Improved application of the oscillating method for the isoelectric point determination of protein: Potential connection with protein data banks

descriptionPublicationkeyboard_double_arrow_right Article 01 Jan 2008 English Publisher:Elsevier BVJournal:Computers in Biology and Medicine, volume 38, pages 23-30 (issn: 0010-4825,

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Authors: Andrés Maldonado; Francisco Vara; Antonio Sillero;

doi: 10.1016/j.compbiomed.2007.06.004

pmid: 17655838

handle: 10261/81954

Improved application of the oscillating method for the isoelectric point determination of protein: Potential connection with protein data banks

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Abstract

The oscillating method (OM) for the theoretical determination of the pI values, one by one, of proteins and other macromolecules has been previously published [Sillero and Maldonado, Comput. Biol. Med 36 (2006) 157-166]. An improved application of the method, here named as improved oscillating method (IOM), allows the pI determination of group of proteins. This characteristic may be useful to explore the pI value and electric charge of family of enzymes. As an example the pI values of 1630 enzymes collected in a Swiss-Prot data bank (www.expasy.org), as belonging to the enzymes ligases (EC 6. 2. 1. *) is presented. The method also permits the determination of the pI value of any group of proteins stored in data banks provided that they can be supplied to the program in a FASTA format. Free access to IOM can be reached at http://www.bq.uam.es/otros/pical3.zip.

Related Organizations

Spanish National Research Council
Spain

Keywords

Internet, Static Electricity, Computational Biology, Proteins, Hydrogen-Ion Concentration, User-Computer Interface, Isoelectric Point, Amino Acids, Databases, Protein, Software

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