It's a pretty large minority. About 15-20% of the population is Muslim, at least nominally. The Russian Orthodox Church and the main Muslim organizations have a pretty close relationship. I think the closest US parallel would be the relationship between Protestants and Catholics -- there are individuals who really dislike the other faith, but on the whole they tend to be on the same page. Many Orthodox think they have a lot more in common with Islam than with Western Christianity. ;) Islam is a native Russian religion, while Catholicism, for instance, is seen as foreign and alien (and Polish! Yuck!).
Nu, zayats, pogodi!
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