I faced a similar problem, but I also wanted to place my final (longer) equation in a box. For boxes in align I used \Aboxed from mathtools. Using the concept from the solution by @Werner above, I found a solution for a center, aligned around '=', boxed equation, which is to place on each side of the equation the text of the other side as \phantom text. That way, the equation can become symmetrical, without using \rlap which messes with the box.
I know this is not exactly what the original post asked for, but I think it would be a very useful addition, since there aren't many posts available discussing the center aligned concept.
Also, I have included, as an extra, a simple way to increase \Aboxed padding, which I could not find anywhere online. The idea is to use one 0-widht-rule for y padding, and two 0-height-rules for x padding. The offset should be placed at minus half the font size, in my case that is 12pt/2=-6pt.
As for the y padding, 20pt occured because I want 4pt above, and for pt below. That gives me 4pt+4pt+12pt = 20pt, where 12pt is the font size.
Here is my MWE:
\documentclass[12pt]{article}
\usepackage{lipsum}% http://ctan.org/pkg/lipsum
\usepackage{amsmath}% http://ctan.org/pkg/amsmath
\usepackage{mathtools} % for Aboxed, to box in alignat environment
\begin{document}
\lipsum[2]
\begin{align*}
-3z &= -9 \\
z &= 3 \\
-3y-3*3 &= 3 \\
y &= -4 \\
2x+8*(-4)+4*3 &= 2 \\
x &= 11
\end{align*}
\lipsum[2]
\begin{align}
-3z &= -9\nonumber \\
z &= 3\nonumber \\
-3y-3*3 &= 3\nonumber \\
y &= -4\nonumber \\
\phantom{2\implies} \Aboxed{\rule[-6pt]{4pt}{0pt}2x+8*(-4)+4*3 &=\rule[-6pt]{0pt}{20pt}2\rule[-6pt]{4pt}{0pt}}\phantom{2x+8*(-4)+4*3 \implies}
\end{align}
\end{document}
And here is the result I wanted to achieve:
