A ssDNA Aptamer That Blocks the Function of the Anti-FLAG M2 Antibody

Abstract EN

Using SELEX (systematic evolution of ligands by exponential enrichment), we serendipitously discovered a ssDNA aptamer that binds selectively to the anti-FLAG M2 antibody.

The aptamer consisted of two motifs (CCTTA and TGTCTWCC) separated by 2-3 bases, and the elimination of one or the other motif abrogated binding.

The DNA aptamer and FLAG peptide competed for binding to the antigen-binding pocket of the M2 antibody.

In addition, the aptamer eluted FLAG-tagged proteins from the antibody, suggesting a commercial application in protein purification.

These findings demonstrate the feasibility of using SELEX to develop ssDNA aptamers that block the function of a specific antibody, a capability that could lead to the development of novel therapeutic modalities for patients with systemic lupus erythematosus, rheumatoid arthritis, and other autoimmune diseases.