-
1
-
-
0034607551
-
Evaluation of direct and cooperative contributions towards the strength of buried hydrogen bonds and salt bridges
-
Albeck, S., R. Unger, and G. Schreiber. 2000. Evaluation of direct and cooperative contributions towards the strength of buried hydrogen bonds and salt bridges. J. Mol. Biol. 298:503-520.
-
(2000)
J. Mol. Biol.
, vol.298
, pp. 503-520
-
-
Albeck, S.1
Unger, R.2
Schreiber, G.3
-
3
-
-
0028305457
-
Prediction of pH-dependent properties of proteins
-
Antosiewicz, J., J. A. McCammon, and M. K. Gilson. 1994. Prediction of pH-dependent properties of proteins. J. Mol. Biol. 238:415-436.
-
(1994)
J. Mol. Biol.
, vol.238
, pp. 415-436
-
-
Antosiewicz, J.1
McCammon, J.A.2
Gilson, M.K.3
-
5
-
-
0028287089
-
Subsite binding in an RNase: Structure of a barnase-tetranucleotide complex at 1.76-A resolution
-
Buckle, A. M., and A. R. Fersht. 1994. Subsite binding in an RNase: structure of a barnase-tetranucleotide complex at 1.76-A resolution. Biochemistry. 33:1644-1653.
-
(1994)
Biochemistry
, vol.33
, pp. 1644-1653
-
-
Buckle, A.M.1
Fersht, A.R.2
-
6
-
-
0028074974
-
Protein-protein recognition: Crystal structural analysis of a barnase-barstar complex at 2.0-A resolution
-
Buckle, A. M., G. Schreiber, and A. R. Fersht. 1994. Protein-protein recognition: crystal structural analysis of a barnase-barstar complex at 2.0-A resolution. Biochemistry. 33:8878-8889.
-
(1994)
Biochemistry
, vol.33
, pp. 8878-8889
-
-
Buckle, A.M.1
Schreiber, G.2
Fersht, A.R.3
-
7
-
-
0029792830
-
How Hofmeister ion interactions affect protein stability
-
Baldwin, R. L. 1996. How Hofmeister ion interactions affect protein stability. Biophys. J. 71:2056-2063.
-
(1996)
Biophys. J.
, vol.71
, pp. 2056-2063
-
-
Baldwin, R.L.1
-
9
-
-
0029124153
-
Acid and thermal denaturation of barnase investigated by molecular dynamics simulations
-
Caflisch, A., and M. Karplus. 1995. Acid and thermal denaturation of barnase investigated by molecular dynamics simulations. J. Mol. Biol. 252:672-708.
-
(1995)
J. Mol. Biol.
, vol.252
, pp. 672-708
-
-
Caflisch, A.1
Karplus, M.2
-
10
-
-
0036708444
-
Electrostatic contributions to T4 lysozyme stability: Solvent-exposed charges verus semi-buried salt bridges
-
Dong, F., and H.-X. Zhou. 2002. Electrostatic contributions to T4 lysozyme stability: solvent-exposed charges verus semi-buried salt bridges. Biophys. J. 83:1341-1347.
-
(2002)
Biophys. J.
, vol.83
, pp. 1341-1347
-
-
Dong, F.1
Zhou, H.-X.2
-
11
-
-
0344500752
-
Computer simulation of protein-protein association kinetics: Acetylcholinesterase-fasciculin
-
Elcock, A. H., R. R. Gabdoulline, R. C. Wade, and J. A. McCammon. 1999. Computer simulation of protein-protein association kinetics: acetylcholinesterase-fasciculin. J. Mol. Biol. 291:149-162.
-
(1999)
J. Mol. Biol.
, vol.291
, pp. 149-162
-
-
Elcock, A.H.1
Gabdoulline, R.R.2
Wade, R.C.3
McCammon, J.A.4
-
12
-
-
0029561720
-
Use of NMR to detect water within nonpolar protein cavities
-
Ernst, J. A., R. T. Clubb, H.-X. Zhou, A. M. Gronenborn, and G. M. Clore. 1995. Use of NMR to detect water within nonpolar protein cavities. Science. 270:1848-1849.
-
(1995)
Science
, vol.270
, pp. 1848-1849
-
-
Ernst, J.A.1
Clubb, R.T.2
Zhou, H.-X.3
Gronenborn, A.M.4
Clore, G.M.5
-
14
-
-
0031552366
-
Thermodynamics of the interaction of barnase and barstar: Changes in free energy versus changes in enthalpy on mutation
-
Frisch, C., G. Schreiber, C. M. Johnson, and A. R. Fersht. 1997. Thermodynamics of the interaction of barnase and barstar: changes in free energy versus changes in enthalpy on mutation. J. Mol. Biol. 267:696-706.
