Browse by DISSEMINATION: Published

SASDKE6 – Poly(A) polymerase pla1 bound to the NURS complex subunit red1

NURS complex subunit red1Poly(A) polymerase pla1 experimental SAS data
CORAL model
Sample: NURS complex subunit red1 monomer, 8 kDa Schizosaccharomyces pombe (strain … protein
Poly(A) polymerase pla1 monomer, 65 kDa Schizosaccharomyces pombe (strain … protein
Buffer: 20 mM HEPES, pH 7.5, 150 mM NaCl, 1mM DTT, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2019 Nov 12
Mechanistic insights into RNA surveillance by the canonical poly(A) polymerase Pla1 of the MTREC complex. Nat Commun 14(1):772 (2023)
Soni K, Sivadas A, Horvath A, Dobrev N, Hayashi R, Kiss L, Simon B, Wild K, Sinning I, Fischer T
RgGuinier 3.3 nm
Dmax 10.7 nm
VolumePorod 138 nm3

SASDQG7 – Thermoanearobacter tengcongensis (Tte) fecB RNA riboswitch aptamer domain (rCbl)

Thermoanearobacter tengcongensis (Tte) fecB riboswitch aptamer domain experimental SAS data
OTHER model
Sample: Thermoanearobacter tengcongensis (Tte) fecB riboswitch aptamer domain, 68 kDa marine metagenome RNA
Buffer: 50 mM MES pH 6.0, 10 mM KCl, 1 mM MgCl2, pH: 6
Experiment: SAXS data collected at 12-ID-B SAXS/WAXS, Advanced Photon Source (APS), Argonne National Laboratory on 2021 Apr 18
Visualizing RNA conformational and architectural heterogeneity in solution. Nat Commun 14(1):714 (2023)
Ding J, Lee YT, Bhandari Y, Schwieters CD, Fan L, Yu P, Tarosov SG, Stagno JR, Ma B, Nussinov R, Rein A, Zhang J, Wang YX
RgGuinier 5.9 nm
Dmax 20.7 nm
VolumePorod 206 nm3

SASDQH7 – Thermoanearobacter tengcongensis (Tte) fecB RNA riboswitch aptamer domain (rCbl) in the presence of coenzyme B12

Thermoanearobacter tengcongensis (Tte) fecB riboswitch aptamer domain experimental SAS data
OTHER model
Sample: Thermoanearobacter tengcongensis (Tte) fecB riboswitch aptamer domain, 68 kDa marine metagenome RNA
Buffer: 50 mM MES pH 6.0, 10 mM KCl, 1 mM MgCl2, 4-18 μM coenzyme B12 ligand, pH: 6
Experiment: SAXS data collected at 12-ID-B SAXS/WAXS, Advanced Photon Source (APS), Argonne National Laboratory on 2021 Apr 18
Visualizing RNA conformational and architectural heterogeneity in solution. Nat Commun 14(1):714 (2023)
Ding J, Lee YT, Bhandari Y, Schwieters CD, Fan L, Yu P, Tarosov SG, Stagno JR, Ma B, Nussinov R, Rein A, Zhang J, Wang YX
RgGuinier 5.7 nm
Dmax 19.7 nm
VolumePorod 230 nm3

SASDQ88 – recombinant p123 expressed protein (Gli123)

p123 expressed protein experimental SAS data
DAMMIN model
Sample: P123 expressed protein dimer, 248 kDa Mycoplasma mobile (strain … protein
Buffer: 100 mM ammonium acetate, pH: 6.8
Experiment: SAXS data collected at BL-10C, Photon Factory (PF), High Energy Accelerator Research Organization (KEK) on 2019 Oct 25
Structure and Function of Gli123 Involved in Mycoplasma mobile Gliding. J Bacteriol :e0034022 (2023)
Matsuike D, Tahara YO, Nonaka T, Wu HN, Hamaguchi T, Kudo H, Hayashi Y, Arai M, Miyata M
RgGuinier 8.2 nm
Dmax 31.6 nm
VolumePorod 436 nm3

SASDQT6 – apo-form of eukaryotic initiation factor 4A1

Eukaryotic initiation factor 4A-I experimental SAS data
Eukaryotic initiation factor 4A-I Kratky plot
Sample: Eukaryotic initiation factor 4A-I monomer, 46 kDa Homo sapiens protein
Buffer: 20 mM Hepes, 100 mM KCl, pH: 7.5
Experiment: SAXS data collected at B21, Diamond Light Source on 2019 Jul 22
eIF4A1-dependent mRNAs employ purine-rich 5'UTR sequences to activate localised eIF4A1-unwinding through eIF4A1-multimerisation to facilitate translation. Nucleic Acids Res (2023)
Schmidt T, Dabrowska A, Waldron JA, Hodge K, Koulouras G, Gabrielsen M, Munro J, Tack DC, Harris G, McGhee E, Scott D, Carlin LM, Huang D, Le Quesne J, Zanivan S, Wilczynska A, Bushell M
RgGuinier 3.1 nm
Dmax 9.8 nm
VolumePorod 80 nm3

