Structures of Large RNA Molecules and Their Complexes

Part I: RNA Structure and Dynamics<br>1. Native Purification and Analysis of Long RNAs<br>Isabel Chillón, Marco Marcia, Michal Legiewicz, Fei Liu, Srinivas Somarowthu and Anna Marie Pyle<br>2. Characterizing RNA Excited States Using NMR Relaxation Dispersion<br>Yi Xue, Dawn Kellogg, Isaac J Kimsey, Bharathwaj Sathyamoorthy, Zachary W Stein, Mitchell McBrairty, and Hashim M. Al-Hashimi<br>3. Quantifying Nucleic Acid Ensembles with X-ray Scattering Interferometry<br>Xuesong Shi, Steve Bonilla, Daniel Herschlag and Pehr Harbury<br>4. 2-Aminopurine Fluorescence as a Probe of Local RNA Structure and Dynamics and Global Folding. Hairpins, Hinges, and Mg2+ ions in a 60 Nucleotide RNA<br>Michael J Rau and Kathleen B Hall<br>5. Mod-seq: A High-Throughput Method for Probing RNA Secondary Structure<br>Yizhu Lin, Gemma E. May, and C. Joel McManus<br>6. Reproducible Analysis of Sequencing Based RNA Structure Probing Data with User-Friendly Tools.<br>Lukasz Jan Kielpinski, Nikolaos Sidiropoulos and Jeppe Vinther<br>7. Computational Methods for RNA Structure Validation and Improvement<br>Swati Jain, David C. Richardson, and Jane S. Richardson<br>8. Structures of large RNAs and RNA Protein Complexes Towards Structure Determination of Riboswitches<br>Jason C. Grigg and Ailong Ke<br>Part II: RNA-Protein Interactions<br>9. RRM-RNA Interactions<br>Tariq Afroz, Zuzana Cienikova, Antoine Cléry and Frédéric H.T-Allain<br>10. Combining NMR and EPR to Determine Structures of Large RNAs and Protein-RNA Complexes in Solution<br>Olivier Duss, Maxim Yulikov, Frédéric H.-T. Allain, and Gunnar Jeschke<br>11. Structural Analysis of Protein-RNA Complexes in Solution Using NMR Paramagnetic Relaxation Enhancements<br>Janosch Hennig, Lisa R. Warner, Bernd Simon, Arie Geerlof, Cameron D. Mackereth and Michael Sattler<br>12. Resolving Individual Components in Protein-RNA Complexes Using Small Angle X-Ray Scattering Experiments<br>Robert P. Rambo<br>13. Small-Angle Neutron Scattering for Structural Biology of Protein-RNA Complexes <br>Frank Gabel<br>14. Studying RNA-Protein Interactions of Pre-mRNA Complexes by Mass Pectrometry<br>Saadia Qamar, Katharina Kramer, Henning Urlaub<br>15. RNA Bind-n-Seq: Measuring the Binding Affinity Landscape of RNA Binding Proteins <br>Nicole J. Lambert, Alex D. Robertson and Christopher B. Burge<br>Part III: Large RNA-Protein Assemblies<br>16. Using Molecular Simulation to Model High Resolution Cryo-EM Reconstructions<br>Serdal Kirmizialtin, Justus Loerke, Elmar Behrmann, Christian M. T. Spahn, and Karissa Y. Sanbonmatsu <br>17. In Vitro Reconstitution and Crystallization of Cas9 Endonuclease Bound to a Guide RNA and a DNA Target<br>Carolin Anders, Ole Niewoehner and Martin Jinek<br>18. Single-Molecule Pull-down FRET (SiMPull-FRET) to Dissect the Mechanisms of Biomolecular Machines<br>Matthew L. Kahlscheuer, Julia Widom and Nils G. Walter<br>19. Single-Molecule Imaging of RNA Splicing in Live Cells<br>José Rino, Robert M. Martin, Célia Carvalho, Ana C. de Jesus and Maria Carmo-Fonseca