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55 hits found for Patel

SASDNL2 – LincRNA-p21 Sense Alu Inverted Repeat

LincRNA-p21 AluSx1 Sense RNA experimental SAS data
DAMMIN model
Sample: LincRNA-p21 AluSx1 Sense RNA monomer, 100 kDa Homo sapiens RNA
Buffer: 50mM HEPES,150 mM NaCl, 15 mM MgCl2, 3% glycerol, pH: 7.4
Experiment: SAXS data collected at B21, Diamond Light Source on 2021 Jul 1
Biophysical characterisation of human LincRNA-p21 sense and antisense Alu inverted repeats. Nucleic Acids Res 50(10):5881-5898 (2022)
...Patel TR
RgGuinier 6.1 nm
Dmax 18.5 nm
VolumePorod 225 nm3

SASDNM2 – LincRNA-p21 Antisense Alu Inverted Repeat

LincRNA-p21 AluSx1 Antisense RNA experimental SAS data
DAMMIN model
Sample: LincRNA-p21 AluSx1 Antisense RNA monomer, 90 kDa Homo sapiens RNA
Buffer: 50mM HEPES,150 mM NaCl, 15 mM MgCl2, 3% glycerol, pH: 7.4
Experiment: SAXS data collected at B21, Diamond Light Source on 2021 Jul 1
Biophysical characterisation of human LincRNA-p21 sense and antisense Alu inverted repeats. Nucleic Acids Res 50(10):5881-5898 (2022)
...Patel TR
RgGuinier 5.9 nm
Dmax 18.1 nm
VolumePorod 375 nm3

SASDH93 – Braveheart Fragment 1

Braveheart Fragment 1 experimental SAS data
DAMMIN model
Sample: Braveheart Fragment 1 monomer, 116 kDa Homo sapiens RNA
Buffer: 50 mM HEPES-KOH, 100 mM KCl, 6 mM MgCl2, pH: 7.6
Experiment: SAXS data collected at B21, Diamond Light Source on 2018 Jun 23
Zinc-finger protein CNBP alters the 3-D structure of lncRNA Braveheart in solution Nature Communications 11(1) (2020)
...Patel T, Sanbonmatsu K
RgGuinier 8.4 nm
Dmax 24.0 nm
VolumePorod 426 nm3

SASDHA3 – Braveheart Fragment 2

Braveheart Fragment 2 experimental SAS data
DAMMIN model
Sample: Braveheart Fragment 2 monomer, 112 kDa Homo sapiens RNA
Buffer: 50 mM HEPES-KOH, 100 mM KCl, 6 mM MgCl2, pH: 7.6
Experiment: SAXS data collected at B21, Diamond Light Source on 2018 Jun 23
Zinc-finger protein CNBP alters the 3-D structure of lncRNA Braveheart in solution Nature Communications 11(1) (2020)
...Patel T, Sanbonmatsu K
RgGuinier 8.1 nm
Dmax 27.2 nm
VolumePorod 443 nm3

SASDHB3 – Braveheart Fragment 3

Braveheart Fragment 3 experimental SAS data
DAMMIN model
Sample: Braveheart Fragment 3 monomer, 111 kDa Homo sapiens RNA
Buffer: 50 mM HEPES-KOH, 100 mM KCl, 6 mM MgCl2, pH: 7.6
Experiment: SAXS data collected at B21, Diamond Light Source on 2018 Jun 23
Zinc-finger protein CNBP alters the 3-D structure of lncRNA Braveheart in solution Nature Communications 11(1) (2020)
...Patel T, Sanbonmatsu K
RgGuinier 6.5 nm
Dmax 20.5 nm
VolumePorod 492 nm3

SASDHC3 – Braveheart in 0 mM MgCl2

Braveheart RNA experimental SAS data
DAMMIN model
Sample: Braveheart RNA monomer, 205 kDa Homo sapiens RNA
Buffer: 50 mM HEPES-KOH, 100 mM KCl, pH: 7.6
Experiment: SAXS data collected at B21, Diamond Light Source on 2018 Jun 23
Zinc-finger protein CNBP alters the 3-D structure of lncRNA Braveheart in solution Nature Communications 11(1) (2020)
...Patel T, Sanbonmatsu K
RgGuinier 9.9 nm
Dmax 30.0 nm
VolumePorod 2150 nm3

SASDHD3 – Braveheart in 6 mM MgCl2

Braveheart RNA experimental SAS data
DAMMIN model
Sample: Braveheart RNA monomer, 205 kDa Homo sapiens RNA
Buffer: 50 mM HEPES-KOH, 100 mM KCl, 6 mM MgCl2, pH: 7.6
Experiment: SAXS data collected at B21, Diamond Light Source on 2018 Dec 16
Zinc-finger protein CNBP alters the 3-D structure of lncRNA Braveheart in solution Nature Communications 11(1) (2020)
...Patel T, Sanbonmatsu K
RgGuinier 11.8 nm
Dmax 28.7 nm
VolumePorod 2380 nm3

