For part numbers, go to any online shop such as bikebandit.com or babbittsonline.com - they all have full parts microfiches with all the description and numbers you want.
The Yamaha service manual is the bible for their mechanics, but of course assumes a lot of knowledge.
Another alternative is the Haynes manual. Nicely detailed, and with the home mechanic in mind. Based on a full take it apart/rebuild - I've been using these happily for years.
Don't ever buy any Chilton manual - they are dreadfully useless!