-
(1997)
J. Mol. Biol.
, vol.267
, pp. 696-706
-
-
Frisch, C.1
Schreiber, G.2
Johnson, C.M.3
Fersht, A.R.4
-
15
-
-
0030891436
-
Simulation of the diffusional association of barnase and barstar
-
Gabdoulline, R. R., and R. C. Wade. 1997. Simulation of the diffusional association of barnase and barstar. Biophys. J. 72:1917-1929.
-
(1997)
Biophys. J.
, vol.72
, pp. 1917-1929
-
-
Gabdoulline, R.R.1
Wade, R.C.2
-
16
-
-
0035830963
-
Protein-protein association: Investigation of factors influencing association rates by Brownian dynamics simulations
-
Gabdoulline, R. R., and R. C. Wade. 2001. Protein-protein association: investigation of factors influencing association rates by Brownian dynamics simulations. J. Mol. Biol. 306:1139-1155.
-
(2001)
J. Mol. Biol.
, vol.306
, pp. 1139-1155
-
-
Gabdoulline, R.R.1
Wade, R.C.2
-
18
-
-
0033613164
-
Tanford-Kirkwood electrostatics for protein modeling
-
Havranek, J. J., and P. B. Harbury. 1999. Tanford-Kirkwood electrostatics for protein modeling. Proc. Natl. Acad. Sci. USA. 96:11145-11150.
-
(1999)
Proc. Natl. Acad. Sci. USA
, vol.96
, pp. 11145-11150
-
-
Havranek, J.J.1
Harbury, P.B.2
-
19
-
-
0032438190
-
The stability of proteins in extreme environments
-
Jaenicke. R., and G. Bohm. 1998. The stability of proteins in extreme environments. Curr. Opin. Struct. Biol. 8:738-748.
-
(1998)
Curr. Opin. Struct. Biol.
, vol.8
, pp. 738-748
-
-
Jaenicke, R.1
Bohm, G.2
-
20
-
-
0029863608
-
Protein-protein interaction: A genetic selection for compensating mutations at the barnase-barstar interface
-
Jucovic, M., and R. W. Hartley. 1996. Protein-protein interaction: a genetic selection for compensating mutations at the barnase-barstar interface. Proc. Natl. Acad. Sci. USA. 93:2343-2347.
-
(1996)
Proc. Natl. Acad. Sci. USA
, vol.93
, pp. 2343-2347
-
-
Jucovic, M.1
Hartley, R.W.2
-
21
-
-
0029007734
-
pH dependence of the stability of barstar to chemical and thermal denaturation
-
Khurana, R., A. T. Hate, U. Nath, and J. B. Udgaonkar. 1995. pH dependence of the stability of barstar to chemical and thermal denaturation. Protein Sci. 4:1133-1144.
-
(1995)
Protein Sci.
, vol.4
, pp. 1133-1144
-
-
Khurana, R.1
Hate, A.T.2
Nath, U.3
Udgaonkar, J.B.4
-
22
-
-
0035107570
-
Optimization of binding electrostatics: Charge complementarity in the barnase-barstar protein complex
-
Lee, L.-P., and B. Tidor. 2001. Optimization of binding electrostatics: charge complementarity in the barnase-barstar protein complex. Protein Sci. 10:362-377.
-
(2001)
Protein Sci.
, vol.10
, pp. 362-377
-
-
Lee, L.-P.1
Tidor, B.2
-
23
-
-
0025741701
-
Fluorescence spectrum of barnase: Contributions of three tryptophan residues and a histidine-related pH dependence
-
Loewenthal, R., J. Sancho, and A. R. Fersht. 1991. Fluorescence spectrum of barnase: contributions of three tryptophan residues and a histidine-related pH dependence. Biochemistry. 30:6775-6779.
-
(1991)
Biochemistry
, vol.30
, pp. 6775-6779
-
-
Loewenthal, R.1
Sancho, J.2
Fersht, A.R.3
-
24
-
-
0027257747
-
Long-range surface charge-charge interactions in proteins; comparison of experimental results with calculations from a theoretical method
-
Loewenthal, R., J. Sancho, T. Reinikainen, and A. R. Fersht. 1993. Long-range surface charge-charge interactions in proteins; comparison of experimental results with calculations from a theoretical method. J. Mol. Biol. 232:574-583.
