SASDFN9

Poly-uridine rU30 in 600 mM NaCl

Data type: SASBDB experimental data Status: Published Curve type: Extrapolated to infinite dilution Last updated: 2019-12-11T18:17:14.164307+01:00
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1. Samples, Components and Experimental Conditions Sample & Experiment

Sample 1 · Poly-uridine rU30 in 600 mM NaCl

Concentration0.4 – 1.2 Buffer / pH1 mM Na-MOPS, 600 mM NaCl, 20 µM EDTA / 7.0
Experimental temperature25.0 Facility / beamlineCornell High Energy Synchrotron Source (CHESS) / G1
Wavelength0.11 nmExposure10.0 s × 30

Molecular Components

ComponentType / organismUniProt and ConstructOligomeric StateMolecular weight
Poly-uridine
View sequence
UUUUUUUUUUUUUUUUUUUUUUUUUUUUUU
RNA———–—monomerMolecule count 19.203 kDa

Experimental Curves

CurvePoints / columnsq rangeUncertainty qualityNegative-intensity pointsSource file
1261[3]0.01–0.27 1/AHas uncertainty columnMissing 00sasbdb/entries/n9/sasdfn9/source/SASDFN9.dat
▼

2. Measurements Reported by SASBDB Reported Results

MetricMethodValueUncertaintyUnit
dmaxP(r)10.0—Å
i0Guinier27.70.34—
i0P(r)28.33——
mwExperimental14.0—kDa
porod_volumePorod14.0—ų
rgGuinier2.310.03Å
rgP(r)2.5—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

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 name1 mM Na-MOPS, 600 mM NaCl, 20 µM EDTABuffer concentration—
pH7.0Additives—
Buffer description—
Purity measurement method—Extinction coefficient—
Absorbance—Scattering contrast—
Specific volume / dry volume— / —Mixture / deuteration— / —

Acquisition Conditions and Instrument

Measurement date2015-10-25Storage / measurement temperature4.0 / 25.0
Exposure time10.0Frames30
Wavelength0.11Sample-to-detector distance2.04
SourceX-ray synchrotronDetectorFinger Lakes CCD
Facility / beamlineCornell High Energy Synchrotron Source (CHESS) / G1 · Ithaca, NY, USA
q range0.1 – 2.7Sample 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
codeSASDFN9
statusPublished
type_of_curveExtrapolated to infinite dilution
angular_unit1/A
project.titleVisualizing disordered single-stranded RNA: connecting sequence, structure and electrostatics.
project.publication.titleVisualizing disordered single-stranded RNA: connecting sequence, structure and electrostatics.
project.publication.author_listPlumridge A, Andresen K, Pollack L
project.publication.journalJ Am Chem Soc
project.publication.doi10.1021/jacs.9b04461
project.publication.pmid31804813
project.publication.published_date2019 Dec 5
project.statusreleased
project.submitted_date2019-07-09
project.released_date2019-12-11
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experiment.instrument.detector.resolution0.0
experiment.instrument.nameCornell High Energy Synchrotron Source (CHESS)
experiment.instrument.cityIthaca, NY
experiment.instrument.countryUSA
experiment.instrument.beamline_nameG1
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_namePoly-uridine
experiment.sample.molecule[0].short_namerU30
experiment.sample.molecule[0].sequenceUUUUUUUUUUUUUUUUUUUUUUUUUUUUUU
experiment.sample.molecule[0].organismnull
experiment.sample.molecule[0].uniprot_codenull
experiment.sample.molecule[0].uniprot_range_firstnull
experiment.sample.molecule[0].uniprot_range_lastnull
experiment.sample.molecule[0].oligomerizationmonomer
experiment.sample.molecule[0].molecular_typeRNA
experiment.sample.molecule[0].uniprot_sequencenull
experiment.sample.molecule[0].mw9.203
experiment.sample.molecule[0].total_mw9.203
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.name1 mM Na-MOPS, 600 mM NaCl, 20 µM EDTA
experiment.sample.buffer.concentration_unitnull
experiment.sample.buffer.commentnull
experiment.sample.buffer.additivenull
experiment.sample.buffer.concentrationnull
experiment.sample.buffer.pkanull
experiment.sample.buffer.ph7.0
experiment.sample.buffer.deuterationnull
experiment.sample.purity_methodnull
experiment.sample.namePoly-uridine rU30 in 600 mM NaCl
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].addressIthaca, NY, United States
experiment.contributor[0].affiliation[0].full_nameCornell University
experiment.contributor[0].affiliation[0].webpagehttps://www.cornell.edu/
experiment.contributor[0].contributor_nameAlex
experiment.contributor[0].contributor_surnamePlumridge
experiment.contributor[0].orcidnull
experiment.concentration_methodnull
experiment.concentration_unitnull
experiment.date2015-10-25
experiment.storage_temperature4.0
experiment.cell_temperature25.0
experiment.exposure_time10.0
experiment.number_of_frames30
experiment.wavelength0.11
experiment.sample_detector_distance2.04
experiment.concentration_min0.4
experiment.concentration_max1.2
experiment.sample_volumenull
experiment.flow_ratenull
experiment.s_min0.1
experiment.s_max2.7
experiment.total_exposure_timenull
experiment.seccolumnnull
fits[]
estimated_volume_methodnull
pddf_softwareATSAS GNOM
pddf_software_version5.0
i0_calibration_standardnull
descriptionnull
experiment_descriptionSynchrotron SAXS data from solutions of rU30 in 1 mM Na-MOPS, 600 mM NaCl, 20 µM EDTA, pH 7 were collected on the G1 beam line at the Cornell High Energy Synchrotron Source (CHESS) storage ring (Ithaca, NY, USA) using a Finger Lakes CCD detector at a sample-detector distance of 2.0 m and at a wavelength of λ = 0.11 nm (I(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). Solute concentrations ranging between 0.4 and 1.2 mg/ml were measured at 25°C. 30 successive 10 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 concentrations were extrapolated to infinite dilution and merged with the higher concentration data to yield the final composite scattering curve.
tags[]
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guinier_i0_mwnull
guinier_i0_mw_errornull
porod_mwnull
porod_mw_errornull
pddf_i028.33
pddf_i0_errornull
guinier_i027.7
guinier_i0_error0.34
pddf_rg2.5
pddf_rg_errornull
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pddf_dmax10.0
pddf_dmax_errornull
porod_volume14.0
porod_volume_errornull
estimated_volumenull
estimated_volume_errornull
guinier_point_first9
guinier_point_last49
pddf_point_firstnull
pddf_point_lastnull
i0_calibration_standard_datanull
intensities_log_log_plotSASDFN9_datloglog_img.png
symmetrynull
last_modified2019-12-11T18:17:14.164307+01:00
bragg_peak[]
manifest.json:36 field values
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codeSASDFN9
statussuccess
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View the complete summary.json source
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View the complete manifest.json source
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