I'm with Michael for dropping some destinations, and with some planning/research I don't feel you'll need a bus tour.
You'll arrive jet-lagged on day 1. Drop your luggage at the hotel (check-in probably won't be possible before about 1PM) then a head-clearing fresh-air walk/lunch to do a bit of sight seeing in A'Dam & visit the VVV tourist bureau in front of Centraal Station for information. Nice dinner/walkabout and you'll be ready for bed.
Plan Keukenhoff for the best predicted weather on Day 2 or 3; it's at least 1/2 day including travel time to do the gardens justice. There's package deals with train/bus/entrance fees included; probably can buy at the VVV. Maybe spend the other half of that day doing Den Haag/Delft or Haarlem/Leiden; lots to see in all 4 easy walking towns, with guided tours of a working windmill at Leiden.
That leaves Day 3 for Anne Frank (buy tickets online from home and 'reserve' a time for day 2 or 3 in the later PM so you can do it after your other day's activities and bypass the line). See your other preferred sights in A'Dam (and I'm sure there's many including the museums/galleries on your list) and if time left over, and depending on your previous days' activities, both Haarlem and Leiden are but a few minutes from A'dam Centrall by train.
Regardless of which part of the Herengracht your hotel's located, you'll be within easy walking distance of many important sights. My recommendation for a Travel Guide is the Michelin Green Book. Used mine almost every day when living in Holland for a few years and still carry it with me on trips to the NL ten years later. Fantastic, detailed town walking maps, excellent sights and history information, not much on hotels/restaurants but you've got a hotel and there are restaurants every block or less so should work for you.
That's a busy 3 days and you're off to Paris the next morning. Have fun and when you hear a bicycle bell 'tinkle' in Holland, get out of the way, quickly.