SASDED2

Polyglutamine tract-binding protein 1 (PQBP-1)

Data type: SASBDB experimental data Status: Published Curve type: Merged Last updated: 2023-05-25T11:21:52.654103+02:00
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1. Samples, Components and Experimental Conditions Sample & Experiment

Sample 1 · Polyglutamine tract-binding protein 1 (PQBP-1)

Concentration7.0 – 13.0 Buffer / pH20 mM Tris, 150 mM NaCl, 1mM DTT, / 7.0
Experimental temperature20.0 Facility / beamlineDORIS III, DESY / EMBL X33
Wavelength0.15 nmExposure15.0 s × 8

Molecular Components

ComponentType / organismUniProt and ConstructOligomeric StateMolecular weight
Polyglutamine-binding protein 1
View sequence
>SP|O60828|PQBP1_HUMANPOLYGLUTAMINE-BINDINGPROTEIN1OS=HOMOSAPIENSGPMPLPVALQTRLAKRGILKHLEPEPEEEIIAEDYDDDPVDYEATRLEGLPPSWYKVFDPSCGLPYYWNADTDLVSWLSPHDPNSVVTKSAKKLRSSNADAEEKLDRSHDKSDRGHDKSDRSHEKLDRGHDKSDRGHDKSDRDRERGYDKVDRERERDRERDRDRGYDKADREEGKERRHHRREELAPYPKSKKAVSRKDEELDPMDPSSYSDAPRGTWSTGLPKRNEAKTGADTTAAGPLFQQRPYPSPGAVLRANAEASRTKQQD
proteinHomo sapiensO608281–265monomerMolecule count 130.626 kDa

Experimental Curves

CurvePoints / columnsq rangeUncertainty qualityNegative-intensity pointsSource file
12299[3]0.0774543–6.20766 1/nmHas uncertainty columnMissing 00sasbdb/entries/d2/sasded2/source/SASDED2.dat
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2. Measurements Reported by SASBDB Reported Results

MetricMethodValueUncertaintyUnit
dmaxP(r)13.0—nm
i0Guinier40.49—arbitrary
i0P(r)40.75—arbitrary
mwExperimental30.6—kDa
mwGuinier I(0)30.03.0kDa
mwPorod35.0—kDa
porod_volumePorod51.0—nm³
rgGuinier3.720.2nm
rgP(r)3.82—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, 1mM DTT,Buffer concentration—
pH7.0Additives—
Buffer description—
Purity measurement method—Extinction coefficient—
Absorbance—Scattering contrast—
Specific volume / dry volume— / —Mixture / deuteration— / —

