Freiermuth will get season-ending surgery to deal with an injury he suffered against Ohio State.
Penn State falls to 0-5 for the first time in program history.
Levis was named the starting signal-caller just minutes before the Nittany Lions' week five contest.
Penn State is a one-point home underdog against the Hawkeyes.
The allegations filed by former defensive back Isaiah Humphries are contained in a report that was part of a Title IX inquiry into sexual assault allegations in Penn State's locker room last year.
Iowa's improved rushing attack and defense could cause some issues for the Nittany Lions Saturday.