The energetics of small internal loops are important for prediction of RNA secondary and
tertiary structure, selection of drug target sites, and understanding RNA structure–function …

Revised Manuscript Received April 1, 1991 abstract: Thermodynamic parameters for
internal loops of unpaired adenosines in oligoribonucleotides have been measured by …

Relatively few thermodynamic parameters are available for RNA triloops. Therefore, 24
stem− loop sequences containing naturally occurring triloops were optically melted, and the …

Internal loops in RNA are important for folding and function. The 3× 3 nucleotide internal
loops are the smallest size symmetric loops with a potential noncanonical base pair (middle …

We present extensive calculations of the secondary structure of mRNA which point to its
insensitivity to small changes in the free energy assignments of single stranded regions …

Algorithms for predicting RNA secondary structure require approximations for the free
energies of multibranch loops, also called junctions. The stabilities of 62 RNA duplexes with …

Revised Manuscript Received June 1, 1989 abstract: The conformation and the dynamics of
an RNA oligonucleotide (26 nucleotides) which is a model for loop E in eukaryotic 5S RNA …

RNA is directly associated with a growing number of functions within the cell. The accurate
prediction of different RNA higher-order structures from their nucleic acid sequences will …

Conformational entropy makes important contribution to the stability and folding of RNA
molecule, but it is challenging to either measure or compute conformational entropy …

A crucial step in the determination of the three-dimensional native structures of RNA is the
prediction of their secondary structures, which are stable independent of the tertiary fold …