Acquisition Conditions and Instrument

Measurement date2009-11-18Storage / measurement temperature20.0 / 20.0
Exposure time15.0Frames8
Wavelength0.15Sample-to-detector distance2.7
SourceX-ray synchrotronDetectorPilatus 1M-W
Facility / beamlineDORIS III, DESY / EMBL X33 · Hamburg, Germany
q range0.077 – 6.208Sample 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:168 field values
Field pathRaw value
codeSASDED2
statusPublished
type_of_curveMerged
angular_unit1/nm
project.titleSolution model of the intrinsically disordered polyglutamine tract-binding protein-1.
project.publication.titleSolution model of the intrinsically disordered polyglutamine tract-binding protein-1.
project.publication.author_listRees M, Gorba C, de Chiara C, Bui TT, Garcia-Maya M, Drake AF, Okazawa H, Pastore A, Svergun D, Chen YW
project.publication.journalBiophys J
project.publication.doi10.1016/j.bpj.2012.02.047
project.publication.pmid22500761
project.publication.published_date2012 Apr 4
project.statusreleased
project.submitted_date2018-08-03
project.released_date2018-08-07
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experiment.instrument.detector.namePilatus 1M-W
experiment.instrument.detector.resolution0.172
experiment.instrument.nameDORIS III, DESY
experiment.instrument.cityHamburg
experiment.instrument.countryGermany
experiment.instrument.beamline_nameEMBL X33
experiment.instrument.beam_geometry0.60
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_namePolyglutamine-binding protein 1
experiment.sample.molecule[0].short_namePQBP-1
experiment.sample.molecule[0].sequence>sp|O60828|PQBP1_HUMAN Polyglutamine-binding protein 1 OS=Homo sapiens GPMPLPVALQTRLAKRGILKHLEPEPEEEIIAEDYDDDPVDYEATRLEGLPPSWYKVFDPSC GLPYYWNADTDLVSWLSPHDPNSVVTKSAKKLRSSNADAEEKLDRSHDKSDRGHDKSDRS HEKLDRGHDKSDRGHDKSDRDRERGYDKVDRERERDRERDRDRGYDKADREEGKERRHHR REELAPYPKSKKAVSRKDEELDPMDPSSYSDAPRGTWSTGLPKRNEAKTGADTTAAGPLF QQRPYPSPGAVLRANAEASRTKQQD
experiment.sample.molecule[0].organismHomo sapiens
experiment.sample.molecule[0].uniprot_codeO60828
experiment.sample.molecule[0].uniprot_range_first1
experiment.sample.molecule[0].uniprot_range_last265
experiment.sample.molecule[0].oligomerizationmonomer
experiment.sample.molecule[0].molecular_typeprotein
experiment.sample.molecule[0].uniprot_sequenceMPLPVALQTRLAKRGILKHLEPEPEEEIIAEDYDDDPVDYEATRLEGLPPSWYKVFDPSC GLPYYWNADTDLVSWLSPHDPNSVVTKSAKKLRSSNADAEEKLDRSHDKSDRGHDKSDRS HEKLDRGHDKSDRGHDKSDRDRERGYDKVDRERERDRERDRDRGYDKADREEGKERRHHR REELAPYPKSKKAVSRKDEELDPMDPSSYSDAPRGTWSTGLPKRNEAKTGADTTAAGPLF QQRPYPSPGAVLRANAEASRTKQQD
experiment.sample.molecule[0].mw30.626
experiment.sample.molecule[0].total_mw30.626
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.name20 mM Tris, 150 mM NaCl, 1mM DTT,
experiment.sample.buffer.concentration_unitnull
experiment.sample.buffer.commentnull
experiment.sample.buffer.additivenull
experiment.sample.buffer.concentrationnull
experiment.sample.buffer.pkanull
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experiment.sample.buffer.deuterationnull
experiment.sample.purity_methodnull
experiment.sample.namePolyglutamine tract-binding protein 1 (PQBP-1)
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].addressLondon, UK
experiment.contributor[0].affiliation[0].full_nameKing's College London
experiment.contributor[0].affiliation[0].webpagehttps://www.kcl.ac.uk
experiment.contributor[0].contributor_nameYu Wai
experiment.contributor[0].contributor_surnameChen
experiment.contributor[0].orcidhttp://orcid.org/0000-0001-7833-7533
experiment.concentration_methodnull
experiment.concentration_unitnull
experiment.date2009-11-18
experiment.storage_temperature20.0
experiment.cell_temperature20.0
experiment.exposure_time15.0
experiment.number_of_frames8
experiment.wavelength0.15
experiment.sample_detector_distance2.7
experiment.concentration_min7.0
experiment.concentration_max13.0
experiment.sample_volumenull
experiment.flow_ratenull
experiment.s_min0.077
experiment.s_max6.208
experiment.total_exposure_timenull
experiment.seccolumnnull
fits[0].models[]
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fits[0].p_value0.0
