Email notifications from web apps have been annoying us for months now. Ever since Twitter, Facebook and other notification-heavy apps began automatically sending notifications to us (alas, without our consent), public opinion seems to have developed a hatred for email notifications. But, I implore you, understand the flipside:
Email notifications in web apps is a way of unifying one's virtual "inbox". Dealing with too many is overwhelming.
Keep email notifications around.
(But, for pete's sake, ask your users whether they want email notifications before you activate them for their accounts.)