SASDDE5

NBD-MsbA (apo)

Data type: SASBDB experimental data Status: Published Curve type: Single concentration Last updated: 2023-06-21T07:56:39.492710+02:00
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1. Samples, Components and Experimental Conditions Sample & Experiment

Sample 1 · NBD-MsbA (apo)

Concentration— – 18.0 Buffer / pH30 mM Tris, 150 mM NaCl, 0.5 mM TCEP / 7.5
Experimental temperature20.0 Facility / beamlinePETRA III / EMBL P12
Wavelength0.124 nmExposure0.05 s × 20

Molecular Components

ComponentType / organismUniProt and ConstructOligomeric StateMolecular weight
Nucleotide Binding Domain of Lipid A export ATP-binding/permease protein MsbA
View sequence
RATGDVEFRNVTFTYPGRDVPALRNINLKIPAGKTVALVGRSGSGKSTIASLITRFYDIDEGEILMDGHDLREYTLASLRNQVALVSQNVHLFNDTVANNIAYARTEQYSREQIEEAARMAYAMDFINKMDNGLDTVIGENGVLLSGGQRQRIAIARALLRDSPILILDEATSALDTESERAIQAALDELQKNRTSLVIAHRLSTIEKADEIVVVEDGVIVERGTHNDLLEHRGVYAQLHKMQFGQ
proteinEscherichia coliP60752—–—monomerMolecule count 127.263 kDa

Experimental Curves

CurvePoints / columnsq rangeUncertainty qualityNegative-intensity pointsSource file
11186[3]0.0611364–3.3196 1/nmHas uncertainty columnMissing 00sasbdb/entries/e5/sasdde5/source/SASDDE5.dat
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2. Measurements Reported by SASBDB Reported Results

MetricMethodValueUncertaintyUnit
dmaxP(r)7.30.5nm
i0Guinier0.0220.0011/cm
i0P(r)0.0220.0011/cm
mwExperimental30.125.0kDa
mwPorod29.629.6kDa
porod_volumePorod47.395.0nm³
rgGuinier2.150.1nm
rgP(r)2.170.1nm

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 name30 mM Tris, 150 mM NaCl, 0.5 mM TCEPBuffer concentration—
pH7.5Additives—
Buffer description—
Purity measurement method—Extinction coefficient—
Absorbance—Scattering contrast2.842
Specific volume / dry volume0.738 / —Mixture / deuteration— / —

