Browse by MODEL: Hybrid

SASDL87 – Plasmodium falciparum Glycogen Synthase Kinase 3 - Ion Exchange Chromatography Fraction 4

Glycogen synthase kinase 3 experimental SAS data
CORAL model
Sample: Glycogen synthase kinase 3 monomer, 52 kDa Plasmodium falciparum (isolate … protein
Buffer: 20 mM Tris pH 8.0, 100 mM NaCl, 0.5 mM TCEP, pH: 8
Experiment: SAXS data collected at EMBL P12, PETRA III on 2020 Nov 19
N-terminal phosphorylation regulates the activity of glycogen synthase kinase 3 from Plasmodium falciparum. Biochem J 479(3):337-356 (2022)
Pazicky S, Alder A, Mertens H, Svergun D, Gilberger T, Löw C
RgGuinier 3.2 nm
Dmax 11.6 nm
VolumePorod 101 nm3

SASDMC9 – Plasmodium falciparum Glycogen Synthase Kinase 3 - Ion Exchange Chromatography Fraction 1

Glycogen synthase kinase 3 experimental SAS data
ROSETTA model
Sample: Glycogen synthase kinase 3 monomer, 52 kDa Plasmodium falciparum (isolate … protein
Buffer: 20 mM Tris pH 8.0, 100 mM NaCl, 0.5 mM TCEP, pH: 8
Experiment: SAXS data collected at EMBL P12, PETRA III on 2020 Nov 19
N-terminal phosphorylation regulates the activity of glycogen synthase kinase 3 from Plasmodium falciparum. Biochem J 479(3):337-356 (2022)
Pazicky S, Alder A, Mertens H, Svergun D, Gilberger T, Löw C
RgGuinier 3.3 nm
Dmax 13.0 nm
VolumePorod 102 nm3

SASDM67 – Hemolysin A (HlyA) from Escherichia coli UTI89

Hemolysin, plasmid (Hemolysin A) experimental SAS data
GASBOR model
Sample: Hemolysin, plasmid (Hemolysin A) dimer, 220 kDa Escherichia coli UTI89 protein
Buffer: 100 mM HEPES pH 8.0, 250 mM NaCl, 10 mM CaCl2, pH: 8
Experiment: SAXS data collected at BM29, ESRF on 2018 Mar 6
Identity Determinants of the Translocation Signal for a Type 1 Secretion System Frontiers in Physiology 12 (2022)
Spitz O, Erenburg I, Kanonenberg K, Peherstorfer S, Lenders M, Reiners J, Ma M, Luisi B, Smits S, Schmitt L
RgGuinier 6.7 nm
Dmax 25.3 nm
VolumePorod 346 nm3

SASDMU3 – Overall conformation and interdomain arrangement of Vibrio collagenase VhaC in solution.

Vibrio collagenase VhaC experimental SAS data
CORAL model
Sample: Vibrio collagenase VhaC monomer, 90 kDa Vibrio harveyi protein
Buffer: 10 mM Tris-HCl, 100 mM NaCl, pH: 8
Experiment: SAXS data collected at BL19U2, Shanghai Synchrotron Radiation Facility (SSRF) on 2021 Jan 1
Structure of Vibrio collagenase VhaC provides insight into the mechanism of bacterial collagenolysis. Nat Commun 13(1):566 (2022)
Wang Y, Wang P, Cao HY, Ding HT, Su HN, Liu SC, Liu G, Zhang X, Li CY, Peng M, Li F, Li S, Chen Y, Chen XL, Zhang YZ
RgGuinier 4.3 nm
Dmax 17.6 nm
VolumePorod 148 nm3

SASDN85 – Truncated Kelch13-Wild Type

Kelch protein K13 experimental SAS data
ITASSER model
Sample: Kelch protein K13 hexamer, 396 kDa Plasmodium falciparum (isolate … protein
Buffer: phosphate buffered saline, pH: 7.4
Experiment: SAXS data collected at Anton Paar SAXSpace, CSIR - Institute of Microbial Technology (IMTech) on 2020 Jul 25
Plasmodium falciparum Kelch13 and its artemisinin-resistant mutants assemble as hexamers in solution: a SAXS data driven modeling study. FEBS J (2022)
Goel N, Dhiman K, Kalidas N, Mukhopadhyay A, Ashish F, Bhattacharjee S
RgGuinier 6.4 nm
Dmax 17.0 nm
VolumePorod 1630 nm3

