Browse by MODEL: Ab initio only

SASDKR6 – G-quadruplex DNA from Hepatitis B virus, mutant (HBV G4 G1748A)

HBV G4 G1748A experimental SAS data
DAMMIN model
Sample: HBV G4 G1748A monomer, 7 kDa Hepatitis B virus DNA
Buffer: 20 mM HEPES, 100 mM KCl, 1 mM EDTA, pH: 7.5
Experiment: SAXS data collected at B21, Diamond Light Source on 2019 Sep 14
HBV G-quad
Trushar Patel
RgGuinier 2.0 nm
Dmax 6.0 nm
VolumePorod 21 nm3

SASDKS6 – G-quadruplex DNA from Hepatitis B virus, mutant (HBV G4 G1748A + G1748A)

HBV G4 G1748A + G1748A experimental SAS data
DAMMIN model
Sample: HBV G4 G1748A + G1748A monomer, 7 kDa Hepatitis B virus DNA
Buffer: 20 mM HEPES, 100 mM KCl, 1 mM EDTA, pH: 7.5
Experiment: SAXS data collected at B21, Diamond Light Source on 2020 Feb 17
HBV G-quad
Trushar Patel
RgGuinier 2.0 nm
Dmax 6.0 nm
VolumePorod 23 nm3

SASDSJ2 – Ribosome maturation factor RimP bound to 30S ribosomal protein S12 (RimP-uS12 complex from Staphylococcus aureus)

Ribosome maturation factor RimP30S ribosomal protein S12 experimental SAS data
DAMMIN model
Sample: Ribosome maturation factor RimP monomer, 18 kDa Staphylococcus aureus (strain … protein
30S ribosomal protein S12 monomer, 15 kDa Staphylococcus aureus (strain … protein
Buffer: 50 mM sodium phosphate, 200 mM NaCl, pH: 7
Experiment: SAXS data collected at Xeuss 3.0 SAXS/WAXS System, JINR on 2023 Feb 16
Structural aspects of RimP binding on small ribosomal subunit from Staphylococcus aureus. Structure (2023)
Garaeva N, Fatkhullin B, Murzakhanov F, Gafurov M, Golubev A, Bikmullin A, Glazyrin M, Kieffer B, Jenner L, Klochkov V, Aganov A, Rogachev A, Ivankov O, Validov S, Yusupov M, Usachev K
RgGuinier 2.4 nm
Dmax 10.0 nm
VolumePorod 39 nm3

SASDM79 – Lysozyme crystallization solutions with precipitants from crystallization kits CS 1 and CS2 (mixture of monomers, dimers and octamers, with octamer volume fractions from 0 to 0.7%)

Lysozyme C experimental SAS data
PDB (PROTEIN DATA BANK) model
Sample: Lysozyme C monomer, 14 kDa Gallus gallus protein
Buffer: 100 mM HEPES pH 7.5, 20 %(v/v) jeffamine M-600, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2019 Aug 28
Dependence of concentration of precursor clusters formed in lysozyme crystallization solutions on degree of supersaturation and its effect on character of solution transition from liquid to condensed phase
Petr Konarev
RgGuinier 1.8 nm

SASDM89 – Lysozyme crystallization solutions with precipitants from crystallization kits CS 1 and CS2 (mixture of monomers, dimers and octamers, with octamer volume fractions from 0.9% to 4.4%)

Lysozyme C experimental SAS data
PDB (PROTEIN DATA BANK) model
Sample: Lysozyme C monomer, 14 kDa Gallus gallus protein
Buffer: 100 mM sodium acetate, pH 4.6, 2.0 M sodium formate, pH: 4.6
Experiment: SAXS data collected at EMBL P12, PETRA III on 2019 Aug 28
Dependence of concentration of precursor clusters formed in lysozyme crystallization solutions on degree of supersaturation and its effect on character of solution transition from liquid to condensed phase
Petr Konarev
RgGuinier 2.2 nm

SASDM99 – Lysozyme crystallization solutions with precipitants from crystallization kits CS 1 and CS2 (mixture of monomers, dimers and octamers, with octamer volume fractions from 4.9% to 21.1%)

