Hi Hebi,
You're not referring to a cross brace right? Because if you're, those things help to relieve the stress on the 'walls' of your tank, removing them would weaken your tank.
If the piece of glass serves no other purpose other than for lights (unlikely, so best if you could post a picture for the rest to confirm before you go ahead), then it should be easy to remove, just use a cutter blade and gently slice the silicon off.
Another way to fit large piece of wood, saw it, then arrange in in your scape so the break isn't that obvious, this is a compromise.
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