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Comparative analysis of amino acid distributions in integral membrane proteins from 107 genomes
Linköping University, The Institute of Technology. Linköping University, Department of Physics, Chemistry and Biology, Bioinformatics .
2005 (English)In: Proteins: Structure, Function, and Genetics, ISSN 0887-3585, Vol. 60, no 4, 606-616 p.Article in journal (Refereed) Published
Abstract [en]

We have performed a comparative analysis of amino acid distributions in predicted integral membrane proteins from a total of 107 genomes. A procedure for identification of membrane spanning helices was optimized on a homology-reduced data set of 170 multi-spanning membrane proteins with experimentally determined topologies. The optimized method was then used for extraction of highly reliable partial topologies from all predicted membrane proteins in each genome, and the average biases in amino acid distributions between loops on opposite sides of the membrane were calculated. The results strongly support the notion that a biased distribution of Lys and Arg residues between cytoplasmic and extra-cytoplasmic segments (the positive-inside rule) is present in most if not all organisms. © 2005 Wiley-Liss, Inc.

Place, publisher, year, edition, pages
2005. Vol. 60, no 4, 606-616 p.
National Category
Natural Sciences
URN: urn:nbn:se:liu:diva-31008DOI: 10.1002/prot.20583Local ID: 16700OAI: diva2:251831
Available from: 2009-10-09 Created: 2009-10-09 Last updated: 2011-01-12

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Persson, Bengt
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