Domains enriched among the nucleic acid high confidence direct binders (HCDBs) lacking known nucleic acid domains (***P < 0.005, **P < 0.01, *P < 0.05; binomial test with Benjamini-Hochberg correction). These domains are likely to confer nucleic acid affinity. Remarkably, we identified in our pulldowns all the human proteins harboring the DUF2465, CwfJ_C_1 and 2, and Fcf1 domains with specific peptides (two out of three for CBF/Mak21). By combining individual protein preferential affinities for subtypes of nucleic acids (Supplementary Table S5 in Additional file 2), we could determine domain RNA preference P-values (color scale at the bottom on the basis of the P-value logarithms; subtypes other than RNA did not yield significant results).
Dürnberger et al. Genome Biology 2013 14:R81 doi:10.1186/gb-2013-14-7-r81