-
1
-
-
0035132230
-
Anisotropy of fluctuation dynamics of proteins with an elastic network model
-
Atilgan, A.R., Durell, S.R., Jernigan, R.L., Demirel, M.C., Keskin, O., and Bahar, I. 2001. Anisotropy of fluctuation dynamics of proteins with an elastic network model. Biophys. J. 80: 505-515.
-
(2001)
Biophys. J.
, vol.80
, pp. 505-515
-
-
Atilgan, A.R.1
Durell, S.R.2
Jernigan, R.L.3
Demirel, M.C.4
Keskin, O.5
Bahar, I.6
-
2
-
-
0030623823
-
Direct evaluation of thermal fluctuations in proteins using a single parameter harmonic potential
-
Bahar, I., Atilgan, A.R., and Erman, B. 1997. Direct evaluation of thermal fluctuations in proteins using a single parameter harmonic potential. Fold. Des. 2: 173-181.
-
(1997)
Fold. Des.
, vol.2
, pp. 173-181
-
-
Bahar, I.1
Atilgan, A.R.2
Erman, B.3
-
3
-
-
84986512474
-
CHARMM: A program for macromolecular energy, minimization, and dynamics calculations
-
Brooks, B.R., Bruccoleri, R.E., Olafson, B.D., States, D.J., Swaminathan, S., and Karplus, M. 1983. CHARMM: A program for macromolecular energy, minimization, and dynamics calculations. J. Comput. Chem. 4: 187-217.
-
(1983)
J. Comput. Chem.
, vol.4
, pp. 187-217
-
-
Brooks, B.R.1
Bruccoleri, R.E.2
Olafson, B.D.3
States, D.J.4
Swaminathan, S.5
Karplus, M.6
-
4
-
-
0003525155
-
-
John Wiley & Sons, New York
-
Brooks III, C.L., Karplus, M., and Pettitt, B.M. 1988. Proteins: A theoretical perspective of dynamics, structure, and thermodynamics. John Wiley & Sons, New York.
-
(1988)
Proteins: A Theoretical Perspective of Dynamics, Structure, and Thermodynamics
-
-
Brooks III, C.L.1
Karplus, M.2
Pettitt, B.M.3
-
5
-
-
0036904038
-
Changes in flexibility upon binding: Application of the self-consistent pair contact probability method to protein-protein interactions
-
Canino, L.S., Shen, T.Y., and McCammon, J.A. 2002. Changes in flexibility upon binding: Application of the self-consistent pair contact probability method to protein-protein interactions. J. Chem. Phys. 117: 9927-9933.
-
(2002)
J. Chem. Phys.
, vol.117
, pp. 9927-9933
-
-
Canino, L.S.1
Shen, T.Y.2
McCammon, J.A.3
-
6
-
-
0030877077
-
Extent and nature of contacts between protein molecules in crystal lattices and between subunits of protein oligomers
-
Dasgupta, S., Iyer, G.H., Lawrence, S.H., and Bell, J.A. 1997. Extent and nature of contacts between protein molecules in crystal lattices and between subunits of protein oligomers. Proteins 28: 494-514.
-
(1997)
Proteins
, vol.28
, pp. 494-514
-
-
Dasgupta, S.1
Iyer, G.H.2
Lawrence, S.H.3
Bell, J.A.4
-
7
-
-
0034663710
-
Dynamics of proteins predicted by molecular dynamics simulations and analytical approaches: Application to α-amylase inhibitor
-
Doruker, P., Atilgan, A.R., and Bahar, I. 2000. Dynamics of proteins predicted by molecular dynamics simulations and analytical approaches: Application to α-amylase inhibitor. Proteins 40: 512-524.
-
(2000)
Proteins
, vol.40
, pp. 512-524
-
-
Doruker, P.1
Atilgan, A.R.2
Bahar, I.3
-
8
-
-
0035427398
-
Protein flexibility prediction using graph theory
-
Jacobs, D.J., Rader, A.J., Kuhn, L.A., and Thorpe, M.F. 2001. Protein flexibility prediction using graph theory. Proteins 44: 150-165.
-
(2001)
Proteins
, vol.44
, pp. 150-165
-
-
Jacobs, D.J.1
Rader, A.J.2
Kuhn, L.A.3
Thorpe, M.F.4
-
9
-
-
0042130544
-
Simple two-state protein folding kinetics requires near-Levinthal thermodynamic cooperativity
-
Kaya, H. and Chan, H. 2003. Simple two-state protein folding kinetics requires near-Levinthal thermodynamic cooperativity. Proteins 52: 510-523.
-
(2003)
Proteins
, vol.52
, pp. 510-523
-
-
Kaya, H.1
Chan, H.2
-
10
-
-
0037452894
-
Discrimination of native protein structures using atom-atom contact scoring
-
McConkey, B.J., Sobolev, V., and Eldman, M. 2003. Discrimination of native protein structures using atom-atom contact scoring. Proc. Natl. Acad. Sci. 100: 3215-3220.
