Engineering studies
of Candida (Pseudozyma) antarctica lipase A (CalA)
have demonstrated the potential of this enzyme in
the selective hydrolysis of fatty acid esters of different chain lengths.
CalA has been shown to bind substrates preferentially through an acyl-chain
binding tunnel accessed via the hydrolytic active site; it has also
been shown that selectivity for substrates of longer or shorter chain
length can be tuned, for instance by modulating steric hindrance within
the tunnel. Here we demonstrate that, whereas the tunnel region is
certainly of paramount importance for substrate recognition, residues
in distal regions of the enzyme can also modulate substrate selectivity.
To this end, we investigate variants that carry one or more substitutions
within the substrate tunnel as well as in distal regions. Combining
experimental determination of the substrate selectivity using natural
and synthetic substrates with computational characterization of protein
dynamics and of tunnels, we deconvolute the effect of key substitutions
and demonstrate that epistatic interactions contribute to procuring
selectivity toward either long-chain or short/medium-chain fatty acid
esters. We demonstrate that various mechanisms contribute to the diverse
selectivity profiles, ranging from reshaping tunnel morphology and
tunnel stabilization to obstructing the main substrate-binding tunnel,
highlighting the dynamic nature of the substrate-binding region. This
work provides important insights into the versatility of this robust
lipase toward diverse applications.