Table 1.

Comparison of MAHOMES performance to similar tools that make enzymatic and non-enzymatic predictions.

Method	Predictions by	Evaluation set	Accuracy (%)	Precision (%)	Recall (%)
MAHOMES (this paper)a	Metal-binding site	Corrected T-metal-site	94.2	92.2	90.1
DeepECa16	Sequence	T-metal-seq	69.9	59.6	90.5
DEEPrea44	Sequence	T-metal-seq	90.1	81.3	100.0
EFICAz2.5a45	Sequence	T-metal-seq	90.8	88.4	90.0
PREvaILb21	Residue	T-124 set	96.8	14.9	62.2
CRHunterb22	Residue	T-124 set	98.6	28.6	48.8
CRPredb24	Residue	T-124 set	97.3	14.7	50.1

True positive, true negative, false positives, and false negatives for the MAHOMES and the three enzyme function predictors in Supplementary Table 2.

^aThe enzyme function predictors evaluated on a comparable set to MAHOMES.

^bThe enzyme site predictors previously tested on the independent, holdout T-124 set²⁴.