-
2
-
-
0001435569
-
The coagulation of albumen by pressure
-
Bridgman PW. The coagulation of albumen by pressure. J Biol Chem 1914;19:511-512.
-
(1914)
J Biol Chem
, vol.19
, pp. 511-512
-
-
Bridgman, P.W.1
-
3
-
-
0028226052
-
High-pressure NMR-spectroscopy of proteins and membranes
-
Jonas J, Jonas A. High-pressure NMR-spectroscopy of proteins and membranes. Annu Rev Biophys Biomol Struct 1994;23:287-318.
-
(1994)
Annu Rev Biophys Biomol Struct
, vol.23
, pp. 287-318
-
-
Jonas, J.1
Jonas, A.2
-
4
-
-
33646900712
-
Probing conformational fluctuation of proteins by pressure perturbation
-
Akasaka K. Probing conformational fluctuation of proteins by pressure perturbation. Chem Rev 2006;106:1814-1835.
-
(2006)
Chem Rev
, vol.106
, pp. 1814-1835
-
-
Akasaka, K.1
-
5
-
-
16344381007
-
Pressure denaturation of Staphylococcal nuclease studied by neutron small-angle scattering and molecular simulation
-
Paliwal A, Asthagiri D, Bossev DP, Paulaitis ME. Pressure denaturation of Staphylococcal nuclease studied by neutron small-angle scattering and molecular simulation. Biophys J 2004;87:3479-3492.
-
(2004)
Biophys J
, vol.87
, pp. 3479-3492
-
-
Paliwal, A.1
Asthagiri, D.2
Bossev, D.P.3
Paulaitis, M.E.4
-
6
-
-
0032536156
-
Structural characterization of the pressure-denatured, state and unfolding/refolding kinetics of Staphylococcal nuclease by synchrotron small-angle X-ray scattering and fourier-transform infrared spectroscopy
-
Panick G, Malessa R, Winter R, Rapp G, Frye KJ, Royer CA. Structural characterization of the pressure-denatured, state and unfolding/refolding kinetics of Staphylococcal nuclease by synchrotron small-angle X-ray scattering and fourier-transform infrared spectroscopy. J Mol Biol 1998;275:389-402.
-
(1998)
J Mol Biol
, vol.275
, pp. 389-402
-
-
Panick, G.1
Malessa, R.2
Winter, R.3
Rapp, G.4
Frye, K.J.5
Royer, C.A.6
-
7
-
-
0000706608
-
High pressure-jump apparatus for kinetic studies of protein folding reactions using small-angle synchrotron X-ray scattering technique
-
Woenckhaus J, Kohling R, Winter R, Thiyagarajan P, Finet S. High pressure-jump apparatus for kinetic studies of protein folding reactions using small-angle synchrotron X-ray scattering technique. Rev Scientific Instr 2000;71:3895-3899.
-
(2000)
Rev Scientific Instr
, vol.71
, pp. 3895-3899
-
-
Woenckhaus, J.1
Kohling, R.2
Winter, R.3
Thiyagarajan, P.4
Finet, S.5
-
8
-
-
0034700971
-
Pressure-induced unfolding/refolding of Ribonuclease A: Static and kinetic fourier transform infrared spectroscopy study
-
Panick G, Winter R. Pressure-induced unfolding/refolding of Ribonuclease A: static and kinetic fourier transform infrared spectroscopy study. Biochemistry 2000;39:1862-1869.
-
(2000)
Biochemistry
, vol.39
, pp. 1862-1869
-
-
Panick, G.1
Winter, R.2
-
9
-
-
2342552020
-
Pressure perturbation calorimetic studies of the solvation properties and the thermal unfolding of Staphylococcal nuclease
-
Ravindra R, Royer C, Winter R. Pressure perturbation calorimetic studies of the solvation properties and the thermal unfolding of Staphylococcal nuclease. Phys Chem. Chem. Phys 2004;6:1952-1961.
-
(2004)
Phys Chem. Chem. Phys
, vol.6
, pp. 1952-1961
-
-
Ravindra, R.1
Royer, C.2
Winter, R.3
-
10
-
-
33749512406
-
Carpenter JR High-pressure studies on protein aggregates and amyloid fibrils
-
Kim YS, Randolph TW, Seefeldt MB, Carpenter JR High-pressure studies on protein aggregates and amyloid fibrils. Methods Enzymol 2006;413:237-253.
