The first attachment is picture of a stock pump.
The orange port is where your thermostat/housing goes, and it should be connected to your upper radiator hose (hot water into the radiator).
The red port goes to your lower radiator hose (cooled water back into the engine.
The two green ports go to you heater core.
The purple port went to the stock throttle body (and returned through the heads) to keep the butterfly from icing up. You can cap that one off.
The second image is from the aftermarket one you mentioned. The color coding is the same, but it does not have the throttle body feed.
Jeds pumpYou will notice that the aftermarket one uses the locstion of the throttle body feed for the heater. You could do the same since it is just another source of hot water, but in the stock configurstion, the throttle body nipple is smaller than the heater core one, so you would have lower flow and need an adapter hose.