document: Pattern recognition strategies for molecular surfaces . II . Surface complementarity For pt.I see ibid. , vol .23 , p.1176-87 -LRB- 2002 -RRB- . Fuzzy logic based algorithms for the quantitative treatment of complementarity of molecular surfaces are presented . Therein , the overlapping surface patches defined in part I of this series are used . The identification of complementary surface patches can be considered as a first step for the solution of molecular docking problems . Standard technologies can then be used for further optimization of the resulting complex structures . The algorithms are applied to 33 biomolecular complexes . After the optimization with a downhill simplex method , for all these complexes one structure was found , which is in very good agreement with the experimental results
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