Herein, we systematically investigate phospholipid-subclass-specific altera
tions in the partitioning of both cationic and anionic amphiphiles to ident
ify the importance of ester, ether and vinyl ether linkages at the sn-l pos
ition of phospholipids in the partitioning of charged amphiphiles. The resu
lts demonstrated that the membrane-water partition coefficient of a prototy
pic cationic amphiphile (i.e. 3,3'-dipropylthiadicarbocyanine iodide) was a
pproximately 2.5 times higher in membranes comprised of plasmenylcholine in
comparison with membranes comprised of either phosphatidylcholine or plasm
anylcholine. In striking contrast, the membrane-water partition coefficient
of a prototypic anionic amphiphile [i.e. bis-(1,3-dibutylbarbituric acid)t
rimethine oxonol] in membranes comprised of plasmenylcholine was approximat
e to 2.5 times lower than that manifest in membranes comprised of phosphati
dylcholine or plasmanylcholine. Utilizing these experimentally determined p
artition coefficients, the relative membrane dipole potential of membranes
comprised of plasmenylcholine was calculated and found to be approximate to
25 mV lower than in membranes comprised of phosphatidylcholine or plasmany
lcholine. This lower membrane dipole potential in membranes comprised of pl
asmenylcholine is equivalent to the membrane potential induced by incorpora
tion of approximate to 25 mol % of anionic phospholipids in membranes compr
ised of phosphatidylcholine. Collectively, these results demonstrate that p
hospholipid-subclass-specific differences in the membrane dipole potential
contribute to alterations in the partitioning of lipophilic ions in membran
e bilayers comprised of distinct phospholipid subclasses. Moreover, they su
ggest that these physicochemical differences can be exploited to facilitate
the targeting of charged lipophilic drugs to specific cells and subcellula
r membrane compartments.