Jamming proteins with slipknots and their free energy landscape

Physical Review Letters

Volumn 103, Issue 26, 2009, Pages

  Sułkowska, Joanna I ^a   Sułkowski, Piotr ^b,c,d   Onuchic, José N ^a  

^a UNIVERSITY OF CALIFORNIA   (United States)

^b UNIVERSITY OF BONN   (Germany)

^c CALIFORNIA INSTITUTE OF TECHNOLOGY   (United States)

^d INSTITUTE OF NUCLEAR CHEMISTRY AND TECHNOLOGY   (Poland)

Author keywords

[No Author keywords available]

Indexed keywords

ANALYTICAL PREDICTIONS; COARSE GRAINED MODELS; FREE ENERGY LANDSCAPE; SIMULATION DATA; STRETCHING FORCE; THEORETICAL STUDY;

FREE ENERGY; JAMMING;

PROTEINS;

EID: 73649114614     PISSN: 00319007     EISSN: 10797114     Source Type: Journal    
DOI: 10.1103/PhysRevLett.103.268103     Document Type: Article

References (34)

1. M.L. Mansfield, Nat. Struct. Biol. NSBIEW 1072-8368 1, 213 (1994). 10.1038/nsb0494-213
2. P. Virnau, L.A. Mirny, and M. Kardar, PLoS Comput. Biol. 1553-7358 2, e122 (2006). 10.1371/journal.pcbi.0020122
3. D. Bolinger, J.I. Sułkowska, Hsiao-Ping Hsu, L.A. Mirny, M. Kardar, J.N. Onuchic, and P. Virnau, PLoS Comput. Biol. 1553-7358 (to be published).
4. T.O. Yeates, Todd S. Norcross, and N.P. King, Curr. Opin. Chem. Biol. COCBF4 1367-5931 11, 595 (2007). 10.1016/j.cbpa.2007.10.002
5. W.R. Taylor, Comp. Biol. Chem. CBCOCH 1476-9271 31, 151 (2007). 10.1016/j.compbiolchem.2007.03.002
6. J.I. Sułkowska, P. Sułkowski, and J.N. Onuchic, Proc. Natl. Acad. Sci. U.S.A. 106, 3119 (2009). PNASA6 0027-8424 10.1073/pnas.0811147106
7. P.E. Leopold, M. Montal, and J.N. Onuchic, Proc. Natl. Acad. Sci. U.S.A. 89, 8721 (1992). PNASA6 0027-8424 10.1073/pnas.89.18.8721
8. J.N. Onuchic and P.G. Wolynes, Curr. Opin. Struct. Biol. COSBEF 0959-440X 14, 70 (2004). 10.1016/j.sbi.2004.01.009
9. M. Rief, M. Gautel, F. Oesterhelt, J.M. Fernandez, and H.E. Gaub, Science 276, 1109 (1997). SCIEAS 0036-8075 10.1126/science.276.5315.1109
10. M.T. Alam, T. Yamada, U. Carlsson, and A. Ikai, FEBS Lett. 519, 35 (2002). FEBLAL 0014-5793 10.1016/S0014-5793(02)02693-5
11. T. Bornschloegl, D.M. Anstrom, E. Mey, J. Dzubiella, M.T. Rief, and K. Forest, Biophys. J. 96, 1508 (2009). BIOJAU 0006-3495 10.1016/j.bpj.2008.11.012
12. J.I. Sułkowska, P. Sułkowski, P. Szymczak, and M. Cieplak, Phys. Rev. Lett. 100, 058106 (2008). PRLTAO 0031-9007 10.1103/PhysRevLett.100. 058106
13. J.I. Sułkowska, P. Sułkowski, P. Szymczak, and M. Cieplak, Proc. Natl. Acad. Sci. U.S.A. 105, 19714 (2008). PNASA6 0027-8424 10.1073/pnas.0805468105
14. J. Dzubiella, Biophys. J. 96, 831 (2009). BIOJAU 0006-3495 10.1016/j.bpj.2008.10.019
