LinX: A Software Tool for Uncommon Cross-Linking Chemistry
Language English Country United States Media print-electronic
Document type Journal Article, Research Support, Non-U.S. Gov't
- Keywords
- chemical cross-linking, data interpretation, high resolution, homo oligomers, mass spectrometry, nucleic acids, proteins,
- MeSH
- Algorithms MeSH
- Mass Spectrometry MeSH
- Peptides * MeSH
- Cross-Linking Reagents MeSH
- Software * MeSH
- Publication type
- Journal Article MeSH
- Research Support, Non-U.S. Gov't MeSH
- Names of Substances
- Peptides * MeSH
- Cross-Linking Reagents MeSH
Chemical cross-linking mass spectrometry has become a popular tool in structural biology. Although several algorithms exist that efficiently analyze data-dependent mass spectrometric data, the algorithm to identify and quantify intermolecular cross-links located at the interaction interface of homodimer molecules was missing. The algorithm in LinX utilizes high mass accuracy for ion identification. In contrast with standard data-dependent analysis, LinX enables the elucidation of cross-linked peptides originating from the interaction interface of homodimers labeled by 14N/15N, including their ratio or cross-links from protein-nucleic acid complexes. The software is written in Java language, and its source code and a detailed user's guide are freely available at https://github.com/KukackaZ/LinX or https://ms-utils.org/LinX. Data are accessible via the ProteomeXchange server with the data set identifier PXD023522.
References provided by Crossref.org
Multivalency of nucleosome recognition by LEDGF
