I was raised as a fundamentalist Christian. I don't know the reasoning in Catholicism, but was told to kneel in church as a show of humility and submission to God. I was also told that this was reserved only for God.
I'm no longer religious. I couldn't tolerate the bigotry towards gay people. But the idea of kneeling for a human being repulses me.
If the act of kneeing at all is a problem for you, then I don’t know what to tell you. But kneeling to others, and kneeling with others—joining in with others who are kneeling—are very different actions. I’d suggest you not conflating the two.
I'm no longer religious. I couldn't tolerate the bigotry towards gay people. But the idea of kneeling for a human being repulses me.