Protonix (Pantoprazole) Dosage and Side Effects PROTONIX is a prescription drug used as a short-term treatment for gastroesophageal reflux disease (GERD). PROTONIX may also be used for a longer period of time for maintenance or healing of erosive esophagitis, and to treat conditions where the stomach produces too much acid, such as … Continue reading Protonix (Pantoprazole)