The Journal of Chemical Physics, 08 January 2005
J. Chem. Phys. 122, 024901 (2005) (18 pages)
©2005 American Institute of Physics. All rights reserved.
Previous section: IV. DISCUSSION
Next section: FIGURES
Title Page
REFERENCES
Citation links [e.g., Phys. Rev. D 40, 2172 (1989)] go to online journal abstracts. Other links (see Reference Information) are available with your current login. Navigation of links may be more efficient using a second browser window.
Auxiliary Material (EPAPS)
-
S. Tanaka and H. A. Scheraga, Macromolecules 9, 945 (1976). [MEDLINE] [ChemPort]
first citation in article
-
S. Miyazawa and R. L. Jernigan, Macromolecules 18, 534 (1985). [ISI] [ChemPort]
first citation in article
-
S. Miyazawa and R. L. Jernigan, J. Mol. Biol. 256, 623 (1996). [ISI] [MEDLINE] [ChemPort]
first citation in article
-
S. Miyazawa and R. L. Jernigan, Proteins 34, 49 (1999). [ISI] [MEDLINE] [ChemPort]
first citation in article
-
S. Miyazawa and R. L. Jernigan, Proteins 36, 347 (1999). [ISI]
first citation in article
-
S. Miyazawa and R. L. Jernigan, Proteins 36, 357 (1999). [ISI] [MEDLINE] [ChemPort]
first citation in article
-
S. Miyazawa and R. L. Jernigan, Protein Eng. 13, 459 (2000). [MEDLINE] [ChemPort]
first citation in article
-
M. J. Sippl, J. Mol. Biol. 213, 859 (1990). [ISI] [MEDLINE] [ChemPort]
first citation in article
-
A. Godzik, A. Koli
ski, and J. Skolnick, Protein Sci. 4, 2107 (1995). [ISI] [MEDLINE] [ChemPort]
first citation in article
-
C. Zhang and S. H. Kim, Proc. Natl. Acad. Sci. U.S.A. 97, 2550 (2000). [MEDLINE] [ChemPort]
first citation in article
-
F. Melo and E. Feytmans, J. Mol. Biol. 267, 207 (1997). [ISI] [MEDLINE] [ChemPort]
first citation in article
-
C. Zhang, G. Vasmatzis, J. L. Cornette, and C. DeLisi, J. Mol. Biol. 267, 707 (1997). [MEDLINE] [ChemPort]
first citation in article
-
R. Samudrala and J. Moult, J. Mol. Biol. 275, 895 (1998). [ISI] [MEDLINE] [ChemPort]
first citation in article
-
P. Mallick, R. Weiss, and D. Eisenberg, Proc. Natl. Acad. Sci. U.S.A. 99, 16041 (2002). [MEDLINE] [ChemPort]
first citation in article
-
A. Liwo, S. O
dziej, M. R. Pincus, R. J. Wawak, S. Rackovsky, and H. A. Scheraga, J. Comput. Chem. 18, 849 (1997). [ISI] [ChemPort]
first citation in article
-
A. Liwo, M. R. Pincus, R. J. Wawak, S. Rackovsky, S. O
dziej, and H. A. Scheraga, J. Comput. Chem. 18, 874 (1997). [Inspec] [ISI] [ChemPort]
first citation in article
-
A. Liwo, R. Ka
mierkiewicz, C. Czaplewski et al., J. Comput. Chem. 19, 259 (1998). [ISI] [ChemPort]
first citation in article
-
B. N. Dominy and C. L. Brook III, J. Comput. Chem. 23, 147 (2002). [Inspec] [ISI] [MEDLINE] [ChemPort]
first citation in article
-
G. M. Crippen, Biochemistry 30, 4232 (1991). [ISI] [MEDLINE] [ChemPort]
first citation in article
-
V. N. Maiorov and G. M. Crippen, J. Mol. Biol. 227, 876 (1992). [ISI] [MEDLINE] [ChemPort]
first citation in article
-
L. A. Mirny and E. I. Shakhnovich, J. Mol. Biol. 264, 1164 (1996). [ISI] [MEDLINE] [ChemPort]
first citation in article
-
M. Vendruscolo, L. A. Mirny, E. I. Shakhnovich, and E. Domany, Proteins 41, 192 (2000). [MEDLINE] [ChemPort]
first citation in article
-
D. Toby, G. Shafran, N. Linial, and R. Elber, Proteins 40, 71 (2000). [ISI] [MEDLINE] [ChemPort]
first citation in article
-
D. Toby and R. Elber, Proteins 41, 40 (2000). [ISI] [MEDLINE] [ChemPort]
first citation in article
-
B. Fain, Y. Xia, and M. Levitt, Protein Sci. 11, 2010 (2002). [MEDLINE]
first citation in article
-
K. T. Simons, C. Ruczinski, C. Kooperberg, B. Fox, C. Bystroff, and D. Baker, Proteins 34, 82 (1999). [MEDLINE] [ChemPort]
first citation in article
-
A. R. Panchenko, A. Marchler-Bauer, and S. H. Bryant, J. Mol. Biol. 296, 1319 (2000). [MEDLINE] [ChemPort]
first citation in article
-
A. Koli
ski, A. Godzik, and J. Skolnick, J. Chem. Phys. 98, 7420 (1993). [ISI] [ChemPort]
first citation in article
-
A. Koli
ski, A. Godzik, and J. Skolnick, Proteins 26, 271 (1996). [ISI] [MEDLINE] [ChemPort]
