RNA Structure Determination

Methods and Protocols

  • Douglas H. Turner
  • David H. Mathews

Part of the Methods in Molecular Biology book series (MIMB, volume 1490)

Table of contents

  1. Front Matter
    Pages i-xv
  2. Zhenjiang Zech Xu, David H. Mathews
    Pages 15-34
  3. Zhenjiang Zech Xu, David H. Mathews
    Pages 35-50
  4. Laura DiChiacchio, David H. Mathews
    Pages 51-62
  5. Shaveta Kanoria, William Rennie, Chaochun Liu, C. Steven Carmack, Jun Lu, Ye Ding
    Pages 73-82
  6. Pierre Fechter, Delphine Parmentier, ZongFu Wu, Olivier Fuchsbauer, Pascale Romby, Stefano Marzi
    Pages 83-103
  7. Andrew V. Uzilov, Jason G. Underwood
    Pages 105-134
  8. Zhenjiang Zech Xu, David H. Mathews
    Pages 163-176
  9. Jonathan L. Chen, Stanislav Bellaousov, Douglas H. Turner
    Pages 177-186
  10. Joseph D. Yesselman, Rhiju Das
    Pages 187-198
  11. Marcin Biesiada, Katarzyna J. Purzycka, Marta Szachniuk, Jacek Blazewicz, Ryszard W. Adamiak
    Pages 199-215
  12. Pawel Piatkowski, Joanna M. Kasprzak, Deepak Kumar, Marcin Magnus, Grzegorz Chojnowski, Janusz M. Bujnicki
    Pages 217-235
  13. Paul Dallaire, François Major
    Pages 237-251
  14. Back Matter
    Pages 281-283

About this book


This volume provides protocols and procedures for determining and modeling RNA structure.  Chapters guide the reader through protocols for RNA secondary structure prediction, single sequence modeling, Crumple,  RNAstructure to model conserved secondary structures with multiple homologs,  the prediction of bimolecular secondary structures with RNAstructure, STarMir, protocols for structure mapping, mapping data to constrain or restrain RNA secondary structure prediction with RNAstructure, unassigned NMR resonances, modeling protocols for Rosetta FARFAR, RNAComposer , ModeRNA, and MC-Fold. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls.


Authoritative and Practical, RNA Structure Determination: Methods and Protocols aims to ensure successful results in the further study of this vital field.


RNA secondary structure prediction single sequence modeling RNAstructure structure mapping NMR resonances three dimensional structure x-ray crystallography

Editors and affiliations

  • Douglas H. Turner
    • 1
  • David H. Mathews
    • 2
  1. 1.Department of Chemistry and Center for RNA BiologyUniversity of Rochester College of Arts and SciencesRochesterUSA
  2. 2.Department of Biochemistry and Biophysics and Center for RNA BiologyUniversity of Rochester Medical CenterRochesterUSA

Bibliographic information

  • DOI
  • Copyright Information Springer Science+Business Media New York 2016
  • Publisher Name Humana Press, New York, NY
  • eBook Packages Springer Protocols
  • Print ISBN 978-1-4939-6431-4
  • Online ISBN 978-1-4939-6433-8
  • Series Print ISSN 1064-3745
  • Series Online ISSN 1940-6029
  • Buy this book on publisher's site
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