Browse by MACROMOLECULE type: protein

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

SASDTL5 – Conjugal transfer accessory disulfide isomerase protein TrbB from the F plasmid (GST-fusion)

Protein TrbB (GST-fusion) experimental SAS data
DAMMIF model
Sample: Protein TrbB (GST-fusion) dimer, 93 kDa Escherichia coli (strain … protein
Buffer: 20 mM HEPES, 100 mM NaCl, 5% glycerol, 0.05% NP40, pH: 7
Experiment: SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2022 Feb 23
Structural insights into the disulfide isomerase and chaperone activity of TrbB of the F plasmid type IV secretion system Current Research in Structural Biology 8:100156 (2024)
Apostol A, Bragagnolo N, Rodriguez C, Audette G
RgGuinier 4.0 nm
Dmax 18.0 nm
VolumePorod 153 nm3

SASDUN2 – DiTET-cc (coiled coil protein origami tetrahedron assembled from two cyclized chains)

cyRH1 (cyclic bitrigon from 6 coiled coil segments)cyRH2 (cyclic bitrigon from 6 coiled coil segments) experimental SAS data
SREFLEX model
Sample: CyRH1 (cyclic bitrigon from 6 coiled coil segments) monomer, 26 kDa synthetic construct protein
CyRH2 (cyclic bitrigon from 6 coiled coil segments) monomer, 26 kDa synthetic construct protein
Buffer: 20 mM Tris, 150 mM NaCL, 3% glycerol, 1mM TCEP, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2021 Mar 30
Preorganized cyclic modules facilitate the self-assembly of protein nanostructures Chemical Science (2024)
Snoj J, Lapenta F, Jerala R
RgGuinier 3.1 nm
Dmax 8.8 nm
VolumePorod 150 nm3

SASDUP2 – DiTET-nc (coiled coil protein origami tetrahedron assembled from one linear and one cyclized chain)

RH1 (Linear coiled-coil protein origami structure consisting of 6 coiled-coil forming segments)cyRH2 (cyclic bitrigon from 6 coiled coil segments) experimental SAS data
SREFLEX model
Sample: RH1 (Linear coiled-coil protein origami structure consisting of 6 coiled-coil forming segments) monomer, 26 kDa synthetic construct protein
CyRH2 (cyclic bitrigon from 6 coiled coil segments) monomer, 26 kDa synthetic construct protein
Buffer: 50 mM Tris, 150 mM NaCL, 3% glycerol, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2022 Aug 29
Preorganized cyclic modules facilitate the self-assembly of protein nanostructures Chemical Science (2024)
Snoj J, Lapenta F, Jerala R
RgGuinier 3.6 nm
Dmax 12.5 nm
VolumePorod 161 nm3

SASDUQ2 – DiTET-nn (coiled coil protein origami assembled from two linear chains)

RH1 (Linear coiled-coil protein origami structure consisting of 6 coiled-coil forming segments)RH2 (Linear coiled-coil protein origami structure consisting of 6 coiled-coil forming segments) experimental SAS data
SREFLEX model
Sample: RH1 (Linear coiled-coil protein origami structure consisting of 6 coiled-coil forming segments) monomer, 26 kDa synthetic construct protein
RH2 (Linear coiled-coil protein origami structure consisting of 6 coiled-coil forming segments) monomer, 26 kDa synthetic construct protein
Buffer: 20 mM Tris, 150 mM NaCL, 3% glycerol, 1mM TCEP, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2021 Aug 9
Preorganized cyclic modules facilitate the self-assembly of protein nanostructures Chemical Science (2024)
Snoj J, Lapenta F, Jerala R
RgGuinier 4.3 nm
Dmax 14.7 nm
VolumePorod 161 nm3

SASDUR2 – SB24-nnn (coiled coil protein origami irregular octahedron assembled from three linear chains)

SB6 (Linear coiled-coil protein origami structure consisting of 6 coiled-coil forming segments)SB9b (Linear coiled-coil protein origami structure consisting of 9 coiled-coil forming segments)SB9c (Linear coiled-coil protein origami structure consisting of 9 coiled-coil forming segments) experimental SAS data
MODELLER model
Sample: SB6 (Linear coiled-coil protein origami structure consisting of 6 coiled-coil forming segments) monomer, 26 kDa synthetic construct protein
SB9b (Linear coiled-coil protein origami structure consisting of 9 coiled-coil forming segments) monomer, 42 kDa synthetic construct protein
SB9c (Linear coiled-coil protein origami structure consisting of 9 coiled-coil forming segments) monomer, 41 kDa synthetic construct protein
Buffer: 20 mM Tris, 150 mM NaCL, 3% glycerol, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2019 Oct 25
Preorganized cyclic modules facilitate the self-assembly of protein nanostructures Chemical Science (2024)
Snoj J, Lapenta F, Jerala R
RgGuinier 4.8 nm
Dmax 16.1 nm
VolumePorod 443 nm3

SASDUS2 – SB24-ncn (coiled coil protein origami irregular octahedron assembled from 2 linear chains and 1 cyclic chain)

SB9b (Linear coiled-coil protein origami structure consisting of 9 coiled-coil forming segments)SB9c (Linear coiled-coil protein origami structure consisting of 9 coiled-coil forming segments)cySB6 (Cyclic coiled-coil protein origami structure consisting of 6 coiled-coil forming segments) experimental SAS data
COOT model
Sample: SB9b (Linear coiled-coil protein origami structure consisting of 9 coiled-coil forming segments) monomer, 42 kDa synthetic construct protein
SB9c (Linear coiled-coil protein origami structure consisting of 9 coiled-coil forming segments) monomer, 41 kDa synthetic construct protein
CySB6 (Cyclic coiled-coil protein origami structure consisting of 6 coiled-coil forming segments) monomer, 26 kDa synthetic construct protein
Buffer: 20 mM Tris, 150 mM NaCL, 3% glycerol, 1mM TCEP, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2021 Aug 9
Preorganized cyclic modules facilitate the self-assembly of protein nanostructures Chemical Science (2024)
Snoj J, Lapenta F, Jerala R
RgGuinier 4.7 nm
Dmax 14.7 nm
VolumePorod 428 nm3

SASDUY9 – BAM2 in 100 mM KCl (0.25 mg/mL)

Beta-amylase 2, chloroplastic experimental SAS data
Beta-amylase 2, chloroplastic Kratky plot
Sample: Beta-amylase 2, chloroplastic tetramer, 229 kDa Arabidopsis thaliana protein
Buffer: 50 mM HEPES, 100 mM KCl, pH: 7
Experiment: SAXS data collected at 12.3.1 (SIBYLS), Advanced Light Source (ALS) on 2019 Sep 17
Potassium cations expand the conformation ensemble of Arabidopsis thaliana β-amylase2 (BAM2). MicroPubl Biol 2024 (2024)
Sholes A, Asongakap R, Jaconski S, Monroe J, Berndsen CE
RgGuinier 4.9 nm
Dmax 16.4 nm
VolumePorod 226 nm3