-
1
-
-
0001101548
-
Free energy analysis of protein - DNA binding: The EcoRI endonuclease-DNA complex
-
Jayaram, B., McConnel, K. J., Dixit, S. B. and Beveridge, D. L. (1999). "Free energy analysis of protein - DNA binding: the EcoRI endonuclease-DNA complex", J. Comp. Phys., 151, 333.
-
(1999)
J. Comp. Phys.
, vol.151
, pp. 333
-
-
Jayaram, B.1
McConnel, K.J.2
Dixit, S.B.3
Beveridge, D.L.4
-
2
-
-
33746379553
-
Molecular dynamics and thermodynamics of a protein-RNA complex: Mutation of a conserved aromatic residue modifies stacking interactions and structural adaptation in the U1A-stem loop 2 RNA complex
-
Blakaj, D. M., McConnell, K. J., Beveridge, D. L. and Baranger, A. M. (2000). "Molecular dynamics and thermodynamics of a protein-RNA complex: mutation of a conserved aromatic residue modifies stacking interactions and structural adaptation in the U1A-stem loop 2 RNA complex", J., Amer. Chem. Soc., submitted.
-
(2000)
J., Amer. Chem. Soc., Submitted.
-
-
Blakaj, D.M.1
McConnell, K.J.2
Beveridge, D.L.3
Baranger, A.M.4
-
3
-
-
0028861437
-
Elusive affinities
-
Janin, J. (1995). "Elusive affinities", Proteins, 21, 30.
-
(1995)
Proteins
, vol.21
, pp. 30
-
-
Janin, J.1
-
4
-
-
0024578173
-
Free energy via molecular simulation: Applications to chemical and biomolecular systems
-
Beveridge, D. L. and DiCapua, F. M. (1989). "Free energy via molecular simulation: applications to chemical and biomolecular systems", Ann. Rev. Biophys. Chem., 18, 431.
-
(1989)
Ann. Rev. Biophys. Chem.
, vol.18
, pp. 431
-
-
Beveridge, D.L.1
Dicapua, F.M.2
-
5
-
-
0009590921
-
Free energy calculations: A breakthrough for modeling organic chemistry in solution
-
Jorgensen, W. L. (1989). "Free energy calculations: A breakthrough for modeling organic chemistry in solution", Acc. Chem. Res., 22, 184.
-
(1989)
Acc. Chem. Res.
, vol.22
, pp. 184
-
-
Jorgensen, W.L.1
-
7
-
-
7044239742
-
Free energy calculations: Applications to chemical and biochemical phenomena
-
Kollman, P. A. (1993). "Free energy calculations: Applications to chemical and biochemical phenomena", Chem. Rev., 93, 2395.
-
(1993)
Chem. Rev.
, vol.93
, pp. 2395
-
-
Kollman, P.A.1
-
8
-
-
33746353969
-
-
Dissertation, Harvard Univ.
-
Simon, E. J. (1996). Dissertation, Harvard Univ.
-
(1996)
-
-
Simon, E.J.1
-
9
-
-
2142813682
-
Computer simulation of molecular dynamics: Methodology, applications and perspectives in chemistry
-
Van Gunsteren, W. F. and Berendsen, H. J. C. (1990). "Computer simulation of molecular dynamics: methodology, applications and perspectives in chemistry", Agnew. Chem. Int. Ed. Engl., 29, 992.
-
(1990)
Agnew. Chem. Int. Ed. Engl.
, vol.29
, pp. 992
-
-
Van Gunsteren, W.F.1
Berendsen, H.J.C.2
-
10
-
-
0032881916
-
Free energy calculations and molecular dynamics simulations of wild-type and variants of the DNA-ECORI complex
-
Sen, S. and Nilsson, L. (1999). "Free energy calculations and molecular dynamics simulations of wild-type and variants of the DNA-ECORI complex", Biophys. J., 77, 1801.
-
(1999)
Biophys. J.
, vol.77
, pp. 1801
-
-
Sen, S.1
Nilsson, L.2
-
11
-
-
0031248055
-
Free energy of nonspecific binding of Cro repressor protein to DNA
-
Thomasson, K. A., Ouporov, I. V., Baumgartner, T. et al. (1998). "Free energy of nonspecific binding of Cro repressor protein to DNA", J. Phys. Chem. B, 101, 9127.
