Reference: Natively Supported Modifications

InstaNovo has been trained to recognize a set of common post-translational modifications (PTMs). This document lists the modifications that are natively supported by the pre-trained models.

Amino Acid	Single Letter	Modification	Mass Delta (Da)	Unimod ID
Methionine	M	Oxidation	+15.9949	UNIMOD:35
Cysteine	C	Carboxyamidomethylation	+57.0215	UNIMOD:4
Asparagine, Glutamine	N, Q	Deamidation	+0.9840	UNIMOD:7
Serine, Threonine, Tyrosine	S, T, Y	Phosphorylation	+79.9663	UNIMOD:21
N-terminal	-	Ammonia Loss	-17.0265	UNIMOD:385
N-terminal	-	Carbamylation	+43.0058	UNIMOD:5
N-terminal	-	Acetylation	+42.0106	UNIMOD:1

The residue configuration can be found in the instanovo/configs/residues/extended.yaml file.