• Discovering Undetected Peptide Modifications

Laboratory Products

Discovering Undetected Peptide Modifications

Jan 15 2010

Shimadzu Scientific Instruments introduced PTM Finder™ software, which uses data mining to investigate post-translational modifications in complex protein samples, including data for hypothetical, novel modifications. The software is designed to integrate with Shimadzu’s AXIMA™ line of MALDI mass spectrometers.

With PTM Finder software, users can identify peptide sequences carrying one or more modifications using MS/MS data. The software facilitates consecutive Mascot searches using all the functionality of MS/MS Ion Search.

Peptides that do not match any proteins during the searches are directed toward a ‘PTM Define’ module where users define their own hypothetical modifications and screen the remaining MS/MS data for specific shifts in fragment masses, neutral losses and/or diagnostic ions. Such searches are quick and thorough, as they are performed based on a reduced database of protein sequences.

Users can easily import amino acid sequences with a simple copy/paste function or use the proteins derived from the initial Mascot
search results, giving more flexibility to search for PTMs whether or not they know the protein they are using.

Digital Edition

International Labmate Buyers Guide 2022

June 2022

In This Edition Evaluation of Recovery of Basic Analytes Using a Mixed-Mode Strong Cation Exchange SPE Microplate by HPLC-MS The Benefits of SEC-MALLS in Biopharmaceutical Applications...

View all digital editions


AACC Annual Meeting & Clinical Lab Expo

Jul 24 2022 Chicago, IL, USA

ICMGP 2022

Jul 24 2022 Virtual event

ACS National Meeting & Expo, Fall 2022

Aug 21 2022 Chicago, IL, USA & Online


Aug 22 2022 Frankfurt, Germany

IMSC 2022

Aug 27 2022 Maastricht, Netherlands

View all events