Learn about the side effects of pantoprazole, from common to rare, for consumers and healthcare professionals. Pantoprazole (Protonix) is a medication that treats conditions that cause too much stomach acid, like heartburn, stomach ulcers and reflux disease. Pantoprazole is used to treat damage from gastroesophageal reflux disease (GERD), a condition in which backward flow of acid from the stomach causes heartburn and possible injury of the esophagus (the tube between the throat and stomach) in adults and children 5 years of age and older. Pantoprazole oral tablet is used to reduce excess acid caused by conditions such as GERD. Learn about side effects, warnings, dosage, and more. Pantoprazole is a proton pump inhibitor that decreases the amount of acid produced in the stomach. Pantoprazole is used to treat erosive esophagitis (damage to the esophagus from stomach acid caused by gastroesophageal reflux disease, or GERD) in adults and children who are at least 5 years old. Pantoprazole is used to treat certain stomach and esophagus problems (such as acid reflux). It works by decreasing the amount of acid your stomach makes. This medication relieves symptoms such as heartburn, difficulty swallowing, and persistent cough. Pantoprazole is only indicated for the short-term treatment of erosive esophagitis in children ages seven and older; and the safety and effectiveness of pantoprazole have only been established in the treatment of erosive esophagitis in children. This medicine may also be used to treat Zollinger-Ellison syndrome, a condition where the stomach produces too much acid. Pantoprazole is a proton pump inhibitor (PPI). It works by decreasing the amount of acid produced by the stomach. This medicine is available only with your doctor's prescription. It's used to treat symptoms of gastroesophageal reflux disease (GERD) in adults and children. It's also used to treat other conditions involving too much stomach acid, such as erosive esophagitis, in adults only. Pantoprazole (Protonix) is taken by mouth, typically once daily for most conditions. Find patient medical information for Pantoprazole (Protonix) on WebMD including its uses, side effects and safety, interactions, pictures, warnings, and user ratings.