Identification of an essential binding site for local anesthetics in the
‘side pockets´ of Kv1 channels
Abstract
Background and Purpose: Local anesthetics block sodium and a variety of
potassium channels. Although previous studies identified a residue in
the pore signature sequence together with three residues in the S6
segment as a putative binding site, the precise molecular basis of Kv
potassium channel inhibition by local anesthetics remained unknown. Kv
crystal structures predict that some of these residues point away from
the central cavity and face into a drug binding site called ‘side
pockets´. Thus, the question arises whether the binding site of local
anesthetics is exclusively located in the central cavity or also
involves the ‘side pockets´. Experimental Approach: A systematic
functional alanine mutagenesis approach, scanning 58 mutants, in concert
with in silico docking experiments and molecular dynamics simulations
were utilized to elucidate the binding site of bupivacaine and
ropivacaine. Key Results: Kv1.5 inhibition by local anesthetics requires
binding to the central cavity and the ‘side pockets´, where the latter
requires interactions with residues of the S5 and the backside of the S6
segment. Mutations in the ‘side pockets´ remove stereoselectivity of
Kv1.5 inhibition by bupivacaine. Strikingly, while we found that binding
to the ‘side pockets´ is conserved for the different local anesthetics,
the binding mode in the central cavity and the ‘side pockets´ shows
considerable variations. Conclusion and Implications: Local anesthetics
bind to the central cavity and the ‘side pockets´ which provides a
crucial key for the molecular understanding of their Kv channel affinity
and stereoselectivity, as well as their spectrum of side effects.