i believe the official jamma standard was 3 buttons, although some machines extended this to 4 buttons, and of course the capcoms of the world invented jamma+ which is 6 buttons per player, so most jamma cabinets will only have 3 buttons wired, but some (like yours) use 4 buttons directly into the harness.
there is no difference whether you use the screw terminal on the j-pac or the harness though