SASDBD2

Dark state solution structure of untagged Aureochrome1a- A´α-LOV-Jα

Data type: SASBDB experimental data Status: Published Curve type: Single concentration Last updated: 2020-07-03T14:56:05.457512+02:00
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1. Samples, Components and Experimental Conditions Sample & Experiment

Sample 1 · Dark state solution structure of untagged Aureochrome1a- A´α-LOV-Jα

Concentration2.0 – 8.0 mg/mlBuffer / pH10 mM Tris-HCl, 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
Aureochrome1a- A´α-LOV-Jα (Dark State)
View sequence
GSHMDFSFIKALQTAQQNFVVTDPSLPDNPIVYASQGFLNLTGYSLDQILGRNCRFLQGPETDPKAVERIRKAIEQGNDMSVCLLNYRVDGTTFWNQFFIAALRDAGGNVTNFVGVQCKVSDQYAATVTKQQEEEEEAAANDDED
proteinPhaeodactylum tricornutum——–—dimerMolecule count 216.09 kDa

Experimental Curves

CurvePoints / columnsq rangeUncertainty qualityNegative-intensity pointsSource file
11043[3]0.0364283–4.91162 1/nmHas uncertainty columnMissing 01sasbdb/entries/d2/sasdbd2/source/SASDBD2.dat
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2. Measurements Reported by SASBDB Reported Results

MetricMethodValueUncertaintyUnit
dmaxP(r)9.18—nm
i0Guinier39.06——
i0P(r)38.75——
mwExperimental38.8—kDa
mwGuinier I(0)39.0—kDa
mwPorod38.5—kDa
porod_volumePorod57.8—nm³
rgGuinier2.68—nm
rgP(r)2.64—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 name10 mM Tris-HCl, 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 date2015-09-09Storage / 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 – 4.912Sample 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:156 field values
Field pathRaw value
codeSASDBD2
statusPublished
type_of_curveSingle concentration
angular_unit1/nm
project.titleStructure of a Native-like Aureochrome 1a LOV Domain Dimer from Phaeodactylum tricornutum.
project.publication.titleStructure of a Native-like Aureochrome 1a LOV Domain Dimer from Phaeodactylum tricornutum.
project.publication.author_listBanerjee A, Herman E, Kottke T, Essen LO
project.publication.journalStructure
project.publication.doi10.1016/j.str.2015.10.022
project.publication.pmid26688213
project.publication.published_date2016 Jan 5
project.statusreleased
project.submitted_date2015-06-18
project.released_date2016-01-05
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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
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experiment.instrument.xray_energynull
experiment.instrument.beam_profile_ahnull
experiment.instrument.beam_profile_alnull
experiment.sample.molecule[0].long_nameAureochrome1a- A´α-LOV-Jα (Dark State)
experiment.sample.molecule[0].short_namePtAUREO1a-LOV
experiment.sample.molecule[0].sequenceGSHMDFSFIKALQTAQQNFVVTDPSLPDNPIVYASQGFLNLTGYSLDQILGRNCRFLQGPETDPKAVERIRKAIEQGNDMSVCLLNYRVDGTTFWNQFFIAALRDAGGNVTNFVGVQCKVSDQYAATVTKQQEEEEEAAANDDED
experiment.sample.molecule[0].organismPhaeodactylum tricornutum
experiment.sample.molecule[0].uniprot_codenull
experiment.sample.molecule[0].uniprot_range_firstnull
experiment.sample.molecule[0].uniprot_range_lastnull
experiment.sample.molecule[0].oligomerizationdimer
experiment.sample.molecule[0].molecular_typeprotein
experiment.sample.molecule[0].uniprot_sequencenull
experiment.sample.molecule[0].mw16.09
experiment.sample.molecule[0].total_mw32.18
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-HCl, 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.nameDark state solution structure of untagged Aureochrome1a- A´α-LOV-Jα
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.date2015-09-09
experiment.storage_temperature4.0
experiment.cell_temperature4.0
experiment.exposure_time20.0
experiment.number_of_frames10
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experiment.flow_ratenull
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fits[0].models[0].bead_radius2.5
fits[0].models[0].lognull
fits[0].models[0].symmetry
fits[0].models[0].commentThe model is an averaged and volume corrected representation (DAMFILT)
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pddf_softwareATSAS GNOM
pddf_software_versionnull
i0_calibration_standardnull
descriptionnull
experiment_descriptionX-ray synchrotron radiation scattering data were collected from solutions of Aureochrome1a-A´α-LOV-Jα in 10 mM Tris 300 mM NaCl (thrombin-cleaved N-terminal affinity tag). SAXS data were measured on the BM29 beam line 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. s-range 0.036-4.9 nm-1). Different solute concentrations in the range 2.00-8.00 mg/mL were measured. 10 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 and the different curves were scaled for protein concentration. The low angle data collected were merged with the highest concentration high angle data to yield the final composite scattering curve. The analysis was performed using the ATSAS package. The displayed model is an averaged and volume corrected dummy atom representation (DAMFILT). For further sequence information refer to the Joint Genome Institute (JGI) entry JGI-49116.
tags[]
intensity_unitnull
experimental_mw38.8
experimental_mw_errornull
guinier_i0_mw39.0
guinier_i0_mw_errornull
porod_mw38.5
porod_mw_errornull
pddf_i038.75
pddf_i0_errornull
guinier_i039.06
guinier_i0_errornull
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pddf_rg_errornull
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guinier_rg_errornull
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pddf_dmax_errornull
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porod_volume_errornull
estimated_volumenull
estimated_volume_errornull
guinier_point_first1
guinier_point_last88
pddf_point_firstnull
pddf_point_lastnull
i0_calibration_standard_datanull
intensities_log_log_plotSASDBD2_datloglog_img.png
symmetrynull
last_modified2020-07-03T14:56:05.457512+02:00
bragg_peak[]
manifest.json:36 field values
Field pathRaw value
codeSASDBD2
statussuccess
started_at2026-08-11T16:35:07.235132+00:00
finished_at2026-08-11T16:35:15.973725+00:00
source_last_modified2020-07-03T14:56:05.457512+02:00
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View the complete summary.json source
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    "title": "Structure of a Native-like Aureochrome 1a LOV Domain Dimer from Phaeodactylum tricornutum.",
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      "title": "Structure of a Native-like Aureochrome 1a LOV Domain Dimer from Phaeodactylum tricornutum.",
      "author_list": "Banerjee A, Herman E, Kottke T, Essen LO",
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View the complete manifest.json source
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