Conformation and structural dynamics of the Xist lncRNA A-repeats

Jones A, Gabel F, Bohn S, Wolfe G, Sattler M
(2023 Jul 31)

doi: 10.1101/2022.07.26.501616

Submitted to SASBDB: 2022 Jul 12 Published in SASBDB: 2023 Mar 14

SASDPB5 – SAXS curve of RNA Xist A-repeats (Liu buffer) Sample: Xist A-repeat lncRNA monomer, 148 kDa Homo sapiens RNA Buffer: 25 mM K-HEPES, 0.1 mM Na-EDTA, 150 mM KCl, 15 mM MgCl2, pH: 7 Experiment: SAXS data collected at EMBL P12, PETRA III on 2020 Jun 20 RgGuinier 12.1 nm Dmax 45.0 nm

SASDPC5 – SAXS curve of RNA Xist A-repeats (Smola buffer) Sample: Xist A-repeat lncRNA monomer, 148 kDa Homo sapiens RNA Buffer: 100 mM HEPES, 100 mM NaCl, 10 mM MgCl2, pH: 8 Experiment: SAXS data collected at EMBL P12, PETRA III on 2020 Jun 20 RgGuinier 9.8 nm Dmax 40.0 nm VolumePorod 657 nm3

SASDPD5 – SAXS curve of RNA Xist A-repeats (Maenner buffer) Sample: Xist A-repeat lncRNA monomer, 148 kDa Homo sapiens RNA Buffer: 20 mM HEPES-KOH, 100 mM KCl, 0.2 mM EDTA, 0.5 mM DTT, 0.5 mM PMSF, 20% glycerol, 3.25 mM MgCl2, pH: 7.9 Experiment: SAXS data collected at EMBL P12, PETRA III on 2020 Jun 20 RgGuinier 8.9 nm Dmax 35.0 nm VolumePorod 414 nm3

SASDPE5 – SAXS curve of RNA Xist A-repeats (Duszczyk buffer) Sample: Xist A-repeat lncRNA monomer, 148 kDa Homo sapiens RNA Buffer: 10 mM NaH2PO4/Na2HPO4, 100 mM NaCl, 0.02 mM EDTA, 0.02% azide, pH: 6 Experiment: SAXS data collected at EMBL P12, PETRA III on 2020 Jun 20 RgGuinier 7.6 nm Dmax 30.0 nm VolumePorod 370 nm3

SASDPF5 – SAXS curve of RNA Xist A-repeats (14mer) 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 RgGuinier 2.1 nm Dmax 8.5 nm VolumePorod 13 nm3

SASDPG5 – SAXS curve of RNA Xist A-repeats (26mer) Sample: Xist A-repeat lncRNA 24 mer dimer, 16 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 RgGuinier 3.1 nm Dmax 14.5 nm VolumePorod 28 nm3

SASDPH5 – SAXS curve of RNA Xist A-repeats (1 repeat) Sample: Xist A-repeat lncRNA 1 repeat dimer, 41 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 RgGuinier 3.9 nm Dmax 16.0 nm VolumePorod 42 nm3

SASDPJ5 – SAXS curve of RNA Xist A-repeats (2 repeats) Sample: Xist A-repeat lncRNA 2 repeats monomer, 34 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 RgGuinier 5.0 nm Dmax 23.0 nm VolumePorod 87 nm3

SASDPK5 – SAXS curve of RNA Xist A-repeats (3 repeats) Sample: Xist A-repeat lncRNA 3 repeats monomer, 48 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 RgGuinier 6.3 nm Dmax 22.0 nm VolumePorod 97 nm3

SASDPL5 – SAXS curve of RNA Xist A-repeats (4 repeats) Sample: Xist A-repeat lncRNA 4 repeats monomer, 62 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 RgGuinier 7.2 nm Dmax 34.0 nm

SASDPM5 – SAXS curve of RNA Xist A-repeats (5 repeats) Sample: Xist A-repeat lncRNA 5 repeats monomer, 81 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 RgGuinier 7.7 nm Dmax 30.0 nm VolumePorod 186 nm3

SASDPN5 – SAXS curve of RNA Xist A-repeats (6 repeats) Sample: Xist A-repeat lncRNA 6 repeats monomer, 96 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 RgGuinier 12.9 nm Dmax 38.0 nm

SASDPP5 – SAXS curve of RNA Xist A-repeats (8 repeats) Sample: Xist A-repeat lncRNA monomer, 148 kDa Homo sapiens 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 RgGuinier 11.2 nm Dmax 50.0 nm