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estimated_volume_methodnull
pddf_softwareATSAS GNOM
pddf_software_version4.5a
i0_calibration_standardnull
descriptionnull
experiment_descriptionSynchrotron SAXS data from solutions of polyglutamine tract-binding protein 1 (PQBP-1) in 20 mM Tris, 150 mM NaCl, 1mM DTT, pH 7 were collected on the EMBL X33 beam line at DORIS III (Hamburg, Germany) using a Pilatus 1M-W detector at a sample-detector distance of 2.7 m and at a wavelength of λ = 0.15 nm (l(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). Solute concentrations ranging between 7 and 13 mg/ml were measured at 20°C. Eight successive 15 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. The low angle data collected at lower concentration were merged with the highest concentration high angle data to yield the final composite scattering curve.
tags[0]idp
tags[1]X33
intensity_unitarbitrary
experimental_mw30.6
experimental_mw_errornull
guinier_i0_mw30.0
guinier_i0_mw_error3.0
porod_mw35.0
porod_mw_errornull
pddf_i040.75
pddf_i0_errornull
guinier_i040.49
guinier_i0_errornull
pddf_rg3.82
pddf_rg_errornull
guinier_rg3.72
guinier_rg_error0.2
pddf_dmax13.0
pddf_dmax_errornull
porod_volume51.0
porod_volume_errornull
estimated_volumenull
estimated_volume_errornull
guinier_point_first30
guinier_point_last97
pddf_point_firstnull
pddf_point_lastnull
i0_calibration_standard_datanull
intensities_log_log_plotSASDED2_datloglog_img.png
symmetrynull
last_modified2023-05-25T11:21:52.654103+02:00
bragg_peak[]
manifest.json:36 field values
Field pathRaw value
codeSASDED2
statussuccess
started_at2026-08-11T13:35:57.628006+00:00
finished_at2026-08-11T13:36:11.916899+00:00
source_last_modified2023-05-25T11:21:52.654103+02:00
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View the complete summary.json source
{
  "code": "SASDED2",
  "status": "Published",
  "type_of_curve": "Merged",
  "angular_unit": "1/nm",
  "project": {
    "title": "Solution model of the intrinsically disordered polyglutamine tract-binding protein-1.",
    "publication": {
      "title": "Solution model of the intrinsically disordered polyglutamine tract-binding protein-1.",
      "author_list": "Rees M, Gorba C, de Chiara C, Bui TT, Garcia-Maya M, Drake AF, Okazawa H, Pastore A, Svergun D, Chen YW",
      "journal": "Biophys J",
      "doi": "10.1016/j.bpj.2012.02.047",
      "pmid": "22500761",
      "published_date": "2012 Apr 4"
    },
    "status": "released",
    "submitted_date": "2018-08-03",
    "released_date": "2018-08-07"
  },
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      },
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      "country": "Germany",
      "beamline_name": "EMBL X33",
      "beam_geometry": "0.60",
      "type_of_source": "X-ray synchrotron",
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    },
    "sample": {
      "molecule": [
        {
          "long_name": "Polyglutamine-binding protein 1",
          "short_name": "PQBP-1",
          "sequence": ">sp|O60828|PQBP1_HUMAN Polyglutamine-binding protein 1 OS=Homo sapiens\r\nGPMPLPVALQTRLAKRGILKHLEPEPEEEIIAEDYDDDPVDYEATRLEGLPPSWYKVFDPSC\r\nGLPYYWNADTDLVSWLSPHDPNSVVTKSAKKLRSSNADAEEKLDRSHDKSDRGHDKSDRS\r\nHEKLDRGHDKSDRGHDKSDRDRERGYDKVDRERERDRERDRDRGYDKADREEGKERRHHR\r\nREELAPYPKSKKAVSRKDEELDPMDPSSYSDAPRGTWSTGLPKRNEAKTGADTTAAGPLF\r\nQQRPYPSPGAVLRANAEASRTKQQD",
          "organism": "Homo sapiens",
          "uniprot_code": "O60828",
          "uniprot_range_first": 1,
          "uniprot_range_last": 265,
          "oligomerization": "monomer",
          "molecular_type": "protein",
          "uniprot_sequence": "MPLPVALQTRLAKRGILKHLEPEPEEEIIAEDYDDDPVDYEATRLEGLPPSWYKVFDPSC\nGLPYYWNADTDLVSWLSPHDPNSVVTKSAKKLRSSNADAEEKLDRSHDKSDRGHDKSDRS\nHEKLDRGHDKSDRGHDKSDRDRERGYDKVDRERERDRERDRDRGYDKADREEGKERRHHR\nREELAPYPKSKKAVSRKDEELDPMDPSSYSDAPRGTWSTGLPKRNEAKTGADTTAAGPLF\nQQRPYPSPGAVLRANAEASRTKQQD",
          "mw": 30.626,
          "total_mw": 30.626,
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View the complete manifest.json source
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