SASDMU7 – Apt31 - ssDNA aptamer specific to the receptor-binding domain of SARS-CoV-2

ssDNA aptamer Apt31 specific to the receptor-binding domain of SARS-CoV-2 experimental SAS data
GROMACS model
Sample: SsDNA aptamer Apt31 specific to the receptor-binding domain of SARS-CoV-2 monomer, 10 kDa Artificially synthesized DNA
Buffer: Tris-HCl, pH: 7.4
Experiment: SAXS data collected at 13A, Taiwan Photon Source, NSRRC on 2020 Dec 18
Structure and Interaction Based Design of Anti‐SARS‐CoV‐2 Aptamers Chemistry – A European Journal (2022)
Mironov V, Shchugoreva I, Artyushenko P, Morozov D, Borbone N, Oliviero G, Zamay T, Moryachkov R, Kolovskaya O, Lukyanenko K, Song Y, Merkuleva I, Zabluda V, Peters G, Koroleva L, Veprintsev D, Glazyrin Y, Volosnikova E, Belenkaya S, Esina T, Isaeva A, Nesmeyanova V, Shanshin D, Berlina A, Komova N, Svetlichnyi V, Silnikov V, Shcherbakov D, Zamay G, Zamay S, Smolyarova T, Tikhonova E, Chen K, Jeng U, Condorelli G, de Franciscis V, Groenhof G, Yang C, Moskovsky A, Fedorov D, Tomilin F, Tan W, Alexeev Y, Berezovski M, Kichkailo A
RgGuinier 1.9 nm
Dmax 6.5 nm
VolumePorod 12 nm3

SASDNC3 – Lectin nano-block dimer of WA20-SL-ACG

Lectin nano-block WA20-SL-ACG experimental SAS data
DAMMIN model
Sample: Lectin nano-block WA20-SL-ACG dimer, 60 kDa protein
Buffer: 20 mM HEPES, 150 mM NaCl, 5% glycerol,, pH: 7.5
Experiment: SAXS data collected at BL-10C, Photon Factory (PF), High Energy Accelerator Research Organization (KEK) on 2020 Jun 20
Self-Assembling Lectin Nano-Block Oligomers Enhance Binding Avidity to Glycans International Journal of Molecular Sciences 23(2):676 (2022)
Irumagawa S, Hiemori K, Saito S, Tateno H, Arai R
RgGuinier 3.1 nm
Dmax 14.9 nm
VolumePorod 82 nm3

SASDND3 – Lectin nano-block tetramer of WA20-SL-ACG

Lectin nano-block WA20-SL-ACG experimental SAS data
CORAL model
Sample: Lectin nano-block WA20-SL-ACG tetramer, 121 kDa protein
Buffer: 20 mM HEPES, 150 mM NaCl, 5% glycerol,, pH: 7.5
Experiment: SAXS data collected at BL-10C, Photon Factory (PF), High Energy Accelerator Research Organization (KEK) on 2020 Jun 20
Self-Assembling Lectin Nano-Block Oligomers Enhance Binding Avidity to Glycans International Journal of Molecular Sciences 23(2):676 (2022)
Irumagawa S, Hiemori K, Saito S, Tateno H, Arai R
RgGuinier 4.7 nm
Dmax 18.6 nm
VolumePorod 183 nm3

SASDNE3 – Lectin nano-block hexamer of WA20-SL-ACG

Lectin nano-block WA20-SL-ACG experimental SAS data
CORAL model
Sample: Lectin nano-block WA20-SL-ACG hexamer, 181 kDa protein
Buffer: 20 mM HEPES, 150 mM NaCl, 5% glycerol,, pH: 7.5
Experiment: SAXS data collected at BL-10C, Photon Factory (PF), High Energy Accelerator Research Organization (KEK) on 2020 Jun 20
Self-Assembling Lectin Nano-Block Oligomers Enhance Binding Avidity to Glycans International Journal of Molecular Sciences 23(2):676 (2022)
Irumagawa S, Hiemori K, Saito S, Tateno H, Arai R
RgGuinier 5.4 nm
Dmax 24.2 nm
VolumePorod 313 nm3

SASDLP4 – Superoxide dismutase, SodA

Superoxide dismutase [Mn] experimental SAS data
PDB (PROTEIN DATA BANK) model
Sample: Superoxide dismutase [Mn], 23 kDa Escherichia coli (strain … protein
Buffer: 50 mM HEPES, pH: 7.4
Experiment: SAXS data collected at EMBL P12, PETRA III on 2019 Oct 1
Protein quaternary structures in solution are a mixture of multiple forms Chemical Science 13(39):11680-11695 (2022)
Marciano S, Dey D, Listov D, Fleishman S, Sonn-Segev A, Mertens H, Busch F, Kim Y, Harvey S, Wysocki V, Schreiber G
RgGuinier 2.3 nm
Dmax 7.3 nm
VolumePorod 54 nm3