You need to choose which direction you want to set up your engine and turbocharger.
Low back pressure system: significant head porting, properly design tubular manifold, larger A/R turbine housing and camsahfts with some overlap... aim for 1:1 exhaust manifold pressure and boost pressure.
High back pressure system: the OEM turbocharger set up is a perfect example, higher exhaust manifold back pressure to boost (i.e. maybe 2/2.5/3.0 - 1), no overlap, short manifold runners, small A/R turbine housing.
You can't do a mix of both as each one will characterise how the engine will perform.