-
(1993)
J. Mol. Biol
, vol.232
, pp. 574-583
-
-
Loewenthal, R.1
Sancho, J.2
Reinikainen, T.3
Fersht, A.R.4
-
25
-
-
0029633152
-
Electrostatics and diffusion of molecules in solution: Simulations with the University of Houston Brownian Dynamics program
-
Madura, J. D., J. M. Briggs, R. C. Wade, M. E. Davis. B. A. Luty, A. Ilin, J. Antosiewicz. M. K. Gilson, B. Bagheri, L. R. Scott, and J. A. McCammon. 1995. Electrostatics and diffusion of molecules in solution: simulations with the University of Houston Brownian Dynamics program. Comput. Phys. Comm. 91:57-95.
-
(1995)
Comput. Phys. Comm.
, vol.91
, pp. 57-95
-
-
Madura, J.D.1
Briggs, J.M.2
Wade, R.C.3
Davis, M.E.4
Lutty, B.A.5
Ilin, A.6
Antosiewicz, J.7
Gilson, M.K.8
Bagheri, B.9
Scott, L.R.10
McCammon, J.A.11
-
26
-
-
0026723477
-
Effect of active site residues in barnase on activity and stability
-
Meiering, E. M., L. Serrano, and A. R. Fersht. 1992. Effect of active site residues in barnase on activity and stability. J. Mol. Biol. 225:585-589.
-
(1992)
J. Mol. Biol.
, vol.225
, pp. 585-589
-
-
Meiering, E.M.1
Serrano, L.2
Fersht, A.R.3
-
27
-
-
0024501923
-
Kinetic characterization of the recombinant ribonuclease from Bacillus amyloliquefaciens (barnase) and investigation of key residues in catalysis by site-directed mutagenesis
-
Mossakowska, D. E., K. Nyberg, and A. R. Fersht. 1989. Kinetic characterization of the recombinant ribonuclease from Bacillus amyloliquefaciens (barnase) and investigation of key residues in catalysis by site-directed mutagenesis. Biochemistry. 28:3843-3850.
-
(1989)
Biochemistry
, vol.28
, pp. 3843-3850
-
-
Mossakowska, D.E.1
Nyberg, K.2
Fersht, A.R.3
-
28
-
-
0031167555
-
Atomic radii for continuum electrostatics calculations based on model dynamics free energy simulations
-
Nina, M., D. Beglov, and B. Roux. 1997. Atomic radii for continuum electrostatics calculations based on model dynamics free energy simulations. J. Phys. Chem. B. 101:5239-5248.
-
(1997)
J. Phys. Chem. B.
, vol.101
, pp. 5239-5248
-
-
Nina, M.1
Beglov, D.2
Roux, B.3
-
29
-
-
0026438116
-
Electrostatic fields in antibodies and antibody/antigen complexes
-
Novotny, J., and K. Sharp. 1992. Electrostatic fields in antibodies and antibody/antigen complexes. Prog. Biophys. Mol. Biol. 58:203-224.
-
(1992)
Prog. Biophys. Mol. Biol.
, vol.58
, pp. 203-224
-
-
Novotny, J.1
Sharp, K.2
-
30
-
-
0018094892
-
Electrostatic effects in proteins
-
Perutz, M. F. 1978. Electrostatic effects in proteins. Science. 201:1187-1191.
-
(1978)
Science
, vol.201
, pp. 1187-1191
-
-
Perutz, M.F.1
-
31
-
-
0016771835
-
Stereochemical basis of heat stability in bacterial ferredoxins and in haemoglobin A2
-
Perutz, M. F., and H. Raidt. 1975. Stereochemical basis of heat stability in bacterial ferredoxins and in haemoglobin A2. Nature. 255:256-259.
-
(1975)
Nature
, vol.255
, pp. 256-259
-
-
Perutz, M.F.1
Raidt, H.2
-
32
-
-
0034981542
-
Structural basis of thermostability in hyperthermophilic proteins, or "there's more than one way to skin a cat
-
Petsko, G. A. 2001. Structural basis of thermostability in hyperthermophilic proteins, or "there's more than one way to skin a cat. Methods Enzymol. 334:468-478.
-
(2001)
Methods Enzymol.
, vol.334
, pp. 468-478
-
-
Petsko, G.A.1
-
33
-
-
0035913537
-
Extending the applicability of the nonlinear Poisson-Boltzmann equation: Multiple dielectric constants and multivalent ions
-
Roccia, W., E. Alexov, and B. Honig. 2001. Extending the applicability of the nonlinear Poisson-Boltzmann equation: multiple dielectric constants and multivalent ions. J. Phys. Chem. B. 105:6507-6514.
