Potentials found: SA vs. CG (triangular lattices).

<p>Relative variation of minimum potentials obtained with simulated annealing respect to the corresponding values from chain growth optimizers, in the case of triangular lattices.</p

Benchmark sequences used in tests.

<p>Characteristics of the benchmark sequences used in the experimentation. The subscripts in sequence characters indicate the number of repetitions for each of them.</p

Number of sessions of simulated annealing that lead to a solution improvement.

<p>Results for both square and triangular lattices are reported.</p

Examples of a pull move in 2D square (drawings on the left) and triangular (drawings on the right) lattices.

<p>The notation to indicate the involved elements is described in the text. The target residue is depicted in red, and the residues that undergo a displacement are colored. In the resulting configurations, the chain portion affected by the move is indicated in blue.</p

Two conformations of the same sequence (HI4) in the 3D square and triangular lattices.

<p>The potential is −27 for the former, and −60 for the latter.</p

Two conformations of the same sequence (HI4) in the 2D square and triangular lattices.

<p>The HP potential is −16 for the former, and −31 for the latter.</p

Experimental evaluation (by CgOptimizer) of the trend of minimum potential vs. dimension for different sequences on square lattices.

<p>In the legend, for each sequence, both length and number of H residues are specified.</p

Comparison of the chain growth algorithm outcomes for square and triangle lattices, referring to the corresponding coordination numbers.

<p>The tests have been carried out over the HI sequences; the minimum potential value is shown on the left, and the runtime on the right.</p

Algorithm 1. The HP potential can be easily obtained in a general way.

<p>It makes use of both the configuration positions and the main directions for the specific lattice.</p

Minimum values for the potential, as found in the tests with simulated annealing for square (left chart) and triangular (right chart) lattices.

<p>Minimum values for the potential, as found in the tests with simulated annealing for square (left chart) and triangular (right chart) lattices.</p