGREGGWEGLAGYTRPAIAT\nKSPAAVAAYTGDGAADGLDRTAKLYIGGKQTRPDGGYSRAVYGPKGKLLGHASLSNRKDL\nRNAVEAMNAASGWSRTTGHLRAQILYFIGENLSARADEFANRIKDMTGKDGKAEVAASID\nRLFSAAAWADKYDGQVKGVPLRGVALAMKEPVGKIGILCPDAAPLLGLVSLMAPAIAMGN\nRVTLAASEAFPLAATDFYQVLDTSDVPAGVVNILTGAHADLAEPMARHLDLDAVWGLSGH\nAQVIEAASAGNLKRSWTGPFDPAHDHTRDILSHATEVKTIWVPYGA",
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          "number_molecules": 2,
          "complex_state": false,
          "deuteration": null,
          "molecule_source": "biological",
          "molecule_description": null
        }
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      "buffer": {
        "name": "20 mM Tris-HCl, 100 mM NaCl, 2.0% glycerol, 0.5 mM Tris(3-hydroxypropyl)phosphine",
        "concentration_unit": null,
        "comment": null,
        "additive": null,
        "concentration": null,
        "pka": null,
        "ph": 8.0,
        "deuteration": null
      },
      "purity_method": null,
      "name": "Aldehyde dehydrogenase 16 from Loktanella sp. (LsALDH16): 2 mg/ml",
      "ext_coefficient": null,
      "contrast": null,
      "specific_vol": null,
      "dry_vol": null,
      "absorbption": null,
      "deuteration": null,
      "mixture": null
    },
    "contributor": [
      {
        "affiliation": [
          {
            "short_name": "Mizzou",
            "address": "Columbia, MO, USA",
            "full_name": "University of Missouri-Columbia",
            "webpage": "http://missouri.edu/"
          }
        ],
        "contributor_name": "Li-Kai",
        "contributor_surname": "Liu",
        "orcid": "https://orcid.org/0000-0001-9759-7250"
      }
    ],
    "concentration_method": null,
    "concentration_unit": null,
    "date": "2017-12-13",
    "storage_temperature": null,
    "cell_temperature": 10.0,
    "exposure_time": 0.3,
    "number_of_frames": 32,
    "wavelength": 0.127,
    "sample_detector_distance": 1.5,
    "concentration_min": null,
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    "s_min": 0.131,
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    "total_exposure_time": null,
    "seccolumn": null
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          "software": "PyMOL",
          "pdb_link": [],
          "model_title": null,
          "type_of_model": "atomic",
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          "model_data": "https://www.sasbdb.org/media/pdb_file/SASDE47_fit1_model1.pdb",
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      "fit_unit": "1/A",
      "fit_plot": "https://www.sasbdb.org/media/fitting_files/scattering_plots/Ls16A1_refine_93dimer_E4_Ls16A1_lo_fit_img.png",
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      "software_version": null,
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  "intensities_log_log_plot": "SASDE47_datloglog_img.png",
  "symmetry": null,
  "last_modified": "2019-12-06T13:07:15.624532+01:00",
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}
View the complete manifest.json source
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