-
(2006)
Methods Enzymol
, vol.413
, pp. 237-253
-
-
Kim, Y.S.1
Randolph, T.W.2
Seefeldt, M.B.3
-
11
-
-
0006467940
-
Effect of hydrostatic, pressure on nucleic acids
-
Macgregor RB. Effect of hydrostatic, pressure on nucleic acids. Biopolymers 1998;48:253-263.
-
(1998)
Biopolymers
, vol.48
, pp. 253-263
-
-
Macgregor, R.B.1
-
12
-
-
34250747531
-
Nucleic acid hydration: A volumetric perspective
-
Chalikian TV, Macgregor RB. Nucleic acid hydration: a volumetric perspective. Phys Life Rev 2007;4:91-115.
-
(2007)
Phys Life Rev
, vol.4
, pp. 91-115
-
-
Chalikian, T.V.1
Macgregor, R.B.2
-
13
-
-
0026608757
-
Effects of hydrostatic-pressure on a membrane-enveloped virus-high immunogenicity of the pressure-inactivated virus
-
Silva JL, Luan P, Glaser M, Voss EW, Weber G. Effects of hydrostatic-pressure on a membrane-enveloped virus-high immunogenicity of the pressure-inactivated virus. J Virol 1992;66:2111-2117.
-
(1992)
J Virol
, vol.66
, pp. 2111-2117
-
-
Silva, J.L.1
Luan, P.2
Glaser, M.3
Voss, E.W.4
Weber, G.5
-
15
-
-
0037171156
-
Pressure effects on in vivo microbial processes
-
Bartlett DH. Pressure effects on in vivo microbial processes. Biochim Biophys Acta 2002;1595:367-381.
-
(2002)
Biochim Biophys Acta
, vol.1595
, pp. 367-381
-
-
Bartlett, D.H.1
-
16
-
-
21644476266
-
Hydrostatic pressure induced death of mammalian cells engages pathways related to apoptosis or necrosis
-
Prey B, Franz S, Sheriff A, Kom A, Bluemelhuber G, Gaipl US, Voll RE, Meyer-Pittroff R, Herrmann M. Hydrostatic pressure induced death of mammalian cells engages pathways related to apoptosis or necrosis. Cell Mol Biol 2004;50:459-467.
-
(2004)
Cell Mol Biol
, vol.50
, pp. 459-467
-
-
Prey, B.1
Franz, S.2
Sheriff, A.3
Kom, A.4
Bluemelhuber, G.5
Gaipl, U.S.6
Voll, R.E.7
Meyer-Pittroff, R.8
Herrmann, M.9
-
17
-
-
33644654599
-
Microscopy under pressure-an optical chamber system for fluorescence microscopic analysis of living cells under high hydrostatic pressure
-
Prey B, Hartmann M, Herrmann M, Meyer-Pittroff R, Sommer K, Bluemelhuber G. Microscopy under pressure-an optical chamber system for fluorescence microscopic analysis of living cells under high hydrostatic pressure. Microsc Res Tech 2006;69:65-72.
-
(2006)
Microsc Res Tech
, vol.69
, pp. 65-72
-
-
Prey, B.1
Hartmann, M.2
Herrmann, M.3
Meyer-Pittroff, R.4
Sommer, K.5
Bluemelhuber, G.6
-
18
-
-
0014952474
-
Thermodynamics of protein denaturation-effect of pressure on denaturation of ribonuclease-A
-
Brandts JF, Oliveira RJ, Westort C. Thermodynamics of protein denaturation-effect of pressure on denaturation of ribonuclease-A. Biochemistry 1970;9:1038-1047.
-
(1970)
Biochemistry
, vol.9
, pp. 1038-1047
-
-
Brandts, J.F.1
Oliveira, R.J.2
Westort, C.3
-
19
-
-
0026781884
-
High-resolution NMR-study of the pressure-induced unfolding of iysozyme
-
Samarasinghe SD, Campbell DM, Jonas A, Jonas J. High-resolution NMR-study of the pressure-induced unfolding of iysozyme. Biochemistry .1992;31:7773-7778.
-
(1992)
Biochemistry.
