SASDEF7

Human TRPML2 Ion Channel Extracytosolic/Lumenal Domain at pH 6.5 without Calcium

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

The experimental mass was determined via correlated volume.

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1. Samples, Components and Experimental Conditions Sample & Experiment

Sample 1 · Human TRPML2 Ion Channel Extracytosolic/Lumenal Domain at pH 6.5 without Calcium

Concentration0.0 – 0.65 Buffer / pH10 mM HEPES pH 6.5 150 mM NaCl / 6.5
Experimental temperature20.0 Facility / beamlineESRF / BM29
Wavelength0.099 nmExposure1.0 s × 1200

Molecular Components

ComponentType / organismUniProt and ConstructOligomeric StateMolecular weight
Transient receptor potential channel mucolipin 2
View sequence
GLSNQLVVAFKEDNTVAFKHLFLKGYSGTDEDDYSCSVYTQEDAYESIFFAINQYHQLKDITLGTLGYGENEDNRIGLKVCKQHYKKGTMFPSNETLNIDNDVELDCVQLDLQDLSKKPPDWKNSSFFRLEFYRLLQVEISFHLKGIDLQTIHSRELPDCYVFQNTIIFDNKAHSGKIKIYFDSDAKIEECKDLNIFGSTQK
proteinHomo sapiensQ8IZK61–285tetramerMolecule count 423.354 kDa

Experimental Curves

CurvePoints / columnsq rangeUncertainty qualityNegative-intensity pointsSource file
11043[3]0.03536503–4.94623 1/nmHas uncertainty columnMissing 0138sasbdb/entries/f7/sasdef7/source/SASDEF7.dat
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2. Measurements Reported by SASBDB Reported Results

MetricMethodValueUncertaintyUnit
dmaxP(r)8.9—nm
i0Guinier58.860.13arbitrary
i0P(r)58.11—arbitrary
mwExperimental95.0—kDa
mwPorod88.0—kDa
porod_volumePorod140.0—nm³
rgGuinier3.410.03nm
rgP(r)3.361—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 HEPES pH 6.5 150 mM NaClBuffer concentration—
pH6.5Additives—
Buffer description—
Purity measurement method—Extinction coefficient—
Absorbance—Scattering contrast—
Specific volume / dry volume— / —Mixture / deuteration— / —

