No... that will give you Lion and not Mountain Lion.
When you do a command-r boot with a blank drive the system will default to a firmware (EFI) boot and Internet Recovery. Internet Recovery is going to install Lion since that is what your serial number is tied to and your computer came with Lion. AFTER you install Lion you will be able to go to the App Store and DL and install Mountain Lion.
You can read more about it
here.
The easier route would be for you to DL Mountain Lion now before you swap the drive and make yourself a USB key installer using
this free app. Then boot to the USB key after you install the new drive and install Mountain Lion from there.