Browse by MODEL: Ab initio only

SASDRK9 – single self-amplifying RNA

self-amplifying RNA experimental SAS data
DAMMIF model
Sample: Self-amplifying RNA monomer, 3030 kDa RNA
Buffer: MBG buffer: 5% w/v D-Glucose, 10mM MES (2-(N-morpholino)ethanesulfonic acid) in double distillated sterile/RNAse free water, pH: 6.1
Experiment: SAXS data collected at EMBL P12, PETRA III on 2019 Nov 10
Compact polyethylenimine-complexed mRNA molecules as quintessential vaccines
Martin Schroer
RgGuinier 90.5 nm
Dmax 200.0 nm

SASDRL9 – single self-amplifying RNA + 50 mM NaCl

self-amplifying RNA experimental SAS data
DAMMIF model
Sample: Self-amplifying RNA monomer, 3030 kDa RNA
Buffer: MBG buffer: 5% w/v D-Glucose, 10mM MES (2-(N-morpholino)ethanesulfonic acid) in double distillated sterile/RNAse free water, pH: 6.1
Experiment: SAXS data collected at EMBL P12, PETRA III on 2020 Mar 10
Compact polyethylenimine-complexed mRNA molecules as quintessential vaccines
Martin Schroer
RgGuinier 30.7 nm
Dmax 107.4 nm
VolumePorod 112000 nm3

SASDRM9 – Polyethylenimine-compacted single self-amplifying RNA for prophylactic and therapeutic application, specifically for vaccination

self-amplifying RNAlinear polyethylenimine experimental SAS data
DAMMIF model
Sample: Self-amplifying RNA monomer, 3030 kDa RNA
Linear polyethylenimine monomer, 25 kDa none (polymer)
Buffer: MBG buffer: 5% w/v D-Glucose, 10mM MES (2-(N-morpholino)ethanesulfonic acid) in double distillated sterile/RNAse free water, pH: 6.1
Experiment: SAXS data collected at EMBL P12, PETRA III on 2019 Nov 10
Compact polyethylenimine-complexed mRNA molecules as quintessential vaccines
Martin Schroer
RgGuinier 12.0 nm
Dmax 40.0 nm
VolumePorod 9100 nm3

SASDW74 – Aromatic-L-amino-acid decarboxylase L353P bound to pyridoxal 5'-phosphate (PLP)

Aromatic-L-amino-acid decarboxylase (L353P) experimental SAS data
DAMMIN model
Sample: Aromatic-L-amino-acid decarboxylase (L353P) dimer, 107 kDa Homo sapiens protein
Buffer: 50 mM HEPES, pH: 7.4
Experiment: SAXS data collected at B21, Diamond Light Source on 2021 Jul 7
Aromatic-L-amino-acid decarboxylase (AADC) L353P - pyridoxal 5'-phosphate bound form
Benny Danilo Belviso
RgGuinier 3.1 nm
Dmax 8.8 nm
VolumePorod 152 nm3

SASDW84 – Aromatic-L-amino-acid decarboxylase R347Q bound to pyridoxal 5'-phosphate (PLP)

Aromatic-L-amino-acid decarboxylase (R347Q) experimental SAS data
DAMMIN model
Sample: Aromatic-L-amino-acid decarboxylase (R347Q) dimer, 108 kDa Homo sapiens protein
Buffer: 50 mM HEPES, 100 µM pyridoxal 5'-phosphate, pH: 7.4
Experiment: SAXS data collected at BM29, ESRF on 2021 Jul 7
Aromatic-L-amino-acid decarboxylase (AADC) L353P - pyridoxal 5'-phosphate bound form
Benny Danilo Belviso
RgGuinier 3.6 nm
Dmax 14.2 nm
VolumePorod 220 nm3

SASDW97 – Recombination directionality factor (6H-RdfS) from M.japonicum bound to 40mer DNA

Recombination directionality factor RdfSattP_8 40-mer DNA experimental SAS data
OTHER model
Sample: Recombination directionality factor RdfS tetramer, 52 kDa Mesorhizobium japonicum R7A protein
AttP_8 40-mer DNA dimer, 25 kDa DNA
Buffer: 150 mM Tris-HCl, 300 mM NaCl, 5% v/v glycerol, pH: 7.4
Experiment: SAXS data collected at SAXS/WAXS, Australian Synchrotron on 2019 Jun 19
Structural basis for control of integrative and conjugative element excision and transfer by the oligomeric winged helix–turn–helix protein RdfS Nucleic Acids Research 53(6) (2025)
Verdonk C, Agostino M, Eto K, Hall D, Bond C, Ramsay J
RgGuinier 3.8 nm
Dmax 13.8 nm
VolumePorod 134 nm3