SASDHE3 – Braveheart in 12 mM MgCl2

Braveheart RNA experimental SAS data
DAMMIN model
Sample: Braveheart RNA monomer, 205 kDa Homo sapiens RNA
Buffer: 50 mM HEPES-KOH, 100 mM KCl, 12 mM MgCl2, pH: 7.6
Experiment: SAXS data collected at B21, Diamond Light Source on 2018 Jul 20
Zinc-finger protein CNBP alters the 3-D structure of lncRNA Braveheart in solution Nature Communications 11(1) (2020)
...Patel T, Sanbonmatsu K
RgGuinier 9.7 nm
Dmax 26.0 nm
VolumePorod 1370 nm3

SASDHF3 – Braveheart 5' module in 6 mM MgCl2

Braveheart 5' Module experimental SAS data
DAMMIN model
Sample: Braveheart 5' Module monomer, 32 kDa Homo sapiens RNA
Buffer: 50 mM HEPES-KOH, 100 mM KCl, 6 mM MgCl2, pH: 7.6
Experiment: SAXS data collected at B21, Diamond Light Source on 2018 Dec 16
Zinc-finger protein CNBP alters the 3-D structure of lncRNA Braveheart in solution Nature Communications 11(1) (2020)
...Patel T, Sanbonmatsu K
RgGuinier 4.3 nm
Dmax 13.5 nm
VolumePorod 71 nm3

SASDHG3 – Braveheart 5' module in 12 mM MgCl2

Braveheart 5' Module experimental SAS data
DAMMIN model
Sample: Braveheart 5' Module monomer, 32 kDa Homo sapiens RNA
Buffer: 50 mM HEPES-KOH, 100 mM KCl, 12 mM MgCl2, pH: 7.6
Experiment: SAXS data collected at B21, Diamond Light Source on 2018 Dec 16
Zinc-finger protein CNBP alters the 3-D structure of lncRNA Braveheart in solution Nature Communications 11(1) (2020)
...Patel T, Sanbonmatsu K
RgGuinier 4.8 nm
Dmax 15.0 nm
VolumePorod 99 nm3

SASDHH3 – Braveheart 3' module in 6 mM MgCl2

Braveheart 3' module experimental SAS data
DAMMIN model
Sample: Braveheart 3' module monomer, 72 kDa Homo sapiens RNA
Buffer: 50 mM HEPES-KOH, 100 mM KCl, 6 mM MgCl2, pH: 7.6
Experiment: SAXS data collected at B21, Diamond Light Source on 2018 Dec 16
Zinc-finger protein CNBP alters the 3-D structure of lncRNA Braveheart in solution Nature Communications 11(1) (2020)
...Patel T, Sanbonmatsu K
RgGuinier 6.5 nm
Dmax 18.5 nm
VolumePorod 198 nm3

SASDHJ3 – Braveheart 3' module in 12 mM MgCl2

Braveheart 3' module experimental SAS data
DAMMIN model
Sample: Braveheart 3' module monomer, 72 kDa Homo sapiens RNA
Buffer: 50 mM HEPES-KOH, 100 mM KCl, 12 mM MgCl2, pH: 7.6
Experiment: SAXS data collected at B21, Diamond Light Source on 2018 Dec 16
Zinc-finger protein CNBP alters the 3-D structure of lncRNA Braveheart in solution Nature Communications 11(1) (2020)
...Patel T, Sanbonmatsu K
RgGuinier 7.3 nm
Dmax 19.0 nm
VolumePorod 219 nm3

SASDHK3 – Braveheart RNA + Cellular nucleic acid-binding protein (CNBP)

Braveheart RNACellular nucleic acid-binding protein experimental SAS data
DAMMIN model
Sample: Braveheart RNA monomer, 205 kDa Homo sapiens RNA
Cellular nucleic acid-binding protein monomer, 22 kDa Homo sapiens protein
Buffer: 50 mM HEPES-KOH, 100 mM KCl, 6 mM MgCl2, pH: 7.6
Experiment: SAXS data collected at B21, Diamond Light Source on 2018 Jun 23
Zinc-finger protein CNBP alters the 3-D structure of lncRNA Braveheart in solution Nature Communications 11(1) (2020)
...Patel T, Sanbonmatsu K
RgGuinier 9.8 nm
Dmax 30.2 nm
VolumePorod 1660 nm3

SASDHL3 – Braveheart Fragment 1 + Cellular nucleic acid-binding protein (CNBP)