-
(1998)
J. Phys. Chem. B
, vol.101
, pp. 9127
-
-
Thomasson, K.A.1
Ouporov, I.V.2
Baumgartner, T.3
-
12
-
-
0032846562
-
Structure, interaction, dynamics and solvent effects on the DNA-EcoRI complex in aqueous solution from molecular dynamics simulation
-
Sen, S. and Nilsson, L. (1999). "Structure, interaction, dynamics and solvent effects on the DNA-EcoRI complex in aqueous solution from molecular dynamics simulation", Biophys. J., 77, 1782.
-
(1999)
Biophys. J.
, vol.77
, pp. 1782
-
-
Sen, S.1
Nilsson, L.2
-
13
-
-
0029623184
-
Computational methods to predict binding free energy in ligand-receptor complexes
-
Ajay and Murcko, M. A. (1995). "Computational methods to predict binding free energy in ligand-receptor complexes", J. Med. Chem., 38, 4953.
-
(1995)
J. Med. Chem.
, vol.38
, pp. 4953
-
-
Ajay1
Murcko, M.A.2
-
14
-
-
0029421048
-
Protein-protein recognition
-
Janin, J. (1995). "Protein-protein recognition", Prog. Biophys. Mol. Biol., 64, 145.
-
(1995)
Prog. Biophys. Mol. Biol.
, vol.64
, pp. 145
-
-
Janin, J.1
-
15
-
-
0024745871
-
The price of lost freedom: Entropy of biomolecular complex formation
-
Finkelstein, A. V. and Janin, J. (1989). "The price of lost freedom: Entropy of biomolecular complex formation", Protein Eng., 3, 1.
-
(1989)
Protein Eng.
, vol.3
, pp. 1
-
-
Finkelstein, A.V.1
Janin, J.2
-
16
-
-
0029094346
-
Enthalpic contribution to protein stability: Insights from atom-based calculations and statistical mechanics
-
Lazardis, T., Archontis, G. and Karplus, M. (1995). "Enthalpic contribution to protein stability: Insights from atom-based calculations and statistical mechanics", Adv. Protein Chem., 47, 231.
-
(1995)
Adv. Protein Chem.
, vol.47
, pp. 231
-
-
Lazardis, T.1
Archontis, G.2
Karplus, M.3
-
17
-
-
0031547977
-
Empirical free energy calculations: A blind test and further improvements to the method
-
Novotny, R. E., Bruccoleri, M. Davis et al. (1997). "Empirical free energy calculations: a blind test and further improvements to the method", J. Mol. Biol., 268, 401.
-
(1997)
J. Mol. Biol.
, vol.268
, pp. 401
-
-
Novotny, R.E.1
Davis, B.M.2
-
18
-
-
0031008575
-
On the calculation of binding free energies using continuum methods: Application to MHC class i protein-peptide interactions
-
1997
-
Proloff, N., Windemuth, A. and Honig, B. (1997). On the Calculation of Binding Free Energies using Continuum Methods: Application to MHC Class I Protein-Peptide Interactions, Protein Science, 6, 1293 (1997).
-
(1997)
Protein Science
, vol.6
, pp. 1293
-
-
Proloff, N.1
Windemuth, A.2
Honig, B.3
-
19
-
-
0031058541
-
The statistical thermodynamic basis for computation of binding affinities: A critical review
-
Gilson, M. K., Given, J. A., Bush, B. L. et al. (1997). "The statistical thermodynamic basis for computation of binding affinities: a critical review", Biophys. J., 72, 1047.
-
(1997)
Biophys. J.
, vol.72
, pp. 1047
-
-
Gilson, M.K.1
Given, J.A.2
Bush, B.L.3
-
20
-
-
0032537485
-
Theoretical and experiment analysis of ionization equilibria in ovomucoid third domain
-
Forsyth, W. R., Gilson, M. K., Antosiewicz, J. et al. (1998). Theoretical and experiment analysis of ionization equilibria in ovomucoid third domain, Biochemistry, 37, 8643.
-
(1998)
Biochemistry
, vol.37
, pp. 8643
-
-
Forsyth, W.R.1
Gilson, M.K.2
Antosiewicz, J.3
-
21
-
-
0344778061
-
Semianalytical treatment of solvation for molecular mechanics and dynamics
-
Still, W. C., Tempczyk, R. C., Hawley, R. C. et al. (1990). "Semianalytical treatment of solvation for molecular mechanics and dynamics", J. Am. Chem. Soc., 112, 6127.
