Even if the Time Rule does not inherently counter other rules, when wielded adeptly, the Time Ability undoubtedly has the potential to suppress any rule.
Every rule, regardless of its manifestations, undeniably relies on the forces of Space and Time. Under those circumstances, Zhou Tian can leverage the Time Ability to interfere with the opponent's rule-based powers. Even if it doesn't inherently counter the opponent, it can decisively dismantle their ability.
In truth, when Zhou Tian applied his Time Ability to the enemy's defenses, he immediately used it to disrupt their defensive power. Though the difficulty was considerable, by acting with full strength, Zhou Tian forcibly used the Time Ability to revert the opponent's attack back to a moment before it was initiated.
No matter what tactics the deity employed, when Zhou Tian reset the timeline to a point where the attack hadn't commenced, the defensive measures that should've appeared were rendered impossible.