Cellular nucleic acid-binding proteinBraveheart Fragment 1 experimental SAS data
DAMMIN model
Sample: Cellular nucleic acid-binding protein monomer, 22 kDa Homo sapiens protein
Braveheart Fragment 1 monomer, 116 kDa Homo sapiens RNA
Buffer: 50 mM HEPES-KOH, 100 mM KCl, 6 mM MgCl2, pH: 7.6
Experiment: SAXS data collected at B21, Diamond Light Source on 2018 Jun 23
Zinc-finger protein CNBP alters the 3-D structure of lncRNA Braveheart in solution Nature Communications 11(1) (2020)
...Patel T, Sanbonmatsu K
RgGuinier 8.2 nm
Dmax 27.0 nm
VolumePorod 455 nm3

SASDWR3 – BC120 G25C RNA

BC120 G25C RNA experimental SAS data
DAMMIN model
Sample: BC120 G25C RNA monomer, 39 kDa Homo sapiens RNA
Buffer: phosphate buffered saline, pH: 7.4
Experiment: SAXS data collected at B21, Diamond Light Source on 2023 Sep 22
Alu RNA pseudoknot alterations influence SRP9/SRP14 association. RNA (2025)
...Patel TR, McKenna SA
RgGuinier 4.1 nm
Dmax 13.8 nm
VolumePorod 63 nm3

SASDUS3 – Dark-adapted photocobilin diguanylate cyclase fusion from Acidimicrobiaceae bacterium

GGDEF domain-containing protein experimental SAS data
DAMMIF model
Sample: GGDEF domain-containing protein dimer, 132 kDa Acidimicrobiaceae bacterium protein
Buffer: 20 mM HEPES, 150 mM NaCl, pH: 6.8
Experiment: SAXS data collected at BM29, ESRF on 2022 Jan 21
Photocobilins integrate B(12) and bilin photochemistry for enzyme control. Nat Commun 15(1):2740 (2024)
...Patel K, Johannissen LO, Zhu L, Cliff MJ, Yan C, Schirò G, Weik M, Sakuma M, Levy CW, Leys D, Heyes DJ, Scrutton NS
RgGuinier 4.1 nm
Dmax 14.9 nm
VolumePorod 194 nm3

SASDUT3 – Light-adapted photocobilin diguanylate cyclase fusion from Acidimicrobiaceae bacterium

GGDEF domain-containing protein experimental SAS data
DAMMIF model
Sample: GGDEF domain-containing protein dimer, 132 kDa Acidimicrobiaceae bacterium protein
Buffer: 20 mM HEPES, 150 mM NaCl, pH: 6.8
Experiment: SAXS data collected at BM29, ESRF on 2022 Jan 21
Photocobilins integrate B(12) and bilin photochemistry for enzyme control. Nat Commun 15(1):2740 (2024)
...Patel K, Johannissen LO, Zhu L, Cliff MJ, Yan C, Schirò G, Weik M, Sakuma M, Levy CW, Leys D, Heyes DJ, Scrutton NS
RgGuinier 5.0 nm
Dmax 18.5 nm
VolumePorod 170 nm3

SASDSH5 – UDP-glycosyltransferase 202A2 from Tetranychus urticae

UDP-glycosyltransferase 202A2 experimental SAS data
MULTIFOXS model
Sample: UDP-glycosyltransferase 202A2 monomer, 53 kDa Tetranychus urticae protein
Buffer: 20 mM sodium phosphate, 150 mM NaCl, pH: 7.8
Experiment: SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2022 Jun 17
Structural and functional studies reveal the molecular basis of substrate promiscuity of a glycosyltransferase originating from a major agricultural pest Journal of Biological Chemistry :105421 (2023)
...Patel M, Daneshian L, Kluza A, Snoeck S, Watkins M, Hopkins J, Van Leeuwen T, Grbic M, Grbic V, Borowski T, Chruszcz M
RgGuinier 2.5 nm
Dmax 9.5 nm
VolumePorod 85 nm3

SASDG26 – Wild type 4-hydroxy-tetrahydrodipicolinate synthase

4-hydroxy-tetrahydrodipicolinate synthase experimental SAS data
DAMFILT model
Sample: 4-hydroxy-tetrahydrodipicolinate synthase tetramer, 131 kDa Campylobacter jejuni protein
Buffer: 20 mM Tris-HCl, 150 mM NaCl, pH: 8
Experiment: SAXS data collected at B21, Diamond Light Source on 2017 Aug 2
Asparagine-84, a regulatory allosteric site residue, helps maintain the quaternary structure of Campylobacter jejuni dihydrodipicolinate synthase. J Struct Biol :107409 (2019)
...Patel TR, Sanders DAR, Palmer DRJ
RgGuinier 3.4 nm
Dmax 9.0 nm
VolumePorod 188 nm3

SASDG36 – 4-hydroxy-tetrahydrodipicolinate synthase (N84D mutant)