-
(2001)
J. Phys. Chem. B.
, vol.105
, pp. 6507-6514
-
-
Roccia, W.1
Alexov, E.2
Honig, B.3
-
34
-
-
0023726958
-
Stabilization of protein structure by interaction of alpha-helix dipole with a charged side chain
-
Sali, D., M. Bycroft, and A. R. Fersht. 1988. Stabilization of protein structure by interaction of alpha-helix dipole with a charged side chain. Nature. 335:740-743.
-
(1988)
Nature
, vol.335
, pp. 740-743
-
-
Sali, D.1
Bycroft, M.2
Fersht, A.R.3
-
36
-
-
0027177102
-
Interaction of barnase with its polypeptide inhibitor barstar studied by protein engineering
-
Schreiber, G., and A. R. Fersht. 1993. Interaction of barnase with its polypeptide inhibitor barstar studied by protein engineering. Biochemistry. 32:5145-5150.
-
(1993)
Biochemistry
, vol.32
, pp. 5145-5150
-
-
Schreiber, G.1
Fersht, A.R.2
-
37
-
-
0029056922
-
Energetics of protein-protein interactions: Analysis of the barnase-barstar interface by single mutations and double mutant cycles
-
Schreiber, G., and A. R. Fersht. 1995. Energetics of protein-protein interactions: analysis of the barnase-barstar interface by single mutations and double mutant cycles. J. Mol. Biol. 248:478-486.
-
(1995)
J. Mol. Biol.
, vol.248
, pp. 478-486
-
-
Schreiber, G.1
Fersht, A.R.2
-
38
-
-
0035451052
-
What are the dielectric "constants" of proteins and how to validate electrostatic models?
-
Schutz, C. N., and A. Warshel. 2001. What are the dielectric "constants" of proteins and how to validate electrostatic models? Proteins. 44:400-417.
-
(2001)
Proteins
, vol.44
, pp. 400-417
-
-
Schutz, C.N.1
Warshel, A.2
-
39
-
-
0010624785
-
The effect of protein relaxation on charge-charge interactions and dielectric constants of proteins
-
Sham, Y. K., I. Muegge, and A. Warshel. 1998. The effect of protein relaxation on charge-charge interactions and dielectric constants of proteins. Biophys. J. 74:1744-1753.
-
(1998)
Biophys. J.
, vol.74
, pp. 1744-1753
-
-
Sham, Y.K.1
Muegge, I.2
Warshel, A.3
-
40
-
-
0036306236
-
On the role of electrostatic interactions in the design of protein-protein interfaces
-
Sheinerman, F. B., and B. Honig. 2002. On the role of electrostatic interactions in the design of protein-protein interfaces. J. Mol. Biol. 318:161-177.
-
(2002)
J. Mol. Biol.
, vol.318
, pp. 161-177
-
-
Sheinerman, F.B.1
Honig, B.2
-
42
-
-
32844457567
-
Accurate calculation of hydration free energies using macroscopic solvent models
-
Sitkoff, D., K. A. Sharp, and B. Honig. 1994. Accurate calculation of hydration free energies using macroscopic solvent models. J. Phys. Chem. 98:1978-1988.
-
(1994)
J. Phys. Chem.
, vol.98
, pp. 1978-1988
-
-
Sitkoff, D.1
Sharp, K.A.2
Honig, B.3
-
43
-
-
0039116206
-
Structural differences between mesophilic, moderately thermophilic and extremely thermophilic protein subunits: Results of a comprehensive survey
-
Szilagyi, A., and P. Zavodszky. 2000. Structural differences between mesophilic, moderately thermophilic and extremely thermophilic protein subunits: results of a comprehensive survey. Structure. 8:493-504.
-
(2000)
Structure
, vol.8
, pp. 493-504
-
-
Szilagyi, A.1
Zavodszky, P.2
-
44
-
-
0032557503
-
Electrostatic enhancement of diffusion-controlled protein-protein association: Comparison of theory and experiment on barnase and barstar
-
Vijayakumar, M., K.-Y. Wong, G. Schreiber, A. R. Fersht, A. Szabo, and H.-X. Zhou. 1998. Electrostatic enhancement of diffusion-controlled protein-protein association: comparison of theory and experiment on barnase and barstar. J. Mol. Biol. 278:1015-1024.