, vol.31
, pp. 7773-7778
-
-
Samarasinghe, S.D.1
Campbell, D.M.2
Jonas, A.3
Jonas, J.4
-
21
-
-
0028220701
-
Proteins under pressure-the influence of high, hydrostatic-pressure on structure, function and assembly of proteins and protein complexes
-
Gross M, Jaenicke R. Proteins under pressure-the influence of high, hydrostatic-pressure on structure, function and assembly of proteins and protein complexes. Eur J Biochem 1994;221:617-630.
-
(1994)
Eur J Biochem
, vol.221
, pp. 617-630
-
-
Gross, M.1
Jaenicke, R.2
-
22
-
-
0031561441
-
A stable partly denatured state of trypsin induced by high hydrostatic pressure
-
Ruan KC, Lange R, Bec N, Balny C. A stable partly denatured state of trypsin induced by high hydrostatic pressure. Biochem Biophys Res Comm 1997;239:150-154.
-
(1997)
Biochem Biophys Res Comm
, vol.239
, pp. 150-154
-
-
Ruan, K.C.1
Lange, R.2
Bec, N.3
Balny, C.4
-
23
-
-
0034850269
-
Pressure-exploration of the 33-kDa protein from the spinach photosystem II particle
-
Ruan KC, Xu CH, Yu Y, Li J, Lange R, Bec N, Balny C. Pressure-exploration of the 33-kDa protein from the spinach photosystem II particle. Eur J Biochem 2001;268:2742-2750.
-
(2001)
Eur J Biochem
, vol.268
, pp. 2742-2750
-
-
Ruan, K.C.1
Xu, C.H.2
Yu, Y.3
Li, J.4
Lange, R.5
Bec, N.6
Balny, C.7
-
24
-
-
0038690115
-
Characterization of the pressure-induced intermediate and unfolded state of red-shifted green fluorescent protón-a static and kinetic FTIR, UV/ VIS and fluorescence spectroscopy study
-
Herberhold H, Marchai S, Lange R, Scheyhing CH, Vogel RF, Winter R. Characterization of the pressure-induced intermediate and unfolded state of red-shifted green fluorescent protón-a static and kinetic FTIR, UV/ VIS and fluorescence spectroscopy study. J Mol Biol 2003;330:1153-1164.
-
(2003)
J Mol Biol
, vol.330
, pp. 1153-1164
-
-
Herberhold, H.1
Marchai, S.2
Lange, R.3
Scheyhing, C.H.4
Vogel, R.F.5
Winter, R.6
-
25
-
-
14644424521
-
NMR snapshots of a fluctuating protein structure: Ubiquitin at 30 bar-3 kbar
-
Kitahara. R, Yokoyama S, Akasaka K. NMR snapshots of a fluctuating protein structure: ubiquitin at 30 bar-3 kbar. J Mol Biol 2005; 347:277-285.
-
(2005)
J Mol Biol
, vol.347
, pp. 277-285
-
-
Kitahara, R.1
Yokoyama, S.2
Akasaka, K.3
-
26
-
-
44449132615
-
Temperature and pressure dependence of protein stability: The engineered fluoresceinbinding lipocalin FluA shows an elliptic phase diagram
-
Wiedersich J, Kohler S, Skerra A, Friedrich J. Temperature and pressure dependence of protein stability: the engineered fluoresceinbinding lipocalin FluA shows an elliptic phase diagram. Proc Natl Acad Sci USA 2008;105:5756-5761.
-
(2008)
Proc Natl Acad Sci USA
, vol.105
, pp. 5756-5761
-
-
Wiedersich, J.1
Kohler, S.2
Skerra, A.3
Friedrich, J.4
-
27
-
-
0003516749
-
-
Oxford: Oxford University Press
-
Atkins P, Paula JD. Physical chemistry. Oxford: Oxford University Press; 2006.
-
(2006)
Physical Chemistry
-
-
Atkins, P.1
-
28
-
-
0037171140
-
Revisiting volume changes in pressure-induced protein unfolding
-
Royer CA. Revisiting volume changes in pressure-induced protein unfolding. Biochim Biophys Acta-Protein Struct Mol Enzym 2002; 1595:201-209.
-
(2002)
Biochim Biophys Acta-Protein Struct Mol Enzym
, vol.1595
, pp. 201-209
-
-
Royer, C.A.1
-
29
-
-
0027405350
-
Molten globule conformation of arc repressor monomers determined by high-pressure H-1 NMR spectroscopy
-
Peng XD, Jonas J, Silva JL. Molten globule conformation of arc repressor monomers determined by high-pressure H-1 NMR spectroscopy. Proc Natl Acad Sci USA 1993;90:1776-1780.
