Eukaryotic DNA is packaged into chromatin, folded and compacted. The building blocks of mammalian chromatin are nucleosomes, which consist of octomers of histone proteins that can be post-translationally modified (PTM). Protein phosphorylation is one of the most abundant PTMs. Histones are phosphorylated mainly on serine, threonine, tyrosine as well as other sites such as arginine, histidine and lysine that are not so well-known. Both types of protein phosphorylations occur in vivo at similar levels; however, phosphoarginine, phosphohistidine and phospholysine are thermodynamically unstable and therefore much less studied.