The cathedral has four facades which contain portals flanked with columns and statues. The two bell towers contain a total of 25 bells. The tabernacle, adjacent to the cathedral, contains the baptistery and serves to register the parishioners. There are two large, ornate altars, a sacristy, and a choir in the cathedral.
Fourteen of the cathedral's sixteen chapels are open to the public. Each chapel is dedicated to a different saint or saints, and each was sponsored by a religious guild. The chapels contain ornate altars, altarpieces, retablos, paintings, furniture and sculptures. The cathedral is home to two of the largest 18th century organs in the Americas. There is a crypt underneath the cathedral that holds the remains of many former archbishops. Over the centuries, the cathedral has suffered damage. A fire in 1962 destroyed a significant part of the cathedral's interior. The restoration work that followed uncovered a number of important documents and artwork that had previously been hidden. Although a solid foundation was built for the cathedral, the soft clay soil it is built on has been a threat to its structural integrity. Dropping water tables and accelerated sinking caused the structure to be added to the World Monuments Fund list of the 100.