Coil conversion to β-strand induced by dimerization

Proteins
Johanna LaibeJean-Christophe Nebel

Abstract

Most molecular processes in living organisms rely on protein-protein interactions, many of which are mediated by β-sheet interfaces; this study investigates the formation of β-sheet interfaces through the conversion of coils into β-strands. Following an exhaustive search in the Protein Data Bank, the corresponding structural dimorphic fragments were extracted, characterized, and analyzed. Their short strand lengths and specific amino acid profiles indicate that dimorphic β-strand interfaces are likely to be less stable than standard ones and could even convert to coil interfaces if their environment changes. Moreover, the construction of a simple classifier able to discriminate between the sequences of dimorphic and standard β-strand interfaces suggests that the nature of those dimorphic sequences could be predicted, providing a novel means of identifying proteins capable of forming dimers.

References

Oct 20, 1975·Biochimica Et Biophysica Acta·B W Matthews
Sep 15, 1994·Nature·D L Minor, P S Kim
Dec 11, 1999·Nucleic Acids Research·H M BermanP E Bourne
Mar 17, 2001·International Journal of Biological Macromolecules·Z P Feng, C T Zhang
Mar 22, 2001·Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences·C M Dobson
Oct 11, 2001·Proceedings of the National Academy of Sciences of the United States of America·H E StangerS H Gellman
Mar 7, 2002·Proceedings of the National Academy of Sciences of the United States of America·Jane S Richardson, David C Richardson
Sep 5, 2002·Proteins·Annick ThomasRobert Brasseur
Sep 23, 2003·Protein Science : a Publication of the Protein Society·Isabelle WesterlundOlof Emanuelsson
Sep 27, 2005·Proteins·Marc Parisien, François Major
Jul 20, 2007·Structure·Joël Janin, Shoshana Wodak
Nov 13, 2008·Structure·Daniel M SullivanJohn Cavanagh
Sep 24, 2010·Bioinformatics·Alberto J M MartinSilvio C E Tosatto
Feb 3, 2011·Proteins·Jason E DonaldWilliam F DeGrado
Jun 20, 2012·Proteomics·Pascal Braun, Anne-Claude Gingras
Jul 3, 2013·Journal of Molecular Biology·Ivan L BudyakLila M Gierasch
May 30, 2014·ACS Chemical Biology·Andrew M Watkins, Paramjit S Arora
May 15, 2015·Briefings in Bioinformatics·Reyhaneh EsmaielbeikiCharlotte M Deane
Oct 13, 2015·Angewandte Chemie·Vanessa M KungSamuel H Gellman
Dec 3, 2016·Nucleic Acids Research·Natalie L DawsonIan Sillitoe
Aug 12, 2017·Science·Francesca MattiroliKarolin Luger

❮ Previous
Next ❯

Related Concepts

Related Feeds

Cajal Bodies & Gems

Cajal bodies or coiled bodies are dense foci of coilin protein. Gemini of Cajal bodies, or gems, are microscopically similar to Cajal bodies. It is believed that Cajal bodies play important roles in RNA processing while gems assist the Cajal bodies. Find the latest research on Cajal bodies and gems here.