Acquisition Conditions and Instrument

Measurement date2018-10-18Storage / measurement temperature20.0 / 20.0
Exposure time1.0Frames1200
Wavelength0.099Sample-to-detector distance2.849
SourceX-ray synchrotronDetectorPilatus 1M
Facility / beamlineESRF / BM29 · Grenoble, France
q range0.035 – 4.946Sample 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
codeSASDEF7
statusPublished
type_of_curveSEC-SAS
angular_unit1/nm
project.titleStructure of the Human TRPML2 Ion Channel Extracytosolic/Lumenal Domain.
project.publication.titleStructure of the Human TRPML2 Ion Channel Extracytosolic/Lumenal Domain.
project.publication.author_listViet KK, Wagner A, Schwickert K, Hellwig N, Brennich M, Bader N, Schirmeister T, Morgner N, Schindelin H, Hellmich UA
project.publication.journalStructure
project.publication.doi10.1016/j.str.2019.04.016
project.publication.pmid31178222
project.publication.published_date2019 May 14
project.statusreleased
project.submitted_date2018-10-30
project.released_date2019-06-11
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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_nameTransient receptor potential channel mucolipin 2
experiment.sample.molecule[0].short_nameTRPML2
experiment.sample.molecule[0].sequenceGLSNQLVVAFKEDNTVAFKHLFLKGYSGTDEDDYSCS VYTQEDAYESIFFAINQYHQLKDITLGTLGYGENEDNRIGLKVCKQHYKKGTMFPSNETL NIDNDVELDCVQLDLQDLSKKPPDWKNSSFFRLEFYRLLQVEISFHLKGIDLQTIHSREL PDCYVFQNTIIFDNKAHSGKIKIYFDSDAKIEECKDLNIFGSTQK
experiment.sample.molecule[0].organismHomo sapiens
experiment.sample.molecule[0].uniprot_codeQ8IZK6
experiment.sample.molecule[0].uniprot_range_first1
experiment.sample.molecule[0].uniprot_range_last285
experiment.sample.molecule[0].oligomerizationtetramer
experiment.sample.molecule[0].molecular_typeprotein
experiment.sample.molecule[0].uniprot_sequenceMARQPYRFPQARIPERGSGVFRLTVRNAMAHRDSEMKEECLREDLKFYFMSPCEKYRARR QIPWKLGLQILKIVMVTTQLVRFGLSNQLVVAFKEDNTVAFKHLFLKGYSGTDEDDYSCS VYTQEDAYESIFFAINQYHQLKDITLGTLGYGENEDNRIGLKVCKQHYKKGTMFPSNETL NIDNDVELDCVQLDLQDLSKKPPDWKNSSFFRLEFYRLLQVEISFHLKGIDLQTIHSREL PDCYVFQNTIIFDNKAHSGKIKIYFDSDAKIEECKDLNIFGSTQKNAQYVLVFDAFVIVI CLASLILCTRSIVLALRLRKRFLNFFLEKYKRPVCDTDQWEFINGWYVLVIISDLMTIIG SILKMEIKAKNLTNYDLCSIFLGTSTLLVWVGVIRYLGYFQAYNVLILTMQASLPKVLRF CACAGMIYLGYTFCGWIVLGPYHDKFENLNTVAECLFSLVNGDDMFATFAQIQQKSILVW LFSRLYLYSFISLFIYMILSLFIALITDSYDTIKKFQQNGFPETDLQEFLKECSSKEEYQ KESSAFLSCICCRRRKRSDDHLIPIS
experiment.sample.molecule[0].mw23.354
experiment.sample.molecule[0].total_mw93.416
experiment.sample.molecule[0].number_molecules4
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 HEPES pH 6.5 150 mM NaCl
experiment.sample.buffer.concentration_unitnull
experiment.sample.buffer.commentnull
experiment.sample.buffer.additivenull
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experiment.sample.buffer.pkanull
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experiment.sample.purity_methodnull
experiment.sample.nameHuman TRPML2 Ion Channel Extracytosolic/Lumenal Domain at pH 6.5 without Calcium
experiment.sample.ext_coefficientnull
experiment.sample.contrastnull
experiment.sample.specific_volnull
experiment.sample.dry_volnull
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experiment.sample.mixturenull
experiment.contributor[0].affiliation[0].short_nameEMBL
experiment.contributor[0].affiliation[0].addressGrenoble, France
experiment.contributor[0].affiliation[0].full_nameEuropean Molecular Biology Laboratory (EMBL) - Grenoble Outstation
experiment.contributor[0].affiliation[0].webpagehttps://www.embl.fr/
experiment.contributor[0].contributor_nameMartha
experiment.contributor[0].contributor_surnameBrennich
experiment.contributor[0].orcidnull
experiment.concentration_methodnull
experiment.concentration_unitnull
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experiment.storage_temperature20.0
experiment.cell_temperature20.0
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experiment.flow_ratenull
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estimated_volume_methodnull
pddf_softwareATSAS GNOM
pddf_software_version5.0
i0_calibration_standardnull
descriptionThe experimental mass was determined via correlated volume.
experiment_descriptionSynchrotron SAXS data from solutions of Human TRPML2 Ion Channel Extracytosolic/Lumenal Domain 10 mM HEPES pH 6.5 150 mM NaCl, were collected using size exclusion chromatography SAXS (SEC-SAXS) on the BM29 beam line at the ESRF (Grenoble, France) using a Pilatus 1M detector at a sample-detector distance of 2.8 m and at a wavelength of λ = 0.099 nm (l(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). SEC-SAXS was performed at 20°C using the following parameters: Column: Agilent BioSEC 3 bead size 300 μm, Ø 4.6 mm, length 300 mm; Flow rate: 0.3 mL/min; Total acquisition time: 20 min; Injection concentration: 10 mg/mL; Injection volume: 20 μL. The data obtained through the sample elution peak were normalized to the intensity of the transmitted beam and radially averaged; the scattering of the solvent-blank was subtracted and the individual subtracted data sets were scaled and averaged to generate the scattering profile displayed in this entry.
tags[]
intensity_unitarbitrary
experimental_mw95.0
experimental_mw_errornull
guinier_i0_mwnull
guinier_i0_mw_errornull
porod_mw88.0
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pddf_rg_errornull
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pddf_dmax8.9
pddf_dmax_errornull
porod_volume140.0
porod_volume_errornull
estimated_volumenull
estimated_volume_errornull
guinier_point_first10
guinier_point_last73
pddf_point_firstnull
pddf_point_lastnull
i0_calibration_standard_datanull
intensities_log_log_plotSASDEF7_datloglog_img.png
symmetrynull
last_modified2019-12-06T13:07:15.624532+01:00
bragg_peak[]
manifest.json:36 field values
Field pathRaw value
codeSASDEF7
statussuccess
started_at2026-08-11T15:28:35.815585+00:00
finished_at2026-08-11T15:28:45.920138+00:00
source_last_modified2019-12-06T13:07:15.624532+01:00
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View the complete summary.json source
{
  "code": "SASDEF7",
  "status": "Published",
  "type_of_curve": "SEC-SAS",
  "angular_unit": "1/nm",
  "project": {
    "title": "Structure of the Human TRPML2 Ion Channel Extracytosolic/Lumenal Domain.",
    "publication": {
      "title": "Structure of the Human TRPML2 Ion Channel Extracytosolic/Lumenal Domain.",
      "author_list": "Viet KK, Wagner A, Schwickert K, Hellwig N, Brennich M, Bader N, Schirmeister T, Morgner N, Schindelin H, Hellmich UA",
      "journal": "Structure",
      "doi": "10.1016/j.str.2019.04.016",
      "pmid": "31178222",
      "published_date": "2019 May 14"
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          "long_name": "Transient receptor potential channel mucolipin 2",
          "short_name": "TRPML2",
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            "address": "Grenoble, France",
            "full_name": "European Molecular Biology Laboratory (EMBL) - Grenoble Outstation",
            "webpage": "https://www.embl.fr/"
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View the complete manifest.json source
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