I'd put a prime Hakeem or a late 90s/early 2000s Shaq against any center in any era. They'd more than hold their own IMO.
Hakeem is the most skilled center ever with great size and agility to go with it, Shaq is the most relenetlessly powerful center ever even Wilt said he would not attack the rim the way Shaq does.
All the great centers in the 90s would hold their own in any era. 7 foot and taller men that can play basketball at a high level are rare. The 90s for some reason had a high number of those people. I dont think its a change of style that is affecting this . There just hasnt been a player with the right body and skill.