4-hydroxy-tetrahydrodipicolinate synthase (N84D mutant) experimental SAS data
DAMFILT model
Sample: 4-hydroxy-tetrahydrodipicolinate synthase (N84D mutant) dimer, 65 kDa Campylobacter jejuni protein
Buffer: 20 mM Tris-HCl, 150 mM NaCl, pH: 8
Experiment: SAXS data collected at B21, Diamond Light Source on 2017 Aug 2
Asparagine-84, a regulatory allosteric site residue, helps maintain the quaternary structure of Campylobacter jejuni dihydrodipicolinate synthase. J Struct Biol :107409 (2019)
...Patel TR, Sanders DAR, Palmer DRJ
RgGuinier 3.1 nm
Dmax 9.5 nm
VolumePorod 108 nm3

SASDG46 – 4-hydroxy-tetrahydrodipicolinate synthase (N84A mutant)

4-hydroxy-tetrahydrodipicolinate synthase (N84A mutant) experimental SAS data
DAMFILT model
Sample: 4-hydroxy-tetrahydrodipicolinate synthase (N84A mutant) , 33 kDa Campylobacter jejuni protein
Buffer: 20 mM Tris-HCl, 150 mM NaCl, pH: 8
Experiment: SAXS data collected at B21, Diamond Light Source on 2017 Aug 2
Asparagine-84, a regulatory allosteric site residue, helps maintain the quaternary structure of Campylobacter jejuni dihydrodipicolinate synthase. J Struct Biol :107409 (2019)
...Patel TR, Sanders DAR, Palmer DRJ
RgGuinier 3.3 nm
Dmax 8.9 nm
VolumePorod 163 nm3

SASDB86 – apo-BRD4

Bromodomain-containing protein 4 experimental SAS data
DAMMIF model
Sample: Bromodomain-containing protein 4 monomer, 56 kDa Homo sapiens protein
Buffer: 20mM Hepes, 100mM NaCl, 1mM Tris(2-carboxyethyl)phosphine hydrochloride, pH: 7.4
Experiment: SAXS data collected at BM29, ESRF on 2014 Sep 12
Potent and selective bivalent inhibitors of BET bromodomains. Nat Chem Biol 12(12):1097-1104 (2016)
...Patel J, Petteruti P, Robb GR, Robers MB, Saif S, Stratton N, Svergun DI, Wang W, Whittaker D, Wilson DM, Yao Y
RgGuinier 7.0 nm
Dmax 27.0 nm

SASDB96 – Compound 1:BRD4 (1:1)

Bromodomain-containing protein 4 experimental SAS data
DAMMIF model
Sample: Bromodomain-containing protein 4 monomer, 56 kDa Homo sapiens protein
Buffer: 20mM Hepes, 100mM NaCl, 1mM Tris(2-carboxyethyl)phosphine hydrochloride, pH: 7.4
Experiment: SAXS data collected at BM29, ESRF on 2014 Sep 12
Potent and selective bivalent inhibitors of BET bromodomains. Nat Chem Biol 12(12):1097-1104 (2016)
...Patel J, Petteruti P, Robb GR, Robers MB, Saif S, Stratton N, Svergun DI, Wang W, Whittaker D, Wilson DM, Yao Y
RgGuinier 6.2 nm
Dmax 27.5 nm

SASDBA6 – Compound 1:BRD4 (2:1)

Bromodomain-containing protein 4 experimental SAS data
DAMMIF model
Sample: Bromodomain-containing protein 4 monomer, 56 kDa Homo sapiens protein
Buffer: 20mM Hepes, 100mM NaCl, 1mM Tris(2-carboxyethyl)phosphine hydrochloride, pH: 7.4
Experiment: SAXS data collected at BM29, ESRF on 2014 Sep 12
Potent and selective bivalent inhibitors of BET bromodomains. Nat Chem Biol 12(12):1097-1104 (2016)
...Patel J, Petteruti P, Robb GR, Robers MB, Saif S, Stratton N, Svergun DI, Wang W, Whittaker D, Wilson DM, Yao Y
RgGuinier 6.3 nm
Dmax 24.5 nm

SASDBB6 – Compound 6:BRD4 (1:1)

Bromodomain-containing protein 4 experimental SAS data
DAMMIF model
Sample: Bromodomain-containing protein 4 monomer, 56 kDa Homo sapiens protein
Buffer: 20mM Hepes, 100mM NaCl, 1mM Tris(2-carboxyethyl)phosphine hydrochloride, pH: 7.4
Experiment: SAXS data collected at BM29, ESRF on 2015 Feb 8
Potent and selective bivalent inhibitors of BET bromodomains. Nat Chem Biol 12(12):1097-1104 (2016)
...Patel J, Petteruti P, Robb GR, Robers MB, Saif S, Stratton N, Svergun DI, Wang W, Whittaker D, Wilson DM, Yao Y
RgGuinier 5.1 nm
Dmax 24.3 nm

SASDBC6 – Compound 6:BRD4 (2:1)

