I believe the only difference between the two main shafts is that the commando one is about 6mm longer than the atlas one to the shoulder the clutch sits up against. I use a dominator type clutch on my TTI gearbox, so it sits out about 6mm too far when using the single row primary, - I made a carrier for Jawa speedway sprockets to fit the Norton crankshaft taper - sprocket now floats on a spline. You are trying to make the Atlas shaft longer, so you need a spacer. If you intend using the triple row primary chain, you might need to check the alignment of the engine sprocket with the clutch, in case the taper on the crank is slightly different. However you are probably fitting a belt drive ?