Copyright information:Taken from "Quantitative evaluation of protein–DNA interactions using an optimized knowledge-based potential"Nucleic Acids Research 2005;33(2):546-558.Published online 26 Jan 2005PMCID:PMC548349.© The Author 2005. Published by Oxford University Press. All rights reserved ‘GCG-TGG-GCG’ represents the rank of the native sequence GCG-TGG-GCG that binds to Zif268 mode RER-RHT-RER. ‘GCG-NNN-GCG’ corresponds to the ranks of seven sequences (GCG-GTG-GCG, GCG-GCG-GCG, GCG-TTG-GCG, GCG-GAT-GCG, GCG-GAC-GCG, GCG-GCA-GCG, GCG-GTA-GCG) binding to proteins with two zinc-finger domains of wild-type Zif268 but a different central domain. ‘GAG-NNN-GAT’ represents the 13 DNA sequences with motif GAG-NNN-GAT (NNN = GCT, GCG, TCA, GCC, GAG, TTT, GAA, ACG, CCA, ACT, CGT, TTC and CGA) that bind to another zinc-finger domain mode QNR-XXX-RHR. ‘All’ refers to the -score distribution of all sequences consisting of the aforementioned sequences and 10 000 random sequences.