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Influence of medium- and long-range interactions in different folding types of globular proteins
, , Kumarevel T.S., Selvaraj S., Gayatri K.
Published in
2002
PMID: 12377369
Volume: 99
   
Issue: 2
Pages: 189 - 198
Abstract
Recognition of protein fold from amino acid sequence is a challenging task. The structure and stability of proteins from different fold are mainly dictated by inter-residue interactions. In our earlier work, we have successfully used the medium- and long-range contacts for predicting the protein folding rates, discriminating globular and membrane proteins and for distinguishing protein structural classes. In this work, we analyze the role of inter-residue interactions in commonly occurring folds of globular proteins in order to understand their folding mechanisms. In the medium-range contacts, the globin fold and four-helical bundle proteins have more contacts than that of DNA-RNA fold although they all belong to all-α class. In long-range contacts, only the ribonuclease fold prefers 4-10 range and the other folding types prefer the range 21-30 in α/β class proteins. Further, the preferred residues and residue pairs influenced by these different folds are discussed. The information about the preference of medium- and long-range contacts exhibited by the 20 amino acid residues can be effectively used to predict the folding type of each protein. © 2002 Elsevier Science B.V. All rights reserved.
About the journal
JournalBiophysical Chemistry
ISSN03014622
Open AccessNo