Supporters of Morsi, who was overthrown in July by military, tried to gather on Cairo's iconic Tahrir Square when police confronted them.
More than 423 members of the Muslim Brotherhood were arrested in Cairo, where most of the deaths were reported.
According to Ahmed al-Ansari, a top official of Egypt’s Health Ministry, at least 45 people died in Cairo and several others lost their lives south of the capital.
Ansari added that “majority of the deaths were caused by bullets and birdshots.”
Police also fired shots and used teargas to disperse protesters in central Cairo.
Meanwhile, the Anti-Coup Alliance, which includes Morsi's Muslim Brotherhood, has called for more protests this week and urged students across universities and schools in Egypt to protest on Tuesday against what it called the “continuing massacres.”
“The alliance holds coup authorities and the military-appointed government fully responsible for all the blood of Egyptians being spilt right now, and for every Egyptian killed on this day,” the alliance said in a statement.
Egypt has been experiencing unrelenting violence since July 3, when the army ousted Morsi, suspended the constitution, and dissolved the parliament. It also appointed the head of the Supreme Constitutional Court, Adly Mahmoud Mansour, as the new interim president.
The government of Mansour has launched a bloody crackdown on Morsi supporters and arrested more than 2,000 Brotherhood members, including the party’s leader, Mohamed Badie, who was detained on August 20.
About 1,000 people were killed in a week of violence between Morsi supporters and security forces after police dispersed their protest camps in a deadly operation on August 14.
The massacre sparked international condemnation and prompted world bodies to call for an independent investigation into the violence.
RA/SHI