raf RBD and ubiquitin proteins share similar folds, folding rates and mechanisms despite having unrelated amino acid sequences

Biochemistry
Alexis Vallée-BélisleStephen W Michnick

Abstract

Recent experimental and theoretical studies in protein folding suggest that the rates and underlying mechanisms by which proteins attain the native state are largely determined by the topological complexity of a specific fold rather than by the fine details of the amino acid sequences. However, such arguments are based upon the examination of a limited number of protein folds. To test this view, we sought to investigate whether proteins belonging to the ubiquitin superfamily display similar folding behavior. To do so, we compared the folding-unfolding transitions of mammalian ubiquitin (mUbi) with those of its close yeast homologue (yUbi), and to those of the structurally related Ras binding domain (RBD) of the serine/threonine kinase raf that displays no apparent sequence homology with the ubiquitin family members. As demonstrated for mUbi [Krantz, B. A., and Sosnick, T. R. (2000) Biochemistry 39, 11696-11701], we show that a two-state transition model with no burst phase intermediate can describe folding of both yUbi and raf RBD. We further demonstrate that (1) all three proteins refold at rates that are within 1 order of magnitude (1800, 1100, and 370 s(-1) for mUbi, raf RBD, and yUbi, respectively), (2) both mUbi and raf RB...Continue Reading

References

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Citations

Jun 1, 2006·Biochemistry·Matthew TalbottElisar Barbar
Jun 12, 2012·Nature Structural & Molecular Biology·Alexis Vallée-Bélisle, Stephen W Michnick
Oct 11, 2005·Proceedings of the National Academy of Sciences of the United States of America·F-X Campbell-ValoisS W Michnick
Feb 4, 2005·Protein Science : a Publication of the Protein Society·Karen L MaxwellKevin W Plaxco
Jan 27, 2005·Journal of Molecular Biology·Rebecca L Davis-HarrisonBrian M Baker
Jul 4, 2006·Journal of Molecular Biology·Maria D CrespoMark S Searle
Jun 24, 2010·Methods : a Companion to Methods in Enzymology·Adrian A Nickson, Jane Clarke
Oct 24, 2007·Journal of Molecular Biology·Alexis Vallée-Bélisle, Stephen W Michnick
May 12, 2006·Organic & Biomolecular Chemistry·Sophie E Jackson
Feb 9, 2019·Scientific Reports·Balachandran ManavalanJooyoung Lee
May 9, 2021·Cell Chemical Biology·Teiko Komori NomuraRyo Honda
Dec 15, 2004·Langmuir : the ACS Journal of Surfaces and Colloids·Il Won KimJohn Spencer Evans
May 11, 2006·Chemical Reviews·Tobin R SosnickMichael Baxa

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