-
(1990)
J. Am. Chem. Soc.
, vol.112
, pp. 6127
-
-
Still, W.C.1
Tempczyk, R.C.2
Hawley, R.C.3
-
22
-
-
33748390341
-
Parametrized models of aqueous free energies of solvation based on pairwise descreening of solute atomic charges from a dielectric medium
-
Hawkins, G. D., Cramer, C. J. and Truhlar, D. G. (1996). Parametrized models of aqueous free energies of solvation based on pairwise descreening of solute atomic charges from a dielectric medium, J. Phys. Chem., 100, 19824.
-
(1996)
J. Phys. Chem.
, vol.100
, pp. 19824
-
-
Hawkins, G.D.1
Cramer, C.J.2
Truhlar, D.G.3
-
23
-
-
0002636134
-
Pairwise solute descreening of solute charges from a dielectric medium
-
Hawkins, G. D., Cramer, C. J. and Truhlar, D. G. (1995). "Pairwise solute descreening of solute charges from a dielectric medium, Chem. Phys. Lett., 246, 122.
-
(1995)
Chem. Phys. Lett.
, vol.246
, pp. 122
-
-
Hawkins, G.D.1
Cramer, C.J.2
Truhlar, D.G.3
-
24
-
-
0000741414
-
A modification of the generalized Born theory for improved estimates of solvation energies and pKa Shifts
-
Jayaram, B., Liu, Y. and Beveridge, D. L. (1998). "A modification of the generalized Born theory for improved estimates of solvation energies and pKa Shifts", J. Phys. Chem., 109, 1465.
-
(1998)
J. Phys. Chem.
, vol.109
, pp. 1465
-
-
Jayaram, B.1
Liu, Y.2
Beveridge, D.L.3
-
25
-
-
0000043930
-
Solvation free energy of biomacromolecules: Parameters for a modified generalized Born model consistent with the AMBER force field
-
Jayaram, B., Sprous, D. and Beveridge, D. L. (1998). "Solvation free energy of biomacromolecules: parameters for a modified generalized Born model consistent with the AMBER force field", J. Phys. Chem. B, 102, 9571.
-
(1998)
J. Phys. Chem. B
, vol.102
, pp. 9571
-
-
Jayaram, B.1
Sprous, D.2
Beveridge, D.L.3
-
26
-
-
0000122439
-
Solvation free energies calculated using the GB/SA model
-
Reddy, M. R., Erion, M. D., Agarwal, A. et al. (1998). "Solvation free energies calculated using the GB/SA model", J. Comp. Chem., 19, 769.
-
(1998)
J. Comp. Chem.
, vol.19
, pp. 769
-
-
Reddy, M.R.1
Erion, M.D.2
Agarwal, A.3
-
28
-
-
0008565415
-
The λ repressor contains two domains
-
Pabo, C. O., Sauer, R. T., Sturtevart, J., Ptashne, M. (1979). "The λ repressor contains two domains", Proc. Natl. Acad. Sci. USA, 76, 1608.
-
(1979)
Proc. Natl. Acad. Sci. USA
, vol.76
, pp. 1608
-
-
Pabo, C.O.1
Sauer, R.T.2
Sturtevart, J.3
Ptashne, M.4
-
29
-
-
0019977222
-
The operator-binding domain of λ represser: Structure and DNA recognition
-
Pabo, C. O. and Lewis, M. (1982). "The operator-binding domain of λ represser: structure and DNA recognition", Nature, 298, 443.
-
(1982)
Nature
, vol.298
, pp. 443
-
-
Pabo, C.O.1
Lewis, M.2
-
30
-
-
0024284648
-
Structure of the lambda complex at 2.5 Å resolution: Details of the represser-operator interactions
-
Jordan, S. R. and Pabo, C. O. (1988). "Structure of the lambda complex at 2.5 Å resolution: details of the represser-operator interactions", Science, 242, 893.
-
(1988)
Science
, vol.242
, pp. 893
-
-
Jordan, S.R.1
Pabo, C.O.2
-
31
-
-
0026657433
-
Refined 1.8 crystal structure of the λ repressor-operator complex
-
Beamer, L. J. and Pabo, C. O. (1992). "Refined 1.8 crystal structure of the λ repressor-operator complex", J. Mol. Biol., 227, 177.
