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. 2006 Jul 1;34(Web Server issue):W177-81.
doi: 10.1093/nar/gkl266.

DISULFIND: a disulfide bonding state and cysteine connectivity prediction server

Alessio Ceroni  1 , Andrea Passerini, Alessandro Vullo, Paolo Frasconi
Affiliations

DISULFIND: a disulfide bonding state and cysteine connectivity prediction server

Alessio Ceroni et al. Nucleic Acids Res. .

Abstract

DISULFIND is a server for predicting the disulfide bonding state of cysteines and their disulfide connectivity starting from sequence alone. Optionally, disulfide connectivity can be predicted from sequence and a bonding state assignment given as input. The output is a simple visualization of the assigned bonding state (with confidence degrees) and the most likely connectivity patterns. The server is available at http://disulfind.dsi.unifi.it/.

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Figures

Figure 1
Figure 1
Architecture of the bonding state predictor. The lower level provides independent cysteine predictions based on a local kernel kl on local attributes, and a global kernel kg on the entire sequence. The upper level is a BRNN (represented here schematically by its graphical model) that outputs a disulfide-bonding probability p(di) for each cysteine, based on all SVM predictions.
Figure 2
Figure 2
Finite state automaton used in the final stage of bonding state prediction.
Figure 3
Figure 3
Screenshot of the DISULFIND input form.
Figure 4
Figure 4
DISULFIND output.
Figure 5
Figure 5
Accuracy versus rejection rate of the abstaining bonding state predictor for different confidence cutoff values (the rejection rate is the fraction of cysteines that are predicted at a confidence level below the cutoff value shown at the right of each point in the curve).
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