Variable Modifications for Intact and Peptide Analysis pane parameters and commands - BioPharma Finder Software - Intact Mass Analysis User Guide - Assign modifications to a protein sequence - Create protein sequences - Manage variable modifications - Variable Modifications for Intact and Peptide Analysis pane parameters and commands - BioPharma Finder Software

Variable Modifications for Intact and Peptide Analysis pane parameters and commands - BioPharma Finder Software - Intact Mass Analysis User Guide - Assign modifications to a protein sequence - Create protein sequences - Manage variable modifications - Variable Modifications for Intact and Peptide Analysis pane parameters and commands - BioPharma Finder Software - BioPharma Finder Software

Intact Mass Analysis User Guide

Product Tree

Ardia Platform > Software > BioPharma Finder Software

Desktop Software > BioPharma Finder Software

Document Type

User Guide

Software version

5.3

The following table describes the parameters in the Variable Modifications for Intact and Peptide Analysis pane in the Protein Sequence Editor.

Variable Modifications for Intact and Peptide Analysis pane parameters
Parameter	Description
Max # Modifications area
Intact Protein	Displays the maximum number of variable modifications to assign to the protein sequence for Intact Mass Analysis. Range: 0 to 10; default value: 2 The maximum number of modifications does not include glycosylations.
Peptide Mapping	Displays the maximum number of variable modifications to assign to the protein sequence for Peptide Mapping Analysis. Range: 0 to 8; default value: 1 The maximum number of modifications does not include glycosylations.
Glycosylation area
N, O Glycan (dropdown list)	Specifies the glycan database (if any) to use in the glycosylation search: None (default) CHO Human Note: The application supports N-linked glycans for both Peptide Mapping Analysis and Intact Mass Analysis, but O-linked glycans are included for Peptide Mapping Analysis only.
Modifications/Modifications Selected for Search area
Modifications (left side panel)	Lists the N-terminal, C-terminal, and side-chain modifications available to assign to the protein sequence.
Modifications Selected for Search (right side panel)	Lists the N-terminal, C-terminal, and side-chain modifications currently assigned to the protein sequence.
Mono. Mass	Displays the monoisotopic mass of the selected modification.
Avg. Mass	Displays the average mass of the selected modification.
Residues (Side Chain area)	Displays the amino acid letter code(s) for the residue(s) associated with the selected modification.

The following table describes the commands in the Variable Modifications for Intact and Peptide Analysis pane in the Protein Sequence Editor.

Variable Modifications for Intact and Peptide Analysis pane commands
Button	Description
Add	Adds the selected modification to the Modifications Selected for Search list.
Remove	Removes the selected modification from the Modifications Selected for Search list.
Load Default Mods	Quickly loads the (editable) default sublist of modifications into the Modifications Selected for Search list.