15. J.I. Sułkowska and M. Cieplak, J. Phys. Condens. Matter JCOMEL 0953-8984 19, 283201 (2007). 10.1088/0953-8984/19/28/283201
16. J. Vogt, R. Perozzo, A. Pautsch, A. Prota, P. Schelling, B. Pilger, G. Folkers, L. Scapozza, and G.E. Schulz, Proteins Struct. Funct. Genet. 0887-3585 PSFGEY 41, 545 (2000). 10.1002/1097-0134(20001201)41:4<545::AID-PROT110>3. 0.CO;2-8
17. N.D. Socci, J.N. Onuchic, and P.G. Wolynes, Proc. Natl. Acad. Sci. U.S.A. PNASA6 0027-8424 96, 2031 (1999). 10.1073/pnas.96.5.2031
18. G.I. Bell, Science 200, 618 (1978). SCIEAS 0036-8075 10.1126/science. 347575
19. O.K. Dudko, G. Hummer, and A. Szabo, Phys. Rev. Lett. 96, 108101 (2006). PRLTAO 0031-9007 10.1103/PhysRevLett.96.108101
20. K. Koniaris and M. Muthukumar, Phys. Rev. Lett. 66, 2211 (1991). PRLTAO 0031-9007 10.1103/PhysRevLett.66.2211
21. L.D. Landau and E.M. Lifshitz, Theory of Elasticiy (Pergamon Press, Oxford, 1986), 3rd ed.
22. B. Audoly, N. Clauvelin, and S. Neukirch, Phys. Rev. Lett. 99, 164301 (2007); PRLTAO 0031-9007 10.1103/PhysRevLett.99.164301
23. R. Gallotti and O. Pierre-Louis, Phys. Rev. E PLEEE8 1539-3755 75, 031801 (2007). 10.1103/PhysRevE.75.031801
24. C. Bustamante, J.F. Marko, E.D. Siggia, and S. Smith, Science 265, 1599 (1994). SCIEAS 0036-8075 10.1126/science.8079175
25. C. Bouchiat, M.D. Wang, J.-F. Allemand, T. Strick, S.M. Blockand, and V. Croquette, Biophys. J. 76, 409 (1999). BIOJAU 0006-3495 10.1016/S0006-3495(99) 77207-3
26. M. Dembo, D.C. Torney, K. Saxman, and D. Hammer, Proc. R. Soc. B PRLBA4 0080-4649 234, 55 (1988). 10.1098/rspb.1988.0038
27. B.T. Marshall, M. Long, J.W. Piper, T. Yago, R.P. McEver, and Ch. Zhu, Nature (London) NATUAS 0028-0836 423, 190 (2003). 10.1038/nature01605
28. W. Thomas, M. Forero, O. Yakovenko, L. Nilsson, P. Vicini, E. Sokurenko, and V. Vogel, Biophys. J. 90, 753 (2006). BIOJAU 0006-3495 10.1529/biophysj.105. 066548
29. D. Bartolo, I. Derenyi, and A. Ajdari, Phys. Rev. E PLEEE8 1063-651X 65, 051910 (2002). 10.1103/PhysRevE.65.051910
30. E. Evans, A. Leung, V. Heinrich, and Ch. Zhu, Proc. Natl. Acad. Sci. U.S.A. 101, 11281 (2004). PNASA6 0027-8424 10.1073/pnas.0401870101
31. V. Barsegov and D. Thirumalai, Proc. Natl. Acad. Sci. U.S.A. 102, 1835 (2005). PNASA6 0027-8424 10.1073/pnas.0406938102
32. I. Schwaiger, M. Schleicher, A.A. Noegel, and M. Rief, EMBO J. 6, 46 (2005). EMJODG 0261-4189 10.1038/sj.embor.7400317
33. P.M. Williams, S.B. Fowler, R.B. Best, J.L. Toca-Herrera, K.A. Scott, A. Stward, and J. Clarke, Nature (London) NATUAS 0028-0836 422, 446 (2003). 10.1038/nature01517
34. C. Cecconi, E.A. Shank, C. Bustamante, and S. Marqusee, Science 309, 2057 (2005). SCIEAS 0036-8075 10.1126/science.1116702