Indeed....although the buttons (or lack of) were one of the reason I started to outgrow it. The funtionality (or a lot of it anyway) is there in the menus though.
I would think as a beginner for the first while you wouldnt really need to worry about a lot of it anyway.
You can also assign a button/Fn button to a task. My other reason for upgrading was to get usable ISO above 800 and also a higher fps, and larger buffer - was missing a few shots of the kids as the buffer would fill after only a couple of shots

.....takes about 12 seconds to flush which is a lifetime when you are waiting!
Dont let that put you off though, I was using the camera for 2 years before that started to annoy me

Will easily keep you going for a while. Put it this way, I went to a D90 (just last month) which is about 5 year old tech, and offers me all of the above that I was wanting, so again, I never saw the reason to get the 'latest and greatest'...will keep me going for another few years hopefully. You will come to realise that the after a few 'basic' essentials in the body, the lens and the light (along with composition etc) is very important and what really matters.
Dont listen to Ken Rockwell either on this one (I agree with some of his stuff), but he is wrong when he says it's the worst camera Nikon have produced. (If you havent came across him yet

)
My the D90 doesnt necessarily produce 'better' photos, it does make it easier, or increase the chances of a better photo if that makes sense and I have noticed this a lot just since I've had it....just bear in mind photography does also attract 'gadget geeks' who 'need' the latest, and dont let anyone tell you the D3000 isnt good - I'm still precious about mine