Nehemiah 2:3 And said unto the king, Let the king live for ever: why should not my countenance be sad, when the city, the place of my fathers' sepulchres, lieth waste, and the gates thereof are consumed with fire?
Nehemiah 2:5 And I said unto the king, If it please the king, and if thy servant have found favour in thy sight, that thou wouldest send me unto Judah, unto the city of my fathers' sepulchres, that I may build it.
Godly Nehemiah had a special regard for Jerusalem because it was the city that was the place of his father's tombs.
Many of the choicest servants of God (for example, Hezekiah, Josiah, John the Baptist) have been buried in Jerusalem. For those of us who believe (rightly) in the biblical teaching of the future bodily resurrection of the dead, it seems to me that Jerusalem (and Israel, more broadly speaking) is still a special place to God because so many of His choicest servants have been buried there.