The Israeli side of the crossing, several hundred metres away, was not breached.
"The crossing will remain closed until the damages caused by the riots are repaired and will reopen in accordance with a situation assessment," an army statement said, saying the fuel terminal at the crossing had been rendered "totally unusable".
It accused the protesters of being "under the auspices of Hamas", the Islamist group that runs the Gaza strip, without providing evidence. The Palestinian body in charge of coordination at the crossing confirmed the closure.
Kerem Shalom is the only crossing open to transport goods into and out of Gaza, including fuel and food.
(This story has not been edited by Business Standard staff and is auto-generated from a syndicated feed.)