-
(1992)
J. Mol. Biol.
, vol.227
, pp. 177
-
-
Beamer, L.J.1
Pabo, C.O.2
-
32
-
-
0026012258
-
The DNA binding arm of λ represser: Critical contacts from a flexible region
-
Clarke, N. D., Beamer, L. J., Goldberg, H. R., Berkower, C. and Pabo, C. O. (1991). "The DNA binding arm of λ represser: critical contacts from a flexible region", Science, 254, 267.
-
(1991)
Science
, vol.254
, pp. 267
-
-
Clarke, N.D.1
Beamer, L.J.2
Goldberg, H.R.3
Berkower, C.4
Pabo, C.O.5
-
33
-
-
0023128688
-
Dimerization of the operator binding domain of phage λ repressor
-
Weiss, M. A., Pabo, C. O., Karplus, M. and Sauer, R. T. (1987a). "Dimerization of the operator binding domain of phage λ repressor", Biochemistry, 26, 897.
-
(1987)
Biochemistry
, vol.26
, pp. 897
-
-
Weiss, M.A.1
Pabo, C.O.2
Karplus, M.3
Sauer, R.T.4
-
34
-
-
0023460091
-
Quaternary structure and function in phage λ represser: 1H-NMR studies of genetically altered proteins
-
Weiss, M. A., Karplus, M. and Sauer, R. T. (1987b). "Quaternary structure and function in phage λ represser: 1H-NMR studies of genetically altered proteins", J. Biomolec. Struc. Dyn., 5, 539.
-
(1987)
J. Biomolec. Struc. Dyn.
, vol.5
, pp. 539
-
-
Weiss, M.A.1
Karplus, M.2
Sauer, R.T.3
-
36
-
-
0028361125
-
An altered specificity mutation in the λ repressor induces global reorganization of the protein- DNA interface
-
Benevides, J. M., Weiss, M. A. and Thomas, G. J. Jr. (1994). "An altered specificity mutation in the λ repressor induces global reorganization of the protein- DNA interface", J. Biol. Chem., 269, 10869.
-
(1994)
J. Biol. Chem.
, vol.269
, pp. 10869
-
-
Benevides, J.M.1
Weiss, M.A.2
Thomas Jr., G.J.3
-
37
-
-
0025330003
-
A model system for understanding protein-DNA interactions and protein stability
-
Sauer, R. T., Jordan, S. R. and Pabo, C. O. (1990). "A model system for understanding protein-DNA interactions and protein stability", Adv. Prot. Chem., 40, 1.
-
(1990)
Adv. Prot. Chem.
, vol.40
, pp. 1
-
-
Sauer, R.T.1
Jordan, S.R.2
Pabo, C.O.3
-
38
-
-
0028587151
-
Self-association and DNA binding of λ cI repressor N-terminal domains reveal linkage between sequence-specific binding and the C-terminal cooperativity domain
-
Bain, D. L. and Ackers, G. K. (1994). Self-association and DNA binding of λ cI repressor N-terminal domains reveal linkage between sequence-specific binding and the C-terminal cooperativity domain. Biochemistry, 33, 14679.
-
(1994)
Biochemistry
, vol.33
, pp. 14679
-
-
Bain, D.L.1
Ackers, G.K.2
-
39
-
-
0025939212
-
Energetics of subunit dimerization in bacteriophage λ cI repressor: Linkage to protons, temperature, and KCL
-
Koblan, K. S. and Ackers, G. K. (1991). "Energetics of subunit dimerization in bacteriophage λ cI repressor: linkage to protons, temperature, and KCL", Biochemistry, 30, 7817.
-
(1991)
Biochemistry
, vol.30
, pp. 7817
-
-
Koblan, K.S.1
Ackers, G.K.2
-
41
-
-
0025741694
-
Comparison of operator-specific and nonspecific DNA binding of the lambda cI repressor: [KCl] and pH effects
-
Senear, D. F. and Batcy, R. (1991). "Comparison of operator-specific and nonspecific DNA binding of the lambda cI repressor: [KCl] and pH effects", Biochemistry, 30, 6677.
