Search

  
Advanced search  

29 hits found for Patel

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

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

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

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

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