For instance... did the George Pal film version of "War of the Worlds" use a "hammer striking high-tension wire" effect? Quite possibly, but Star Trek didn't use the same sound (ie, not the same tape) but a different, newly-recorded sound, using a different hammer, a different wire, etc, etc, and processed it in a different way.
Quite right. The sound of the green energy bolts fired from the tips of the Martian War Machines is much the same as the photon torpedo sound effect, but not exactly the same.
However, the whistling/warbling sound of the War Machines' levitation (the one sound that constantly accompanies them whenever they appear in the film) sounds similar enough to a low-pitched version of the phaser warble that I suspect it's the same recording played at a lower speed. The phaser sound is actually a recording of a swarm of locusts stridulating, I believe.