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TY  - JOUR
AU  - Eaton, W. A.
AU  - Munoz, V.
AU  - Thompson, P. A.
AU  - Henry, E. R.
AU  - Hofrichter, J.
TI  - Kinetics and dynamics of loops, [alpha]-helices, [beta]-hairpins, and fast-folding proteins
JO  - Acc. Chem. Res.
PY  - 1998///
VL  - 31
SP  - 745
EP  - 753
M3  - 10.1021/ar9700825
N1  - 10.1021/ar9700825
UR  - http://dx.doi.org/10.1021/ar9700825
ER  - 

TY  - JOUR
AU  - Mayor, U.
AU  - Johnson, C. M.
AU  - Daggett, V.
AU  - Fersht, A. R.
TI  - Protein folding and unfolding in microseconds to nanoseconds by experiment and simulation
JO  - Proc. Natl Acad. Sci. USA
PY  - 2000///
VL  - 97
SP  - 13518
EP  - 13522
M3  - 10.1073/pnas.250473497
N1  - 10.1073/pnas.250473497
UR  - http://dx.doi.org/10.1073/pnas.250473497
ER  - 

TY  - JOUR
AU  - Duan, Y.
AU  - Kollman, P. A.
TI  - Pathways to a protein folding intermediate observed in a 1-microsecond simulation in aqueous solution
JO  - Science
PY  - 1998///
VL  - 282
SP  - 740
EP  - 744
M3  - 10.1126/science.282.5389.740
N1  - 10.1126/science.282.5389.740
UR  - http://dx.doi.org/10.1126/science.282.5389.740
ER  - 

TY  - JOUR
AU  - Wolynes, P. G.
AU  - Onuchic, J. N.
AU  - Thirumalai, D.
TI  - Navigating the folding routes
JO  - Science
PY  - 1995///
VL  - 267
SP  - 1619
EP  - 1620
ER  - 

TY  - JOUR
AU  - Dill, K. A.
AU  - Chan, H. S.
TI  - From Levinthal to pathways to funnels
JO  - Nature Struct. Biol.
PY  - 1997///
VL  - 4
SP  - 10
EP  - 19
ER  - 

TY  - JOUR
AU  - Shea, J.
AU  - Brooks, C. L.
TI  - From folding theories to folding proteins: a review and assessment of simulation studies of protein folding and unfolding
JO  - Annu. Rev. Phys. Chem.
PY  - 2001///
VL  - 52
SP  - 499
EP  - 535
M3  - 10.1146/annurev.physchem.52.1.499
N1  - 10.1146/annurev.physchem.52.1.499
UR  - http://dx.doi.org/10.1146/annurev.physchem.52.1.499
ER  - 

TY  - JOUR
AU  - Ferrara, P.
AU  - Apostolakis, J.
AU  - Caflisch, A.
TI  - Thermodynamics and kinetics of folding of two model peptides investigated by molecular dynamics simulations
JO  - J. Phys. Chem. B
PY  - 2000///
VL  - 104
SP  - 5000
EP  - 5010
M3  - 10.1021/jp994157t
N1  - 10.1021/jp994157t
UR  - http://dx.doi.org/10.1021/jp994157t
ER  - 

TY  - JOUR
AU  - Daura, X.
AU  - Jaun, B.
AU  - Seebach, D.
AU  - Gunsteren, W. F. v.
AU  - Mark, A. E.
TI  - Reversible peptide folding in solution by molecular dynamics simulation
JO  - J. Mol. Biol.
PY  - 1998///
VL  - 280
SP  - 925
EP  - 932
M3  - 10.1006/jmbi.1998.1885
N1  - 10.1006/jmbi.1998.1885
UR  - http://dx.doi.org/10.1006/jmbi.1998.1885
ER  - 

TY  - JOUR
AU  - Ferrara, P.
AU  - Caflisch, A.
TI  - Folding simulations of a three-stranded antiparallel [beta]-sheet peptide
JO  - Proc. Natl Acad. Sci. USA
PY  - 2000///
VL  - 97
SP  - 10780
EP  - 10785
M3  - 10.1073/pnas.190324897
N1  - 10.1073/pnas.190324897
UR  - http://dx.doi.org/10.1073/pnas.190324897
ER  - 