first citation in article
-
P. J. Munson and R. K. Singh, Protein Sci. 6, 1467 (1997). [ISI] [MEDLINE]
first citation in article
-
C. W. Carter, Jr., B. C. LeFebvre, S. A. LCammer, A. Tropsha, and M. H. Edgell, J. Mol. Biol. 311, 625 (2001).
first citation in article
-
A. Liwo, C. Czaplewski, J. Pillardy, and H. A. Scheraga, J. Chem. Phys. 115, 2323 (2001). [ISI] [ChemPort]
first citation in article
-
K. Onizuka, T. Noguchi, Y. Akiyama, and H. Matsuda, Control Intell. Syst. 17, 48 (2002).
first citation in article
-
N.-V. Buchete, J. E. Straub, and D. Thirumalai, J. Chem. Phys. 118, 7658 (2003). [ISI]
first citation in article
-
N.-V. Buchete, J. E. Straub, and D. Thirumalai, Protein Sci. 13, 862 (2004). [MEDLINE] [ChemPort]
first citation in article
-
B. Park and M. Levitt, J. Mol. Biol. 258, 367 (1996). [ISI] [MEDLINE] [ChemPort]
first citation in article
-
K. T. Simons, C. Kooperberg, E. S. Huang, and D. Baker, J. Mol. Biol. 268, 209 (1997). [ISI] [MEDLINE] [ChemPort]
first citation in article
-
R. Samudrala, Y. Xia, M. Levitt, and E. S. Huang, Proceedings of the Pacific Symposium on Biocomputing 1999.
first citation in article
-
R. Samudrala and M. Levitt, Protein Sci. 9, 1399 (2000). [MEDLINE]
first citation in article
-
D. G. Covell and R. L. Jernigan, Biochemistry 29, 3287 (1990). [ISI] [MEDLINE] [ChemPort]
first citation in article
-
J. Lee, A. Liwo, D. R. Ripoll, J. Pillardy, J. A. Saunders, K. D. Gibson, and H. A. Scheraga, Int. J. Quantum Chem. 77, 90 (2000). [Inspec] [ISI]
first citation in article
-
Y. Zhang, A. Koli
ski, and J. Skolnick, Biophys. J. 85, 1145 (2003). [Inspec] [MEDLINE] [ChemPort]
first citation in article
-
J. Lee, A. Liwo, and H. A. Scheraga, Proc. Natl. Acad. Sci. U.S.A. 96, 2025 (1999). [ISI] [MEDLINE] [ChemPort]
first citation in article
-
S. Miyazawa and R. L. Jernigan, Proteins 50, 35 (2003). [MEDLINE]
first citation in article
-
I. Bahar and R. L. Jernigan, Folding Des. 1, 357 (1996). [MEDLINE] [ChemPort]
first citation in article
-
C. Chothia, Nature (London) 254, 304 (1975). [Inspec] [MEDLINE] [ChemPort]
first citation in article
-
C. Chothia and J. Janin, Nature (London) 256, 705 (1975). [Inspec] [ISI] [MEDLINE] [ChemPort]
first citation in article
-
A. G. Murzin, S. E. Brenner, T. Hubbard, and C. Chothia, J. Mol. Biol. 247, 536 (1995). [ISI] [MEDLINE] [ChemPort]
first citation in article
-
C. E. Lawrence, S. F. Altschul, M. S. Boguski, J. S. Liu, A. F. Neuwald, and J. C. Wootton, Science 262, 208 (1993). [ISI] [MEDLINE] [ChemPort]
first citation in article
-
H. M. Berman, J. Westbrook, Z. Feng, G. Gilliland, T. N. Bhat, H. Weissig, I. N. Shindyalov, and P. E. Bourne, Nucleic Acids Res. 28, 235 (2000). [ISI] [MEDLINE] [ChemPort]
first citation in article
-
M. Levitt, J. Mol. Biol. 226, 507 (1992). [ISI] [MEDLINE] [ChemPort]
first citation in article
-
See EPAPS Document No. E-JCPSA6-121-519447 for additional tables. A
direct link to this document may be found in the online article's HTML
reference section. The document may also be reached via the EPAPS
homepage (http://www.aip.org/pubservs/epaps.html) or from ftp.aip.org
in the directory /epaps/. See the EPAPS homepage for more information. [EPAPS]
first citation in article
-
Orientational potentials used here are available on the author's URLs.
first citation in article
Previous section: IV. DISCUSSION
Next section: FIGURES
Title Page