SASDB24

Aureochrome 1a bZIP-LOV module: PtAUREO1a bZIP-LOV (Light oxygen voltage) module (light state, Tris)

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

Sample 1 · Aureochrome 1a bZIP-LOV module: PtAUREO1a bZIP-LOV (Light oxygen voltage) module (light state, Tris)

Concentration0.63 – 2.5 mg/mlBuffer / pH10 mM Tris 300 mM NaCl / 8.0
Experimental temperature4.0 Facility / beamlineESRF / BM29
Wavelength0.93 nmExposure20.0 s × 10

Molecular Components

ComponentType / organismUniProt and ConstructOligomeric StateMolecular weight
Aureochrome 1a bZIP-LOV module
View sequence
MGSSHHHHHHSSGLVPRGSHMDRKMSEQQKVERRERNREHAKRSRIRKKFLLESLQQSVSLLKEENEKLKTSIRSHLGEEKADTLIDSANNNKTDVDGLLASSQGIANKVLDDPDFSFIKALQTAQQNFVVTDPSLPDNPIVYASQGFLNLTGYSLDQILGRNCRFLQGPETDPKAVERIRKAIEQGNDMSVCLLNYRVDGTTFWNQFFIAALRDAGGNVTNFVGVQCKVSDQYAATVTKQQEEEEEAAANDDED
proteinPhaeodactylum tricornutum—145–378dimerMolecule count 228.655 kDa

Experimental Curves

CurvePoints / columnsq rangeUncertainty qualityNegative-intensity pointsSource file
1800[3]0.0363783–3.82291 1/nmHas uncertainty columnMissing 00sasbdb/entries/24/sasdb24/source/SASDB24.dat
▼

2. Measurements Reported by SASBDB Reported Results

MetricMethodValueUncertaintyUnit
dmaxP(r)12.54—nm
i0Guinier43.62——
i0P(r)42.66——
mwExperimental43.5—kDa
mwPorod60.5—kDa
porod_volumePorod121.45—nm³
rgGuinier3.89—nm
rgP(r)3.872—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

This entry has no source fit record.

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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 name10 mM Tris 300 mM NaClBuffer concentration10.0 mM
pH8.0Additives300 mM NaCl
Buffer description—
Purity measurement method—Extinction coefficient—
Absorbance—Scattering contrast—
Specific volume / dry volume— / —Mixture / deuteration— / —

