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Updated: Jun 19, 2026

Structure-Based Simulation and Sampling of Transcription Factor Protein Movements along DNA from Atomic-Scale Stepping to Coarse-Grained Diffusion
Published on: March 1, 2022
Sequence Fourier analysis of a specific protein-DNA (RNA) interaction; an intermolecular frequency symmetry
Naganori Numao1, Yoshihito Kamimoto
1BioFrontier Institute Inc., 5-4-21 Nishi-Hashimoto, Sagamihara, Kanagawa 229-1131, Japan. kamimoto@kanagawa-iri.go.jp
Abstract:
Here, we first report that a specific protein-DNA (RNA) interaction between p53 protein and divergent I kappa B kinase interacting protein (IKIP)-Apaf1 DNA promoter region, and between poliovirus 3CD protein and the 5' terminal region of the RNA sequence can be successfully elucidated with a sequence Fourier analysis, alike various specific protein-protein interactions described previously. Based on these, the intermolecular frequency symmetry would be evolutionarily conserved in a specific interaction of the bioactive structure of various long-chain sequences. In addition, the symmetry is fairly sensitive to a substitution (or a point mutation) on the sequence.
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