Are structural biases at protein termini a signature of vectorial folding?

Proteins
Alessandro Laio, Cristian Micheletti

Abstract

Experimental investigations of the biosynthesis of a number of proteins have pointed out that part of the native structure may be acquired already during translation. We carried out a comprehensive statistical analysis of some average structural properties of proteins that have been put forward as possible signatures of this progressive buildup process. Contrary to a widespread belief, we found that there is no major propensity of the amino acids to form contacts with residues that are closer to the N-terminus. Moreover, we found that the C-terminus is significantly more compact and locally organized than the N-terminus. This bias, though, is unlikely to be related to vectorial effects, since it correlates with subtle differences in the primary sequence. These findings indicate that even if proteins acquire their structure vectorially, no signature of this seems to be detectable in their average structural properties.

References

Jan 1, 1975·Advances in Protein Chemistry·C B ANFINSEN, H A Scheraga
May 25, 1977·Journal of Molecular Biology·F C BernsteinM Tasumi
Jan 1, 1988·Annual Review of Biophysics and Biophysical Chemistry·G E Schulz
Jan 1, 1983·Annual Review of Biophysics and Bioengineering·N Go
Jul 15, 1982·Nature·J M Thornton, B L Chakauya
May 19, 1994·Nature·A SaliM Karplus
Feb 14, 1995·Proceedings of the National Academy of Sciences of the United States of America·A N Fedorov, T O Baldwin
Nov 1, 1993·Protein Science : a Publication of the Protein Society·N Alexandrov
Mar 22, 1996·Journal of Molecular Biology·J A Christopher, T O Baldwin
Dec 10, 1996·Proceedings of the National Academy of Sciences of the United States of America·P G Wolynes
Jan 1, 1997·Nature Structural Biology·Ken A Dill, Hue Sun Chan
Apr 18, 1997·The Journal of Biological Chemistry·A A KomarA S Spirin
Jan 31, 1998·The Journal of Biological Chemistry·A N Fedorov, T O Baldwin
Mar 31, 1998·Current Opinion in Structural Biology·V S PandeD S Rokhsar
May 30, 1998·Journal of Molecular Biology·Kevin W PlaxcoDavid Baker
Mar 5, 1999·Protein Engineering·I N BerezovskyL L Kisselev
Mar 17, 1999·Proceedings of the National Academy of Sciences of the United States of America·D A DebeW A Goddard
Sep 28, 2002·Acta Crystallographica. Section D, Biological Crystallography·Rajasri BhattacharyyaPinak Chakrabarti
Dec 21, 2002·Protein Science : a Publication of the Protein Society·Dmitrii E Makarov, Kevin W Plaxco
Jun 14, 2003·FEBS Letters·Stephan LorenzenCornelius Frömmel
Mar 31, 2004·Methods in Enzymology·Hue Sun ChanHüseyin Kaya
Apr 6, 2004·Methods in Enzymology·Carol A RohlDavid Baker
Jun 30, 2004·Journal of Molecular Biology·Jannick Dyrløv BendtsenSøren Brunak

Citations

Jan 24, 2007·Bioinformatics·Etai Jacob, Ron Unger
Nov 30, 2011·Nucleic Acids Research·Wei-Hsiang Lin, Edo Kussell
Apr 9, 2010·BMC Bioinformatics·Jonathan J EllisGraham R Wood
Sep 10, 2016·PloS One·Olivier M F MartinJuliette Martin
Sep 7, 2007·Proteins·Peiyu Wang, Dmitri K Klimov
Dec 17, 2009·Proteins·Rhodri Saunders, Charlotte M Deane
Apr 22, 2011·Biotechnology Journal·Rhodri SaundersCharlotte M Deane
Nov 16, 2013·Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics·M LundgrenAntti J Niemi
May 21, 2019·Critical Reviews in Biochemistry and Molecular Biology·Surbhi Sharma, Martin R Schiller

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