Browse by ORGANISM: other species

SASDQN9 – Japanese encephalitis virus 5' TR and 3' UTR RNA complex

Japanese encephalitis virus 5' TR and 3' UTR complex experimental SAS data
MONSA model
Sample: Japanese encephalitis virus 5' TR and 3' UTR complex monomer, 260 kDa Japanese encephalitis virus RNA
Buffer: 10 mM Bis-tris, 100 mM NaCl, 15 mM KCl 15 mM MgCl2, 10% glycerol, pH: 5
Experiment: SAXS data collected at B21, Diamond Light Source on 2022 May 22
Investigating RNA-RNA interactions through computational and biophysical analysis. Nucleic Acids Res (2023)
Mrozowich T, Park SM, Waldl M, Henrickson A, Tersteeg S, Nelson CR, De Klerk A, Demeler B, Hofacker IL, Wolfinger MT, Patel TR
RgGuinier 12.8 nm
Dmax 40.0 nm
VolumePorod 4550 nm3

SASDFY4 – R4-15 human dystrophin fragment

Human dystrophin central domain R4-15 fragment experimental SAS data
Human dystrophin central domain R4-15 fragment Kratky plot
Sample: Human dystrophin central domain R4-15 fragment monomer, 150 kDa protein
Buffer: NaP 20 mM, NaCl 300 mM, EDTA 1 mM, Glycérol 2%, pH: 7.5
Experiment: SAXS data collected at SWING, SOLEIL on 2016 May 26
Dystrophin SAXS data
Raphael Dos Santos Morais
RgGuinier 9.7 nm
Dmax 47.5 nm

SASDFZ4 – R16-24 human dystrophin fragment

Human dystrophin central domain R16-24 fragment experimental SAS data
Human dystrophin central domain R16-24 fragment Kratky plot
Sample: Human dystrophin central domain R16-24 fragment monomer, 127 kDa protein
Buffer: NaP 20 mM, NaCl 300 mM, EDTA 1 mM, Glycérol 2%, pH: 7.5
Experiment: SAXS data collected at SWING, SOLEIL on 2016 Dec 17
Dystrophin SAXS data
Raphael Dos Santos Morais
RgGuinier 9.3 nm
Dmax 34.0 nm

SASDF25 – R16-24 del45-55 human dystrophin fragment

Human dystrophin central domain R16-24 del45-55 fragment experimental SAS data
Human dystrophin central domain R16-24 del45-55 fragment Kratky plot
Sample: Human dystrophin central domain R16-24 del45-55 fragment monomer, 58 kDa protein
Buffer: NaP 20 mM, NaCl 300 mM, EDTA 1 mM, Glycérol 2%, pH: 7.5
Experiment: SAXS data collected at SWING, SOLEIL on 2017 Sep 28
Dystrophin SAXS data
Raphael Dos Santos Morais
RgGuinier 4.7 nm
Dmax 18.3 nm

SASDF35 – R16-24 del45-51 human dystrophin fragment

Human dystrophin central domain R16-24 del45-51 fragment experimental SAS data
Human dystrophin central domain R16-24 del45-51 fragment Kratky plot
Sample: Human dystrophin central domain R16-24 del45-51 fragment monomer, 85 kDa protein
Buffer: NaP 20 mM, NaCl 300 mM, EDTA 1 mM, Glycérol 2%, pH: 7.5
Experiment: SAXS data collected at SWING, SOLEIL on 2017 Jul 13
Dystrophin SAXS data
Raphael Dos Santos Morais
RgGuinier 7.0 nm
Dmax 26.2 nm

SASDQ59 – Mutant 7-deazapurine in DNA protein A (D95A)

DNA-guanine transglycosylase - D95A mutant experimental SAS data
GROMACS model
Sample: DNA-guanine transglycosylase - D95A mutant monomer, 50 kDa Salmonella enterica subsp. … protein
Buffer: 100 mM KCl, 50 mM Tris pH 7.0, 1 mM DTT, pH: 7
Experiment: SAXS data collected at 12.3.1 (SIBYLS), Advanced Light Source (ALS) on 2021 Dec 22
7-Deazaguanines in DNA: functional and structural elucidation of a DNA modification system. Nucleic Acids Res (2023)
Gedara SH, Wood E, Gustafson A, Liang C, Hung SH, Savage J, Phan P, Luthra A, de Crécy-Lagard V, Dedon P, Swairjo MA, Iwata-Reuyl D
RgGuinier 2.7 nm
Dmax 10.1 nm
VolumePorod 67 nm3

