I think to get a full sense for it, you'd also need to calculate in effective block rate/amount and effective parry rate when geared in BiS gear. I think a lot of people underestimate the usefulness of Block and Parry as a means to mitigation, simply because they aren't "reliable" enough to guarantee mitigation against tankbusters. Though finding the effective mitigation value might not be so straightforward, since the calculations themselves are based on so many factors. This is further complicated by the fact that FFXIV doesn't have a lot of tank damage going out in general, and so RNG mitigation isn't nearly as valuable. Even further troubling is the block strength stat varying from shield to shield.
I think that when you account for the mitigation accomplished by shields, PLD will generally take less damage. Even if the effective block rate is only 25%/25%, that's still an extra 6.75% of incoming physical damage that is mitigated (parry is similar, only you don't have to worry about the strength of the parry: 25% parry is 5% physical damage, not accounting for Crit). The problem is that white damage isn't what will kill you. Without tankbusters, it would probably only take a 160 tank to survive the damage ticks in most of Alexander Savage (I'm pulling this out of thin air, but the autoattacks didn't seem to hurt that much). What will kill you is the tankbuster that hits for 35k(?) raw damage when unmitigated.
So in reality, yes, PLD does take more damage, because they have the poorest ability to mitigate special attacks, and are built around physical-damage-intensive mitigation. If there was a fight that dealt 1000 physical damage every half second, PLD would reign supreme. It may be advisable to add in a calculation for magic damage, since a number of the abilities won't work for that. Dark Arts also does some interesting things to cooldowns, making some of them stronger, but isn't up 100% of the time, which further obfuscates the calculation.
Your calculation also assumes 100% usage of all cooldowns, and doesn't account for cross-class skills as of my writing this reply.