Browse by ORGANISM: other species

SASDTU4 – 24×FerSUMO - Chimeric protein complex of ferritin from Helicobacter pylori fused to an N-terminal His6-SUMO protein tag

Bacterial non-heme ferritin (N19Q, I59V, N-terminal His-SUMO fusion) experimental SAS data
CORAL model
Sample: Bacterial non-heme ferritin (N19Q, I59V, N-terminal His-SUMO fusion) 24-mer, 755 kDa Helicobacter pylori (strain … protein
Buffer: 25 mM Tris, 150 mM NaCl, pH: 7.4
Experiment: SAXS data collected at Rigaku MicroMax 007-HF, Moscow Institute of Physics and Technology (MIPT) on 2022 Jul 30
Ferritin-based fusion protein shows octameric deadlock state of self-assembly Biochemical and Biophysical Research Communications 690:149276 (2024)
Sudarev V, Gette M, Bazhenov S, Tilinova O, Zinovev E, Manukhov I, Kuklin A, Ryzhykau Y, Vlasov A
RgGuinier 7.6 nm
Dmax 25.0 nm
VolumePorod 2010 nm3

SASDTV4 – 8×FerSUMO - Chimeric protein complex of ferritin from Helicobacter pylori fused to an N-terminal His6-SUMO protein tag

Bacterial non-heme ferritin (N19Q, I59V, N-terminal His-SUMO fusion) experimental SAS data
PHYRE2 model
Sample: Bacterial non-heme ferritin (N19Q, I59V, N-terminal His-SUMO fusion) octamer, 252 kDa Helicobacter pylori (strain … protein
Buffer: 25 mM Tris, 150 mM NaCl, pH: 7.4
Experiment: SAXS data collected at Rigaku MicroMax 007-HF, Moscow Institute of Physics and Technology (MIPT) on 2022 Jul 17
Ferritin-based fusion protein shows octameric deadlock state of self-assembly Biochemical and Biophysical Research Communications 690:149276 (2024)
Sudarev V, Gette M, Bazhenov S, Tilinova O, Zinovev E, Manukhov I, Kuklin A, Ryzhykau Y, Vlasov A
RgGuinier 5.4 nm
Dmax 16.0 nm
VolumePorod 618 nm3

SASDTW4 – Ferritin from Helicobacter pylori with an N-terminal His6-tag

Bacterial non-heme ferritin (N19Q, I59V) experimental SAS data
PDB (PROTEIN DATA BANK) model
Sample: Bacterial non-heme ferritin (N19Q, I59V) 24-mer, 480 kDa Helicobacter pylori (strain … protein
Buffer: 20 mM Tris, pH: 8
Experiment: SAXS data collected at Rigaku MicroMax 007-HF, Moscow Institute of Physics and Technology (MIPT) on 2022 Dec 14
Ferritin-based fusion protein shows octameric deadlock state of self-assembly Biochemical and Biophysical Research Communications 690:149276 (2024)
Sudarev V, Gette M, Bazhenov S, Tilinova O, Zinovev E, Manukhov I, Kuklin A, Ryzhykau Y, Vlasov A
RgGuinier 5.6 nm
Dmax 14.5 nm
VolumePorod 674 nm3

SASDTK5 – Heme acquisition system protein A (39.9 kDa dimer from Pseudomonas protegens PF-5)

Heme acquisition protein HasAp experimental SAS data
DAMMIN model
Sample: Heme acquisition protein HasAp dimer, 38 kDa Pseudomonas fluorescens (strain … protein
Buffer: 50 mM CHES, 5 % glycerol, pH: 9.5
Experiment: SAXS data collected at BL-10C, Photon Factory (PF), High Energy Accelerator Research Organization (KEK) on 2023 Feb 24
Heme-substituted protein assembly bridged by synthetic porphyrin: achieving controlled configuration while maintaining rotational freedom RSC Advances 14(13):8829-8836 (2024)
Inaba H, Shisaka Y, Ariyasu S, Sakakibara E, Ueda G, Aiba Y, Shimizu N, Sugimoto H, Shoji O
RgGuinier 2.8 nm
Dmax 9.1 nm
VolumePorod 54 nm3

SASDRR7 – Radical SAM enzyme peptide epimerase in the presence of SAM (S-adenosyl-L-methionine) and a peptide subtrate

Putative peptide biosynthesis protein YydG experimental SAS data
DADIMODO model
Sample: Putative peptide biosynthesis protein YydG dimer, 80 kDa Bacillus subtilis (strain … protein
Buffer: 25 mM HEPES, 150 mM NaCl, 1 mM DTT, pH: 7.5
Experiment: SAXS data collected at SWING, SOLEIL on 2022 Nov 30
Structural and mechanistic basis for RiPP epimerization by a radical SAM enzyme. Nat Chem Biol (2023)
Kubiak X, Polsinelli I, Chavas LMG, Fyfe CD, Guillot A, Fradale L, Brewee C, Grimaldi S, Gerbaud G, Thureau A, Legrand P, Berteau O, Benjdia A
RgGuinier 2.9 nm
Dmax 12.0 nm
VolumePorod 113 nm3

SASDRS7 – Radical SAM enzyme peptide epimerase in the presence of SAM (S-adenosyl-L-methionine)

Putative peptide biosynthesis protein YydG experimental SAS data
DADIMODO model
Sample: Putative peptide biosynthesis protein YydG dimer, 80 kDa Bacillus subtilis (strain … protein
Buffer: 25 mM HEPES, 150 mM NaCl, 1 mM DTT, pH: 7.5
Experiment: SAXS data collected at SWING, SOLEIL on 2022 Nov 29
Structural and mechanistic basis for RiPP epimerization by a radical SAM enzyme. Nat Chem Biol (2023)
Kubiak X, Polsinelli I, Chavas LMG, Fyfe CD, Guillot A, Fradale L, Brewee C, Grimaldi S, Gerbaud G, Thureau A, Legrand P, Berteau O, Benjdia A
RgGuinier 2.9 nm
Dmax 11.8 nm
VolumePorod 115 nm3

SASDKP6 – G-quadruplex DNA from Hepatitis B virus, wild type (HBV G4 WT)

HBV G4 WT experimental SAS data
DAMMIN model
Sample: HBV G4 WT 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 Dec 15
HBV G-quad
Trushar Patel
RgGuinier 1.8 nm
Dmax 4.7 nm
VolumePorod 18 nm3

SASDKQ6 – G-quadruplex DNA from Hepatitis B virus, mutant (HBV G4 G1738A)

HBV G-quad G1738A experimental SAS data
DAMMIN model
Sample: HBV G-quad G1738A 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 1.9 nm
Dmax 5.3 nm
VolumePorod 21 nm3

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