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2004

Large-Scale Prediction of Disulphide Bond Connectivity

9 years 23 days ago
Large-Scale Prediction of Disulphide Bond Connectivity
The formation of disulphide bridges among cysteines is an important feature of protein structures. Here we develop new methods for the prediction of disulphide bond connectivity. We first build a large curated data set of proteins containing disulphide bridges and then use 2-Dimensional Recursive Neural Networks to predict bonding probabilities between cysteine pairs. These probabilities in turn lead to a weighted graph matching problem that can be addressed efficiently. We show how the method consistently achieves better results than previous approaches on the same validation data. In addition, the method can easily cope with chains with arbitrary numbers of bonded cysteines. Therefore, it overcomes one of the major limitations of previous approaches restricting predictions to chains containing no more than 10 oxidized cysteines. The method can be applied both to situations where the bonded state of each cysteine is known or unknown, in which case bonded state can be predicted with 8...
Pierre Baldi, Jianlin Cheng, Alessandro Vullo
Added 31 Oct 2010
Updated 31 Oct 2010
Type Conference
Year 2004
Where NIPS
Authors Pierre Baldi, Jianlin Cheng, Alessandro Vullo
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