If all the peptide bonds of protein are broken, then the remaining part is : 1st March 2022 spadmanabh009 Biochemistry 0 [wp_quiz id=”14400″] A polypeptide or protein is made up of amino acids. These amino acids are joined to one another by a peptide bond. In a polypeptide/protein, if all the peptide bonds are broken, the remaining part left is the amino acids.