An example of the alignment for two protein chains 1DHF
and 8DFR. The iteration number of the algorithm is represented by t. (a) The two proteins 1DHF
and 8DFR are in the original coordinates, which are in the C
representation of the backbone. (b) and (c) Relative positions of the two proteins during the convergence process. (d) The optimal alignment by our algorithm. The final alignment number m is 182 with rms = 0.7 at λ = 6.0 and = 0.0.