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Conventional distance geometry methodology was modified in two fundamental ways to improve docking performance. First, the origin for the metric matrix calculation was assigned randomly to an atom center. With this modification, not only were the structures that were produced more randomized, but the method is faster than the conventional center of mass approach. Additionally, the concept of elastic constraints was implemented to strongly constrain user-selected atoms during the 4-dimensional structure refinement, with the upper bound of such constraints successively relaxed on each iteration of the subsequent 3-dimensional refinement if the corresponding interatomic distance violated the constraint. Without explicitly forcing a solution, this modification enables a bias to be included in the docking of two molecules or enables a directional preference in the growth of a fragment from a fixed structural motif
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Conventional distance geometry methodology was modified in two fundamental ways to improve docking performance. First, the origin for the metric matrix calculation was assigned randomly to an atom center. With this modification, not only were the structures that were produced more randomized, but the method is faster than the conventional center of mass approach. Additionally, the concept of elastic constraints was implemented to strongly constrain user-selected atoms during the 4-dimensional structure refinement, with the upper bound of such constraints successively relaxed on each iteration of the subsequent 3-dimensional refinement if the corresponding interatomic distance violated the constraint. Without explicitly forcing a solution, this modification enables a bias to be included in the docking of two molecules or enables a directional preference in the growth of a fragment from a fixed structural motif.
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21
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0013607791
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1H NMR, HPLC, TLC) materials
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1H NMR, HPLC, TLC) materials.
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0000791912
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(a) Tamura, S. Y.; Semple, J. E.; Ardecky, R. A.; Leon, P.; Carpenter, S.; Ge, Y.; Shamblin, B. M.; Weinhouse, M. I.; Ripka, W. C.; Nutt, R. F. Tetrahedron Lett. 1996, 37, 4091.
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0013631962
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Compounds 3e-g were prepared using the same general procedure of Schemes 1 and 3, substituting the relevant sulfonyl chloride or sulfamoyl chloride for methanesulfonyl chloride in the reaction of 5a
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Compounds 3e-g were prepared using the same general procedure of Schemes 1 and 3, substituting the relevant sulfonyl chloride or sulfamoyl chloride for methanesulfonyl chloride in the reaction of 5a.
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