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In this work we introduce a novel semi-implicit structure-preserving finite-volume/finite-difference scheme for the viscous and resistive equations of magnetohydrodynamics (MHD) based on an appropriate 3-split of the governing PDE system, which is decomposed into a first convective subsystem, a second subsystem involving the coupling of the velocity field with the magnetic field and a third subsystem involving the pressure-velocity coupling. The nonlinear convective terms are discretized explicitly, while the remaining two subsystems accounting for the Alfven waves and the magneto-acoustic waves are treated implicitly. The final algorithm is at least formally constrained only by a mild CFL stability condition depending on the velocity field of the pure hydrodynamic convection. To preserve the divergence-free constraint of the magnetic field exactly at the discrete level, a proper set of overlapping dual meshes is employed. The resulting linear algebraic systems are shown to be symmetric and therefore can be solved by means of an efficient standard matrix-free conjugate gradient algorithm. One of the peculiarities of the presented algorithm is that the magnetic field is defined on the edges of the main grid, while the electric field is on the faces. The final scheme can be regarded as a novel shock-capturing, conservative and structure preserving semi-implicit scheme for the nonlinear viscous and resistive MHD equations. Several numerical tests are presented to show the main features of our novel solver: linear-stability in the sense of Lyapunov is verified at a prescribed constant equilibrium solution; a 2nd-order of convergence is numerically estimated; shock-capturing capabilities are proven against a standard set of stringent MHD shock-problems; accuracy and robustness are verified against a nontrivial set of 2- and 3-dimensional MHD problems.