Zaki missed out on his country's victorious CAF Africa Cup of Nationscampaign through injury but has returned to the fold. Al Ahly attacker Mohamed Aboutrika also returns from injury.
Zaki is the only Barclays Premier League player involved as there is still no place for West Ham's Mido.
The rest of Hassan Shehata's squad remains the same as those who lifted the Cup of Nations last month.
Egypt, who are the highest-ranked side not to qualify for this summer's FIFA World Cup, face England at Wembley on Wednesday.