The Modification Sites node creates a list of all PTM sites found in the result. Each modification in the result table contains a Modification type, site location probability, position on peptide and protein sequence, and the local sequence motif.

The following table describes the parameters for the Modification Sites node.

Modification Sites node parameters

Parameter

Definition

Report only PTMs

If set to true, only modifications marked as PTMs are listed in the result.

Only Master Proteins

If set to true, the modification sites in proteins are only reported for master proteins.

Motif Radius

The length of the sequence motif. The motif is the sequence before and after the modified residue, ignoring cleavages by the cleavage reagent. The radius value specifies the number of residues before and after the modified amino acid.