-
(2003)
Proc. Natl. Acad. Sci.
, vol.100
, pp. 3215-3220
-
-
McConkey, B.J.1
Sobolev, V.2
Eldman, M.3
-
11
-
-
0035920986
-
Conformations of proteins in equilibrium
-
Micheletti, C., Banavar, J.R., and Maritan, A. 2001. Conformations of proteins in equilibrium. Phys. Rev. Lett. 87: 088102.
-
(2001)
Phys. Rev. Lett.
, vol.87
, pp. 088102
-
-
Micheletti, C.1
Banavar, J.R.2
Maritan, A.3
-
12
-
-
0036073320
-
Crucial stages of protein folding through a solvable model: Predicting target sites for enzyme-inhibiting drugs
-
Micheletti, C., Cecconi, F., Flammini, A., and Maritan, A. 2002. Crucial stages of protein folding through a solvable model: Predicting target sites for enzyme-inhibiting drugs. Protein Sci. 11: 1878-1887.
-
(2002)
Protein Sci.
, vol.11
, pp. 1878-1887
-
-
Micheletti, C.1
Cecconi, F.2
Flammini, A.3
Maritan, A.4
-
13
-
-
2442543557
-
Accurate and efficient description of protein vibrational dynamics: Comparing molecular dynamics and Gaussian models
-
Micheletti, C., Carloni, P., and Maritan, A. 2004. Accurate and efficient description of protein vibrational dynamics: Comparing molecular dynamics and Gaussian models. Proteins 55: 635-645.
-
(2004)
Proteins
, vol.55
, pp. 635-645
-
-
Micheletti, C.1
Carloni, P.2
Maritan, A.3
-
14
-
-
33845377127
-
Estimation of effective interresidue contact energies from protein crystal structures: Quasi-chemical approximation
-
Miyazawa, S. and Jernigan, R. 1985. Estimation of effective interresidue contact energies from protein crystal structures: Quasi-chemical approximation. Macromole 18: 534-552.
-
(1985)
Macromole
, vol.18
, pp. 534-552
-
-
Miyazawa, S.1
Jernigan, R.2
-
15
-
-
0018588511
-
Stability of proteins: Small globular proteins
-
Privalov, P.L. 1979. Stability of proteins: Small globular proteins. Adv. Protein Chem. 33: 167-241.
-
(1979)
Adv. Protein Chem.
, vol.33
, pp. 167-241
-
-
Privalov, P.L.1
-
16
-
-
0037025564
-
Unfolding proteins under external forces: A solvable model under the self-consistent pair contact probability approximation
-
Shen, T., Canino, L.S., and McCammon, J.A. 2002. Unfolding proteins under external forces: A solvable model under the self-consistent pair contact probability approximation. Phys. Rev. Lett. 89: 068103.
-
(2002)
Phys. Rev. Lett.
, vol.89
, pp. 068103
-
-
Shen, T.1
Canino, L.S.2
McCammon, J.A.3
-
17
-
-
0016696599
-
Studies on protein folding, unfolding and fluctuations by computer simulations
-
Taketomi, H., Ueda, Y., and Go, N. 1975. Studies on protein folding, unfolding and fluctuations by computer simulations. Int. J. Peptide Protein Res. 7: 445-459.
-
(1975)
Int. J. Peptide Protein Res.
, vol.7
, pp. 445-459
-
-
Taketomi, H.1
Ueda, Y.2
Go, N.3
-
18
-
-
0017842051
-
Studies on protein folding, unfolding and fluctuations by computer simulations, II: A three-dimensional lattice model of lysozyme
-
Ueda, Y., Taketomi, H., and Go, N. 1978. Studies on protein folding, unfolding and fluctuations by computer simulations, II: A three-dimensional lattice model of lysozyme. Biopolymers 17: 1531-1548.
-
(1978)
Biopolymers
, vol.17
, pp. 1531-1548
-
-
Ueda, Y.1
Taketomi, H.2
Go, N.3
-
19
-
-
0037075457
-
Thermodynamics of an all-atom off-lattice model of the fragment B of staphylococcal protein A: Implication for the origin of the cooperativity of protein folding
-
Zhou, Y. and Linhananta, A. 2002. Thermodynamics of an all-atom off-lattice model of the fragment B of staphylococcal protein A: Implication for the origin of the cooperativity of protein folding. J. Phys. Chem. B 106: 1481-1485.
-
(2002)
J. Phys. Chem. B
, vol.106
, pp. 1481-1485
-
-
Zhou, Y.1
Linhananta, A.2
-
20
-
-
0032902402
-
The calorimetric criterion for a two-state process revisited
-
Zhou, Y., Hall, C.K., and Karplus, M. 1999. The calorimetric criterion for a two-state process revisited. Protein Sci. 8: 1064-1074.
-
(1999)
Protein Sci.
, vol.8
, pp. 1064-1074
-
-
Zhou, Y.1
Hall, C.K.2
Karplus, M.3
|