Lysozyme C experimental SAS data
PDB (PROTEIN DATA BANK) model
Sample: Lysozyme C monomer, 14 kDa Gallus gallus protein
Buffer: 200 mM K/Na tartrate, 100 mM tri-sodium citrate pH 5.6, 2.0 M ammonium sulfate, pH: 5.6
Experiment: SAXS data collected at EMBL P12, PETRA III on 2019 Aug 28
Dependence of concentration of precursor clusters formed in lysozyme crystallization solutions on degree of supersaturation and its effect on character of solution transition from liquid to condensed phase
Petr Konarev
RgGuinier 2.4 nm

SASDLY9 – Mouse guanylate-binding protein 7 - mGBP7

Gbp6 protein (Gbp7 - Gbp6 protein Mus musculus) experimental SAS data
GASBOR model
Sample: Gbp6 protein (Gbp7 - Gbp6 protein Mus musculus) dimer, 148 kDa Mus musculus protein
Buffer: 50 mM Tris, 5 mM MgCl, 2 mM DTT, pH: 8
Experiment: SAXS data collected at Xenocs Xeuss 2.0 Q-Xoom, Center for Structural Studies, Heinrich-Heine-University on 2019 Oct 2
Integrative modeling of guanylate binding protein dimers Protein Science (2023)
Schumann W, Loschwitz J, Reiners J, Degrandi D, Legewie L, Stühler K, Pfeffer K, Poschmann G, Smits S, Strodel B
RgGuinier 5.4 nm
Dmax 17.0 nm
VolumePorod 176 nm3

SASDRT7 – poly(GU) RNA with 12 GU repeats - (GU)12 RNA

polyGU RNA - (GU)12 experimental SAS data
OTHER model
Sample: PolyGU RNA - (GU)12 monomer, 8 kDa synthetic RNA RNA
Buffer: 20 mM HEPES, 150 mM KCl, pH: 7
Experiment: SAXS data collected at 12-ID-B, Advanced Photon Source (APS), Argonne National Laboratory on 2022 Jun 10
Solution structure of poly(UG) RNA Journal of Molecular Biology :168340 (2023)
Escobar C, Petersen R, Tonelli M, Fan L, Henzler-Wildman K, Butcher S
RgGuinier 1.4 nm
Dmax 5.1 nm
VolumePorod 11 nm3

SASDSX8 – Solution scattering studies on 20 kDa accessory protein (P20) from Bacillus thuringiensis subsp. israelensis (ISPC-12)

20 kDa accessory protein experimental SAS data
GASBOR model
Sample: 20 kDa accessory protein dimer, 42 kDa Bacillus thuringiensis serovar … protein
Buffer: 10 mM Tris, 100 mM NaCl, pH: 8
Experiment: SAXS data collected at BL-18, INDUS-2 on 2023 Aug 15
20-kDa accessory protein (P20) from Bacillus thuringiensis subsp. israelensis ISPC-12: Purification, characterization, solution scattering and structural analysis International Journal of Biological Macromolecules :127985 (2023)
Kinkar O, Singh R, Prashar A, Kumar A, Hire R, Makde R
RgGuinier 3.0 nm
Dmax 8.6 nm
VolumePorod 67 nm3

SASDTY4 – F-actin - Skeletal muscle actin from Oryctolagus cuniculus: fibrillar actin

Actin, alpha skeletal muscle experimental SAS data
DAMMIF model
Sample: Actin, alpha skeletal muscle monomer, 42 kDa Oryctolagus cuniculus protein
Buffer: 5 mM Tris/Tris-HCl, 0.1 mM CaCl2, 1 mM NaN3, 1.0 mM ATP, 50 mM KCl, 2 mM MgCl2, pH: 8.1
Experiment: SAXS data collected at Rigaku MicroMax 007-HF, Moscow Institute of Physics and Technology (MIPT) on 2021 Jul 1
Small-angle X-ray scattering structural insights into alternative pathway of actin oligomerization associated with inactivated state Biochemical and Biophysical Research Communications :149340 (2023)
Ryzhykau Y, Povarova O, Dronova E, Kuklina D, Antifeeva I, Ilyinsky N, Okhrimenko I, Semenov Y, Kuklin A, Ivanovich V, Fonin A, Uversky V, Turoverov K, Kuznetsova I
RgGuinier 15.7 nm
Dmax 60.0 nm
VolumePorod 4710 nm3