The Universe is harmful and, IMO, the Bible's most focused response to understanding why there is evil and suffering in this world is to be found in the story of Job. There God is portrayed as downright unfair and yet, incredibly, the message we are to take away from this is that we have no better answer than to believe and put our trust in God even as we suffer incredibly. This is a mystery of our faith.
But it isn't God that is harmful...any act of God is also an act that an atheist can witness and verify exists. Now the atheist won't add God to the explanation for that event and that is fine. But adding God to our understanding of what is happening and even assigning God some responsibility for what is happening doesn't change the fundamental, provable fact of the harmful experience someone is having.
Now you can also rightfully claim that an individual tapping into certain forms of extremism may find in God a useful motivator or justification for some harmful act and thereby help that inner urge to express itself in some harmful way. No one can deny this. But then you would have to demonstrate that the acts of good or kindness so inspired do not outweigh the acts of evil. And, fairly, I think that you can also find that certain sects or attitudes taught in certain churches probably foster a higher ratio of evil acts than do certain other churches/interpretations/etc.
With power there comes responsibility so we should not criticize the whole for the failure of a differentiable part.
I just watched Star Trek: Enterprise's "Chosen Realm" (Season 3 Episode 12 - available on Netflix) which highlights some of those qualities in any belief system or group that show signs of being harmful...
- attitude of isolation which...
- distrusts personal feeling or thinking
- distrusts science
- focuses one's attention on a particular individual or interpretation of scripture
- attitude of indifference to verifiable information
- attitude that one may kill for one's beliefs
- high consequences for disagreement or leaving the group
All these things show a restriction of human thought, experience and feeling which are aimed at controlling the believer within a small or extended group so that certain powers can be extended to the leadership of that group. Where members are not free to pursue truth in tune with their own hearts and minds, there lies a sign that the group is more about consolidation of power than it is about the experience of truth. And that is most definitely harmful. It is, also, common found within the Christian community although not to as extreme an extent as this particular TV episode depicts in an invented religion.
It's literary, not literal.
Truth is poetic, if only anyone believed this...