SASDC46

PH - Pleckstrin-homology domain of Bcr-Abl tyrosine kinase p210

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

The homology model is derived from PDB ID: 2z0q. The PDB entry for BCR-ABL p210 fusion protein PH domain is 5oc7 (has an internal deletion).

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1. Samples, Components and Experimental Conditions Sample & Experiment

Sample 1 · PH - Pleckstrin-homology domain of Bcr-Abl tyrosine kinase p210

Concentration1.0 – 9.14 Buffer / pH25 mM Tris-HCl, 150 mM NaCl, 5% Glycerol, 1 mM DTT / 7.5
Experimental temperature10.0 Facility / beamlinePETRA III / EMBL P12
Wavelength0.124 nmExposure0.045 s × 20

Molecular Components

ComponentType / organismUniProt and ConstructOligomeric StateMolecular weight
BCR-ABL p210 fusion protein (PH domain)
View sequence
GAMGEHRQLLKDSFMVELVEGARKLRHVFLFTDLLLCTKLKKQSGGKTQQYDCKWYIPLTDLSFQMVDELEAVPNIPLVPDEELDALKIKISQIKNDIQREKRANKGSKATERLKKKLSEQESLLLLMSPSMAFRVHSRNGKSYTFLISSDYERAEWRENIREQQKKCFRSFSLTSVELQMLTNSCVKLQTVH
proteinHomo sapiensP11274—–—monomerMolecule count 122.413 kDa

Experimental Curves

CurvePoints / columnsq rangeUncertainty qualityNegative-intensity pointsSource file
11809[3]0.00214005–0.378991 1/AHas uncertainty columnMissing 016sasbdb/entries/46/sasdc46/source/SASDC46.dat
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2. Measurements Reported by SASBDB Reported Results

MetricMethodValueUncertaintyUnit
dmaxP(r)6.60.3Å
i0Guinier2071.99.84—
i0P(r)2074.09.0—
mwExperimental23.0—kDa
mwGuinier I(0)16.03.0kDa
mwPorod23.0—kDa
porod_volumePorod38.0—ų
rgGuinier2.040.03Å
rgP(r)2.070.02Å

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

Fit 1 · SREFLEX 2.8.1

χ²: 1.1CorMap p: 0.026281Unit: 1/A
ModelName / TypeSoftwareSymmetryModel MWPDB DeclarationSource file
1—atomicSREFLEX 2.8.1—19.02—Model Image
▶

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 name25 mM Tris-HCl, 150 mM NaCl, 5% Glycerol, 1 mM DTTBuffer concentration—
pH7.5Additives—
Buffer description—
Purity measurement method—Extinction coefficient—
Absorbance—Scattering contrast—
Specific volume / dry volume— / —Mixture / deuteration— / —

