It features stained glass windows by Charles Crodel, installed in 1956, and an organ by Karl Schuke from Berlin completed in 1961.

At the location of the present church, in Sachsenhausen on the Main, across the river from the Frankfurt Cathedral, a hospital chapel was consecrated to the Three Kings (Drei Könige) in 1340.

[1] The three Kings were the patron saints of travellers, and suitable for a city at the trade road along the Main.

In 1531, the city employed a third pastor, Peter Pfeiffer from the Barfüßerkloster, which ended the discrimination that Sachsenhausen Christians had felt for centuries.

Friedrich Heß, responsible for building in the city, voted for demolishing it and replacing it with a new church.

[2][5] Unlike other churches in Frankfurt, the Dreikönigskirche was not severely damaged by bombing during World War II.

[6] It was planned to correspond to the Cathedral tower and was at 80 m (260 ft) the second-highest building in the city at the time.

[5] Thomas founded an a cappella choir at the church, first called Chor der Dreikönigskirche, then Frankfurter Kantorei, which received international recognition.

[10][11] The choir performed the world premiere of Kurt Hessenberg's St Luke Passion at the Dreikönigskirche in 1978, initiated and conducted by Helmuth Rilling, also many Bach cantatas and compositions by Thomas.

On the first Sunday in Advent, Georg Böhm's cantata Nun komm, der Heiden Heiland was featured, with soloists Gabriele Hierdeis, Lieselotte Fink, Anne Bierwirth, Georg Poplutz and Markus Flaig, and the Telemann Ensemble Frankfurt, conducted by Andreas Köhs.

[15] In a service during Lent, they performed Telemann's cantata Ich will den Kreuzweg gerne gehen, composed while he was music director in Frankfurt, on 21 March 2021 with Johannes Hill as the soloist.