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PDBsum entry 5b2i
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Transcription/DNA
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PDB id
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5b2i
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Contents |
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99 a.a.
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82 a.a.
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106 a.a.
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97 a.a.
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References listed in PDB file
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Key reference
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Title
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Crystal structure of human nucleosome core particle containing enzymatically introduced cpg methylation.
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Authors
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Y.Fujii,
M.Wakamori,
T.Umehara,
S.Yokoyama.
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Ref.
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FEBS Open Bio, 2016,
6,
498-514.
[DOI no: ]
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PubMed id
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Abstract
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Cytosine methylation, predominantly of the CpG sequence in vertebrates, is one
of the major epigenetic modifications crucially involved in the control of gene
expression. Due to the difficulty of reconstituting site-specifically methylated
nucleosomal DNA at crystallization quality, most structural analyses of CpG
methylation have been performed using chemically synthesized oligonucleotides,
There has been just one recent study of nucleosome core particles (NCPs)
reconstituted with nonpalindromic human satellite 2-derived DNAs. Through the
preparation of a 146-bp palindromic α-satellite-based nucleosomal DNA
containing four CpG dinucleotide sequences and its enzymatic methylation and
restriction, we reconstituted a 'symmetric' human CpG-methylated nucleosome core
particle (NCP). We solved the crystal structures of the CpG-methylated and
unmodified NCPs at 2.6 and 3.0 Å resolution, respectively. We observed the
electron densities of two methyl groups, among the eight 5-methylcytosines
introduced in the CpG-fully methylated NCP. There were no obvious structural
differences between the CpG-methylated 'symmetric NCP' and the unmodified NCP.
The preparation of a crystallization-grade CpG-methylated NCP provides a
platform for the analysis of CpG-methyl reader and eraser proteins.
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