Other mistake: When the Doctor pulls Zoe and Jamie back into the TARDIS, look at the scanner screen. It has the words 'Producer Peter Bryant' written on it.
Other mistake: The Master says he wrote 5,000 words a week for 25 years and Zoe says "but that's over half a million words." Yes it is, to be exact, six and a half million words. (5,000 x 52 x 25 = 6,500,000).
Answer: It was never destroyed on-screen; it was intact at the end of the TV movie, and destroyed by the start of the 2005 series. It was destroyed in the novel "The Ancestor Cell," but in a completely different manner to what happened in the series.
DaveJB