Article
Predicting RNA pseudoknot folding thermodynamics.
Nucleic acids research - 1 Jan 2006
Cao Song, Chen Shi-Jie
Abstract excerpt
Based on the experimentally determined atomic coordinates for RNA helices and the self-avoiding walks of the P (phosphate) and C4 (carbon) atoms in the diamond lattice for the polynucleotide loop conformations, we derive a set of conformational entropy parameters for RNA pseudoknots. Based on the entropy parameters, we develop a folding thermodynamics model that enables us to compute the sequence-specific RNA...
Topics
- Animals
- Base Pairing
- Base Sequence
- Entropy
- Frameshifting, Ribosomal
- HIV Reverse Transcriptase
- Humans
- Models, Molecular
- Models, Statistical
- Molecular Sequence Data
- Mutation
- Nucleic Acid Conformation