SASDVV6 – Extended single alpha-helix (SAH) region of Drebrin

Drebrin experimental SAS data
OTHER [STATIC IMAGE] model
Sample: Drebrin monomer, 10 kDa Homo sapiens protein
Buffer: 17 mM NaH2PO4, 3 mM Na2HPO4, 50 mM NaCl, pH: 6
Experiment: SAXS data collected at EMBL P12, PETRA III on 2023 Jul 7
Dynamic Interchange of Local Residue-Residue Interactions in the Largely Extended Single Alpha-Helix in Drebrin Biochemical Journal (2025)
Varga S, Péterfia B, Dudola D, Farkas V, Jeffries C, Permi P, Gáspári Z
RgGuinier 3.0 nm
Dmax 12.0 nm
VolumePorod 18 nm3

SASDVZ8 – Pro-Trp-Trp-Pro (PWWP) domain from human DNA (cytosine-5)-methyltransferase 3B (DNMT3B)

DNA (cytosine-5)-methyltransferase 3B Pro-Trp-Trp-Pro (PWWP) domain experimental SAS data
GASBOR model
Sample: DNA (cytosine-5)-methyltransferase 3B Pro-Trp-Trp-Pro (PWWP) domain monomer, 17 kDa Homo sapiens protein
Buffer: 20 mM Tris, 300 mM NaCl, 1 mM TCEP, 5% glycerol, pH: 8
Experiment: SAXS data collected at 13A, Taiwan Photon Source, NSRRC on 2024 Apr 20
Histone modification-driven structural remodeling unleashes DNMT3B in DNA methylation. Sci Adv 11(13):eadu8116 (2025)
Cho CC, Huang HH, Jiang BC, Yang WZ, Chen YN, Yuan HS
RgGuinier 1.8 nm
Dmax 6.4 nm
VolumePorod 20464 nm3

SASDV29 – Complex of human DNA methyltransferase 3 beta DNMT3B (215-853) and DNA methyltransferase 3-like DNMT3L (178-379)

DNA methyltransferase 3 beta (215-853)DNA methyltransferase 3-like (178-379) experimental SAS data
GASBOR model
Sample: DNA methyltransferase 3 beta (215-853) dimer, 145 kDa Homo sapiens protein
DNA methyltransferase 3-like (178-379) dimer, 47 kDa Homo sapiens protein
Buffer: 20 mM Tris, 300 mM NaCl, 1 mM TCEP, 5% glycerol, pH: 8
Experiment: SAXS data collected at 13A, Taiwan Photon Source, NSRRC on 2021 Apr 16
Histone modification-driven structural remodeling unleashes DNMT3B in DNA methylation. Sci Adv 11(13):eadu8116 (2025)
Cho CC, Huang HH, Jiang BC, Yang WZ, Chen YN, Yuan HS
RgGuinier 5.2 nm
Dmax 21.2 nm
VolumePorod 271263 nm3

SASDVJ9 – Human DNA methyltransferase 3 beta DNMT3B (215-853) and DNA methyltransferase 3-like DNMT3L (178-379) in complex with histone H3

Histone H3.3DNA methyltransferase 3 beta (215-853) experimental SAS data
GASBOR model
Sample: Histone H3.3 dimer, 8 kDa Homo sapiens protein
DNA methyltransferase 3 beta (215-853) dimer, 145 kDa Homo sapiens protein
Buffer: 20 mM Tris, 300 mM NaCl, 1 mM TCEP, 5% glycerol, pH: 8
Experiment: SAXS data collected at 13A, Taiwan Photon Source, NSRRC on 2021 Apr 16
Histone modification-driven structural remodeling unleashes DNMT3B in DNA methylation. Sci Adv 11(13):eadu8116 (2025)
Cho CC, Huang HH, Jiang BC, Yang WZ, Chen YN, Yuan HS
RgGuinier 5.1 nm
Dmax 18.9 nm
VolumePorod 275 nm3