Data mining techniques to study the disulfide-bonding state in proteins: signal peptide is a strong descriptor.
In the eucaryotic cell, the formation of disulfide bonds takes place in general inside the endoplasmic reticulum which provides a unique folding environment. The DisulfideDB database gathers information about this biological process with structural, evolutionary and neighborhood information on cysteines in proteins. Mining this information with an association rule discovery program permits to extract some strong rules for the prediction of the disulfide-bonding state of cysteines.
Tessier
Dominique
D
Unité de Recherche sur les Protéines Végétales et leurs Interactions, INRA Rue de la Géraudière, BP 71627, 44316 Nantes Cedex 3, France. tessier@nantes.inra.fr
Bardiaux
Benjamin
B
Larré
Colette
C
Popineau
Yves
Y
D001665:Binding Sites; D003628:Database Management Systems; D030562:Databases, Protein; D004220:Disulfides / Q000737:chemistry / Q000378:metabolism*; D004282:Documentation / Q000379:methods; D004721:Endoplasmic Reticulum / Q000378:metabolism*; D016247:Information Storage and Retrieval / Q000379:methods*; D009323:Natural Language Processing; D011485:Protein Binding; D021382:Protein Sorting Signals / Q000502:physiology*; D020539:Sequence Analysis, Protein / Q000379:methods*; D013329:Structure-Activity Relationship
D004220:Disulfides; D021382:Protein Sorting Signals