Deconstructing the energy landscape: Constraint-based algorithms for folding heteropolymers

Physical Review E - Statistical, Nonlinear, and Soft Matter Physics

Volumn 73, Issue 2, 2006, Pages

  Elser, Veit ^a   Rankenburg, Ivan ^a  

^a Cornell University   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CONSTRAINT THEORY; DEGREES OF FREEDOM (MECHANICS); GROUND STATE; HYDROPHOBICITY; MATHEMATICAL MODELS; POLYMERS;

CONSTITUENT MONOMERS; CONTACT ENERGY; FOLDING HETEROPOLYMERS; LOWER-ENERGY FOLDS;

ALGORITHMS;

EID: 33344460984     PISSN: 15393755     EISSN: 15502376     Source Type: Journal    
DOI: 10.1103/PhysRevE.73.026702     Document Type: Article

References (17)

1. P. E. Leopold, M. Montal, and J. N. Onuchic, Proc. Natl. Acad. Sci. U.S.A. PNASA6 0027-8424 89, 8721 (1992).
2. J. D. Bryngelson, J. N. Onuchic, N. D. Socci, and P. G. Wolynes, Proteins: Struct., Funct., Genet. PSFGEY 0087-3585 21, 167 (1995).
3. G. M. Sheldrick, Acta Crystallogr., Sect. A: Found. Crystallogr. ACACEQ 0108-7673 60, s5 (2004).
4. C. M. Weeks and R. Miller, J. Appl. Crystallogr. JACGAR 0021-8898 32, 120 (1999).
5. V. Elser, Acta Crystallogr., Sect. A: Found. Crystallogr. ACACEQ 0108-7673 10.1107/S0108767303002812 59, 201 (2003).
6. V. Elser, J. Opt. Soc. Am. A JOAOD6 0740-3232 20, 40 (2003).
7. F. H. Stillinger, T. Head-Gordon, and C. L. Hirshfeld, Phys. Rev. E PLEEE8 1063-651X 10.1103/PhysRevE.48.1469 48, 1469 (1993).
8. H. P. Hsu, V. Mehra, and P. Grassberger, Phys. Rev. E PLEEE8 1063-651X 10.1103/PhysRevE.68.037703 68, 037703 (2003).
9. M. Bachmann, H. Arkin, and W. Janke, Phys. Rev. E PLEEE8 1063-651X 10.1103/PhysRevE.71.031906 71, 031906 (2005).
10. V. Elser, J. Phys. A JPHAC5 0305-4470 10.1088/0305-4470/36/12/309 36, 2995 (2003).
11. M. Levitt, J. Mol. Biol. JMOBAK 0022-2836 170, 723 (1983).
12. M. Bachmann (private communication).
13. U. H. E. Hansmann and L. T. Wille, Phys. Rev. Lett. PRLTAO 0031-9007 10.1103/PhysRevLett.88.068105 88, 068105 (2002).
14. K. Yue and K. A. Dill, Proc. Natl. Acad. Sci. U.S.A. PNASA6 0027-8424 92, 146 (1995).
15. R. Backofen and S. Will, J. Constraints (to be published).
16. K. Yue and K. A. Dill, Protein Sci. PRCIEI 0961-8368 5, 254 (1996).
17. K. Ishikawa, K. Yue, and K. A. Dill, Protein Sci. PRCIEI 0961-8368 8, 716 (1999).