Unequivocal single-molecule force spectroscopy of proteins by AFM using pFS vectors

Biophysical Journal

Volumn 102, Issue 3, 2012, Pages 682-690

  Oroz, Javier ^a   Hervás, Rubén ^a   Carrión Vázquez, Mariano ^a  

^a INSTITUTO MADRILEÑO DE ESTUDIOS AVANZADOS EN NANOCIENCIA IMDEA NANOCIENCIA   (Spain)

Author keywords

[No Author keywords available]

Indexed keywords

RECOMBINANT PROTEIN;

ANIMAL; ARTICLE; ATOMIC FORCE MICROSCOPY; CHEMICAL STRUCTURE; CHEMISTRY; GENE VECTOR; GENETICS; HUMAN; METHODOLOGY; MOUSE; NANOTECHNOLOGY; PLASMID; PROTEIN CONFORMATION;

ANIMALS; GENETIC VECTORS; HUMANS; MICE; MICROSCOPY, ATOMIC FORCE; MODELS, MOLECULAR; NANOTECHNOLOGY; PLASMIDS; PROTEIN CONFORMATION; RECOMBINANT PROTEINS;

EID: 84856743116     PISSN: 00063495     EISSN: 15420086     Source Type: Journal    
DOI: 10.1016/j.bpj.2011.12.019     Document Type: Article

References (48)