Bromodomain-containing protein 4 experimental SAS data
DAMMIF model
Sample: Bromodomain-containing protein 4 monomer, 56 kDa Homo sapiens protein
Buffer: 20mM Hepes, 100mM NaCl, 1mM Tris(2-carboxyethyl)phosphine hydrochloride, pH: 7.4
Experiment: SAXS data collected at BM29, ESRF on 2015 Feb 8
Potent and selective bivalent inhibitors of BET bromodomains. Nat Chem Biol 12(12):1097-1104 (2016)
...Patel J, Petteruti P, Robb GR, Robers MB, Saif S, Stratton N, Svergun DI, Wang W, Whittaker D, Wilson DM, Yao Y
RgGuinier 4.4 nm
Dmax 17.3 nm

SASDGE6 – G-quadruplex DNA from Hepatitis B virus (wild type)

G-quadrupex experimental SAS data
DAMFILT model
Sample: G-quadrupex monomer, 6 kDa Hepatitis B virus DNA
Buffer: 20 mM HEPES, 100 mM KCl, 1 mM EDTA, pH: 7.5
Experiment: SAXS data collected at B21, Diamond Light Source on 2018 Jan 15
G-quadruplex from HBV genome
Trushar Patel
RgGuinier 1.7 nm
Dmax 4.0 nm
VolumePorod 13 nm3

SASDGF6 – G-quadruplex DNA from Hepatitis B virus (mutant)

G-quadruplex mutant experimental SAS data
DAMFILT model
Sample: G-quadruplex mutant monomer, 6 kDa Hepatitis B virus DNA
Buffer: 20 mM HEPES, 100 mM KCl, 1 mM EDTA, pH: 7.5
Experiment: SAXS data collected at B21, Diamond Light Source on 2018 Jan 15
G-quadruplex from HBV genome
Trushar Patel
RgGuinier 1.7 nm
Dmax 5.5 nm
VolumePorod 11 nm3

SASDQJ6 – Monkeypox viral synthetic DNA fragment (DNA sequence 1, MP1)

Monekypox DNA sequence 1 experimental SAS data
DAMMIN model
Sample: Monekypox DNA sequence 1 monomer, 6 kDa Monkeypox virus DNA
Buffer: 20 mM HEPES, 100 mM KCl, and 0.2 mM EDTA, pH: 7.4
Experiment: SAXS data collected at B21, Diamond Light Source on 2022 Sep 23
Mapping and characterization of G‐quadruplexes in monkeypox genomes Journal of Medical Virology 95(5) (2023)
...Patel T
RgGuinier 1.7 nm
Dmax 4.4 nm
VolumePorod 14 nm3

SASDQK6 – Monkeypox viral synthetic DNA fragment (DNA sequence 2, MP2)

Monekypox DNA sequence 1 experimental SAS data
DAMMIN model
Sample: Monekypox DNA sequence 1 monomer, 6 kDa Monkeypox virus DNA
Buffer: 20 mM HEPES, 100 mM KCl, and 0.2 mM EDTA, pH: 7.4
Experiment: SAXS data collected at B21, Diamond Light Source on 2022 Sep 23
Mapping and characterization of G‐quadruplexes in monkeypox genomes Journal of Medical Virology 95(5) (2023)
...Patel T
RgGuinier 1.6 nm
Dmax 4.5 nm
VolumePorod 11 nm3

SASDQL6 – Monkeypox viral synthetic DNA fragment (DNA sequence 1, MP1 mutant)

Monekypox DNA sequence 1 mutant experimental SAS data
DAMMIN model
Sample: Monekypox DNA sequence 1 mutant monomer, 6 kDa Monkeypox virus DNA
Buffer: 20 mM HEPES, 100 mM KCl, and 0.2 mM EDTA, pH: 7.4
Experiment: SAXS data collected at B21, Diamond Light Source on 2022 Sep 23
Mapping and characterization of G‐quadruplexes in monkeypox genomes Journal of Medical Virology 95(5) (2023)
...Patel T
RgGuinier 1.9 nm
Dmax 5.5 nm
VolumePorod 16 nm3

SASDQM6 – Monkeypox viral synthetic DNA fragment (DNA sequence 2, MP2 mutant)

Monekypox DNA sequence 2 mutant experimental SAS data
DAMMIN model
Sample: Monekypox DNA sequence 2 mutant monomer, 6 kDa Monkeypox virus DNA
Buffer: 20 mM HEPES, 100 mM KCl, and 0.2 mM EDTA, pH: 7.4
Experiment: SAXS data collected at B21, Diamond Light Source on 2022 Sep 23
Mapping and characterization of G‐quadruplexes in monkeypox genomes Journal of Medical Virology 95(5) (2023)
...Patel T
RgGuinier 1.9 nm
Dmax 6.0 nm
VolumePorod 8 nm3

SASDKP6 – G-quadruplex DNA from Hepatitis B virus, wild type (HBV G4 WT)

