H3 Histone Tail Conformation within the Nucleosome and the Impact of K14 Acetylation Studied Using Enhanced Sampling Simulation

Por Ikebe, Jinzen, Sakuraba, Shun, Kono, Hidetoshi
Publicado no PLoS Comput Biol (2016)

Enhanced sampling simulations to construct free-energy landscape of protein–partner substrate interaction

Por Ikebe, Jinzen, Umezawa, Koji, Higo, Junichi
Publicado no Biophys Rev (2016)

Enhanced and effective conformational sampling of protein molecular systems for their free energy landscapes

Por Higo, Junichi, Ikebe, Jinzen, Kamiya, Narutoshi, Nakamura, Haruki
Publicado em 2012

Ab initio simulation of a 57-residue protein in explicit solvent reproduces the native conformation in the lowest free-energy cluster

Por Ikebe, Jinzen, Standley, Daron M, Nakamura, Haruki, Higo, Junichi
Publicado em 2011

Conformational Ensembles of an Intrinsically Disordered Protein pKID with and without a KIX Domain in Explicit Solvent Investigated by All-Atom Multicanonical Molecular Dynamics

Por Umezawa, Koji, Ikebe, Jinzen, Takano, Mitsunori, Nakamura, Haruki, Higo, Junichi
Publicado em 2012

Simulation study on the disordered state of an Alzheimer's β amyloid peptide Aβ(12–36) in water consisting of random-structural, β-structural, and helical clusters

Por Ikebe, Jinzen, Kamiya, Narutoshi, Ito, Jun-Ichi, Shindo, Heisaburo, Higo, Junichi
Publicado em 2007

Accessibility of the histone H3 tail in the nucleosome for binding of paired readers

Por Gatchalian, Jovylyn, Wang, Xiaodong, Ikebe, Jinzen, Cox, Khan L., Tencer, Adam H., Zhang, Yi, Burge, Nathaniel L., Di, Luo, Gibson, Matthew D., Musselman, Catherine A., Poirier, Michael G., Kono, Hidetoshi, Hayes, Jeffrey J., Kutateladze, Tatiana G.
Publicado no Nat Commun (2017)

Covalent modifications of histone H3K9 promote binding of CHD3

Por Tencer, Adam H., Cox, Khan L., Di, Luo, Bridgers, Joseph B., Lyu, Jie, Wang, Xiaodong, Sims, Jennifer K., Weaver, Tyler M., Allen, Hillary F., Zhang, Yi, Gatchalian, Jovylyn, Darcy, Michael A., Gibson, Matthew D., Ikebe, Jinzen, Li, Wei, Wade, Paul A., Hayes, Jeffrey J., Strahl, Brian D., Kono, Hidetoshi, Poirier, Michael G., Musselman, Catherine A., Kutateladze, Tatiana G.
Publicado no Cell Rep (2017)