Browse by MODEL: Ab initio only

SASDNB5 – Truncated Kelch13-A578S mutant

Kelch protein K13 (Truncated Kelch13-A578S) experimental SAS data
GASBOR model
Sample: Kelch protein K13 (Truncated Kelch13-A578S) hexamer, 396 kDa Plasmodium falciparum (isolate … protein
Buffer: Phosphate Buffer Saline, pH: 7.4
Experiment: SAXS data collected at Anton Paar SAXSpace, CSIR - Institute of Microbial Technology (IMTech) on 2020 Jul 29
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 6.1 nm
Dmax 16.8 nm
VolumePorod 1700 nm3

SASDNF3 – Lectin nano-block dimer of WA20-H-ACG

Lectin nano-block WA20-H-ACG experimental SAS data
DAMMIN model
Sample: Lectin nano-block WA20-H-ACG dimer, 59 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 Oct 31
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 3.9 nm
Dmax 18.1 nm
VolumePorod 85 nm3

SASDNG3 – Lectin nano-block dimer of WA20-ΔN3ACG

Lectin nano-block WA20-ΔN3ACG experimental SAS data
DAMMIN model
Sample: Lectin nano-block WA20-ΔN3ACG dimer, 58 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 Oct 31
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 4.1 nm
Dmax 21.6 nm
VolumePorod 87 nm3

SASDLP2 – Outer membrane associated protein, FopA dimer in Tris-HCl, NaCl and n-Dodecyl beta-D-maltoside

Francisella tularensis outer membrane protein A experimental SAS data
Sample: Francisella tularensis outer membrane protein A dimer, 80 kDa Francisella tularensis subsp. … protein
Buffer: 20 mM Tris, 150 mM NaCl, 0.05% B-DDM, pH: 7.5
Experiment: SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2019 Mar 20
Structural and biophysical properties of FopA, a major outer membrane protein of Francisella tularensis. PLoS One 17(8):e0267370 (2022)
Nagaratnam N, Martin-Garcia JM, Yang JH, Goode MR, Ketawala G, Craciunescu FM, Zook JD, Sonowal M, Williams D, Grant TD, Fromme R, Hansen DT, Fromme P
RgGuinier 4.4 nm
Dmax 16.0 nm
VolumePorod 330 nm3

SASDNA3 – Association of the CPAP N-termini coiled-coil domain with the CP110 C-termini coiled-coil region

centrosomal-P4.1-associated-proteinCentriolar coiled-coil protein of 110 kDa experimental SAS data
DAMMIF model
Sample: Centrosomal-P4.1-associated-protein monomer, 12 kDa Homo sapiens protein
Centriolar coiled-coil protein of 110 kDa dimer, 20 kDa Homo sapiens protein
Buffer: 50 mM HEPES, pH 7.5, 100 mM NaCl, 1 mM DTT, 1 mM MgCl2, pH: 7.5
Experiment: SAXS data collected at B21, Diamond Light Source on 2019 Feb 23
Centriolar cap proteins CP110 and CPAP control slow elongation of microtubule plus ends. J Cell Biol 224(3) (2025)
Iyer SS, Chen F, Ogunmolu FE, Moradi S, Volkov VA, van Grinsven EJ, van Hoorn C, Wu J, Andrea N, Hua S, Jiang K, Vakonakis I, Potočnjak M, Herzog F, Gigant B, Gudimchuk N, Stecker KE, Dogterom M, Steinmetz MO, Akhmanova A
RgGuinier 3.5 nm
Dmax 12.2 nm
VolumePorod 35 nm3

SASDNB3 – Homodimerisation of the CP110 C-terminus coiled-coil domain

Centriolar coiled-coil protein of 110 kDa experimental SAS data
DAMMIF model
Sample: Centriolar coiled-coil protein of 110 kDa dimer, 20 kDa Homo sapiens protein
Buffer: 50 mM HEPES, pH 7.5, 100 mM NaCl, 1 mM DTT, 1 mM MgCl2, pH: 7.5
Experiment: SAXS data collected at B21, Diamond Light Source on 2019 Feb 23
Centriolar cap proteins CP110 and CPAP control slow elongation of microtubule plus ends. J Cell Biol 224(3) (2025)
Iyer SS, Chen F, Ogunmolu FE, Moradi S, Volkov VA, van Grinsven EJ, van Hoorn C, Wu J, Andrea N, Hua S, Jiang K, Vakonakis I, Potočnjak M, Herzog F, Gigant B, Gudimchuk N, Stecker KE, Dogterom M, Steinmetz MO, Akhmanova A
RgGuinier 3.5 nm
Dmax 12.5 nm
VolumePorod 33 nm3