Acquisition Conditions and Instrument

Measurement date2016-11-10Storage / measurement temperature10.0 / 10.0
Exposure time0.045Frames20
Wavelength0.124Sample-to-detector distance3.0
SourceX-ray synchrotronDetectorPilatus 2M
Facility / beamlinePETRA III / EMBL P12 · DESY; Hamburg, Germany
q range0.021 – 3.79Sample 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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pddf: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:156 field values
Field pathRaw value
codeSASDC46
statusPublished
type_of_curveMerged
angular_unit1/A
project.titleStructural and functional dissection of the DH and PH domains of oncogenic Bcr-Abl tyrosine kinase.
project.publication.titleStructural and functional dissection of the DH and PH domains of oncogenic Bcr-Abl tyrosine kinase.
project.publication.author_listReckel S, Gehin C, Tardivon D, Georgeon S, Kükenshöner T, Löhr F, Koide A, Buchner L, Panjkovich A, Reynaud A, Pinho S, Gerig B, Svergun D, Pojer F, Güntert P, Dötsch V, Koide S, Gavin AC, Hantschel O
project.publication.journalNat Commun
project.publication.doi10.1038/s41467-017-02313-6
project.publication.pmid29235475
project.publication.published_date2017 Dec 13
project.statusreleased
project.submitted_date2017-07-10
project.released_date2018-01-03
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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_nameBCR-ABL p210 fusion protein (PH domain)
experiment.sample.molecule[0].short_namenull
experiment.sample.molecule[0].sequenceGAMGEHRQLLKDSFMVELVEGAR KLRHVFLFTDLLLCTKLKKQ SGGKTQQYDCKWYIPLTDLS FQMVDELEAVPNIPLVPDEE LDALKIKISQIKNDIQREKR ANKGSKATERLKKKLSEQES LLLLMSPSMAFRVHSRNGKS YTFLISSDYERAEWRENIRE QQKKCFRSFSLTSVELQMLT NSCVKLQTVH
experiment.sample.molecule[0].organismHomo sapiens
experiment.sample.molecule[0].uniprot_codeP11274
experiment.sample.molecule[0].uniprot_range_firstnull
experiment.sample.molecule[0].uniprot_range_lastnull
experiment.sample.molecule[0].oligomerizationmonomer
experiment.sample.molecule[0].molecular_typeprotein
experiment.sample.molecule[0].uniprot_sequenceMVDPVGFAEAWKAQFPDSEPPRMELRSVGDIEQELERCKASIRRLEQEVNQERFRMIYLQ TLLAKEKKSYDRQRWGFRRAAQAPDGASEPRASASRPQPAPADGADPPPAEEPEARPDGE GSPGKARPGTARRPGAAASGERDDRGPPASVAALRSNFERIRKGHGQPGADAEKPFYVNV EFHHERGLVKVNDKEVSDRISSLGSQAMQMERKKSQHGAGSSVGDASRPPYRGRSSESSC GVDGDYEDAELNPRFLKDNLIDANGGSRPPWPPLEYQPYQSIYVGGMMEGEGKGPLLRSQ STSEQEKRLTWPRRSYSPRSFEDCGGGYTPDCSSNENLTSSEEDFSSGQSSRVSPSPTTY RMFRDKSRSPSQNSQQSFDSSSPPTPQCHKRHRHCPVVVSEATIVGVRKTGQIWPNDGEG AFHGDADGSFGTPPGYGCAADRAEEQRRHQDGLPYIDDSPSSSPHLSSKGRGSRDALVSG ALESTKASELDLEKGLEMRKWVLSGILASEETYLSHLEALLLPMKPLKAAATTSQPVLTS QQIETIFFKVPELYEIHKEFYDGLFPRVQQWSHQQRVGDLFQKLASQLGVYRAFVDNYGV AMEMAEKCCQANAQFAEISENLRARSNKDAKDPTTKNSLETLLYKPVDRVTRSTLVLHDL LKHTPASHPDHPLLQDALRISQNFLSSINEEITPRRQSMTVKKGEHRQLLKDSFMVELVE GARKLRHVFLFTDLLLCTKLKKQSGGKTQQYDCKWYIPLTDLSFQMVDELEAVPNIPLVP DEELDALKIKISQIKNDIQREKRANKGSKATERLKKKLSEQESLLLLMSPSMAFRVHSRN GKSYTFLISSDYERAEWRENIREQQKKCFRSFSLTSVELQMLTNSCVKLQTVHSIPLTIN KEDDESPGLYGFLNVIVHSATGFKQSSNLYCTLEVDSFGYFVNKAKTRVYRDTAEPNWNE EFEIELEGSQTLRILCYEKCYNKTKIPKEDGESTDRLMGKGQVQLDPQALQDRDWQRTVI AMNGIEVKLSVKFNSREFSLKRMPSRKQTGVFGVKIAVVTKRERSKVPYIVRQCVEEIER RGMEEVGIYRVSGVATDIQALKAAFDVNNKDVSVMMSEMDVNAIAGTLKLYFRELPEPLF TDEFYPNFAEGIALSDPVAKESCMLNLLLSLPEANLLTFLFLLDHLKRVAEKEAVNKMSL HNLATVFGPTLLRPSEKESKLPANPSQPITMTDSWSLEVMSQVQVLLYFLQLEAIPAPDS KRQSILFSTEV
experiment.sample.molecule[0].mw22.413
experiment.sample.molecule[0].total_mw22.413
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_descriptionnull
experiment.sample.buffer.name25 mM Tris-HCl, 150 mM NaCl, 5% Glycerol, 1 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
experiment.sample.buffer.deuterationnull
experiment.sample.purity_methodnull
experiment.sample.namePH - Pleckstrin-homology domain of Bcr-Abl tyrosine kinase p210
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_nameAlejandro
experiment.contributor[0].contributor_surnamePanjkovich
experiment.contributor[0].orcidnull
experiment.concentration_methodnull
experiment.concentration_unitnull
