Sounds like it's configured to hand pay on all cash outs, or depending on the chip, all cash outs greater than one coin. The 0000 0005 indicates that there's a hand pay required of five coins. You can reset the machine by turning the jackpot reset key on the side of the machine once and releasing it -- that should stop the bell ringing and will make the game playable again.
At that point, the machine wouldn't have been trying to pay from the hopper -- I'm a little concerned that you said you got the hopper motor freed up as it is supposed to normally be "locked up" by the brake mechanism when not actively paying out. To be clear, the motor should not turn freely by hand unless you have disengaged the brake mechanism.
Please let us know what chips you have in your machine and we can help you configure it for hopper payouts. You can determine the relevant chip numbers with the directions found here:
http://www.newlifegames.net/spset/SPSS.htm