John,
I have to agree with the others. Ultegra is a lot of overkill for the Trek 1000.
What I would do is upgrade to Tiagra or 105, but nothing more.
If you're changing your front chainring setup from a triple to a double you might want to check with Pedal Power or another shop for help. It's more than just swapping components. You'll have to change the bottom bracket and both derailleurs, plus the other items.
You'll also have to invest in lots of special bike tools.
Go
here and click on the parts of the bike to see what tools you'll need.
I considered doing this with my Raleigh (before it became my commuter) about 2 years ago. After talking to the "wrench" at Bikeways I decided it would be cheaper and easier to get a new bike.

So I started looking at Litespeeds.
GOOD LUCK.