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Constraint counting on RNA structures: Linking flexibility and function

Authors
Journal
Methods
1046-2023
Publisher
Elsevier
Publication Date
Volume
49
Issue
2
Identifiers
DOI: 10.1016/j.ymeth.2009.04.004
Keywords
  • Flexibility/Rigidity
  • Topological Network Representation
  • Ribosome
  • Exit Tunnel
  • Antibiotics
Disciplines
  • Biology
  • Mathematics

Abstract

Abstract RNA structures are highly flexible biomolecules that can undergo dramatic conformational changes required to fulfill their diverse functional roles. Constraint counting on a topological network representation of an RNA structure can provide very efficiently detailed insights into the intrinsic flexibility characteristics of the biomolecule. In the network, vertices represent atoms and edges represent covalent and strong non-covalent bonds and angle constraints. Initially, the method has been successfully applied to identify rigid and flexible regions in proteins. Here, we present recent progress in extending the approach to RNA structures. As a case study, we analyze stability characteristics of the ribosomal exit tunnel and relate these findings to the tunnel’s active role in co-translational processes.

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