1. M. Carrión-Vazquez, and A.F. Oberhauser J.M. Fernandez Mechanical design of proteins studied by single-molecule force spectroscopy and protein engineering Prog. Biophys. Mol. Biol. 74 2000 63 91 (Pubitemid 32011689)
2. G. Yang, and C. Cecconi C. Bustamante Solid-state synthesis and mechanical unfolding of polymers of T4 lysozyme Proc. Natl. Acad. Sci. USA 97 2000 139 144 (Pubitemid 30055797)
3. C. Bustamante, and J.F. Marko S. Smith Entropic elasticity of λ-phage DNA Science 265 1994 1599 1600
4. S.R. Ainavarapu, and J. Brujic J.M. Fernandez Contour length and refolding rate of a small protein controlled by engineered disulfide bonds Biophys. J. 92 2007 225 233 (Pubitemid 46048430)
5. H. Li, and A.F. Oberhauser J.M. Fernandez Multiple conformations of PEVK proteins detected by single-molecule techniques Proc. Natl. Acad. Sci. USA 98 2001 10682 10686 (Pubitemid 32878681)
6. R.B. Best, and B. Li J. Clarke Can non-mechanical proteins withstand force? Stretching barnase by atomic force microscopy and molecular dynamics simulation Biophys. J. 81 2001 2344 2356 (Pubitemid 32917181)
7. H. Dietz, and M. Rief Exploring the energy landscape of GFP by single-molecule mechanical experiments Proc. Natl. Acad. Sci. USA 101 2004 16192 16197 (Pubitemid 39552821)
8. A. Steward, J.L. Toca-Herrera, and J. Clarke Versatile cloning system for construction of multimeric proteins for use in atomic force microscopy Protein Sci. 11 2002 2179 2183 (Pubitemid 34919621)
9. S. García-Manyes, and J. Brujić J.M. Fernández Force-clamp spectroscopy of single-protein monomers reveals the individual unfolding and folding pathways of I27 and ubiquitin Biophys. J. 93 2007 2436 2446 (Pubitemid 47511144)
10. S. García-Manyes, and L. Dougan J.M. Fernández Direct observation of an ensemble of stable collapsed states in the mechanical folding of ubiquitin Proc. Natl. Acad. Sci. USA 106 2009 10534 10539
11. M. Sandal, and F. Valle B. Samor Conformational equilibria in monomeric α-synuclein at the single-molecule level PLoS Biol. 6 2008 e6
12. 2+ binding results in a new mechanical element J. Biol. Chem. 286 2011 9405 9418
13. A. Valbuena, and J. Oroz M. Carrión-Vázquez On the remarkable mechanostability of scaffoldins and the mechanical clamp motif Proc. Natl. Acad. Sci. USA 106 2009 13791 13796
14. R.B. Best, and D.J. Brockwell J. Clarke Force mode atomic force microscopy as a tool for protein folding studies Anal. Chim. Acta 479 2003 87 105 (Pubitemid 36173937)
15. R. Rounsevell, J.R. Forman, and J. Clarke Atomic force microscopy: mechanical unfolding of proteins Methods 34 2004 100 111 (Pubitemid 38993211)
16. M. Carrión-Vazquez, and H. Li J.M. Fernandez The mechanical stability of ubiquitin is linkage dependent Nat. Struct. Biol. 10 2003 738 743 (Pubitemid 37052413)
17. D. Finley, B. Bartel, and A. Varshavsky The tails of ubiquitin precursors are ribosomal proteins whose fusion to ubiquitin facilitates ribosome biogenesis Nature 338 1989 394 401 (Pubitemid 19089321)
18. H. Li, and W.A. Linke J.M. Fernandez Reverse engineering of the giant muscle protein titin Nature 418 2002 998 1002 (Pubitemid 34976037)
19. M.D. Hossain, and S. Furuike K. Kinosita Jr. The rotor tip inside a bearing of a thermophilic F1-ATPase is dispensable for torque generation Biophys. J. 90 2006 4195 4203 (Pubitemid 43846133)
20. M. Rief, and M. Gautel H.E. Gaub Reversible unfolding of individual titin immunoglobulin domains by AFM Science 276 1997 1109 1112 (Pubitemid 27218118)
21. A.L. Fink Natively unfolded proteins Curr. Opin. Struct. Biol. 15 2005 35 41 (Pubitemid 40249507)
22. R. Hervás, and J. Oroz M. Carrión-Vázquez Common features at the start of the neurodegeneration cascade PLoS Biol. 2012 In press
23. Q. Peng, and H. Li Domain insertion effectively regulates the mechanical unfolding hierarchy of elastomeric proteins: toward engineering multifunctional elastomeric proteins J. Am. Chem. Soc. 131 2009 14050 14056
24. M.C. Leake, and A. Grützner W.A. Linke Mechanical properties of cardiac titin's N2B-region by single-molecule atomic force spectroscopy J. Struct. Biol. 155 2006 263 272 (Pubitemid 44278650)
25. D.M. Ferraro, E.K. Hope, and A.D. Robertson Site-specific reflex response of ubiquitin to loop insertions J. Mol. Biol. 352 2005 575 584 (Pubitemid 41225469)
26. D.M. Ferraro, and D.J. Ferraro A.D. Robertson Structures of ubiquitin insertion mutants support site-specific reflex response to insertions hypothesis J. Mol. Biol. 359 2006 390 402 (Pubitemid 44294569)
27. D.M. Ferraro, and A.D. Robertson Predicting the magnitude of the reflex response to insertions in ubiquitin J. Mol. Biol. 375 2008 764 772 (Pubitemid 350297287)
28. N. Calakos, and M.K. Bennett R.H. Scheller Protein-protein interactions contributing to the specificity of intracellular vesicular trafficking Science 263 1994 1146 1149 (Pubitemid 24105962)
29. B. Miroux, and J.E. Walker Over-production of proteins in Escherichia coli: mutant hosts that allow synthesis of some membrane proteins and globular proteins at high levels J. Mol. Biol. 260 1996 289 298 (Pubitemid 26254109)
30. J. Sambrook, E.F. Fritsch, and T. Maniatis Molecular Cloning: A Laboratory Manual 2nd ed. 1989 Cold Spring Harbor New York
31. H.M. Went, C.G. Benítez-Cardoza, and S.E. Jackson Is an intermediate state populated on the folding pathway of ubiquitin? FEBS Lett. 567 2004 333 338 (Pubitemid 38748416)
32. M. Schlierf, H. Li, and J.M. Fernández The unfolding kinetics of ubiquitin captured with single-molecule force-clamp techniques Proc. Natl. Acad. Sci. USA 101 2004 7299 7304 (Pubitemid 38638027)
33. A. Valbuena, and J. Oroz M. Carrión-Vázquez Quasi-simultaneous imaging/pulling analysis of single polyprotein molecules by atomic force microscopy Rev. Sci. Instrum. 78 2007 113707
34. E.-L. Florin, and M. Rief H.E. Gaub Sensing specific molecular interactions with the atomic force microscope Biosens. Bioelectron. 10 1995 895 901
35. J.F. Marko, and E.D. Siggia Stretching DNA Macromolecules 28 1995 8759 8770
36. J. Oroz, and R. Hervás M. Carrión-Vázquez Unequivocal single-molecule force spectroscopy of intrinsically disordered proteins V.N. Uversky, A.K. Dunker, Intrinsically Disordered Proteins: Vol. I. Experimental Techniques 2012 Springer-Verlag Heidelberg, Germany In press
37. Q. Peng, and H. Li Direct observation of tug-of-war during the folding of a mutually exclusive protein J. Am. Chem. Soc. 131 2009 13347 13354
38. A.S. Politou, and M. Gautel A. Pastore Immunoglobulin-type domains of titin are stabilized by amino-terminal extension FEBS Lett. 352 1994 27 31 (Pubitemid 24291752)
39. K.A. Scott, and A. Steward J. Clarke Titin; a multidomain protein that behaves as the sum of its parts J. Mol. Biol. 315 2002 819 829 (Pubitemid 34729329)
40. R.W.S. Rounsevell, A. Steward, and J. Clarke Biophysical investigations of engineered polyproteins: implications for force data Biophys. J. 88 2005 2022 2029 (Pubitemid 40976212)
41. E. Evans, and K. Ritchie Strength of a weak bond connecting flexible polymer chains Biophys. J. 76 1999 2439 2447 (Pubitemid 29264606)
42. R.C. Zinober, and D.J. Brockwell D.A. Smith Mechanically unfolding proteins: the effect of unfolding history and the supramolecular scaffold Protein Sci. 11 2002 2759 2765 (Pubitemid 35365243)
43. T.L. Radley, and A.I. Markowska S.N. Loh Allosteric switching by mutually exclusive folding of protein domains J. Mol. Biol. 332 2003 529 536 (Pubitemid 37075979)
44. T.A. Cutler, and B.M. Mills S.N. Loh Effect of interdomain linker length on an antagonistic folding-unfolding equilibrium between two protein domains J. Mol. Biol. 386 2009 854 868
45. J.F. Ellena, and B. Liang L.K. Tamm Dynamic structure of lipid-bound synaptobrevin suggests a nucleation-propagation mechanism for trans-SNARE complex formation Proc. Natl. Acad. Sci. USA 106 2009 20306 20311
46. M. Carrión-Vazquez, and P.E. Marszalek J.M. Fernandez Atomic force microscopy captures length phenotypes in single proteins Proc. Natl. Acad. Sci. USA 96 1999 11288 11292 (Pubitemid 29487373)
47. V.N. Uversky J. Ovádi, F. Orosz, Protein Folding and Misfolding: Neurodegenerative Diseases 2009 Springer-Verlag Berlin-Heidelberg, Germany 21 75
48. W. Humphrey, A. Dalke, and K. Schulten VMD: visual molecular dynamics J. Mol. Graph. 14 1996 33 38 27-28 (Pubitemid 26152973)