Express Letter
Quantum Approach to Fast Protein-Folding Time
-
Abstract
In the traditional random-conformational-search model, various hypotheses with a series of meta-stable intermediate states were proposed to resolve the Levinthal paradox in protein-folding time. Here we introduce a quantum strategy to formulate protein folding as a quantum walk on a definite graph, which provides us a general framework without making hypotheses. Evaluating it by the mean of first passage time, we find that the folding time via our quantum approach is much shorter than the one obtained via classical random walks. This idea is expected to evoke more insights for future studies. -
-
References
[1] Harrington W F and Schellman J A 1956 C R Trav Lab Carlsberg Chim. 30 21[2] Levinthal C 1968 J. Chem. Phys. 65 44 doi: 10.1051/jcp/1968650044}[3] Mallamace F, Corsaro C, D Mallamace et al. 2016 Proc. Natl. Acad. Sci. USA 113 3159 doi: 10.1073/pnas.1524864113}[4] Portman J J, Takada S and Wolynes P G 1998 Phys. Rev. Lett. 81 5237 doi: 10.1103/PhysRevLett.81.5237}[5] Jacksom S E 1998 Folding Des. 3 R81 doi: 10.1016/S1359-02789800033-9}[6] Wolynes P G, Eaton W A and Fersht A R 2012 Proc. Natl. Acad. Sci. USA 109 17770 doi: 10.1073/pnas.1215733109}[7] Mũnoz V and Eaton W A 1999 Proc. Natl. Acad. Sci. USA 96 11311 doi: 10.1073/pnas.96.20.11311}[8] Henry E R and Eqton W A 2004 Chem. Phys. 307 163 doi: 10.1016/j.chemphys.2004.06.064}[9] Englander S W and Mayne L 2017 Proc. Natl. Acad. Sci. USA 114 8253 doi: 10.1073/pnas.1706196114}[10] Karplus M and Weaver D L 1976 Nature 260 404 doi: 10.1038/260404a0}[11] Sali A, Shakhnovich E and Karplus M 1994 Nature 369 248 doi: 10.1038/369248a0}[12] Guo Z Y and Thirumalai D 1995 Biopolymers 36 83 doi: 10.1002/bip.360360108}[13] Fersht A R 2000 Proc. Natl. Acad. Sci. USA 97 1525 doi: 10.1073/pnas.97.4.1525}[14] Oliveberg M and Wolynes P G 2005 Q. Rev. Biophys. 38 245 doi: 10.1017/S0033583506004185}[15] Shakhnovich E 2006 Chem. Rev. 106 1559 doi: 10.1021/cr040425u}[16] Dill K A and MacCallum J L 2012 Science 338 1042 doi: 10.1126/science.1219021}[17] Thirumalai D, Liu Z X, O'Brien E P and Reddy G 2013 Curr. Opin. Struct. Biol. 23 22 doi: 10.1016/j.sbi.2012.11.010}[18] Piana S, Lindorff-Larsen K and Shaw D E 2012 Proc. Natl. Acad. Sci. USA 109 17845 doi: 10.1073/pnas.1201811109}[19] Henry E R, Best R B and Eaton W A 2013 Proc. Natl. Acad. Sci. USA 110 17880 doi: 10.1073/pnas.1317105110}[20] Snow C D, Nguyen H, Pande V and Gruebele M 2002 Nature 420 102 doi: 10.1038/nature01160}[21] Rocklin G J et al. 2017 Science 357 168 doi: 10.1126/science.aan0693}[22] Mũnoz V 2014 Proc. Natl. Acad. Sci. USA 111 15863 doi: 10.1073/pnas.1418039111}[23] Taketomi H, Ueda Y and Go N 1975 Int. J. Peptide Protein Res. 7 445[24] Dill K A 1985 Biochemistry 24 1501 doi: 10.1021/bi00327a032}[25] Li H, Helling R, Tang C and Wingreen N S 1996 Science 273 666 doi: 10.1126/science.273.5275.666}[26] Li Y Q, Ji Y Y, Mao J W and Tang X W 2005 Phys. Rev. E 72 021904 doi: 10.1103/PhysRevE.72.021904}[27] van Kampen N G 1997 Stochastic Processes in Physics, Chemistry revised edition Amsterdam: North-Holland[28] Aharonov Y, Davidovich L and Zagury N 1993 Phys. Rev. A 48 1687 doi: 10.1103/PhysRevA.48.1687}[29] Farhi E and Gutmann S 1998 Phys. Rev. A 58 915 doi: 10.1103/PhysRevA.58.915}[30] Manouchehri K and Wang J B 2014 Physical