-
(1991)
Biochemistry
, vol.30
, pp. 6677
-
-
Senear, D.F.1
Batcy, R.2
-
43
-
-
0022129542
-
Lambda repressor mutations that increase the affinity and specificity of operator binding
-
Nelson, H. C. M. and Sauer, R. T. (1985). "Lambda repressor mutations that increase the affinity and specificity of operator binding", Cell, 42, 549.
-
(1985)
Cell
, vol.42
, pp. 549
-
-
Nelson, H.C.M.1
Sauer, R.T.2
-
45
-
-
0035813016
-
Molecular dynamics simulation reveals sequence-intrinsic and protein-induced geometrical features of the OL1 DNA operator
-
in the press
-
Kombo, D. C., McConnel, K. J., Young, M. A. and Beveridge, D. L. (2001). "Molecular dynamics simulation reveals sequence-intrinsic and protein-induced geometrical features of the OL1 DNA operator", Biopolymers, in the press.
-
(2001)
Biopolymers
-
-
Kombo, D.C.1
McConnel, K.J.2
Young, M.A.3
Beveridge, D.L.4
-
46
-
-
0028061636
-
Molecular dynamics simulations in solvent of the estrogen receptor protein in complex with a glucocorticoid response element DNA sequence
-
Harris, L. F., Sullivan, M. R., Popken-Harris, P. D. et al. (1994). "Molecular dynamics simulations in solvent of the estrogen receptor protein in complex with a glucocorticoid response element DNA sequence", J. Biomol. Struct. Dyn., 12, 249.
-
(1994)
J. Biomol. Struct. Dyn.
, vol.12
, pp. 249
-
-
Harris, L.F.1
Sullivan, M.R.2
Popken-Harris, P.D.3
-
47
-
-
0032842805
-
Molecular dynamics simulation in solvent of the bacteriophage 434 cI repressor protein DNA binding domain amino acids (R1-69) in complex with its cognate operator (OR1) DNA sequence
-
Harris, L. F., Sullivan, M. R. and Popken-Harris, P. D. (1999). "Molecular dynamics simulation in solvent of the bacteriophage 434 cI repressor protein DNA binding domain amino acids (R1-69) in complex with its cognate operator (OR1) DNA sequence", J. Biomol. Struct. Dyn., 17, 1.
-
(1999)
J. Biomol. Struct. Dyn.
, vol.17
, pp. 1
-
-
Harris, L.F.1
Sullivan, M.R.2
Popken-Harris, P.D.3
-
48
-
-
0000996663
-
Molecular dynamics simulation of a Zif268-DNA complex in water: Spatial patterns and fluctuations sensed from a nanosecond trajectory
-
Roxstroem, G., Velazquez, I., Paulino, M. et al. (1998). "Molecular dynamics simulation of a Zif268-DNA complex in water: spatial patterns and fluctuations sensed from a nanosecond trajectory", J. Phys. Chem. B, 102, 1828.
-
(1998)
J. Phys. Chem. B
, vol.102
, pp. 1828
-
-
Roxstroem, G.1
Velazquez, I.2
Paulino, M.3
-
49
-
-
0030573020
-
Dynamics contributions to the DNA binding entropy of the EcoRI and EcoRV restriction endonucleases
-
Duan, Y., Wilkosz, P. and Rosenberg, J. M. (1996). "Dynamics contributions to the DNA binding entropy of the EcoRI and EcoRV restriction endonucleases", J. Mol. Biol., 264, 546.
-
(1996)
J. Mol. Biol.
, vol.264
, pp. 546
-
-
Duan, Y.1
Wilkosz, P.2
Rosenberg, J.M.3
-
51
-
-
0003882080
-
-
Edited by Franks, F., Plenum, New York
-
Friedman, H. L. and Krishnan, C. V. (1973). In: Water. A Comprehensive Treatise, Edited by Franks, F., Plenum, New York, 3.
-
(1973)
Water. A Comprehensive Treatise
, pp. 3
-
-
Friedman, H.L.1
Krishnan, C.V.2
-
52
-
-
0015222647
-
The interpretation of protein structures: Estimation of static accessibility, J
-
Lee, B. K. and Richards, F. M. (1971). "The Interpretation of Protein Structures: Estimation of Static Accessibility", J. Mol. Biol., 55, 379.
-
(1971)
Mol. Biol.
, vol.55
, pp. 379
-
-
Lee, B.K.1
Richards, F.M.2
-
53
-
-
33746351460
-
-
San Francisco, CA
-
Pearlman, D. A., Case, D. A., Caldwell, J. W., Ross, W. S., Cheatham III, T. E., Ferguson, D. M., Seibel, G. L., Singh, U. C., Weiner, P. A. and Kollman, P. A. (1995). Ambe 4.1. UCSF, San Francisco, CA.
-
(1995)
Ambe 4.1. UCSF
-
-
Pearlman, D.A.1
Case, D.A.2
Caldwell, J.W.3
Ross, W.S.4
Cheatham III, T.E.5
Ferguson, D.M.6
Seibel, G.L.7
Singh, U.C.8
Weiner, P.A.9
Kollman, P.A.10
-
54
-
-
0029011701
-
A second generation force field for the simulation of proteins, nucleic acids and organic molecules
-
Cornell, W. D., Cieplack, P., Bayly, C. I. et al. (1995). "A second generation force field for the simulation of proteins, nucleic acids and organic molecules", J. Am. Chem. Soc., 7, 5179.
-
(1995)
J. Am. Chem. Soc.
, vol.7
, pp. 5179
-
-
Cornell, W.D.1
Cieplack, P.2
Bayly, C.I.3
-
55
-
-
0034013723
-
One nanosecond molecular dynamics simulation of the N-terminal domain of the λ repressor
-
Kombo, D. C., Young, M. A. and Beveridge, D. L. (2000). "One nanosecond molecular dynamics simulation of the N-terminal domain of the λ repressor", Biopolymers, 53, 596.
-
(2000)
Biopolymers
, vol.53
, pp. 596
-
-
Kombo, D.C.1
Young, M.A.2
Beveridge, D.L.3
-
56
-
-
0029170114
-
Molecular dynamics simulation on solvated biomolecular systems: The particle Mesh Ewald method leads to stable trajectories of DNA, RNA and proteins
-
Cheatham III, T. E., Miller, J. L., Fox, T., Darden, T. A. and Kollman, P. A. (1995). "Molecular dynamics simulation on solvated biomolecular systems: The particle Mesh Ewald method leads to stable trajectories of DNA, RNA and proteins", J. Amer. Chem. Soc., 117, 4193-4194.
-
(1995)
J. Amer. Chem. Soc.
, vol.117
, pp. 4193-4194
-
-
Cheatham III, T.E.1
Miller, J.L.2
Fox, T.3
Darden, T.A.4
Kollman, P.A.5
-
57
-
-
0031047279
-
Intrusion of counterions into the spine of hydration in the minor groove of B-DNA: Fractional occupancy of electronegative pockets
-
Young, M. A., Jayaram, B. and Beveridge, D. L. (1997). "Intrusion of counterions into the spine of hydration in the minor groove of B-DNA: fractional occupancy of electronegative pockets", J. Am. Chem. Soc., 119, 59.
-
(1997)
J. Am. Chem. Soc.
, vol.119
, pp. 59
-
-
Young, M.A.1
Jayaram, B.2
Beveridge, D.L.3
-
58
-
-
33646940952
-
Numerical integration of the cartesian equations of motions of a system with constraints: Molecular dynamics of n-alkanes
-
Ryckaert, J.-P., Cicotti, B. and Berendsen, H. J. C. (1977). "Numerical integration of the cartesian equations of motions of a system with constraints: molecular dynamics of n-alkanes", J. Comp. Phys., 23, 327.
-
(1977)
J. Comp. Phys.
, vol.23
, pp. 327
-
-
Ryckaert, J.-P.1
Cicotti, B.2
Berendsen, H.J.C.3
-
60
-
-
0031008576
-
Hydrophobicity regained
-
Karplus, P. A. (1997). "Hydrophobicity regained", Protein Sci., 6, 1302.
-
(1997)
Protein Sci.
, vol.6
, pp. 1302
-
-
Karplus, P.A.1
-
61
-
-
0028239626
-
Salt effects on protein-DNA interactions. The λ cI repressor and EcoRI endonuclease
-
Misra, V. K., Hecht, J. L., Sharp, K. A., Friedman, R. A. and Honig, B. (1994). "Salt effects on protein-DNA interactions. The λ cI repressor and EcoRI endonuclease", J. M. B., 238, 264.
