It could be fear, although it could also be genetic. But, at least you've got a sensible attitude about what you want out of the doe. She will probably never be a cuddly bun, but you could probably hammer out a working arrangement between the two of you.
We have angoras and they require a lot of hands on work, but I don't demand that they like it or even act happy about it. They have to tolerate it and I'm bigger than they are so they get the idea really quick. We've been breeding for good temperament so now most of them are pretty human friendly, but when we started, there was the occasional bun that wasn't very happy about humans. At the moment, we have one who gets scared easily and will act crazy out of fear but that's lessened with training and age. That one won't be bred much, either.
Give her a roomy enough cage that she's not just in one spot, but a cage where you can easily reach her no matter where she goes. She should have a place to hide in there and try not to ever haul her out of her hide, but it's not sacred, either so if you have to do it, do it anyway.
If she lunges and growls at you when you walk past the cage, stamp at her and go towards her until she backs down. If she is still in your face when you're up to her hutch, pick her up and keep her restrained in a football hold or some other 'can't move' situation. Maybe roll her in a towel if she's really crazy. Hold her until she stops struggling, then put her back in her hutch and feed her a treat.
If she doesn't stop struggling, roll her upside down and keep her restrained until she stops. When she does any sort of good behavior, give her a treat.
When I"m grooming the angoras, if they misbehave, that's when they get their toenails clipped. If they behave through the whole grooming session, then toenails are done last, followed by a massage (they like their ears scritched and a neck rub) and then a treat and then back home again. Reward good behavior, punish bad behavior. Of course, this then puts toenail clipping into a punishment, but it's gotta be done and may as well use it as a training tool if necessary.
If she bites, thump her on the nose. A solid, yet not too painful thump. Mostly it's to startle them, not hurt them. And immediately, not two minutes later. They don't have much vision directly in front of their nose, so all they know is they bite and then something thumps their nose. They learn pretty quickly, most times one thump will give them the idea that biting is a bad idea.
It can also be territorial, bunnies are territorial. Switch her to a different space and see if she doesn't defend it as much.
You'd probably want to breed her to an experienced buck, she may be aggressive to other bunnies, too. Worst case scenario, get one litter from her and then invite her to dinner. Cull her offspring for temperament.
The bunnies here get gentle yet firm handling. The ones who respond in a friendly manner get treats, ear scritches and neck rubs, the unfriendly ones get left alone unless there's something that needs to be done and then they get to tolerate it. Those aren't the ones chosen for breeding unless there's some other characteristic they have that we want bred into the herd.