Acquisition Conditions and Instrument

Measurement date2014-11-06Storage / measurement temperature4.0 / 4.0
Exposure time20.0Frames10
Wavelength0.93Sample-to-detector distance2.43
SourceX-ray synchrotronDetectorPilatus 1M
Facility / beamlineESRF / BM29 · Grenoble, France
q range0.036 – 3.823Sample 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:134 field values
Field pathRaw value
codeSASDB24
statusPublished
type_of_curveMerged
angular_unit1/nm
project.titleAllosteric communication between DNA-binding and light-responsive domains of diatom class I aureochromes.
project.publication.titleAllosteric communication between DNA-binding and light-responsive domains of diatom class I aureochromes.
project.publication.author_listBanerjee A, Herman E, Serif M, Maestre-Reyna M, Hepp S, Pokorny R, Kroth PG, Essen LO, Kottke T
project.publication.journalNucleic Acids Res
project.publication.doi10.1093/nar/gkw420
project.publication.pmid27179025
project.publication.published_date2016 Jul 8
project.statusreleased
project.submitted_date2016-02-14
project.released_date2016-09-19
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experiment.instrument.detector.typeDectris
experiment.instrument.detector.namePilatus 1M
experiment.instrument.detector.resolution172.0
experiment.instrument.nameESRF
experiment.instrument.cityGrenoble
experiment.instrument.countryFrance
experiment.instrument.beamline_nameBM29
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_nameAureochrome 1a bZIP-LOV module
experiment.sample.molecule[0].short_namePtAUREO1a bZIP-LOV
experiment.sample.molecule[0].sequenceMGSSHHHHHHSSGLVPRGSHMDRKMSEQQKVERRERNREHAKRSRIRKKFLLESLQQSVSLLKEENEKLKTSIRSHLGEEKADTLIDSANNNKTDVDGLLASSQGIANKVLDDPDFSFIKALQTAQQNFVVTDPSLPDNPIVYASQGFLNLTGYSLDQILGRNCRFLQGPETDPKAVERIRKAIEQGNDMSVCLLNYRVDGTTFWNQFFIAALRDAGGNVTNFVGVQCKVSDQYAATVTKQQEEEEEAAANDDED
experiment.sample.molecule[0].organismPhaeodactylum tricornutum
experiment.sample.molecule[0].uniprot_codenull
experiment.sample.molecule[0].uniprot_range_first145
experiment.sample.molecule[0].uniprot_range_last378
experiment.sample.molecule[0].oligomerizationdimer
experiment.sample.molecule[0].molecular_typeprotein
experiment.sample.molecule[0].uniprot_sequencenull
experiment.sample.molecule[0].mw28.655
experiment.sample.molecule[0].total_mw57.309
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.name10 mM Tris 300 mM NaCl
experiment.sample.buffer.concentration_unitmM
experiment.sample.buffer.commentnull
experiment.sample.buffer.additive300 mM NaCl
experiment.sample.buffer.concentration10.0
experiment.sample.buffer.pkanull
experiment.sample.buffer.ph8.0
experiment.sample.buffer.deuterationnull
experiment.sample.purity_methodnull
experiment.sample.nameAureochrome 1a bZIP-LOV module: PtAUREO1a bZIP-LOV (Light oxygen voltage) module (light state, Tris)
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].addressMarburg, Germany
experiment.contributor[0].affiliation[0].full_namePhilipps-Universität Marburg
experiment.contributor[0].affiliation[0].webpage
experiment.contributor[0].contributor_nameAnkan
experiment.contributor[0].contributor_surnameBanerjee
experiment.contributor[0].orcidnull
experiment.concentration_methodnull
experiment.concentration_unitmg/ml
experiment.date2014-11-06
experiment.storage_temperature4.0
experiment.cell_temperature4.0
experiment.exposure_time20.0
experiment.number_of_frames10
experiment.wavelength0.93
experiment.sample_detector_distance2.43
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experiment.sample_volumenull
experiment.flow_ratenull
experiment.s_min0.036
experiment.s_max3.823
experiment.total_exposure_timenull
experiment.seccolumnnull
fits[]
estimated_volume_methodnull
pddf_softwareATSAS GNOM
pddf_software_versionnull
i0_calibration_standardnull
descriptionnull
experiment_descriptionX-ray synchrotron radiation scattering data from solutions of light-state PtAUREO1a bZIP-LOV module in 10mM Tris HCl pH 8 300mM NaCl buffer was collected on the BM29 camera on the storage ring ESRF (Grenoble, France) using a 2D Photon counting Pilatus 1M-W pixel detector (s = 4π sin θ/λ, where 2θ is the scattering angle). Ten successive 20 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. Solution scattering data of bZIP-LOV module in the light-state was performed at 0.625-2.5mg/mL concentration at 4 degrees centigrade. The SAXS data derived from the concentration series were merged for analysis using the ATSAS package. For further sequence information refer to the Joint Genome Institute (JGI) entry JGI-49116.
tags[]
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experimental_mw_errornull
guinier_i0_mwnull
guinier_i0_mw_errornull
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pddf_i0_errornull
guinier_i043.62
guinier_i0_errornull
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pddf_rg_errornull
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guinier_rg_errornull
pddf_dmax12.54
pddf_dmax_errornull
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porod_volume_errornull
estimated_volumenull
estimated_volume_errornull
guinier_point_first8
guinier_point_last60
pddf_point_firstnull
pddf_point_lastnull
i0_calibration_standard_datanull
intensities_log_log_plotSASDB24_datloglog_img.png
symmetrynull
last_modified2019-12-06T13:07:15.624532+01:00
bragg_peak[]
manifest.json:36 field values
Field pathRaw value
codeSASDB24
statussuccess
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View the complete summary.json source
{
  "code": "SASDB24",
  "status": "Published",
  "type_of_curve": "Merged",
  "angular_unit": "1/nm",
  "project": {
    "title": "Allosteric communication between DNA-binding and light-responsive domains of diatom class I aureochromes.",
    "publication": {
      "title": "Allosteric communication between DNA-binding and light-responsive domains of diatom class I aureochromes.",
      "author_list": "Banerjee A, Herman E, Serif M, Maestre-Reyna M, Hepp S, Pokorny R, Kroth PG, Essen LO, Kottke T",
      "journal": "Nucleic Acids Res",
      "doi": "10.1093/nar/gkw420",
      "pmid": "27179025",
      "published_date": "2016 Jul 8"
    },
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    "released_date": "2016-09-19"
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}
View the complete manifest.json source
{
  "code": "SASDB24",
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