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Background: We have previously published a software tool for the analysis of the environments around protein post-translational modification on a sequence-driven basis. This article describes advances to this tool, primarily focused on methods of describing the spatial relationships between post-translational modifications on a 2D and 3D basis.
Results: We show that we are able to extract meaningful information about protein modification distributions and inter-relationships using this software. We show examples of modification clustering relationships based on our own data, and discuss the potential use of this and similar tools in the future.
Conclusions: We anticipate that this tool will be useful in describing how and when post-translational modifications are deployed by cells, thereby revealing novel aspects of cellular regulation.
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