When I take my SLR out of my bag, the lens is always pulled out by the upside down hood. Will this affect the camera? - -

It has little impact on the camera. If it continues like this, it will have some impact on the lens. Why not take off the hood and lens, it will be easier to carry. Everything is the same. As long as the user is intentional or careful, a lot of losses can be reduced. Here are some personal suggestions.