Not a movie, but two scenes from Scrubs. One in the episode "My day at the Races" with "Everybody's Changing" by Keane. The other was "My Lunch" with "How to Save a Life" by the Fray. The second was probably one of the best episodes of the show.
There's a really good usage of Beck's "Lost Cause" in the episode where Jordan's brother dies and Cox is really freaking out, I think at the end of the episode.