experiment.date2016-11-10
experiment.storage_temperature10.0
experiment.cell_temperature10.0
experiment.exposure_time0.045
experiment.number_of_frames20
experiment.wavelength0.124
experiment.sample_detector_distance3.0
experiment.concentration_min1.0
experiment.concentration_max9.14
experiment.sample_volumenull
experiment.flow_ratenull
experiment.s_min0.021
experiment.s_max3.79
experiment.total_exposure_timenull
experiment.seccolumnnull
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fits[0].models[0].bead_radius1.9
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fits[0].models[0].comment
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fits[0].softwareSREFLEX
fits[0].chi_square_value1.1
fits[0].p_value0.026281
fits[0].fit_residual_plotSASDC46_fit1_fitresiduals_img.png
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fits[0].descriptionnull
estimated_volume_methodnull
pddf_softwareATSAS GNOM
pddf_software_version5.0
i0_calibration_standardnull
descriptionThe homology model is derived from PDB ID: 2z0q. The PDB entry for BCR-ABL p210 fusion protein PH domain is 5oc7 (has an internal deletion).
experiment_descriptionnull
tags[]
intensity_unitnull
experimental_mw23.0
experimental_mw_errornull
guinier_i0_mw16.0
guinier_i0_mw_error3.0
porod_mw23.0
porod_mw_errornull
pddf_i02074.0
pddf_i0_error9.0
guinier_i02071.9
guinier_i0_error9.84
pddf_rg2.07
pddf_rg_error0.02
guinier_rg2.04
guinier_rg_error0.03
pddf_dmax6.6
pddf_dmax_error0.3
porod_volume38.0
porod_volume_errornull
estimated_volumenull
estimated_volume_errornull
guinier_point_first26
guinier_point_last296
pddf_point_firstnull
pddf_point_lastnull
i0_calibration_standard_datanull
intensities_log_log_plotSASDC46_datloglog_img.png
symmetrynull
last_modified2023-06-21T07:56:39.492710+02:00
bragg_peak[]
manifest.json:36 field values
Field pathRaw value
codeSASDC46
statussuccess
started_at2026-08-11T15:01:18.511740+00:00
finished_at2026-08-11T15:01:28.646641+00:00
source_last_modified2023-06-21T07:56:39.492710+02:00
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View the complete summary.json source
{
  "code": "SASDC46",
  "status": "Published",
  "type_of_curve": "Merged",
  "angular_unit": "1/A",
  "project": {
    "title": "Structural and functional dissection of the DH and PH domains of oncogenic Bcr-Abl tyrosine kinase.",
    "publication": {
      "title": "Structural and functional dissection of the DH and PH domains of oncogenic Bcr-Abl tyrosine kinase.",
      "author_list": "Reckel S, Gehin C, Tardivon D, Georgeon S, Kükenshöner T, Löhr F, Koide A, Buchner L, Panjkovich A, Reynaud A, Pinho S, Gerig B, Svergun D, Pojer F, Güntert P, Dötsch V, Koide S, Gavin AC, Hantschel O",
      "journal": "Nat Commun",
      "doi": "10.1038/s41467-017-02313-6",
      "pmid": "29235475",
      "published_date": "2017 Dec 13"
    },
    "status": "released",
    "submitted_date": "2017-07-10",
    "released_date": "2018-01-03"
  },
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    "sample": {
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        {
          "long_name": "BCR-ABL p210 fusion protein (PH domain)",
          "short_name": null,
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          "organism": "Homo sapiens",
          "uniprot_code": "P11274",
          "uniprot_range_first": null,
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          "molecular_type": "protein",
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      "ext_coefficient": null,
      "contrast": null,
      "specific_vol": null,
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      {
        "affiliation": [
          {
            "short_name": "EMBL-Hamburg",
            "address": "Notkestraße 85, Geb. 25A, 22607 Hamburg, Deutschland, Germany",
            "full_name": "European Molecular Biology Laboratory (EMBL) - Hamburg outstation",
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}
View the complete manifest.json source
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