TY  - JOUR
AU  - Zagrovic, B.
AU  - Sorin, E. J.
AU  - Pande, V. S.
TI  - [beta]-hairpin folding simulations in atomistic detail using an implicit solvent model
JO  - J. Mol. Biol.
PY  - 2001///
VL  - 313
SP  - 151
EP  - 169
M3  - 10.1006/jmbi.2001.5033
N1  - 10.1006/jmbi.2001.5033
UR  - http://dx.doi.org/10.1006/jmbi.2001.5033
ER  - 

TY  - JOUR
AU  - Fersht, A. R.
AU  - Matouschek, A.
AU  - Serrano, L.
TI  - The folding of an enzyme I. Theory of protein engineering analysis of stability and pathway of protein folding
JO  - J. Mol. Biol.
PY  - 1992///
VL  - 224
SP  - 771
EP  - 782
ER  - 

TY  - JOUR
AU  - Lapidus, L. J.
AU  - Eaton, W. A.
AU  - Hofrichter, J.
TI  - Measuring the rate of intramolecular contact formation in polypeptides
JO  - Proc. Natl Acad. Sci. USA
PY  - 2000///
VL  - 97
SP  - 7220
EP  - 7225
M3  - 10.1073/pnas.97.13.7220
N1  - 10.1073/pnas.97.13.7220
UR  - http://dx.doi.org/10.1073/pnas.97.13.7220
ER  - 

TY  - JOUR
AU  - Bieri, O.
TI  - The speed limit of protein folding measure by triplet-triplet energy transfer
JO  - Proc. Natl Acad. Sci. USA
PY  - 1999///
VL  - 96
SP  - 9597
EP  - 9601
M3  - 10.1073/pnas.96.17.9597
N1  - 10.1073/pnas.96.17.9597
UR  - http://dx.doi.org/10.1073/pnas.96.17.9597
ER  - 

TY  - JOUR
AU  - Shirts, M.
AU  - Pande, V. S.
TI  - Screen savers of the world unite
JO  - Science
PY  - 2000///
VL  - 290
SP  - 1903
EP  - 1904
M3  - 10.1126/science.290.5498.1903
N1  - 10.1126/science.290.5498.1903
UR  - http://dx.doi.org/10.1126/science.290.5498.1903
ER  - 

TY  - JOUR
AU  - Struthers, M.
AU  - Ottesen, J. J.
AU  - Imperiali, B.
TI  - Design and NMR analyses of compact, independently folded BBA motifs
JO  - Folding Des.
PY  - 1998///
VL  - 3
SP  - 95
EP  - 103
ER  - 

TY  - JOUR
AU  - Struthers, M. D.
AU  - Cheng, R. C.
AU  - Imperiali, B.
TI  - Design of a monomeric 23-residue polypeptide with defined tertiary structure
JO  - Science
PY  - 1996///
VL  - 271
SP  - 342
EP  - 345
ER  - 

TY  - JOUR
AU  - Ervin, J.
AU  - Sabelko, J.
AU  - Gruebele, M.
TI  - Submicrosecond real-time fluorescence detection: application to protein folding
JO  - J. Photochem. Photobiol. Biol.
PY  - 2000///
VL  - 54
SP  - 1
EP  - 15
M3  - 10.1016/S1011-1344(00)00002-6
N1  - 10.1016/S1011-1344(00)00002-6
UR  - http://dx.doi.org/10.1016/S1011-1344(00)00002-6
ER  - 

TY  - JOUR
AU  - Chandler, D.
TI  - Statistical mechanics of isomerization dynamics in liquids and the transition state approximation
JO  - J. Chem. Phys.
PY  - 1978///
VL  - 68
SP  - 2959
EP  - 2970
M3  - 10.1063/1.436049
N1  - 10.1063/1.436049
UR  - http://dx.doi.org/10.1063/1.436049
ER  - 