-
(1998)
J. Mol. Biol.
, vol.278
, pp. 1015-1024
-
-
Vijayakumar, M.1
Wong, K.-Y.2
Schreiber, G.3
Fersht, A.R.4
Szabo, A.5
Zhou, H.-X.6
-
45
-
-
0035797737
-
Salt bridges stabilize the folded structure of barnase
-
Vijayakumar, M., and H.-X. Zhou. 2001. Salt bridges stabilize the folded structure of barnase. J. Phys. Chem. B. 105:7334-7340.
-
(2001)
J. Phys. Chem. B.
, vol.105
, pp. 7334-7340
-
-
Vijayakumar, M.1
Zhou, H.-X.2
-
46
-
-
0011186093
-
Protein thermal stability, hydrogen bonds, and ion pairs
-
Vogt, G., and P. Argos. 1997. Protein thermal stability, hydrogen bonds, and ion pairs. Fold. Des. 2:S40-S46.
-
(1997)
Fold. Des.
, vol.2
-
-
Vogt, G.1
Argos, P.2
-
47
-
-
0021757436
-
A new force field for molecular mechanical simulation of nucleic acids and proteins
-
Weiner, S. J., P. A. Kollman, D. A. Case, U. C. Singh, C. Ghio, G. Alagona, S. Prefeta, and P. Weiner. 1984. A new force field for molecular mechanical simulation of nucleic acids and proteins. J. Am. Chem. Soc. 106:765-784.
-
(1984)
J. Am. Chem. Soc.
, vol.106
, pp. 765-784
-
-
Weiner, S.J.1
Kollman, P.A.2
Case, D.A.3
Singh, U.C.4
Ghio, C.5
Alagona, G.6
Prefeta, S.7
Weiner, P.8
-
48
-
-
0031561809
-
Protein binding versus protein folding: The role of hydrophilic bridges in protein associations
-
Xu, D., S. L. Lin, and R. Nussinov. 1997. Protein binding versus protein folding: the role of hydrophilic bridges in protein associations. J. Mol. Biol. 265:68-84.
-
(1997)
J. Mol. Biol.
, vol.265
, pp. 68-84
-
-
Xu, D.1
Lin, S.L.2
Nussinov, R.3
-
49
-
-
0033524454
-
Disordered water within a hydrophobic protein cavity visualized by x-ray crystallography
-
Yu, B., M. Blaber, A. M. Gronenborn, G. M. Clore, and D. L. Caspar. 1999. Disordered water within a hydrophobic protein cavity visualized by x-ray crystallography. Proc. Natl. Acad. Sci. USA. 96:103-108.
-
(1999)
Proc. Natl. Acad. Sci. USA
, vol.96
, pp. 103-108
-
-
Yu, B.1
Blaber, M.2
Gronenborn, A.M.3
Clore, G.M.4
Caspar, D.L.5
-
50
-
-
0027161336
-
Brownian dynamics study of the influences of electrostatic interaction and diffusion on protein-protein association kinetics
-
Zhou, H.-X. 1993. Brownian dynamics study of the influences of electrostatic interaction and diffusion on protein-protein association kinetics. Biophys. J. 64:1711-1726.
-
(1993)
Biophys. J.
, vol.64
, pp. 1711-1726
-
-
Zhou, H.-X.1
-
51
-
-
0037133605
-
A Gaussian-chain model for treating residual charge-charge interactions in the unfolded state of proteins
-
Zhou, H.-X. 2002a. A Gaussian-chain model for treating residual charge-charge interactions in the unfolded state of proteins. Proc. Natl. Acad. Sci. USA. 99:3569-3574.
-
(2002)
Proc. Natl. Acad. Sci. USA
, vol.99
, pp. 3569-3574
-
-
Zhou, H.-X.1
-
52
-
-
0036931447
-
Toward the physical basis of thermophilic proteins: Linking of enriched polar interactions and reduced heat capacity of unfolding
-
Zhou, H.-X. 2002b. Toward the physical basis of thermophilic proteins: linking of enriched polar interactions and reduced heat capacity of unfolding. Biophys. J. 83:3126-3133.
-
(2002)
Biophys. J.
, vol.83
, pp. 3126-3133
-
-
Zhou, H.-X.1
-
53
-
-
0037380834
-
Electrostatic contributions to the stability of a thermophilic cold shock protein
-
Zhou, H.-X., and F. Dong. 2003. Electrostatic contributions to the stability of a thermophilic cold shock protein. Biophys. J. 84:2216-2222.
-
(2003)
Biophys. J.
, vol.84
, pp. 2216-2222
-
-
Zhou, H.-X.1
Dong, F.2
|