Home

Calculator

Histone Browser

Protease Cleaver

Manual

Appendix

About

Post-Translational Modifications (POTAMOS) Mass Spectrometry Calculator is a free web application that simplifies mass spectrometry calculations for post-translationally modified proteins. It consists of three interacting parts:

• Calculator can predict all possible numbers of combinations between methylations, acetylations or phosphorylations present in any peptide provided a mass value is given.
• Histone Browser contains a collection of histone variants comprising of the most frequently studied organisms in the lab. It can calculate the mass of either the whole protein or a fragment of it. It is also possible to add any number of manually controlled post-translational modifications chosen from a limited repertoire of them. These are methylation, acetylation or phosphorylation.
• Protease Cleaver can cleave any aminoacid sequence by using a protease from a given list and then calculate the masses of the resulting fragments.

For more details on each part, please refer to the Manual.

An example of the usage of POTAMOS:
Calculation of mass and charge of a modified oligopeptidic sequence of an H3 histone protein (left). The respective structure (right) was produced by VMD and it is based on the PDB structure of HP1 bound to H3 histone (code: 1KNE). Only the H3 oligopeptide is shown.

This application was developed by A. Vlachopanos (T.E.I. of Epirus).
Contact: Dr. G. Papamokos [gpapamokos_at_seas.harvard.edu], A. Vlachopanos [avlachopanos_at_gmail.com] .
Research team: A. Vlachopanos, T.E.I. of Epirus, Dr A. Soupsana, School of Medicine - University of Ioannina, IMBB-FORTH, As.Prof. A. Politou, School of Medicine - University of Ioannina, IMBB-FORTH, Dr. G. Papamokos (P.I.), Associated Researcher at Department of Physics - Harvard University, School of Medicine - University of Ioannina, IMBB-FORTH, T.E.I. of Epirus.
POTAMOS is free to use but please include citation to any published work containing results using this application.
POTAMOS is hosted on the Harvard School of Engineering and Applied Sciences cloud infrastructure.
How to cite: A. Vlachopanos, E. Soupsana, A.S. Politou, G.V. Papamokos, POTAMOS mass spectrometry calculator: Computer aided mass spectrometry to the post-translational modifications of proteins. A focus on histones., Computers in Biology and Medicine, Volume 55, Pages 36–41, December 1, 2014
DOI: http://dx.doi.org/10.1016/j.compbiomed.2014.10.002 "The “ELIXIR-GR: Managing and Analysing Life Sciences Data (MIS: 5002780)” project is co-financed by Greece and the European Union - European Regional Development Fund"