Browse by ORGANISM: Escherichia coli

SASDQE9 – YdaT_toxin domain-containing protein bound to 30 base pair dsDNA

YdaT_toxin domain-containing proteinOm 30 base pair dsDNA experimental SAS data
OTHER model
Sample: YdaT_toxin domain-containing protein tetramer, 74 kDa Escherichia coli O157:H7 protein
Om 30 base pair dsDNA dimer, 37 kDa DNA
Buffer: 20 mM Tris-HCl, 200 mM NaCl, pH: 8
Experiment: SAXS data collected at BM29, ESRF on 2021 Apr 14
Structural basis of DNA binding by YdaT, a functional equivalent of the CII repressor in the cryptic prophage CP-933P from Escherichia coli O157:H7 Acta Crystallographica Section D Structural Biology 79(3):245-258 (2023)
Prolič-Kalinšek M, Volkov A, Hadži S, Van Dyck J, Bervoets I, Charlier D, Loris R
RgGuinier 4.2 nm
Dmax 12.8 nm
VolumePorod 190 nm3

SASDPX7 – DNA protection during starvation protein (Dps) loaded with FeSO4⋅7H2O in the amount corresponding to 50 iron atoms per dodecamer. Anomalous SAXS spanning the X-ray Fe-absorption edge 7.100-7.133 keV.

DNA protection during starvation protein experimental SAS data
DAMMIN model
Sample: DNA protection during starvation protein dodecamer, 224 kDa Escherichia coli (strain … protein
Buffer: 50 mM NaCl, 0.5 mM EDTA, 50 mM Tris-HCl, pH: 8
Experiment: SAXS data collected at EMBL P12, PETRA III on 2021 Oct 5
An Anomalous Small-Angle X-Ray Scattering Study of the Formation of Iron Clusters in the Inner Cavity of the Ferritin-Like Protein Dps Moscow University Physics Bulletin 77(6):858-867 (2023)
Gordienko A, Mozhaev A, Gibizova V, Dadinova L
RgGuinier 3.8 nm
Dmax 14.0 nm
VolumePorod 32 nm3

SASDPY7 – DNA protection during starvation protein (Dps) loaded with FeSO4⋅7H2O in the amount corresponding to 500 iron atoms per dodecamer. Anomalous SAXS spanning the X-ray Fe-absorption edge 7.100-7.133 keV.

DNA protection during starvation protein experimental SAS data
DAMMIN model
Sample: DNA protection during starvation protein dodecamer, 224 kDa Escherichia coli (strain … protein
Buffer: 50 mM NaCl, 0.5 mM EDTA, 50 mM Tris-HCl, pH: 8
Experiment: SAXS data collected at EMBL P12, PETRA III on 2021 Oct 5
An Anomalous Small-Angle X-Ray Scattering Study of the Formation of Iron Clusters in the Inner Cavity of the Ferritin-Like Protein Dps Moscow University Physics Bulletin 77(6):858-867 (2023)
Gordienko A, Mozhaev A, Gibizova V, Dadinova L
RgGuinier 7.4 nm
Dmax 12.0 nm

SASDPZ7 – DNA protection during starvation protein (Dps) loaded with FeSO4⋅7H2O in the amount corresponding to 2000 iron atoms per dodecamer. Anomalous SAXS spanning the X-ray Fe-absorption edge 7.100-7.133 keV.

DNA protection during starvation protein experimental SAS data
DAMMIN model
Sample: DNA protection during starvation protein dodecamer, 224 kDa Escherichia coli (strain … protein
Buffer: 50 mM NaCl, 0.5 mM EDTA, 50 mM Tris-HCl, pH: 8
Experiment: SAXS data collected at EMBL P12, PETRA III on 2021 Oct 5
An Anomalous Small-Angle X-Ray Scattering Study of the Formation of Iron Clusters in the Inner Cavity of the Ferritin-Like Protein Dps Moscow University Physics Bulletin 77(6):858-867 (2023)
Gordienko A, Mozhaev A, Gibizova V, Dadinova L
RgGuinier 7.1 nm
Dmax 14.0 nm

SASDNH7 – Tn3 resolvase dimer bound to site II DNA sequence

Transposon Tn3 resolvaseTn3 res, resolvase binding site II experimental SAS data
CUSTOM IN-HOUSE model
Sample: Transposon Tn3 resolvase dimer, 43 kDa Escherichia coli protein
Tn3 res, resolvase binding site II monomer, 32 kDa DNA
Buffer: 25 mM Tris, 150 mM NaCl, 10 mM MgCl2, 1% glycerol, pH: 7.5
Experiment: SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2014 Nov 6
Structural basis for topological regulation of Tn3 resolvase. Nucleic Acids Res (2022)
Montaño SP, Rowland SJ, Fuller JR, Burke ME, MacDonald AI, Boocock MR, Stark WM, Rice PA
RgGuinier 5.0 nm
Dmax 14.9 nm
VolumePorod 217 nm3

