Dependence of Chromatosome Structure on Linker Histone Sequence and Posttranslational Modification

Biophysical Journal
Mehmet Ali ÖztürkRebecca C Wade

Abstract

Linker histone (LH) proteins play a key role in higher-order structuring of chromatin for the packing of DNA in eukaryotic cells and in the regulation of genomic function. The common fruit fly (Drosophila melanogaster) has a single somatic isoform of the LH (H1). It is thus a useful model organism for investigating the effects of the LH on nucleosome compaction and the structure of the chromatosome, the complex formed by binding of an LH to a nucleosome. The structural and mechanistic details of how LH proteins bind to nucleosomes are debated. Here, we apply Brownian dynamics simulations to compare the nucleosome binding of the globular domain of D. melanogaster H1 (gH1) and the corresponding chicken (Gallus gallus) LH isoform, gH5, to identify residues in the LH that critically affect the structure of the chromatosome. Moreover, we investigate the effects of posttranslational modifications on the gH1 binding mode. We find that certain single-point mutations and posttranslational modifications of the LH proteins can significantly affect chromatosome structure. These findings indicate that even subtle differences in LH sequence can significantly shift the chromatosome structural ensemble and thus have implications for chromatin ...Continue Reading

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Citations

Apr 11, 2019·Nucleic Acids Research·Ognjen PerišićTamar Schlick
Jun 21, 2019·Nucleic Acids Research·Chenyi Wu, Andrew Travers
Feb 6, 2020·Annual Review of Physical Chemistry·Mehmet Ali ÖztürkRebecca C Wade
Jun 21, 2019·PLoS Computational Biology·Ruth NussinovHyunbum Jang
Jun 23, 2020·BioEssays : News and Reviews in Molecular, Cellular and Developmental Biology·Rajivgandhi Sundaram, Dileep Vasudevan
Mar 5, 2020·Nucleic Acids Research·Dustin C Woods, Jeff Wereszczynski
May 2, 2020·Nucleic Acids Research·Akshay SridharRosana Collepardo-Guevara
Apr 23, 2020·Biophysical Journal·Joshua Moller, Juan J de Pablo
Feb 23, 2021·Journal of Molecular Biology·Hao WuGaregin A Papoian
Mar 1, 2020·Wiley Interdisciplinary Reviews. Computational Molecular Science·Stephanie Portillo-Ledesma, Tamar Schlick

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Methods Mentioned

BETA
electron microscopy
x-ray crystallography
atomic force microscopy
fluorescence recovery after photobleaching
NMR
footprinting

Software Mentioned

PyTMs
Ref
NOMAD
GalaxyRefine
APBS
PDB2PQR
Effective Charges for Macromolecules ( ECM )
SDA
Autodock Vina
PyMOL

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