SASDEB9

Flagellar brake protein YcgR from Escherichia coli

Data type: SASBDB experimental data Status: Published Curve type: Single concentration Last updated: 2020-08-13T15:55:10.745106+02:00
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1. Samples, Components and Experimental Conditions Sample & Experiment

Sample 1 · Flagellar brake protein YcgR from Escherichia coli

Concentration— – 2.0 Buffer / pH20 mM HEPES, 150mM NaCl, 10% glycerol, / 7.5
Experimental temperature4.0 Facility / beamlineShanghai Synchrotron Radiation Facility (SSRF) / BL19U2
Wavelength0.103 nmExposure1.0 s × 20

Molecular Components

ComponentType / organismUniProt and ConstructOligomeric StateMolecular weight
Flagellar brake protein YcgR
View sequence
MSHYHEQFLKQNPLAVLGVLRDLHKAAIPLRLSWNGGQLISKLLAITPDKLVLDFGSQAEDNIAVLKAQHITITAETQGAKVEFTVEQLQQSEYLQLPAFITVPPPTLWFVQRRRYFRISAPLHPPYFCQTKLADNSTLRFRLYDLSLGGMGALLETAKPAELQEGMRFAQIEVNMGQWGVFHFDAQLISISERKVIDGKNETITTPRLSFRFLNVSPTVERQLQRIIFSLEREAREKADKVRDKLAAALEHHHHHH
proteinEscherichia coliP76010—–—monomerMolecule count 129.376 kDa

Experimental Curves

CurvePoints / columnsq rangeUncertainty qualityNegative-intensity pointsSource file
1631[3]0.02322279–0.3341323 1/AHas uncertainty columnMissing 04sasbdb/entries/b9/sasdeb9/source/SASDEB9.dat
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2. Measurements Reported by SASBDB Reported Results

MetricMethodValueUncertaintyUnit
dmaxP(r)9.1—Å
i0Guinier2183.739.59—
i0P(r)2190.0——
mwExperimental29.0—kDa
mwPorod27.7—kDa
porod_volumePorod44.33—ų
rgGuinier2.610.3Å
rgP(r)2.67—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 HEPES, 150mM NaCl, 10% glycerol,Buffer concentration—
pH7.5Additives—
Buffer description—
Purity measurement method—Extinction coefficient—
Absorbance—Scattering contrast—
Specific volume / dry volume— / —Mixture / deuteration— / —

Acquisition Conditions and Instrument

Measurement date2016-01-04Storage / measurement temperature4.0 / 4.0
Exposure time1.0Frames20
Wavelength0.103Sample-to-detector distance—
SourceX-ray synchrotronDetectorPilatus 1M
Facility / beamlineShanghai Synchrotron Radiation Facility (SSRF) / BL19U2 · Shanghai, China
q range0.232 – 3.341Sample 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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All source fields (unfiltered)

Every source field is expanded here, including empty values, list members and fields already shown above.

summary.json:179 field values
Field pathRaw value
codeSASDEB9
statusPublished
type_of_curveSingle concentration
angular_unit1/A
project.titleStructural insights into the mechanism of c-di-GMP-bound YcgR regulating flagellar motility in <i>Escherichia coli</i>.
project.publication.titleStructural insights into the mechanism of c-di-GMP-bound YcgR regulating flagellar motility in <i>Escherichia coli</i>.
project.publication.author_listHou YJ, Yang WS, Hong Y, Zhang Y, Wang DC, Li DF
project.publication.journalJ Biol Chem
project.publication.doi10.1074/jbc.RA119.009739
project.publication.pmid31836667
project.publication.published_date2020 Jan 17
project.statusreleased
project.submitted_date2018-12-19
project.released_date2019-12-13
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experiment.instrument.detector.resolution172.0
experiment.instrument.nameShanghai Synchrotron Radiation Facility (SSRF)
experiment.instrument.cityShanghai
experiment.instrument.countryChina
experiment.instrument.beamline_nameBL19U2
experiment.instrument.beam_geometry
experiment.instrument.type_of_sourceX-ray synchrotron
experiment.instrument.point_sourcenull
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experiment.instrument.sample_path_lengthnull
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experiment.sample.molecule[0].long_nameFlagellar brake protein YcgR
experiment.sample.molecule[0].short_namenull
experiment.sample.molecule[0].sequenceMSHYHEQFLKQNPLAVLGVLRDLHKAAIPLRLSWNGGQLISKLLAITPDKLVLDFGSQAEDNIAVLKAQHITITAETQGAKVEFTVEQLQQSEYLQLPAFITVPPPTLWFVQRRRYFRISAPLHPPYFCQTKLADNSTLRFRLYDLSLGGMGALLETAKPAELQEGMRFAQIEVNMGQWGVFHFDAQLISISERKVIDGKNETITTPRLSFRFLNVSPTVERQLQRIIFSLEREAREKADKVRDKLAAALEHHHHHH
experiment.sample.molecule[0].organismEscherichia coli
experiment.sample.molecule[0].uniprot_codeP76010
experiment.sample.molecule[0].uniprot_range_firstnull
experiment.sample.molecule[0].uniprot_range_lastnull
experiment.sample.molecule[0].oligomerizationmonomer
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experiment.sample.molecule[0].total_mw29.376
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
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experiment.sample.nameFlagellar brake protein YcgR from Escherichia coli
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experiment.sample.contrastnull
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experiment.contributor[0].affiliation[0].short_namenull
experiment.contributor[0].affiliation[0].addressChina
experiment.contributor[0].affiliation[0].full_nameInstitute of Biophysics, Chinese Academy of Sciences
experiment.contributor[0].affiliation[0].webpagehttp://english.ibp.cas.cn/
experiment.contributor[0].contributor_nameYanjie
experiment.contributor[0].contributor_surnameHou
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experiment_descriptionSynchrotron SAXS data from solutions of the flagellar brake protein, YcgR in 20 mM HEPES, 150mM NaCl, 10% glycerol, pH 7.5 were collected on the BL19U2 beam line at the Shanghai Synchrotron Radiation Facility (SSRF; Shanghai, China) using a Pilatus 1M detector at a wavelength of λ = 0.103 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 4°C. 20 successive 1 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_unitnull
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guinier_i0_mwnull
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symmetrynull
last_modified2020-08-13T15:55:10.745106+02:00
bragg_peak[]
manifest.json:36 field values
Field pathRaw value
codeSASDEB9
statussuccess
started_at2026-08-11T16:10:28.245659+00:00
finished_at2026-08-11T16:10:40.264915+00:00
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View the complete summary.json source
{
  "code": "SASDEB9",
  "status": "Published",
  "type_of_curve": "Single concentration",
  "angular_unit": "1/A",
  "project": {
    "title": "Structural insights into the mechanism of c-di-GMP-bound YcgR regulating flagellar motility in <i>Escherichia coli</i>.",
    "publication": {
      "title": "Structural insights into the mechanism of c-di-GMP-bound YcgR regulating flagellar motility in <i>Escherichia coli</i>.",
      "author_list": "Hou YJ, Yang WS, Hong Y, Zhang Y, Wang DC, Li DF",
      "journal": "J Biol Chem",
      "doi": "10.1074/jbc.RA119.009739",
      "pmid": "31836667",
      "published_date": "2020 Jan 17"
    },
    "status": "released",
    "submitted_date": "2018-12-19",
    "released_date": "2019-12-13"
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          "oligomerization": "monomer",
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View the complete manifest.json source
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