SASDMK7 – HomA outer membrane protein

HomA outer membrane protein experimental SAS data
DAMMIN model
Sample: HomA outer membrane protein dimer, 146 kDa Helicobacter pylori protein
Buffer: 20 mM Tris-Cl, 200 mM NaCl, 5 mM β-mercaptoethanol, pH: 8
Experiment: SAXS data collected at BL-18, INDUS-2 on 2021 Feb 2
Biophysical characterization of the homodimers of HomA and HomB, outer membrane proteins of Helicobacter pylori. Sci Rep 11(1):24471 (2021)
Tamrakar A, Singh R, Kumar A, Makde RD, Ashish, Kodgire P
RgGuinier 8.3 nm
Dmax 28.2 nm
VolumePorod 426 nm3

SASDML7 – HomB outer membrane protein

HomB outer membrane protein experimental SAS data
DAMMIN model
Sample: HomB outer membrane protein dimer, 148 kDa Helicobacter pylori protein
Buffer: 20 mM Tris-Cl, 200 mM NaCl, 5 mM β-mercaptoethanol, pH: 8
Experiment: SAXS data collected at BL-18, INDUS-2 on 2021 Feb 2
Biophysical characterization of the homodimers of HomA and HomB, outer membrane proteins of Helicobacter pylori. Sci Rep 11(1):24471 (2021)
Tamrakar A, Singh R, Kumar A, Makde RD, Ashish, Kodgire P
RgGuinier 8.2 nm
Dmax 27.1 nm
VolumePorod 500 nm3

SASDMR6 – 5-10-5 gapmer phosphorothioate antisense oligonucleotide

5-10-5 gapmer phosphorothioate antisense oligonucleotide experimental SAS data
DAMFILT model
Sample: 5-10-5 gapmer phosphorothioate antisense oligonucleotide dimer, 14 kDa
Buffer: 20 mM Tris-Cl (pH 7.5), 250 mM KCl, 50 mM L-proline, 0.5 mM EDTA, pH: 7.5
Experiment: SAXS data collected at SAXS/WAXS, Australian Synchrotron on 2015 Apr 28
Structural basis of dimerization and nucleic acid binding of human DBHS proteins NONO and PSPC1. Nucleic Acids Res (2021)
Knott GJ, Chong YS, Passon DM, Liang XH, Deplazes E, Conte MR, Marshall AC, Lee M, Fox AH, Bond CS
RgGuinier 1.8 nm
Dmax 8.5 nm
VolumePorod 15 nm3

SASDJ89 – Sensory rhodopsin II - transducer complex (NpSRII/NpHtrII) in detergent at 1400 mM NaCl studied with SANS

Sensory rhodopsin II from Natronbacterium pharaonisSensory rhodopsin II transducer from Natronomonas pharaonis experimental SAS data
GASBOR model
Sample: Sensory rhodopsin II from Natronbacterium pharaonis dimer, 53 kDa Natronomonas pharaonis protein
Sensory rhodopsin II transducer from Natronomonas pharaonis dimer, 116 kDa Natronomonas pharaonis protein
Buffer: 1400 mM NaCl, 49.4 mM Na/Na-Pi, 1.0 mM EDTA, 0.05% DDM (D2O buffer), pH: 8
Experiment: SANS data collected at YuMO SANS TOF spectrometer, IBR-2, Frank Laboratory of Neutron Physics, Joint Institute for Nuclear Research on 2019 Feb 10
Ambiguities in and completeness of SAS data analysis of membrane proteins: the case of the sensory rhodopsin II–transducer complex Acta Crystallographica Section D Structural Biology 77(11) (2021)
Ryzhykau Y, Vlasov A, Orekhov P, Rulev M, Rogachev A, Vlasova A, Kazantsev A, Verteletskiy D, Skoi V, Brennich M, Pernot P, Murugova T, Gordeliy V, Kuklin A
RgGuinier 8.6 nm
Dmax 39.0 nm