The scuffles broke out after Egypt said it would not allow 59 humanitarian assistance trucks of the Viva Palestina convoy to enter Gaza.
Talks in which a delegation of Turkish lawmakers sought to convince Egyptian officials to change their minds proved fruitless.
The convoy arrived in El-Arish to attempt to break the siege of Gaza.
Earlier, Cairo had said it would only allow 157 members of the Viva Palestina convoy, which is led by British politician George Galloway, to drive to Gaza. However, later the Egyptian government agreed to allow 400 of the group's volunteers entry to the Gaza Strip.
The convoy has over 200 vehicles laden with basic food items and medical supplies.
Presstv