SASDCT9

Bacteriophage phi-X174 - Empty Capsid

Data type: SASBDB experimental data Status: Published Curve type: Single concentration Last updated: 2019-12-06T13:07:15.624532+01:00

Note: Due to the size of the capsids, the Rg and I(0) obtained from Guinier analysis should be interpreted as approximated estimates only.

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1. Samples, Components and Experimental Conditions Sample & Experiment

Sample 1 · Bacteriophage phi-X174 - Empty Capsid

Concentration— – 0.1 Buffer / pH0.06 M NH4Cl2, 0.09 M NaCl, 0.1 M KCl, 1 mM MgS04, 1 mM CaCl2, 0.1 M Tris-HCl / 7.4
Experimental temperature33.0 Facility / beamlineCornell High Energy Synchrotron Source (CHESS) / G1
Wavelength0.1109 nmExposure10.0 s × 10

Molecular Components

ComponentType / organismUniProt and ConstructOligomeric StateMolecular weight
Bacteriophage phi-X174
View sequence
NA
protein———–—monomerMolecule count 10.203 kDa

Experimental Curves

CurvePoints / columnsq rangeUncertainty qualityNegative-intensity pointsSource file
1255[3]0.006–0.26 1/AHas uncertainty columnMissing 059sasbdb/entries/t9/sasdct9/source/SASDCT9.dat
▼

2. Measurements Reported by SASBDB Reported Results

MetricMethodValueUncertaintyUnit
i0Guinier11.80.1arbitrary
mwExperimental0.0—kDa
rgGuinier13.980.08Å

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

▼

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 name0.06 M NH4Cl2, 0.09 M NaCl, 0.1 M KCl, 1 mM MgS04, 1 mM CaCl2, 0.1 M Tris-HClBuffer concentration—
pH7.4Additives—
Buffer descriptionBuffer for non-reacting experiments
Purity measurement method—Extinction coefficient—
Absorbance—Scattering contrast—
Specific volume / dry volume— / —Mixture / deuteration— / —

Acquisition Conditions and Instrument

Measurement date2015-10-25Storage / measurement temperature0.0 / 33.0
Exposure time10.0Frames10
Wavelength0.1109Sample-to-detector distance2.052
SourceX-ray synchrotronDetectorPilatus 200K
Facility / beamlineCornell High Energy Synchrotron Source (CHESS) / G1 · Ithaca, NY, USA
q range0.06 – 2.6Sample 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

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
codeSASDCT9
statusPublished
type_of_curveSingle concentration
angular_unit1/A
project.titleStructural changes of tailless bacteriophage ΦX174 during penetration of bacterial cell walls.
project.publication.titleStructural changes of tailless bacteriophage ΦX174 during penetration of bacterial cell walls.
project.publication.author_listSun Y, Roznowski AP, Tokuda JM, Klose T, Mauney A, Pollack L, Fane BA, Rossmann MG
project.publication.journalProc Natl Acad Sci U S A
project.publication.doi10.1073/pnas.1716614114
project.publication.pmid29229840
project.publication.published_date2017 Dec 26
project.statusreleased
project.submitted_date2017-11-29
project.released_date2017-12-12
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experiment.instrument.detector.resolution172.0
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experiment.instrument.cityIthaca, NY
experiment.instrument.countryUSA
experiment.instrument.beamline_nameG1
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experiment.sample.molecule[0].short_namenull
experiment.sample.molecule[0].sequenceNA
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
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experiment.sample.molecule[0].molecular_typeprotein
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experiment.sample.molecule[0].molecule_descriptionnull
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experiment.sample.buffer.concentration_unitnull
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experiment.sample.buffer.additivenull
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experiment.sample.buffer.pkanull
experiment.sample.buffer.ph7.4
experiment.sample.buffer.deuterationnull
experiment.sample.purity_methodnull
experiment.sample.nameBacteriophage phi-X174 - Empty Capsid
experiment.sample.ext_coefficientnull
experiment.sample.contrastnull
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experiment.contributor[0].affiliation[0].short_namenull
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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_surnameMauney
experiment.contributor[0].orcidnull
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fits[]
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pddf_softwarenull
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i0_calibration_standardnull
descriptionNote: Due to the size of the capsids, the Rg and I(0) obtained from Guinier analysis should be interpreted as approximated estimates only.
experiment_descriptionSynchrotron SAXS data from solutions of Bacteriophage phi-X174 - Empty Capsid in 0.06 M NH4Cl2, 0.09 M NaCl, 0.1 M KCl, 1 mM MgS04, 1 mM CaCl2, 0.1 M Tris-HCl, pH 7.4 were collected on the BioSAXS G1 beam line at the Cornell High Energy Synchrotron Source (CHESS; Ithaca, NY, USA) using a Pilatus Pilatus 200K detector at a sample-detector distance of 2.1 m and at a wavelength of λ = 0.1109 nm (I(s) vs s, where s = 4πsinθ/λ and 2θ is the scattering angle). One solute concentration of 0.10 mg/ml phage was measured at 33°C. 10 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.
tags[]
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experimental_mw_errornull
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guinier_i0_mw_errornull
porod_mwnull
porod_mw_errornull
pddf_i0null
pddf_i0_errornull
guinier_i011.8
guinier_i0_error0.1
pddf_rgnull
pddf_rg_errornull
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pddf_dmaxnull
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estimated_volumenull
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pddf_point_firstnull
pddf_point_lastnull
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intensities_log_log_plotSASDCT9_datloglog_img.png
symmetrynull
last_modified2019-12-06T13:07:15.624532+01:00
bragg_peak[]
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View the complete summary.json source
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View the complete manifest.json source
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