-
(1993)
Proc Natl Acad Sci USA
, vol.90
, pp. 1776-1780
-
-
Peng, X.D.1
Jonas, J.2
Silva, J.L.3
-
30
-
-
0034724564
-
The pressure-temperature free energy landscape of Staphylococcal nuclease monitored by 1H-NMR
-
Lassaslle ML, Yamada H, Akasaka K. The pressure-temperature free energy landscape of Staphylococcal nuclease monitored by 1H-NMR. J Mol Biol 2000;298:293-302.
-
(2000)
J Mol Biol
, vol.298
, pp. 293-302
-
-
Lassaslle, M.L.1
Yamada, H.2
Akasaka, K.3
-
31
-
-
0035112278
-
Pressure-jump small-angle X-ray scattering detected kinetics of Staphylococcal nuclease folding
-
Woenckhaus J, Kohling R, Thiyagarajan P, Littrell KC, Seifert S, Royer CA, Winter R. Pressure-jump small-angle X-ray scattering detected kinetics of Staphylococcal nuclease folding. Biophys J 2001; 80:1518-1523.
-
(2001)
Biophys J
, vol.80
, pp. 1518-1523
-
-
Woenckhaus, J.1
Kohling, R.2
Thiyagarajan, P.3
Littrell, K.C.4
Seifert, S.5
Royer, C.A.6
Winter, R.7
-
32
-
-
33751499566
-
Molecular-dynamics study of a hydrophobic aggregate in an aqueous-solution of methane
-
Wallqvist A. Molecular-dynamics study of a hydrophobic aggregate in an aqueous-solution of methane. J Phys Chem 1991;95:8921-8927.
-
(1991)
J Phys Chem
, vol.95
, pp. 8921-8927
-
-
Wallqvist, A.1
-
33
-
-
0031097214
-
Monte Carlo study of the effect of pressure on hydrophobic association
-
Payne VA, Matubayasi N, Murphy LR, Levy RM. Monte Carlo study of the effect of pressure on hydrophobic association. J Phys Chem B 1997;101:2054-2060.
-
(1997)
J Phys Chem B
, vol.101
, pp. 2054-2060
-
-
Payne, V.A.1
Matubayasi, N.2
Murphy, L.R.3
Levy, R.M.4
-
34
-
-
0032539604
-
The pressure dependence of hydrophobic interactions is consistent, with the observed, pressure denaturation of proteins
-
Hummer G, Garde S, Garcia AE, Paulaitis ME, Pratt LR. The pressure dependence of hydrophobic interactions is consistent, with the observed, pressure denaturation of proteins. Proc Natl Acad Sci USA 1998;95:1552-1555.
-
(1998)
Proc Natl Acad Sci USA
, vol.95
, pp. 1552-1555
-
-
Hummer, G.1
Garde, S.2
Garcia, A.E.3
Paulaitis, M.E.4
Pratt, L.R.5
-
35
-
-
33749453423
-
Heteropolymer collapse theory for protein folding in the pressure-temperature plane
-
Cheung JK, Shah P, Truskett TM. Heteropolymer collapse theory for protein folding in the pressure-temperature plane Biophys J 2006;91:2427-2435.
-
(2006)
Biophys J
, vol.91
, pp. 2427-2435
-
-
Cheung, J.K.1
Shah, P.2
Truskett, T.M.3
-
36
-
-
37349103161
-
A water-explicit lattice model of heat-, cold-, and pressure-induced protein unfolding
-
Patel BA, Debenedetti PG, Stillinger FH, Rossky PJ. A water-explicit lattice model of heat-, cold-, and pressure-induced protein unfolding. Biophys J 2007;93:4116-4127.
-
(2007)
Biophys J
, vol.93
, pp. 4116-4127
-
-
Patel, B.A.1
Debenedetti, P.G.2
Stillinger, F.H.3
Rossky, P.J.4
-
37
-
-
0035823844
-
Molecular dynamics simulations of pressure effects on hydrophobic interactions
-
Ghosh T, Garcia AE, Garde S, Molecular dynamics simulations of pressure effects on hydrophobic interactions. J Am Chem Soc 2001; 123:10997-11003.