Implementation of Quantum Walks Berlin: Springer-Verlag[31] Anfinsen C B 1973 Science 181 223 doi: 10.1126/science.181.4096.223}[32] Shakhnovich E and Gutin A 1990 J. Chem. Phys. 93 5967 doi: 10.1063/1.459480}[33] Socci N D and Onuchic J N 1994 J. Chem. Phys. 101 1519 doi: 10.1063/1.467775}[34] Socci N D, Onuchic J N and Wolynes P G 1996 J. Chem. Phys. 104 5860 doi: 10.1063/1.471317}[35] Montroll E W and Weiss G H 1965 J. Math. Phys. 6 167 doi: 10.1063/1.1704269}[36] Lindblad G 1976 Commun. Math. Phys. 48 119 doi: 10.1007/BF01608499}[37] Montroll E W 1969 J. Math. Phys. 10 753 doi: 10.1063/1.1664902}[38] Redner S 2001 A Guide to First-Passage Processes Cambridge: Cambridge University Press[39] Noh J D and Rieger H 2004 Phys. Rev. Lett. 92 118701 doi: 10.1103/PhysRevLett.92.118701}[40] Condamin S, Benichou O, Tejedor V, Voituriez R, Klafter J 2007 Nature 450 77 doi: 10.1038/nature06201}[41] Guerin T, Levernier N, Benichou O and Voituriez R 2016 Nature 534 356 doi: 10.1038/nature18272}[42] Duan Y and Kollman P A 1998 Science 282 740 doi: 10.1126/science.282.5389.740}[43] Christopher C M, Christopher C P and Dutton P L 2006 Philos. Trans. R. Soc. B 361 1295 doi: 10.1098/rstb.2006.1868}[44] Xiao L et al. 2017 Nat. Phys. 13 1117 doi: 10.1038/nphys4204} -
Related Articles
[1] FENG Lie-Feng, LI Yang, LI Ding, WANG Cun-Da, ZHANG Guo-Yi, YAO Dong-Sheng, LIU Wei-Fang, XING Peng-Fei. Frequency Response of Modulated Electroluminescence of Light-Emitting Diodes [J]. Chin. Phys. Lett., 2011, 28(10): 107801. doi: 10.1088/0256-307X/28/10/107801 [2] ZHU Yin. Measurement of the Speed of Gravity [J]. Chin. Phys. Lett., 2011, 28(7): 070401. doi: 10.1088/0256-307X/28/7/070401 [3] LI Yuan, ZHANG Yu-Chi, ZHANG Peng-Fei, GUO Yan-Qiang, LI Gang, WANGJun-Min, ZHANG Tian-Cai. Experimental Study on Coherence Time of a Light Field with Single Photon Counting [J]. Chin. Phys. Lett., 2009, 26(7): 074205. doi: 10.1088/0256-307X/26/7/074205 [4] CHEN Min, SHAO Cheng-Gang. Influence of Photon Mass on Vacuum Birefringence Experiment [J]. Chin. Phys. Lett., 2007, 24(4): 902-904. [5] YU Ran, LIU Jue-Ping, ZHU Kai. Off-Shell Photon Light-Cone Transverse Wavefunction at Leading Twist [J]. Chin. Phys. Lett., 2005, 22(10): 2415-2518. [6] ZHANG Jun-Hai, WANG Feng-Zhi, WANG Yi-Qiu, YANG Dong-Hai. Evaluation of Light Frequency Shift in a Caesium Beam Frequency Standard with Sharp Angle Incident Detecting Laser [J]. Chin. Phys. Lett., 2004, 21(5): 840-842. [7] TU Xian-Hua, WANG Jin, JIANG Kai-Jun, HE Ming, LI Ke, ZHONG Jia-Qi, ZHAN Ming-Sheng. Direct Measurement of Light Speed Reduction in a Rubidium Vapor Medium Coherently Prepared by Electromagnetically InducedTransparency [J]. Chin. Phys. Lett., 2003, 20(11): 1954-1956. [8] LIN Xue-Chun, LI Rui-Ning, CUI Da-Fu, YAO Ai-Yun, FENG Yan, BI Yong, XU Zu-Yan. High-Efficient Blue-Light Generation by Intracavity Frequency Doubling with LiB3O5 [J]. Chin. Phys. Lett., 2002, 19(8): 1106-1107. [9] WANG De-Zhong, LI Dai-Jun, LIU Xia-J, LI Shi-Qun, WANG Yu-Zhu. Nonlinear Theory of Light Speed Reduction in a Three-LevelΛ System [J]. Chin. Phys. Lett., 2001, 18(8): 1067-1068. [10] YIN Shiduan, XIAO Guangming, ZHU Peiran. Channeling Alignment for Epitaxial Light-Mass Film on Heavy-Mass Substrate [J]. Chin. Phys. Lett., 1994, 11(5): 293-296. -
Supplements
Other Related Supplements
-
Cover image
54KB
-
DownLoad: