Shots were fired near the Qalandiya checkpoint north of Jerusalem on Wednesday evening, presumably by Palestinian gunmen.
No injuries or damage were reported.
IDF troops began searching the area for the perpetrators.
The IDF denied reports that it had closed the crossing, which links Jerusalem to Ramallah, following the incident.
Shots were also fired at the area Monday night. There were no injuries in that incident either.
Earlier Wednesday a car parked outside the Tomb of the Patriarchs was damaged when it was hit by an errant bullet.
On Wednesday morning, an IDF soldier was seriously injured in a stabbing attack at the al-Fawwar Junction southwest of Hebron.
The soldier, who is in his 20s, was stabbed in his upper body. He was evacuated by Magen David Adom medics to Jerusalem’s Shaare Zedek Hospital in serious condition, according to a first responder.
MDA head Eli Bin told Israel Radio he spoke to the victim, who was conscious but at risk of his condition deteriorating quickly.
The attacker was shot and later died of his wounds.
The Palestinian Ma’an news agency identified the stabber as 19-year-old Muhammad Ismail Shubaki, a student at the Palestine Technical College.
Clashes between troops and Palestinians briefly broke out at the site after the attack, according to news site Ynet.