SASDNP7 – Translation initiation factor 2 (aIF2)-tRNA complex in Gd-HPDO3A

Translation initiation factor 2 subunit gammaTranslation initiation factor 2 subunit alphatransfer RNA experimental SAS data
PDB (PROTEIN DATA BANK) model
Sample: Translation initiation factor 2 subunit gamma monomer, 46 kDa Saccharolobus solfataricus (strain … protein
Translation initiation factor 2 subunit alpha monomer, 10 kDa Saccharolobus solfataricus (strain … protein
Transfer RNA monomer, 23 kDa Escherichia coli RNA
Buffer: 10 mM MOPS- NaOH pH 6.7, 200 mM NaCl, 5 mM MgCl 2, 1 mM GDPNP, pH: 6.7
Experiment: SAXS data collected at SWING, SOLEIL on 2016 Nov 26
Medical contrast agents as promising tools for biomacromolecular SAXS experiments. Acta Crystallogr D Struct Biol 78(Pt 9):1120-1130 (2022)
Gabel F, Engilberge S, Schmitt E, Thureau A, Mechulam Y, Pérez J, Girard E
RgGuinier 3.6 nm
Dmax 13.0 nm
VolumePorod 102 nm3

SASDMJ8 – Sulfite reductase dodecamer

Sulfite reductase [NADPH] hemoprotein beta-componentSulfite reductase [NADPH] flavoprotein alpha-component (His-tagged) experimental SAS data
Sulfite reductase [NADPH] hemoprotein beta-component Sulfite reductase [NADPH] flavoprotein alpha-component (His-tagged) Kratky plot
Sample: Sulfite reductase [NADPH] hemoprotein beta-component tetramer, 256 kDa Escherichia coli (strain … protein
Sulfite reductase [NADPH] flavoprotein alpha-component (His-tagged) octamer, 565 kDa Escherichia coli (strain … protein
Buffer: 50 mM KPi, 100 mM NaCl, 1 mM EDTA, pH: 7.8
Experiment: SANS data collected at EQ-SANS (BL-6), Spallation Neutron Source on 2021 Apr 3
Neutron scattering maps the higher-order assembly of NADPH-dependent assimilatory sulfite reductase. Biophys J (2022)
Murray DT, Walia N, Weiss KL, Stanley CB, Randolph PS, Nagy G, Stroupe ME
RgGuinier 11.0 nm
Dmax 32.5 nm
VolumePorod 1720 nm3

SASDMK8 – Sulfite reductase flavoprotein octamer

Sulfite reductase [NADPH] flavoprotein alpha-component (His-tagged) experimental SAS data
Sulfite reductase [NADPH] flavoprotein alpha-component (His-tagged) Kratky plot
Sample: Sulfite reductase [NADPH] flavoprotein alpha-component (His-tagged) octamer, 565 kDa Escherichia coli (strain … protein
Buffer: 50 mM KPi, 100 mM NaCl, 1 mM EDTA, pH: 7.8
Experiment: SANS data collected at EQ-SANS (BL-6), Spallation Neutron Source on 2021 Apr 3
Neutron scattering maps the higher-order assembly of NADPH-dependent assimilatory sulfite reductase. Biophys J (2022)
Murray DT, Walia N, Weiss KL, Stanley CB, Randolph PS, Nagy G, Stroupe ME
RgGuinier 8.6 nm
Dmax 26.0 nm
VolumePorod 830 nm3

SASDML8 – Sulfite reductase hemoprotein

Sulfite reductase [NADPH] hemoprotein beta-component (Assimilatory NADPH-dependent sulfite reductase hemoprotein) experimental SAS data
Sample: Sulfite reductase [NADPH] hemoprotein beta-component (Assimilatory NADPH-dependent sulfite reductase hemoprotein) monomer, 64 kDa Escherichia coli (strain … protein
Buffer: 50 mM KPi, 100 mM NaCl, 1 mM EDTA, pH: 7.8
Experiment: SANS data collected at EQ-SANS (BL-6), Spallation Neutron Source on 2018 Jul 13
Neutron scattering maps the higher-order assembly of NADPH-dependent assimilatory sulfite reductase. Biophys J (2022)
Murray DT, Walia N, Weiss KL, Stanley CB, Randolph PS, Nagy G, Stroupe ME
RgGuinier 2.3 nm
Dmax 7.2 nm
VolumePorod 71 nm3

SASDMM8 – Reconstituted sulfite reductase dodecamer with partially deuterated hemoprotein in 0% D2O

Sulfite reductase [NADPH] hemoprotein beta-componentSulfite reductase [NADPH] flavoprotein alpha-component (His-tagged) experimental SAS data
Sample: Sulfite reductase [NADPH] hemoprotein beta-component tetramer, 256 kDa Escherichia coli (strain … protein
Sulfite reductase [NADPH] flavoprotein alpha-component (His-tagged) octamer, 565 kDa Escherichia coli (strain … protein
Buffer: 50 mM KPi, 100 mM NaCl, 1 mM EDTA, pH: 7.8
Experiment: SANS data collected at EQ-SANS (BL-6), Spallation Neutron Source on 2021 Apr 3
Neutron scattering maps the higher-order assembly of NADPH-dependent assimilatory sulfite reductase. Biophys J (2022)
Murray DT, Walia N, Weiss KL, Stanley CB, Randolph PS, Nagy G, Stroupe ME
RgGuinier 11.2 nm
Dmax 30.5 nm