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bioRxiv · 10.64898/2026.08.24.746624

reactifpTM: an accessible reimplementation of actifpTM

Simpkin, A. J.·Johnson, E.·Rigden, D.
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Abstract

Motivation: The actual interface pTM score (actifpTM) is a modified version of the ipTM score that limits the calculation to only those residues at the interface. Whilst actifpTM provides an effective interface quality score, a limiting factor is that it makes use of the predicted aligned error (PAE) with probabilities, information that is generated during a ColabFold run, but not output by the package or other model prediction software. The consequent inability to generate actifpTM scores for the results of software such as AlphaFold 2 or AlphaFold 3 has limited its adoption. With reactifpTM we address this problem by providing a standalone tool that can be run on the standard outputs of most model prediction packages. Results: Using the same underlying principles as actifpTM, reactifpTM has been developed to use standard output files from model prediction software (a model and corresponding PAE) to perform an actifpTM-like calculation. ColabFold models were generated for a dataset of 1079 known interfaces in the PDB. A strong correlation was shown between actifpTM and reactifpTM for this dataset. Availability and implementation: reactifpTM is coded in Python. All scripts and associated documentation are available from https://github.com/hlasimpk/reactifptm or https://pypi.org/project/reactifptm.

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Simpkin, A. J., Johnson, E., Rigden, D.. 2026-08-27. reactifpTM: an accessible reimplementation of actifpTM. https://doi.org/10.64898/2026.08.24.746624

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