pH and enzymes

Altering the pH affects the chemistry of amino acid residues, which consequently hinders intramolecular bonding. For example, protonation of lone pairs on nitrogen atoms can hinder hydrogen bonding involving those residues. The failure to form intramolecular bonds prevents the protein folding into the correct secondary and tertiary shapes. Therefore, changing the pH affects proteins at the secondary and tertiary level.

The primary structure of a protein is the linear amnio acid sequence (with the peptide bonds). Changing the pH will not directly alter this sequence. So the answer to your question is no. Changing the pH affects protein folding, not the protein sequence.