Xlink Analyzer: Software for analysis and visualization of cross-linking data in the context of three-dimensional structures
In: Journal of Structural Biology, , Heft 3, S. 177-183
Online
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Zugriff:
Structural characterization of large multi-subunit protein complexes often requires integrating various experimental techniques. Cross-linking mass spectrometry (XL-MS) identifies proximal protein residues and thus is increasingly used to map protein interactions and determine the relative orientation of subunits within the structure of protein complexes. To fully adapt XL-MS as a structure characterization technique, we developed Xlink Analyzer, a software tool for visualization and analysis of XL-MS data in the context of the three-dimensional structures. Xlink Analyzer enables automatic visualization of cross-links, identifies cross-links violating spatial restraints, calculates violation statistics, maps chemically modified surfaces, and allows interactive manipulations that facilitate analysis of XL-MS data and aid designing new experiments. We demonstrate these features by mapping interaction sites within RNA polymerase I and the Rvb1/2 complex. Xlink Analyzer is implemented as a plugin to UCSF Chimera, a standard structural biology software tool, and thus enables seamless integration of XL-MS data with, e.g. fitting of X-ray structures to EM maps. Xlink Analyzer is available for download at http://www.beck.embl.de/XlinkAnalyzer.html.
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Xlink Analyzer: Software for analysis and visualization of cross-linking data in the context of three-dimensional structures
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Autor/in / Beteiligte Person: | Kosinski, Jan ; Müller, Christoph W. ; Ori, Alessandro ; Alexander von Appen ; Karius, Kai ; Beck, Martin |
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Zeitschrift: | Journal of Structural Biology, , Heft 3, S. 177-183 |
Veröffentlichung: | The Authors. Published by Elsevier Inc. |
Medientyp: | unknown |
ISSN: | 1047-8477 (print) |
DOI: | 10.1016/j.jsb.2015.01.014 |
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