ProSight PTM: An integrated environment for protein identification and characterization by top-down mass spectrometry

Richard D. LeDuc, Gregory K. Taylor, Yong Bin Kim, Thomas E. Januszyk, Lee H. Bynum, Joseph V. Sola, John S. Garavelli, Neil L. Kelleher*

*Corresponding author for this work

Research output: Contribution to journalArticlepeer-review

158 Scopus citations

Abstract

ProSight PTM (https://prosightptm.scs.uiuc.edu/) is a web application for identification and characterization of proteins using mass spectra data from 'topdown' fragmentation of intact protein ions (i.e. without any tryptic digestion). ProSight PTM has many tools and graphical features to facilitate analysis of single proteins, proteins in mixtures and proteins fragmented in parallel. Sequence databases from across the phylogenetic tree are supported, with a new database strategy of 'shotgun annotation' used to assist characterization of wild-type proteins. During a database search, data from divergent sources regarding potential mass differences such as polymorphisms, alternate splicing and post-translational modifications are utilized. The user can optionally control how much of this biological variability should be searched.

Original languageEnglish (US)
Pages (from-to)W340-W345
JournalNucleic acids research
Volume32
Issue numberWEB SERVER ISS.
DOIs
StatePublished - Jul 1 2004

ASJC Scopus subject areas

  • Genetics

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