Histone lysine methyltransferases (HMTs) regulate transcriptional activity by writing epigenetic marks. Methylation of histone H3K9, a hallmark of silent chromatin, 1 is mainly regulated by two subgroups of HMTs, G9a/G9a-like protein 2 and Suv39h. 3 G9a and G9a-like protein induce mono-and di-methylation of histone H3K9 (H3K9me1 and H3K9me2) in the euchromatin region, 4 whereas Suv39h contributes to tri-methylation of histone H3K9 (H3K9me3) in the heterochromatin. 3 As methylation at histone H3K9, increased DNA methylation and reduced levels of activating chromatin modifications (e.g., histone acetylation) have been detected at promoter regions of aberrantly silenced tumor suppressor genes in cancer cells, 5,6 HMTs responsible for histone H3K9 methylation may represent promising targets for drug discovery. Indeed, overexpression of G9a is associated with several types of cancers and downregulation of G9a by RNAi inhibits tumor cell proliferation. 7-9 Chaetocin and BIX-01294 are small molecules that inhibit histone H3K9 HMTs. Chaetocin, which inhibit both G9a and Suv39h activities, is a member of the epipolythiodioxopiperazine (ETP) class of fungal metabolites. 10 On the other hand, BIX-01294 is a synthetic compound that selectively inhibits G9a but not Suv39h1 11 Based on a co-crystallization analysis of G9a with BIX-01294, BIX-01294-related molecules have been developed; these novel compounds are both more potent inhibitors and more membrane permeable than the parent compound. 12-15
MATERIALS AND METHODS MaterialsAnti-mono-and di-methylated histone H3K9 antibodies were purchased from Merck Millipore (Billerica, MA, USA). pGEX4T-1-mG9a (706Àstop amino acid (a.a.)), pGEX4T-3-histone H3 (1À57 a.a.) and pGEX4T-3-mSuv39h1-H320R (74À412 a.a.) were previously described. 2 The pET-28a(+)-Set7/9 was kindly provided by Dr Kenichi Nishioka (National Institute of Genetics).
Bacterial protein expression and purificationpGEX4T-1-mG9a (706Àstop a.a.), pGEX4T-3-mSuv39h1-H320R (74À412 a.a.), pET-28a(+)-Set7/9, or pGEX4T-3-histone H3 (1À57 a.a.) was introduced into Escherichia coli BL21 (DE3). Expression of each recombinant protein was induced by 0.1 mM isopropyl-b-D-galactopyranosid at 18 1C for 24 h. Purification of GST-and (His) 6 -fused proteins were carried out by either glutathioneaffinity (GE Healthcare UK Ltd, Little Chalfont, UK) or nickel (Ni 2+ ) affinity (GE Healthcare UK Ltd).
In vitro HMT assayEach purified recombinant HMT was pretreated in the presence or absence of a given compound in HMT buffer (50 mM Tris-HCl (pH 8.5), 10 mM MgCl 2 , 20 mM KCl, 10 mM 2-mercaptoethanol and 250 mM sucrose) containing 3 mg ml À1 of BSA for 1 h. Next, 10 mg ml À1 of SAM and 20 mg ml À1 of GST-fused histone H3 (1À57 a.a.) were added into the reaction mixture and further incubated for 1 h at 37 1C. To detect histone methylation on western blots, samples were transferred onto Immobilon membranes (Merck Millipore), probed using appropriate primary antibodies, and visualized using horseradish peroxidase-linked secondary antibodies.In or...