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Problem and Solution on Calculating TM-score for protein/RNA/DNA Structures

TM-score is a metric for assessing the structural similarity of proteins and RNAs. Despite the simplicity in concept, there are numerous occasions when the TM-score was incorrectly calculated. In this page, we highlight the most frequent problem and design solutions to facilitate the calculation of TM-score.

(1) What is the most frequently seen problem of calculating TM-score between a predicted structure model and its native structure?

(2) How to correctly calculate the TM-score between the model and native structures?

(3) What is the difference between TM-score calculated by the above methods and TM-score calculated by the default option of US-align, TM-align or RNA-align?

Back to the TM-score homepage

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