TY  - JOUR
AU  - Gilmanshin, R.
AU  - Williams, S.
AU  - Callender, R. H.
AU  - Woodruff, W. H.
AU  - Dyer, R. B.
TI  - Fast events in protein folding: relaxation dynamics of secondary and tertiary structure in native apomyoglobin
JO  - Proc. Natl Acad. Sci. USA
PY  - 1997///
VL  - 94
SP  - 3709
EP  - 3713
M3  - 10.1073/pnas.94.8.3709
N1  - 10.1073/pnas.94.8.3709
UR  - http://dx.doi.org/10.1073/pnas.94.8.3709
ER  - 

TY  - JOUR
AU  - Ballew, R. M.
AU  - Sabelko, J.
AU  - Gruebele, M.
TI  - Direct observation of fast protein folding: the initial collapse of apomyoglobin
JO  - Proc. Natl Acad. Sci. USA
PY  - 1996///
VL  - 93
SP  - 5759
EP  - 5764
M3  - 10.1073/pnas.93.12.5759
N1  - 10.1073/pnas.93.12.5759
UR  - http://dx.doi.org/10.1073/pnas.93.12.5759
ER  - 

TY  - JOUR
AU  - Plaxco, K. W.
AU  - Simons, K. T.
AU  - Baker, D.
TI  - Contact order transition state placement and the refolding rates of single domain proteins
JO  - J. Mol. Biol.
PY  - 1998///
VL  - 277
SP  - 985
EP  - 994
M3  - 10.1006/jmbi.1998.1645
N1  - 10.1006/jmbi.1998.1645
UR  - http://dx.doi.org/10.1006/jmbi.1998.1645
ER  - 

TY  - JOUR
AU  - Moore, S.
AU  - Stein, W.
TI  - Amino acid determination, methods and techniques
JO  - J. Biol. Chem.
PY  - 1951///
VL  - 192
SP  - 663
EP  - 670
ER  - 

TY  - JOUR
AU  - Ponder, J. W.
AU  - Richards, F. M.
TI  - An efficient Newton-like method for molecular mechanics energy minimization of large molecules
JO  - J. Comput. Chem.
PY  - 1987///
VL  - 8
SP  - 1016
EP  - 1024
ER  - 

TY  - JOUR
AU  - Fletcher, R.
AU  - Powell, M. J. D.
TI  - A rapidly convergent descent method for minimization
JO  - Comput. J.
PY  - 1963///
VL  - 6
SP  - 163
EP  - 168
ER  - 

TY  - JOUR
AU  - Koehl, P.
AU  - Delarue, M.
TI  - On the use of a self-consistent mean field theory to predict protein side chain conformations and estimate their entropies
JO  - J. Mol. Biol.
PY  - 1994///
VL  - 239
SP  - 249
EP  - 275
M3  - 10.1006/jmbi.1994.1366
N1  - 10.1006/jmbi.1994.1366
UR  - http://dx.doi.org/10.1006/jmbi.1994.1366
ER  - 

TY  - JOUR
AU  - Qiu, D.
AU  - Shenkin, P. S.
AU  - Hollinger, F. P.
AU  - Still, W. C.
TI  - The GB/SA Continuum model for solvation. A fast analytical method for the calculation of approximate Born radii
JO  - J. Phys. Chem. A
PY  - 1997///
VL  - 101
SP  - 3005
EP  - 3014
M3  - 10.1021/jp961992r
N1  - 10.1021/jp961992r
UR  - http://dx.doi.org/10.1021/jp961992r
ER  - 

TY  - JOUR
AU  - Jorgensen, W. L.
AU  - Tirado-Rives, J.
TI  - The OPLS force field for proteins. Energy minimizations for crystals of cyclic peptides and crambin
JO  - J. Am. Chem. Soc.
PY  - 1988///
VL  - 110
SP  - 1657
EP  - 1666
ER  - 

TY  - JOUR
AU  - Andersen, H. C.
TI  - Rattle: a `velocity' version of the shake algorithm for molecular dynamics calculations
JO  - J. Comput. Phys.
PY  - 1983///
VL  - 52
SP  - 24
EP  - 34
ER  - 

TY  - JOUR
AU  - Kabsch, W.
AU  - Sander, C.
TI  - Dictionary of protein secondary structure: pattern recognition of hydrogen-bonded and geometrical features
JO  - Biopolymers
PY  - 1983///
VL  - 22
SP  - 2577
EP  - 2637
ER  - 