-
(1994)
J. M. B.
, vol.238
, pp. 264
-
-
Misra, V.K.1
Hecht, J.L.2
Sharp, K.A.3
Friedman, R.A.4
Honig, B.5
-
62
-
-
0023949179
-
Combinatorial cassette mutagenesis as a probe of the informational content of protein sequences
-
Reidhaar-Olson, J. F. and Sauer, R. T. (1988). "Combinatorial cassette mutagenesis as a probe of the informational content of protein sequences", Science, 241, 53.
-
(1988)
Science
, vol.241
, pp. 53
-
-
Reidhaar-Olson, J.F.1
Sauer, R.T.2
-
63
-
-
0025370163
-
Functionally acceptable substitutions in two α-helical regions of λ repressor
-
Reidhaar-Olson, J. F. and Sauer, R. T. (1990). "Functionally acceptable substitutions in two α-helical regions of λ repressor", Prot. Struct. Funct. Genet., 7, 306.
-
(1990)
Prot. Struct. Funct. Genet.
, vol.7
, pp. 306
-
-
Reidhaar-Olson, J.F.1
Sauer, R.T.2
-
64
-
-
0025032620
-
An essential proline in λ repressor is required for resistance to intracellular proteolysis
-
Reidhaar-Olson, J. F., Parsell, D. A. and Sauer, R. T. (1990). "An essential proline in λ repressor is required for resistance to intracellular proteolysis", Biochemistry, 29, 7563.
-
(1990)
Biochemistry
, vol.29
, pp. 7563
-
-
Reidhaar-Olson, J.F.1
Parsell, D.A.2
Sauer, R.T.3
-
65
-
-
0000058799
-
A repressor recognizes the approximately 2-fold symmetric half-operator sequences asymmetrically
-
Sarai, A. and Takeda, Y. (1989). "A repressor recognizes the approximately 2-fold symmetric half-operator sequences asymmetrically", Proc. Null. Acad. Sci. USA, 86, 6513.
-
(1989)
Proc. Null. Acad. Sci. USA
, vol.86
, pp. 6513
-
-
Sarai, A.1
Takeda, Y.2
-
66
-
-
0022050647
-
2-terminal arm of phage λ repressor contributes energy and specificity to repressor binding and determines the effects of operator binding
-
2-terminal arm of phage λ repressor contributes energy and specificity to repressor binding and determines the effects of operator binding". Proc. Nat. Acad. Sci., USA, 82, 2339.
-
(1985)
Proc. Nat. Acad. Sci., USA
, vol.82
, pp. 2339
-
-
Eliason, J.L.1
Weiss, M.A.2
Ptashne, M.3
-
67
-
-
0031754295
-
Electrostatic contributions to the binding free energy of the λ cI repressor to DNA
-
Misra, V. K., Hecht, J. L., Yang, A. S. and Honig, B. (1998). "Electrostatic contributions to the binding free energy of the λ cI repressor to DNA". Biophys. J., 75, 2262.
-
(1998)
Biophys. J.
, vol.75
, pp. 2262
-
-
Misra, V.K.1
Hecht, J.L.2
Yang, A.S.3
Honig, B.4
-
69
-
-
0000127140
-
Method for estimating the configurational entropy of macromolecules
-
Karplus, M. and Kushick, J. N. (1981). "Method for estimating the configurational entropy of macromolecules", Macromolecules, 14, 325.
-
(1981)
Macromolecules
, vol.14
, pp. 325
-
-
Karplus, M.1
Kushick, J.N.2
-
70
-
-
0011960339
-
Hydrophobicity at small and large length scales
-
Lum, K., Chandler, D. and Weeks, J. D. (1999). "Hydrophobicity at small and large length scales". J. Phys. Chem. B, 103, 457.
-
(1999)
J. Phys. Chem. B
, vol.103
, pp. 457
-
-
Lum, K.1
Chandler, D.2
Weeks, J.D.3
-
71
-
-
0029831068
-
An information theory model of hydrophobic interactions
-
Hummer, G., Garde, S., Garcia, A. E. and Pratt, L. R. (1996). "An information theory model of hydrophobic interactions". Proc. Natl. Acad. Sci. USA, 93, 8951.
-
(1996)
Proc. Natl. Acad. Sci. USA
, vol.93
, pp. 8951
-
-
Hummer, G.1
Garde, S.2
Garcia, A.E.3
Pratt, L.R.4
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