SASDQ69 – 28 base pair DNA substrate (used in experiments with 7-deazapurine in DNA proteins)

Custom 28 base pair double stranded DNA experimental SAS data
GROMACS model
Sample: Custom 28 base pair double stranded DNA monomer, 17 kDa Synthetic, purchased from … DNA
Buffer: 100 mM KCl, 50 mM Tris pH 7.0, 1 mM DTT, pH: 7
Experiment: SAXS data collected at 12.3.1 (SIBYLS), Advanced Light Source (ALS) on 2021 Dec 22
7-Deazaguanines in DNA: functional and structural elucidation of a DNA modification system. Nucleic Acids Res (2023)
Gedara SH, Wood E, Gustafson A, Liang C, Hung SH, Savage J, Phan P, Luthra A, de Crécy-Lagard V, Dedon P, Swairjo MA, Iwata-Reuyl D
RgGuinier 2.6 nm
Dmax 10.2 nm
VolumePorod 24 nm3

SASDQ79 – Mutant 7-deazapurine in DNA protein A (D95A) bound to a 28 base pair DNA substrate (2-state model: complex plus free DNA)

Custom 28 base pair double stranded DNADNA-guanine transglycosylase - D95A mutant experimental SAS data
GROMACS model
Sample: Custom 28 base pair double stranded DNA monomer, 17 kDa Synthetic, purchased from … DNA
DNA-guanine transglycosylase - D95A mutant monomer, 50 kDa Salmonella enterica subsp. … protein
Buffer: 100 mM KCl, 50 mM Tris pH 7.0, 1 mM DTT, pH: 7
Experiment: SAXS data collected at 12.3.1 (SIBYLS), Advanced Light Source (ALS) on 2021 Dec 22
7-Deazaguanines in DNA: functional and structural elucidation of a DNA modification system. Nucleic Acids Res (2023)
Gedara SH, Wood E, Gustafson A, Liang C, Hung SH, Savage J, Phan P, Luthra A, de Crécy-Lagard V, Dedon P, Swairjo MA, Iwata-Reuyl D
RgGuinier 3.4 nm
Dmax 13.5 nm
VolumePorod 104 nm3

SASDQ89 – 7-deazapurine in DNA protein B

DGQHR domain-containing protein experimental SAS data
ALPHAFOLD model
Sample: DGQHR domain-containing protein dimer, 88 kDa Salmonella enterica subsp. … protein
Buffer: 100 mM KCl, 50 mM Tris pH 7.0, 1 mM DTT, pH: 7
Experiment: SAXS data collected at 12.3.1 (SIBYLS), Advanced Light Source (ALS) on 2021 Dec 22
7-Deazaguanines in DNA: functional and structural elucidation of a DNA modification system. Nucleic Acids Res (2023)
Gedara SH, Wood E, Gustafson A, Liang C, Hung SH, Savage J, Phan P, Luthra A, de Crécy-Lagard V, Dedon P, Swairjo MA, Iwata-Reuyl D
RgGuinier 3.4 nm
Dmax 13.5 nm
VolumePorod 126 nm3

SASDPF5 – SAXS curve of RNA Xist A-repeats (14mer)

Xist A-repeat lncRNA 14 mer experimental SAS data
Xist A-repeat lncRNA 14 mer Kratky plot
Sample: Xist A-repeat lncRNA 14 mer monomer, 5 kDa RNA
Buffer: 50 mM HEPES, 150 mM NaCl, 2 mM MgCl2, pH: 7
Experiment: SAXS data collected at EMBL P12, PETRA III on 2020 Jun 20
Cotranscriptional folding of the lncRNA Xist A-repeats indicates a modular structure
Alisha Jones
RgGuinier 2.1 nm
Dmax 8.5 nm
VolumePorod 13 nm3