Fig. 2.
Modeling of the nucleosome binding characteristics of the 601 positioning element. (A) The binding preference of a histone octamer to the 601 positioning element calculated with B = 0.2, p = 10.1 bp, and N = 146 bp (77). Position i is relative to the known dyad position. The highest binding preference in the 601 sequence is modeled at position +14 bp from the dyad position. (B) When the histone binding window N is reduced to 74 bp, corresponding to binding of a (H3/H4)2 tetramer, the highest likelihood score coincides exactly with the dyad position. (C) The energy landscape for nucleosome positioning on the 601 element. At the dyad position, the predicted free binding energy is -8.0 kBT.