RNA triplex structures revealed by WAXS-driven MD simulations

Chen Y, He W, Kirmizialtin S, Pollack L
(2022 Feb 14)

doi: 10.1101/2022.02.13.480274

Submitted to SASBDB: 2020 Dec 17 Published in SASBDB: 2022 May 15

SASDKP5 – RNA Short Tetraloop Hairpin Duplex in 200 mM NaCl Sample: RNA Short Tetraloop Hairpin Duplex monomer, 13 kDa RNA Buffer: 200 mM NaCl, 20 mM Na-MES, 50 μM EDTA, pH: 5.5 Experiment: SAXS data collected at 16-ID (LiX), National Synchrotron Light Source II (NSLS-II) on 2019 Sep 20 RgGuinier 1.9 nm Dmax 6.3 nm

SASDKQ5 – RNA Short Tetraloop Hairpin Duplex in 200 mM KCl Sample: RNA Short Tetraloop Hairpin Duplex monomer, 13 kDa RNA Buffer: 200 mM KCl, 20 mM Na-MES, 50 μM EDTA, pH: 5.5 Experiment: SAXS data collected at 16-ID (LiX), National Synchrotron Light Source II (NSLS-II) on 2019 Sep 20 RgGuinier 2.0 nm Dmax 6.8 nm

SASDKR5 – RNA Short Tetraloop Hairpin Duplex in 5 mM MgCl2 Sample: RNA Short Tetraloop Hairpin Duplex monomer, 13 kDa RNA Buffer: 5 mM MgCl2, 20 mM Na-MES, 50 μM EDTA, pH: 5.5 Experiment: SAXS data collected at 16-ID (LiX), National Synchrotron Light Source II (NSLS-II) on 2019 Sep 20 RgGuinier 2.1 nm Dmax 7.8 nm

SASDKS5 – RNA Short Tetraloop Hairpin Triplex in 200 mM NaCl Sample: RNA Short Tetraloop Hairpin Triplex monomer, 17 kDa RNA Buffer: 200 mM NaCl, 20 mM Na-MES, 50 μM EDTA, pH: 5.5 Experiment: SAXS data collected at 16-ID (LiX), National Synchrotron Light Source II (NSLS-II) on 2019 Sep 20 RgGuinier 1.9 nm Dmax 6.3 nm

SASDKT5 – RNA Short Tetraloop Hairpin Triplex in 200 mM KCl Sample: RNA Short Tetraloop Hairpin Triplex monomer, 17 kDa RNA Buffer: 200 mM KCl, 20 mM Na-MES, 50 μM EDTA, pH: 5.5 Experiment: SAXS data collected at 16-ID (LiX), National Synchrotron Light Source II (NSLS-II) on 2019 Sep 20 RgGuinier 1.9 nm Dmax 6.6 nm

SASDKU5 – RNA Short Tetraloop Hairpin Triplex in 5 mM MgCl2 Sample: RNA Short Tetraloop Hairpin Triplex monomer, 17 kDa RNA Buffer: 5 mM MgCl2, 20 mM Na-MES, 50 μM EDTA, pH: 5.5 Experiment: SAXS data collected at 16-ID (LiX), National Synchrotron Light Source II (NSLS-II) on 2019 Sep 20 RgGuinier 2.2 nm Dmax 10.2 nm

SASDKV5 – RNA Long Tetraloop Hairpin Duplex in 200 mM NaCl Sample: RNA Long Tetraloop Hairpin Duplex monomer, 21 kDa RNA Buffer: 200 mM NaCl, 20 mM Na-MES, 50 μM EDTA, pH: 5.5 Experiment: SAXS data collected at 16-ID (LiX), National Synchrotron Light Source II (NSLS-II) on 2019 Sep 20 RgGuinier 2.7 nm Dmax 9.8 nm

SASDKW5 – RNA Long Tetraloop Hairpin Duplex in 200 mM KCl Sample: RNA Long Tetraloop Hairpin Duplex monomer, 21 kDa RNA Buffer: 200 mM KCl, 20 mM Na-MES, 50 μM EDTA, pH: 5.5 Experiment: SAXS data collected at 16-ID (LiX), National Synchrotron Light Source II (NSLS-II) on 2019 Sep 20 RgGuinier 2.9 nm Dmax 10.0 nm

SASDKX5 – RNA Long Tetraloop Hairpin Duplex in 5 mM MgCl2 Sample: RNA Long Tetraloop Hairpin Duplex monomer, 21 kDa RNA Buffer: 5 mM MgCl2, 20 mM Na-MES, 50 μM EDTA, pH: 5.5 Experiment: SAXS data collected at 16-ID (LiX), National Synchrotron Light Source II (NSLS-II) on 2019 Sep 20 RgGuinier 2.9 nm Dmax 10.3 nm

SASDKY5 – RNA Long Tetraloop Hairpin Triplex in 200 mM NaCl Sample: RNA Long Tetraloop Hairpin Triplex monomer, 28 kDa RNA Buffer: 200 mM NaCl, 20 mM Na-MES, 50 μM EDTA, pH: 5.5 Experiment: SAXS data collected at 16-ID (LiX), National Synchrotron Light Source II (NSLS-II) on 2019 Sep 20 RgGuinier 2.7 nm Dmax 10.3 nm

SASDKZ5 – RNA Long Tetraloop Hairpin Triplex in 200 mM KCl Sample: RNA Long Tetraloop Hairpin Triplex monomer, 28 kDa RNA Buffer: 200 mM KCl, 20 mM Na-MES, 50 μM EDTA, pH: 5.5 Experiment: SAXS data collected at 16-ID (LiX), National Synchrotron Light Source II (NSLS-II) on 2019 Sep 20 RgGuinier 2.8 nm Dmax 10.3 nm

SASDK26 – RNA Long Tetraloop Hairpin Triplex in 5 mM MgCl2 Sample: RNA Long Tetraloop Hairpin Triplex monomer, 28 kDa RNA Buffer: 5 mM MgCl2, 20 mM Na-MES, 50 μM EDTA, pH: 5.5 Experiment: SAXS data collected at 16-ID (LiX), National Synchrotron Light Source II (NSLS-II) on 2019 Sep 20 RgGuinier 2.9 nm Dmax 18.2 nm