The decision established that the Fourteenth Amendment requires a State to license a marriage between two people of the same sex and to recognize a marriage between two people of the same sex when their marriage was lawfully licensed and performed out-of-State.
At this point, there is no decision that any church must perform a gay marriage. There is no decision addressing the First Amendment right of religious conscience, or the prohibition against government establishing religious dogma. That will likely be taken up in a future case.
It does appear, though, that the right of marriage between any two adults is a recognized civil right. I would imagine that churches that violate someone’s civil rights would not be eligible for government grants or tax exemptions.