An analysis of conformational changes upon RNA-Protein binding

Kannan Sankar, Robert L. Jernigan, Rasna R. Walia, Vasant G. Honavar, Carla M. Mann, Drena Dobbs

Research output: Chapter in Book/Report/Conference proceedingConference contribution

1 Scopus citations

Abstract

RNA-binding proteins (RBPs) have myriad functions in transcription, translation, and post-transcriptional gene regulation, with central roles in normal development as well as in both genetic and infectious diseases. When a protein binds RNA, a conformational change often occurs. For RNA-protein complexes that have been characterized, conformational changes have been observed in the protein, the RNA, or both. These conformational changes have not been sufficiently characterized, however, in part due to the small number of structures of bound and unbound complexes of RNA-binding proteins available until recently. Here we systematically analyze a new dataset of 90 pairs of bound and unbound proteins to evaluate the conformational changes that occur upon RNA binding. Most of the conformational changes were observed in noninterfacial regions of the RNA-binding proteins. Detailed analyses of the modes of RNA binding and any associated conformational changes in proteins are critical for fully understanding the mechanisms of RNA-protein recognition, for developing better RNA-protein docking methods and methods for predicting interfacial residues, and for RNA-based drug design.

Original languageEnglish (US)
Title of host publicationACM BCB 2014 - 5th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics
PublisherAssociation for Computing Machinery, Inc
Pages592-593
Number of pages2
ISBN (Electronic)9781450328944
DOIs
StatePublished - Sep 20 2014
Event5th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics, ACM BCB 2014 - Newport Beach, United States
Duration: Sep 20 2014Sep 23 2014

Publication series

NameACM BCB 2014 - 5th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics

Other

Other5th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics, ACM BCB 2014
CountryUnited States
CityNewport Beach
Period9/20/149/23/14

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All Science Journal Classification (ASJC) codes

  • Health Informatics
  • Computer Science Applications
  • Software
  • Biomedical Engineering

Cite this

Sankar, K., Jernigan, R. L., Walia, R. R., Honavar, V. G., Mann, C. M., & Dobbs, D. (2014). An analysis of conformational changes upon RNA-Protein binding. In ACM BCB 2014 - 5th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics (pp. 592-593). (ACM BCB 2014 - 5th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics). Association for Computing Machinery, Inc. https://doi.org/10.1145/2649387.2660790