From your signature, looks like you have 96 model so the 4 pin punches will line up with the holes on the cam shaft. However, this won't be the case for the very early engine no. on 91 model at the front exh cam.
There is no guarantee that your existing timing is at the correct positon so personally, I won't rely on the paint markings.
Please note that once you start rotating the crank even for one turn, the paint markings won't line up again until you turn the engine for ages.
I always use the markings on the cam pulleys, drive pully, back plates and on the oil pump housing, just like on the workshop manual.
However, there was a mistake on the marking process on the backside (facing camshaft) of the rear exh cam pulley on certain range of eng no. that you can't rely on it.
Fortunately, the front side marking is fine so no big drama.
Still, if you dial-in the cam timing, you will notice that there are small variants in true TDC against these markings on each engines.
Timing markings won't line up against the ones on the cover plates, etc until you properly tension the TB but good enough to install the TB at the correct timing.
You can't make partial mistake such as the timing off by 1/5 tooth, 1/2 tooth, etc but instead, it will be always in the order of 1 tooth so just double check the timing like 10 times as you can easily spot it.
You can easily jump a tooth or two at the rear exh cam if the TB was loose (before properly tensioning it) and let the crank rotate anti-clockwise even for a tiny bit.
I have seen it on several engines that was serviced by the main dealers as well.
If not replaced before, you may want considering replacing the LMA while in there.
You can find lots of photos including the timing markings here;
http://www.nsxcb.co.uk/blog.php?1811&blogcategoryid=51
Kaz