Fatgraph Models of Proteins

Details Fatgraph Models of Proteins Fatgraph Models of Proteins

2009-02-06

arxiv.org/abs/0902.1025v2

Biology

Quantitative Biology

Biomolecules

32 pages, 12 figures

Scientific paper

We introduce a new model of proteins, which extends and enhances the traditional graphical representation by associating a combinatorial object called a fatgraph to any protein based upon its intrinsic geometry. Fatgraphs can easily be stored and manipulated as triples of permutations, and these methods are therefore amenable to fast computer implementation. Applications include the refinement of structural protein classifications and the prediction of geometric and other properties of proteins from their chemical structures.

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