  In supersymmetry, there are gauge invariant dimension 5 proton decay
operators which must be suppressed by a mass scale much larger than the Planck
mass. It is natural to expect that this suppression should be explained by a
mechanism that explains the hierarchical structure of the fermion mass
matrices. We apply this argument to the case where wave functions of chiral
multiplets are localized under a kink background along an extra spatial
dimension and the Yukawa couplings as well as the coefficients of the proton
decay operators are determined by the overlap of the relevant wave functions. A
configuration is found in the context of SU(5) supersymmetric grand unified
theory that yields realistic values of quark masses, mixing angles, CP phase
and charged lepton masses and sufficiently small genuine dimension 5 proton
decay operators. Inclusion of SU(5) breaking effects is essential in order to
obtain non-vanishing CP phase as well as correct lepton masses. The resulting
mass matrix has a texture structure in which texture zeros are a consequence of
extremely small overlap of the wave functions. Our approach requires explicit
breaking of supersymmetry in the extra dimension, which can be realized in
(de)constructing extra dimension.