HBV G4 WT experimental SAS data
DAMMIN model
Sample: HBV G4 WT monomer, 7 kDa Hepatitis B virus DNA
Buffer: 20 mM HEPES, 100 mM KCl, 1 mM EDTA, pH: 7.5
Experiment: SAXS data collected at B21, Diamond Light Source on 2019 Dec 15
HBV G-quad
Trushar Patel
RgGuinier 1.8 nm
Dmax 4.7 nm
VolumePorod 18 nm3

SASDKQ6 – G-quadruplex DNA from Hepatitis B virus, mutant (HBV G4 G1738A)

HBV G-quad G1738A experimental SAS data
DAMMIN model
Sample: HBV G-quad G1738A monomer, 7 kDa Hepatitis B virus DNA
Buffer: 20 mM HEPES, 100 mM KCl, 1 mM EDTA, pH: 7.5
Experiment: SAXS data collected at B21, Diamond Light Source on 2019 Sep 14
HBV G-quad
Trushar Patel
RgGuinier 1.9 nm
Dmax 5.3 nm
VolumePorod 21 nm3

SASDKR6 – G-quadruplex DNA from Hepatitis B virus, mutant (HBV G4 G1748A)

HBV G4 G1748A experimental SAS data
DAMMIN model
Sample: HBV G4 G1748A monomer, 7 kDa Hepatitis B virus DNA
Buffer: 20 mM HEPES, 100 mM KCl, 1 mM EDTA, pH: 7.5
Experiment: SAXS data collected at B21, Diamond Light Source on 2019 Sep 14
HBV G-quad
Trushar Patel
RgGuinier 2.0 nm
Dmax 6.0 nm
VolumePorod 21 nm3

SASDKS6 – G-quadruplex DNA from Hepatitis B virus, mutant (HBV G4 G1748A + G1748A)

HBV G4 G1748A + G1748A experimental SAS data
DAMMIN model
Sample: HBV G4 G1748A + G1748A monomer, 7 kDa Hepatitis B virus DNA
Buffer: 20 mM HEPES, 100 mM KCl, 1 mM EDTA, pH: 7.5
Experiment: SAXS data collected at B21, Diamond Light Source on 2020 Feb 17
HBV G-quad
Trushar Patel
RgGuinier 2.0 nm
Dmax 6.0 nm
VolumePorod 23 nm3

SASDVW7 – Sacbrood virus 3' untranslated region RNA (SBV 3'UTR)

SBV 3'UTR experimental SAS data
DAMMIN model
Sample: SBV 3'UTR monomer, 31 kDa Sacbrood virus RNA
Buffer: 10 mM Bis-Tris, 100 mM NaCl, 5 mM MgCl2, 15 mM KCl, 5% glycerol, pH: 6
Experiment: SAXS data collected at B21, Diamond Light Source on 2023 Apr 28
Biophysical characterization of honey bee virus untranslated regions University of Lethbridge Dept. of Chemistry and Biochemistry Thesis (2024)
...Patel
RgGuinier 3.6 nm
Dmax 10.8 nm
VolumePorod 52 nm3

SASDVX7 – Sacbrood virus 5' untranslated region RNA (SBV 5'UTR)

SBV 5'UTR experimental SAS data
DAMMIN model
Sample: SBV 5'UTR monomer, 61 kDa Sacbrood virus RNA
Buffer: 10 mM Bis-Tris, 100 mM NaCl, 5 mM MgCl2, 15 mM KCl, 5% glycerol, pH: 6
Experiment: SAXS data collected at B21, Diamond Light Source on 2023 May 19
Biophysical characterization of honey bee virus untranslated regions University of Lethbridge Dept. of Chemistry and Biochemistry Thesis (2024)
...Patel
RgGuinier 4.9 nm
Dmax 15.1 nm
VolumePorod 120 nm3

SASDCC8 – Human TERC 1-20 DNA G-quadruplex

Human telomerase RNA template component, DNA counterpart, nucleotides 1-20 experimental SAS data
DAMMIN model
Sample: Human telomerase RNA template component, DNA counterpart, nucleotides 1-20 dimer, 13 kDa Homo sapiens DNA
Buffer: 20 mM HEPES, 100 mM KCl,, pH: 7.5
Experiment: SAXS data collected at B21, Diamond Light Source on 2017 Aug 2
Structure and hydrodynamics of a DNA G-quadruplex with a cytosine bulge. Nucleic Acids Res 46(10):5319-5331 (2018)
...Patel TR, McKenna SA, Stetefeld J
RgGuinier 1.4 nm
Dmax 4.6 nm
VolumePorod 15 nm3