Acquisition Conditions and Instrument

Measurement date2017-05-30Storage / measurement temperature20.0 / 20.0
Exposure time0.05Frames20
Wavelength0.124Sample-to-detector distance3.3
SourceX-ray synchrotronDetectorPilatus 2M
Facility / beamlinePETRA III / EMBL P12 · DESY; Hamburg, Germany
q range0.061 – 3.32Sample 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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pddf:source record
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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
codeSASDDE5
statusPublished
type_of_curveSingle concentration
angular_unit1/nm
project.titleConformational States of ABC Transporter MsbA in a Lipid Environment Investigated by Small-Angle Scattering Using Stealth Carrier Nanodiscs.
project.publication.titleConformational States of ABC Transporter MsbA in a Lipid Environment Investigated by Small-Angle Scattering Using Stealth Carrier Nanodiscs.
project.publication.author_listJosts I, Nitsche J, Maric S, Mertens HD, Moulin M, Haertlein M, Prevost S, Svergun DI, Busch S, Forsyth VT, Tidow H
project.publication.journalStructure
project.publication.doi10.1016/j.str.2018.05.007
project.publication.pmid29937358
project.publication.published_date2018 Aug 7
project.statusreleased
project.submitted_datenull
project.released_date2018-06-27
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experiment.instrument.detector.typenull
experiment.instrument.detector.namePilatus 2M
experiment.instrument.detector.resolutionnull
experiment.instrument.namePETRA III
experiment.instrument.cityDESY; Hamburg
experiment.instrument.countryGermany
experiment.instrument.beamline_nameEMBL P12
experiment.instrument.beam_geometrynull
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_nameNucleotide Binding Domain of Lipid A export ATP-binding/permease protein MsbA
experiment.sample.molecule[0].short_nameNBD-MsbA
experiment.sample.molecule[0].sequenceRATGDVEFRNVTFT YPGRDVPALRNINLKIPAGKTVALVGRSGSGKSTIASLITRFYDIDEGEILMDGHDLREYTLASLRNQVA LVSQNVHLFNDTVANNIAYARTEQYSREQIEEAARMAYAMDFINKMDNGLDTVIGENGVLLSGGQRQRIA IARALLRDSPILILDEATSALDTESERAIQAALDELQKNRTSLVIAHRLSTIEKADEIVVVEDGVIVERG THNDLLEHRGVYAQLHKMQFGQ
experiment.sample.molecule[0].organismEscherichia coli
experiment.sample.molecule[0].uniprot_codeP60752
experiment.sample.molecule[0].uniprot_range_firstnull
experiment.sample.molecule[0].uniprot_range_lastnull
experiment.sample.molecule[0].oligomerizationmonomer
experiment.sample.molecule[0].molecular_typeprotein
experiment.sample.molecule[0].uniprot_sequenceMHNDKDLSTWQTFRRLWPTIAPFKAGLIVAGVALILNAASDTFMLSLLKPLLDDGFGKTD RSVLVWMPLVVIGLMILRGITSYVSSYCISWVSGKVVMTMRRRLFGHMMGMPVSFFDKQS TGTLLSRITYDSEQVASSSSGALITVVREGASIIGLFIMMFYYSWQLSIILIVLAPIVSI AIRVVSKRFRNISKNMQNTMGQVTTSAEQMLKGHKEVLIFGGQEVETKRFDKVSNRMRLQ GMKMVSASSISDPIIQLIASLALAFVLYAASFPSVMDSLTAGTITVVFSSMIALMRPLKS LTNVNAQFQRGMAACQTLFTILDSEQEKDEGKRVIERATGDVEFRNVTFTYPGRDVPALR NINLKIPAGKTVALVGRSGSGKSTIASLITRFYDIDEGEILMDGHDLREYTLASLRNQVA LVSQNVHLFNDTVANNIAYARTEQYSREQIEEAARMAYAMDFINKMDNGLDTVIGENGVL LSGGQRQRIAIARALLRDSPILILDEATSALDTESERAIQAALDELQKNRTSLVIAHRLS TIEKADEIVVVEDGVIVERGTHNDLLEHRGVYAQLHKMQFGQ
experiment.sample.molecule[0].mw27.263
experiment.sample.molecule[0].total_mw27.263
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.name30 mM Tris, 150 mM NaCl, 0.5 mM TCEP
experiment.sample.buffer.concentration_unitnull
experiment.sample.buffer.commentnull
experiment.sample.buffer.additivenull
experiment.sample.buffer.concentrationnull
experiment.sample.buffer.pkanull
experiment.sample.buffer.ph7.5
experiment.sample.buffer.deuterationnull
experiment.sample.purity_methodnull
experiment.sample.nameNBD-MsbA (apo)
experiment.sample.ext_coefficientnull
experiment.sample.contrast2.842
experiment.sample.specific_vol0.738
experiment.sample.dry_volnull
experiment.sample.absorbptionnull
experiment.sample.deuterationnull
experiment.sample.mixturenull
experiment.contributor[0].affiliation[0].short_nameEMBL-Hamburg
experiment.contributor[0].affiliation[0].addressNotkestraße 85, Geb. 25A, 22607 Hamburg, Deutschland, Germany
experiment.contributor[0].affiliation[0].full_nameEuropean Molecular Biology Laboratory (EMBL) - Hamburg outstation
