Figure 9.

Identification of new histone PTM binders. (a) Schematic of the workflow for peptide pull-downs of nuclear proteins. Modified peptides are immobilized on avidin beads and used to fish out specific binders such as the H3K4me3 binder BPTF. (b) Structure of the BPTF PHD finger (mauve) in complex with H3K4me3 (yellow, pdb code: 2f6j). An ion pair between Arg2 of histone H3 and an Asp residue of the PHD finger contributes to selectivity. (c) SILAC-based identification of methyllysine binders. Modified and control histone peptides are immobilized and incubated with isotopically labeled nuclear extracts. A hypothetical mass spectrum illustrating different selectivities of detected proteins is depicted on the right.