SASDS39 – G4 dumbbell RNA - 3' UTR of Dengue virus

G4 dumbbell RNA - 3' untranslated region (3' UTR) Dengue virus experimental SAS data
DAMMIN model
Sample: G4 dumbbell RNA - 3' untranslated region (3' UTR) Dengue virus monomer, 31 kDa dengue virus type … RNA
Buffer: 20 mM HEPES, 100 mM KCl, 0.01 mM EDTA, pH: 7
Experiment: SAXS data collected at B21, Diamond Light Source on 2022 Sep 9
Unravelling structural dynamics of Dengue virus 3' UTR and its impact on viral life cycle
Trushar Patel
RgGuinier 3.0 nm
Dmax 9.0 nm
VolumePorod 47 nm3

SASDS49 – Dumbbell RNA - 3' UTR of Dengue virus

Dumbbell RNA - 3' untranslated region (3' UTR) Dengue virus experimental SAS data
DAMMIN model
Sample: Dumbbell RNA - 3' untranslated region (3' UTR) Dengue virus monomer, 31 kDa dengue virus type … RNA
Buffer: 20 mM HEPES, 100 mM NaCl, 5 mM MgCl2, pH: 7
Experiment: SAXS data collected at B21, Diamond Light Source on 2022 Sep 9
Unravelling structural dynamics of Dengue virus 3' UTR and its impact on viral life cycle
Trushar Patel
RgGuinier 3.6 nm
Dmax 11.7 nm
VolumePorod 44 nm3

SASDS59 – G4 dumbbell RNA mutant - 3' UTR of Dengue virus

G4 dumbbell Mut - 3' untranslated region (3' UTR) Dengue virus experimental SAS data
DAMMIN model
Sample: G4 dumbbell Mut - 3' untranslated region (3' UTR) Dengue virus dimer, 61 kDa dengue virus type … RNA
Buffer: 20 mM HEPES, 100 mM KCl, 0.01 mM EDTA, pH: 7
Experiment: SAXS data collected at B21, Diamond Light Source on 2023 Jun 30
Unravelling structural dynamics of Dengue virus 3' UTR and its impact on viral life cycle
Trushar Patel
RgGuinier 5.0 nm
Dmax 14.8 nm
VolumePorod 92 nm3

SASDU59 – BC120 RNA

BC120 RNA monomer experimental SAS data
DAMMIN model
Sample: BC120 RNA monomer monomer, 39 kDa RNA
Buffer: phosphate buffered saline, pH: 7.4
Experiment: SAXS data collected at B21, Diamond Light Source on 2023 Sep 22
Alu RNA pseudoknot alterations influence SRP9/SRP14 association. RNA (2025)
...Patel TR, McKenna SA
RgGuinier 4.0 nm
Dmax 14.3 nm
VolumePorod 57 nm3

SASDU69 – EB120 RNA

EB120 RNA monomer experimental SAS data
DAMMIN model
Sample: EB120 RNA monomer monomer, 39 kDa RNA
Buffer: phosphate buffered saline, pH: 7.4
Experiment: SAXS data collected at B21, Diamond Light Source on 2023 Sep 22
Alu RNA pseudoknot alterations influence SRP9/SRP14 association. RNA (2025)
...Patel TR, McKenna SA
RgGuinier 4.2 nm
Dmax 13.6 nm
VolumePorod 79 nm3

SASDVC9 – 7SK small nuclear RNA State A Low Magnesium Concentration Ensemble

RNA component of 7SK nuclear ribonucleoprotein experimental SAS data
DAMMIN model
Sample: RNA component of 7SK nuclear ribonucleoprotein monomer, 107 kDa Homo sapiens RNA
Buffer: 10 mM Bis-Tris, 100 mM NaCl, 15 mM KCl, 5% Glycerol, 3 mM MgCl2, pH: 5.5
Experiment: SAXS data collected at B21, Diamond Light Source on 2024 Jun 21
Solution Structure Determination and Biophysical Studies of 7SK RNP and 7SL SRP RNAs. RNA (2025)
...Patel T
RgGuinier 8.0 nm
Dmax 23.2 nm
VolumePorod 600 nm3

SASDVD9 – 7SK small nuclear RNA State B Low Magnesium Concentration Ensemble

RNA component of 7SK nuclear ribonucleoprotein experimental SAS data
DAMMIN model
Sample: RNA component of 7SK nuclear ribonucleoprotein monomer, 107 kDa Homo sapiens RNA
Buffer: 10 mM Bis-Tris, 100 mM NaCl, 15 mM KCl, 5% Glycerol, 3 mM MgCl2, pH: 5.5
Experiment: SAXS data collected at B21, Diamond Light Source on 2024 Jun 21
Solution Structure Determination and Biophysical Studies of 7SK RNP and 7SL SRP RNAs. RNA (2025)
...Patel T
RgGuinier 7.9 nm
Dmax 24.1 nm
VolumePorod 290 nm3