SASDQU6 – eukaryotic initiation factor 4A1 bound to 20 nt (AG)10 ssRNA

Eukaryotic initiation factor 4A-I(AG)10-RNA experimental SAS data
Eukaryotic initiation factor 4A-I (AG)10-RNA Kratky plot
Sample: Eukaryotic initiation factor 4A-I monomer, 46 kDa Homo sapiens protein
(AG)10-RNA monomer, 7 kDa synthetic construct RNA
Buffer: 20 mM Hepes, 100 mM KCl, pH: 7.5
Experiment: SAXS data collected at B21, Diamond Light Source on 2019 Sep 16
eIF4A1-dependent mRNAs employ purine-rich 5'UTR sequences to activate localised eIF4A1-unwinding through eIF4A1-multimerisation to facilitate translation. Nucleic Acids Res (2023)
Schmidt T, Dabrowska A, Waldron JA, Hodge K, Koulouras G, Gabrielsen M, Munro J, Tack DC, Harris G, McGhee E, Scott D, Carlin LM, Huang D, Le Quesne J, Zanivan S, Wilczynska A, Bushell M
RgGuinier 2.8 nm
Dmax 10.5 nm
VolumePorod 96 nm3

SASDQV6 – eukaryotic initiation factor 4A1 bound to 20 nt (CAA)6CA ssRNA

Eukaryotic initiation factor 4A-I(CAA)6CA-RNA experimental SAS data
Eukaryotic initiation factor 4A-I (CAA)6CA-RNA Kratky plot
Sample: Eukaryotic initiation factor 4A-I monomer, 46 kDa Homo sapiens protein
(CAA)6CA-RNA monomer, 6 kDa synthetic construct RNA
Buffer: 20 mM Hepes, 100 mM KCl, pH: 7.5
Experiment: SAXS data collected at B21, Diamond Light Source on 2019 Jul 22
eIF4A1-dependent mRNAs employ purine-rich 5'UTR sequences to activate localised eIF4A1-unwinding through eIF4A1-multimerisation to facilitate translation. Nucleic Acids Res (2023)
Schmidt T, Dabrowska A, Waldron JA, Hodge K, Koulouras G, Gabrielsen M, Munro J, Tack DC, Harris G, McGhee E, Scott D, Carlin LM, Huang D, Le Quesne J, Zanivan S, Wilczynska A, Bushell M
RgGuinier 3.1 nm
Dmax 12.8 nm
VolumePorod 89 nm3

SASDQW6 – multimeric eukaryotic initiation factor 4A1 bound to 20 nt (AG)10 ssRNA

(AG)10-RNAEukaryotic initiation factor 4A-I experimental SAS data
(AG)10-RNA Eukaryotic initiation factor 4A-I Kratky plot
Sample: (AG)10-RNA monomer, 7 kDa synthetic construct RNA
Eukaryotic initiation factor 4A-I trimer, 138 kDa Homo sapiens protein
Buffer: 20 mM Hepes, 100 mM KCl, pH: 7.5
Experiment: SAXS data collected at B21, Diamond Light Source on 2019 Sep 16
eIF4A1-dependent mRNAs employ purine-rich 5'UTR sequences to activate localised eIF4A1-unwinding through eIF4A1-multimerisation to facilitate translation. Nucleic Acids Res (2023)
Schmidt T, Dabrowska A, Waldron JA, Hodge K, Koulouras G, Gabrielsen M, Munro J, Tack DC, Harris G, McGhee E, Scott D, Carlin LM, Huang D, Le Quesne J, Zanivan S, Wilczynska A, Bushell M
RgGuinier 3.4 nm
Dmax 13.1 nm
VolumePorod 150 nm3

SASDQX6 – multimeric eukaryotic initiation factor 4A1 bound to 20 nt (AG)10-24bp duplex RNA

Eukaryotic initiation factor 4A-I(AG)10-24bp loading-RNA(AG)10-24bp duplex-RNA experimental SAS data
Eukaryotic initiation factor 4A-I (AG)10-24bp loading-RNA (AG)10-24bp duplex-RNA Kratky plot
Sample: Eukaryotic initiation factor 4A-I trimer, 138 kDa Homo sapiens protein
(AG)10-24bp loading-RNA monomer, 15 kDa synthetic construct RNA
(AG)10-24bp duplex-RNA monomer, 7 kDa synthetic construct RNA
Buffer: 20 mM Hepes, 100 mM KCl, pH: 7.5
Experiment: SAXS data collected at B21, Diamond Light Source on 2019 Sep 16
eIF4A1-dependent mRNAs employ purine-rich 5'UTR sequences to activate localised eIF4A1-unwinding through eIF4A1-multimerisation to facilitate translation. Nucleic Acids Res (2023)
Schmidt T, Dabrowska A, Waldron JA, Hodge K, Koulouras G, Gabrielsen M, Munro J, Tack DC, Harris G, McGhee E, Scott D, Carlin LM, Huang D, Le Quesne J, Zanivan S, Wilczynska A, Bushell M
RgGuinier 4.9 nm
Dmax 16.2 nm
VolumePorod 230 nm3

SASDRS2 – Collagen-like peptide Mannan-binding lectin (MBL) center

Ac-(POG)4-QG-(POG)5-NH2 experimental SAS data
PYMOL model
Sample: Ac-(POG)4-QG-(POG)5-NH2 trimer, 11 kDa synthetic construct protein
Buffer: 20 mM L-histidine, 138 mM NaCl, 2.7 mM KCL,, pH: 6
Experiment: SAXS data collected at B21, Diamond Light Source on 2019 Feb 1
A solution structure analysis reveals a bent collagen triple helix in the complement activation recognition molecule mannan-binding lectin. J Biol Chem 299(2):102799 (2023)
Iqbal H, Fung KW, Gor J, Bishop AC, Makhatadze GI, Brodsky B, Perkins SJ
RgGuinier 2.1 nm
Dmax 8.7 nm
VolumePorod 7 nm3