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2017 ; 45
(3
): 1114-1129
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KDM2A integrates DNA and histone modification signals through a CXXC/PHD module
and direct interaction with HP1
#MMPMID28180290
Borgel J
; Tyl M
; Schiller K
; Pusztai Z
; Dooley CM
; Deng W
; Wooding C
; White RJ
; Warnecke T
; Leonhardt H
; Busch-Nentwich EM
; Bartke T
Nucleic Acids Res
2017[Feb]; 45
(3
): 1114-1129
PMID28180290
show ga
Functional genomic elements are marked by characteristic DNA and histone
modification signatures. How combinatorial chromatin modification states are
recognized by epigenetic reader proteins and how this is linked to their
biological function is largely unknown. Here we provide a detailed molecular
analysis of chromatin recognition by the lysine demethylase KDM2A. Using
biochemical approaches we identify a nucleosome interaction module within KDM2A
consisting of a CXXC type zinc finger, a PHD domain and a newly identified
Heterochromatin Protein 1 (HP1) interaction motif that mediates direct binding
between KDM2A and HP1. This nucleosome interaction module enables KDM2A to decode
nucleosomal H3K9me3 modification in addition to CpG methylation signals. The
multivalent engagement with DNA and HP1 results in a nucleosome binding circuit
in which KDM2A can be recruited to H3K9me3-modified chromatin through HP1, and
HP1 can be recruited to unmodified chromatin by KDM2A. A KDM2A mutant deficient
in HP1-binding is inactive in an in vivo overexpression assay in zebrafish
embryos demonstrating that the HP1 interaction is essential for KDM2A function.
Our results reveal a complex regulation of chromatin binding for both KDM2A and
HP1 that is modulated by DNA- and H3K9-methylation, and suggest a direct role for
KDM2A in chromatin silencing.