SASDVE9 – 7SL Signal Recognition Particle

7SL Signal Reocgnition Particle RNA experimental SAS data
DAMMIN model
Sample: 7SL Signal Reocgnition Particle RNA monomer, 98 kDa Homo sapiens RNA
Buffer: 10 mM Bis-Tris, 100 mM NaCl, 15 mM KCl, 5% Glycerol, 3 mM MgCl2, pH: 5.5
Experiment: SAXS data collected at B21, Diamond Light Source on 2024 Jun 21
Solution Structure Determination and Biophysical Studies of 7SK RNP and 7SL SRP RNAs. RNA (2025)
...Patel T
RgGuinier 6.7 nm
Dmax 21.7 nm
VolumePorod 300 nm3

SASDQL9 – Japanese encephalitis virus 5' TR RNA

Japanese encephaltitis 5' TR experimental SAS data
DAMMIN model
Sample: Japanese encephaltitis 5' TR monomer, 74 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)
...Patel TR
RgGuinier 7.0 nm
Dmax 22.4 nm
VolumePorod 356 nm3

SASDQM9 – Japanese encephalitis virus 3' UTR RNA

Japanese encephalitis virus 3' UTR experimental SAS data
DAMMIN model
Sample: Japanese encephalitis virus 3' UTR monomer, 186 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)
...Patel TR
RgGuinier 11.3 nm
Dmax 34.6 nm
VolumePorod 2900 nm3

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)
...Patel TR
RgGuinier 12.8 nm
Dmax 40.0 nm
VolumePorod 4550 nm3

SASDHQ9 – Proliferating cell nuclear antigen (PCNA) from pathogenic yeast Candida albicans

Proliferating cell nuclear antigen (C-terminal His-tagged) experimental SAS data
GASBOR model
Sample: Proliferating cell nuclear antigen (C-terminal His-tagged) trimer, 90 kDa Candida albicans protein
Buffer: 20 mM Tris-HCl (pH 7.5), 100 mM NaCl, 1 mM DTT, pH: 7.5
Experiment: SAXS data collected at BM29, ESRF on 2018 Sep 3
Structural analyses of PCNA from the fungal pathogen Candida albicans identify three regions with species-specific conformations. FEBS Lett (2021)
...Patel SK, Acharya N, Vasudevan D
RgGuinier 3.4 nm
Dmax 10.2 nm
VolumePorod 128 nm3

SASDXT3 – Dengue Virus 2 (DENV2) RNA, 5' Untranslated region

DENV2 RNA, 5' Untranslated region experimental SAS data
DAMMIN model
Sample: DENV2 RNA, 5' Untranslated region monomer, 57 kDa RNA
Buffer: 10 mM Bis-Tris, 100 mM NaCl, 5 mM MgCl2, 15 mM KCl, 5% glycerol, pH: 6
Experiment: SAXS data collected at B21, Diamond Light Source on 2023 Sep 8
Structural Dynamics of Dengue Virus UTRs and Their Cyclization. Biophys J (2025)
...Patel TR
RgGuinier 3.7 nm
Dmax 11.5 nm
VolumePorod 66 nm3

SASDXC3 – Dengue Virus 2 (DENV2) 5' UTR

DENV2 5' untranslated terminal region experimental SAS data
DAMMIN model
Sample: DENV2 5' untranslated terminal region monomer, 57 kDa RNA
Buffer: 10 mM Bis-Tris, 100 mM NaCl, 5 mM MgCl2, 15 mM KCl, 5% glycerol, pH: 6
Experiment: SAXS data collected at B21, Diamond Light Source on 2023 Sep 10
Structural Dynamics of Dengue Virus UTRs and Their Cyclization. Biophys J (2025)
...Patel TR
RgGuinier 3.7 nm
Dmax 11.5 nm
VolumePorod 57 nm3

SASDXD3 – Dengue Virus 2 (DENV2) 3' UTR

DENV2 3' untranslated region experimental SAS data
DAMMIN model
Sample: DENV2 3' untranslated region monomer, 160 kDa RNA
Buffer: 10 mM Bis-Tris, 100 mM NaCl, 5 mM MgCl2, 15 mM KCl, 5% glycerol, pH: 6
Experiment: SAXS data collected at B21, Diamond Light Source on 2023 Sep 10
Structural Dynamics of Dengue Virus UTRs and Their Cyclization. Biophys J (2025)
...Patel TR
RgGuinier 6.0 nm
Dmax 18.7 nm
VolumePorod 155 nm3

SASDXE3 – Dengue Virus 2 (DENV2) complex 5'-3'

DENV2 complex 5'-3' experimental SAS data
DAMMIN model
Sample: DENV2 complex 5'-3' monomer, 217 kDa RNA
Buffer: 10 mM Bis-Tris, 100 mM NaCl, 5 mM MgCl2, 15 mM KCl, 5% glycerol, pH: 6
Experiment: SAXS data collected at B21, Diamond Light Source on 2023 Sep 10
Structural Dynamics of Dengue Virus UTRs and Their Cyclization. Biophys J (2025)
...Patel TR
RgGuinier 7.5 nm
Dmax 22.0 nm
VolumePorod 320 nm3