"Church" in the 21st century bears no resemblance to church as it was in the first century. While I regularly attend weekend worship services - and sometimes even kinda like them - I don't really think it's what God has in mind for us when it comes to fellowship. I am fortunate enough to be part of a small group that has been together for a number of years. We are open and honest about our lives and our faith. All of us feel that our small group is more like church than church. Without it my faith wouldn't be nearly as real and dynamic. You just can't underestimate the power of being together with a few others and sharing your faith (or lack thereof) in an honest manner.
And, if you're looking for a book or two that deal with faith and doubt in straightforward honest ways, check out Blue Like Jazz by Donald Miller and/or Messy Spirituality by Mike Yaconelli.
For what it's worth . . .