A ssDNA Aptamer That Blocks the Function of the Anti-FLAG M2 Antibody
Figure 1
SELEX with or without the Flag-Stn1 protein yields the same bipartite consensus. A randomized pool of ssDNA molecules was incubated with an in vitro translation system programmed with either a Flag-Stn1 plasmid (Flag-Stn1 present) or water (Flag-Stn1 absent), after which protein/DNA complexes were recovered by immunoprecipitation using the anti-Flag M2 antibody. After six successive rounds of selection, the remaining oligonucleotides were cloned and sequenced. (a) Oligonucleotides selected in the presence of the Flag-Stn1 protein. The selected ssDNA molecules share a common bipartite consensus, which consists of a CCTTA (pink) and TGTCTWCC (green) motifs. Nonnucleotide letters denote ambiguous sequencing reads (R = A/G, Y = C/T, S = C/G, W = A/T, K = T/G, M = A/C). (b) Oligonucleotides selected in the absence of the Flag-Stn1 protein. The same bipartite consensus is shared among the ssDNA molecules selected by the mock-programmed in vitro translation system.
