Physics – Condensed Matter – Statistical Mechanics
Scientific paper
2002-09-26
Physics
Condensed Matter
Statistical Mechanics
7 figures; uses revtex4
Scientific paper
10.1103/PhysRevE.68.041904
We construct a minimalist model of RNA secondary-structure formation and use it to study the mapping from sequence to structure. There are strong, qualitative differences between two-letter and four or six-letter alphabets. With only two kinds of bases, there are many alternate folding configurations, yielding thermodynamically stable ground-states only for a small set of structures of high designability, i.e., total number of associated sequences. In contrast, sequences made from four bases, as found in nature, or six bases have far fewer competing folding configurations, resulting in a much greater average stability of the ground state.
Emberly Eldon
Mukhopadhyay Ranjan
Tang Changbing
Wingreen Ned S.
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