experiment.contributor[0].affiliation[0].webpagehttp://www.embl-hamburg.de/index.php
experiment.contributor[0].contributor_nameHaydyn
experiment.contributor[0].contributor_surnameMertens
experiment.contributor[0].orcidnull
experiment.concentration_methodA280
experiment.concentration_unitnull
experiment.date2017-05-30
experiment.storage_temperature20.0
experiment.cell_temperature20.0
experiment.exposure_time0.05
experiment.number_of_frames20
experiment.wavelength0.124
experiment.sample_detector_distance3.3
experiment.concentration_minnull
experiment.concentration_max18.0
experiment.sample_volumenull
experiment.flow_ratenull
experiment.s_min0.061
experiment.s_max3.32
experiment.total_exposure_time1.0
experiment.seccolumnnull
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estimated_volume_methodnull
pddf_softwareATSAS GNOM
pddf_software_version2.8.3
i0_calibration_standardwater
descriptionnull
experiment_descriptionnull
tags[]
intensity_unit1/cm
experimental_mw30.12
experimental_mw_error5.0
guinier_i0_mwnull
guinier_i0_mw_errornull
porod_mw29.6
porod_mw_error29.6
pddf_i00.022
pddf_i0_error0.001
guinier_i00.022
guinier_i0_error0.001
pddf_rg2.17
pddf_rg_error0.1
guinier_rg2.15
guinier_rg_error0.1
pddf_dmax7.3
pddf_dmax_error0.5
porod_volume47.39
porod_volume_error5.0
estimated_volumenull
estimated_volume_errornull
guinier_point_first12
guinier_point_last198
pddf_point_first12
pddf_point_last1186
i0_calibration_standard_datanull
intensities_log_log_plotSASDDE5_datloglog_img.png
symmetrynull
last_modified2023-06-21T07:56:39.492710+02:00
bragg_peak[]
manifest.json:36 field values
Field pathRaw value
codeSASDDE5
statussuccess
started_at2026-08-11T14:46:15.692570+00:00
finished_at2026-08-11T14:46:24.240971+00:00
source_last_modified2023-06-21T07:56:39.492710+02:00
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View the complete summary.json source
{
  "code": "SASDDE5",
  "status": "Published",
  "type_of_curve": "Single concentration",
  "angular_unit": "1/nm",
  "project": {
    "title": "Conformational States of ABC Transporter MsbA in a Lipid Environment Investigated by Small-Angle Scattering Using Stealth Carrier Nanodiscs.",
    "publication": {
      "title": "Conformational States of ABC Transporter MsbA in a Lipid Environment Investigated by Small-Angle Scattering Using Stealth Carrier Nanodiscs.",
      "author_list": "Josts I, Nitsche J, Maric S, Mertens HD, Moulin M, Haertlein M, Prevost S, Svergun DI, Busch S, Forsyth VT, Tidow H",
      "journal": "Structure",
      "doi": "10.1016/j.str.2018.05.007",
      "pmid": "29937358",
      "published_date": "2018 Aug 7"
    },
    "status": "released",
    "submitted_date": null,
    "released_date": "2018-06-27"
  },
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        "resolution": null
      },
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      "country": "Germany",
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      "beam_geometry": null,
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    },
    "sample": {
      "molecule": [
        {
          "long_name": "Nucleotide Binding Domain of Lipid A export ATP-binding/permease protein MsbA",
          "short_name": "NBD-MsbA",
          "sequence": "RATGDVEFRNVTFT\r\nYPGRDVPALRNINLKIPAGKTVALVGRSGSGKSTIASLITRFYDIDEGEILMDGHDLREYTLASLRNQVA\r\nLVSQNVHLFNDTVANNIAYARTEQYSREQIEEAARMAYAMDFINKMDNGLDTVIGENGVLLSGGQRQRIA\r\nIARALLRDSPILILDEATSALDTESERAIQAALDELQKNRTSLVIAHRLSTIEKADEIVVVEDGVIVERG\r\nTHNDLLEHRGVYAQLHKMQFGQ",
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          "uniprot_range_first": null,
          "uniprot_range_last": null,
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      "contrast": 2.842,
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      "absorbption": null,
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    "contributor": [
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  "tags": [],
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View the complete manifest.json source
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