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SASDDF5

NBD-MsbA (+1mM ADP)

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 (+1mM ADP)

Concentration— – 18.0 Buffer / pH30 mM Tris, 150 mM NaCl, 0.5 mM TCEP, 1 mM ADP / 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/f5/sasddf5/source/SASDDF5.dat
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2. Measurements Reported by SASBDB Reported Results

MetricMethodValueUncertaintyUnit
dmaxP(r)7.260.5nm
i0Guinier0.0220.0011/cm
i0P(r)0.020.0011/cm
mwExperimental30.145.0kDa
mwPorod31.45.0kDa
porod_volumePorod50.35.0nm³
rgGuinier2.120.1nm
rgP(r)2.120.1nm

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 TCEP, 1 mM ADPBuffer concentration—
pH7.5Additives—
Buffer description—
Purity measurement method—Extinction coefficient—
Absorbance—Scattering contrast2.841
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
codeSASDDF5
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, 1 mM ADP
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 (+1mM ADP)
experiment.sample.ext_coefficientnull
experiment.sample.contrast2.841
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
fits[]
estimated_volume_methodnull
pddf_softwareATSAS GNOM
pddf_software_version2.8.3
i0_calibration_standardwater
descriptionnull
experiment_descriptionnull
tags[]
intensity_unit1/cm
experimental_mw30.14
experimental_mw_error5.0
guinier_i0_mwnull
guinier_i0_mw_errornull
porod_mw31.4
porod_mw_error5.0
pddf_i00.02
pddf_i0_error0.001
guinier_i00.022
guinier_i0_error0.001
pddf_rg2.12
pddf_rg_error0.1
guinier_rg2.12
guinier_rg_error0.1
pddf_dmax7.26
pddf_dmax_error0.5
porod_volume50.3
porod_volume_error5.0
estimated_volumenull
estimated_volume_errornull
guinier_point_first5
guinier_point_last202
pddf_point_first5
pddf_point_last1186
i0_calibration_standard_datanull
intensities_log_log_plotSASDDF5_datloglog_img.png
symmetrynull
last_modified2023-06-21T07:56:39.492710+02:00
bragg_peak[]
manifest.json：36 field values
Field pathRaw value
codeSASDDF5
statussuccess
started_at2026-08-11T14:46:56.865753+00:00
finished_at2026-08-11T14:47:06.127335+00:00
source_last_modified2023-06-21T07:56:39.492710+02:00
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View the complete summary.json source
{
  "code": "SASDDF5",
  "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",
      "beamline_name": "EMBL P12",
      "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,
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  "tags": [],
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View the complete manifest.json source
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