Structure-Based Identification of New High-Affinity Nucleosome Binding Sequences

摘要: The substrate for the proteins that express genetic information in cell is not naked DNA but an assembly of nucleosomes, where wrapped around histone proteins. organization these nucleosomes on genomic influenced by sequence. Here, we present a structure-based computational approach translates sequence into energy required to bend nucleosome-bound conformation. calculations establish relationship between and octamer binding affinity. In silico selection using this model identified several new sequences, which were experimentally found have affinities comparable highest-affinity sequences known. results provide insights molecular mechanism through encodes its organization. A quantitative appreciation thermodynamics nucleosome positioning rearrangement will be one key factors understanding regulation transcription design promoter architectures purposes tuning gene expression dynamics.