Fig. 2: Correlation of DNA and cross-liking sites.
From: Analysis of protein-DNA interactions in chromatin by UV induced cross-linking and mass spectrometry
a Nucleosome core particle structure (pdb 1KX5) with cross-linked amino acids (Cɑ) in X. laevis mononucleosomes or nucleosomal arrays highlighted as red or yellow spheres, representing cross-linking site that satisfy or violate distance restraints, respectively. The sphere scale is determined by the CSM count-rank of the cross-linked amino acid. b NCP structure as in a. Cross-links violating distance restraints are highlighted in yellow. Right panel, zoomed side view of the NCP and indicated cross-linked residues. c Model of the tetranucleosome (46) full-filling distance restraints for H2A Lys-95, H2B Lys-105, His-106 and Lys-113, H3 Lys-122, and H4 Val-60. Right panel, zoomed view of violated cross-links in the tetranucleosome. N1-nucleosome 1; N2-nucleosome 2.