-
(2001)
J Am Chem Soc
, vol.123
, pp. 10997-11003
-
-
Ghosh, T.1
Garcia, A.E.2
Garde, S.3
-
38
-
-
0037040051
-
Enthalpy and entropy contributions to the pressure dependence of hydrophobic interactions
-
Ghosh T, Garcia AE, Garde S. Enthalpy and entropy contributions to the pressure dependence of hydrophobic interactions. J Chem. Phys 2002;116:2480-2486.
-
(2002)
J Chem. Phys
, vol.116
, pp. 2480-2486
-
-
Ghosh, T.1
Garcia, A.E.2
Garde, S.3
-
39
-
-
0034214910
-
Free energy, entropy and heat capacity of the hydrophobic interaction as a function of pressure
-
Rick SW. Free energy, entropy and heat capacity of the hydrophobic interaction as a function of pressure. J Phys Chem B 2000;104:6884-6888.
-
(2000)
J Phys Chem B
, vol.104
, pp. 6884-6888
-
-
Rick, S.W.1
-
40
-
-
0033557181
-
Folding-unfolding thermodynamics of a beta-heptapeptide from equilibrium simulations
-
Daura X, van Gunsteren WF, Mark AE. Folding-unfolding thermodynamics of a beta-heptapeptide from equilibrium simulations. Proteins: Struct Funct Genetics 1999;34:269-280.
-
(1999)
Proteins: Struct Funct Genetics
, vol.34
, pp. 269-280
-
-
Daura, X.1
Van Gunsteren, W.F.2
Mark, A.E.3
-
41
-
-
0034610360
-
Protein folding and unfolding in microseconds to nanoseconds by experiment and simulation
-
Mayor U, Johnson CM, Daggett V, Fersht AR. Protein folding and unfolding in microseconds to nanoseconds by experiment and simulation. Proc Natl Acad Sci USA 2000;97:13518-13522.
-
(2000)
Proc Natl Acad Sci USA
, vol.97
, pp. 13518-13522
-
-
Mayor, U.1
Johnson, C.M.2
Daggett, V.3
Fersht, A.R.4
-
42
-
-
0036968512
-
Increasing temperature accelerates protein unfolding without changing the pathway of unfolding
-
Day R, Bennion BJ, Ham S, Daggett V. Increasing temperature accelerates protein unfolding without changing the pathway of unfolding. J Mol Biol 2002;322:189-203.
-
(2002)
J Mol Biol
, vol.322
, pp. 189-203
-
-
Day, R.1
Bennion, B.J.2
Ham, S.3
Daggett, V.4
-
43
-
-
33847254549
-
Replica exchange simulation of reversible folding/unfolding of the Trp-cage miniprotein in explicit solvent: On the structure and possible role of internal water
-
Paschek D, Nymeyer H, Garcia AE. Replica exchange simulation of reversible folding/unfolding of the Trp-cage miniprotein in explicit solvent: on the structure and possible role of internal water. J Struct Biol 2007;157:524-533.
-
(2007)
J Struct Biol
, vol.157
, pp. 524-533
-
-
Paschek, D.1
Nymeyer, H.2
Garcia, A.E.3
-
44
-
-
0030939289
-
Molecular dynamics simulations of the unfolding of barnase in water and 8 M aqueous urea
-
TiradoRives J, Orozco M, Jorgensen WL. Molecular dynamics simulations of the unfolding of barnase in water and 8 M aqueous urea. Biochemistry 1997;36:7313-7329.
-
(1997)
Biochemistry
, vol.36
, pp. 7313-7329
-
-
Tiradorives, J.1
Orozco, M.2
Jorgensen, W.L.3
-
45
-
-
0038370011
-
The molecular basis for the chemical denaturation of proteins by urea
-
Bennion BJ, Daggett V. The molecular basis for the chemical denaturation of proteins by urea. Proc Natl Acad Sci USA 2003; 100: 5142-5147.
-
(2003)
Proc Natl Acad Sci USA
, vol.100
, pp. 5142-5147
-
-
Bennion, B.J.1
Daggett, V.2
-
46
-
-
55949131241
-
Urea denaturation by stronger dispersion interactions with proteins than water implies a 2-stage unfolding
-
Hua L, Zhou R, Thirumalai D, Berne BJ. Urea denaturation by stronger dispersion interactions with proteins than water implies a 2-stage unfolding. Proc Natl Acad Sci USA 2008;105:16928-16933.
-
(2008)
Proc Natl Acad Sci USA
, vol.105
, pp. 16928-16933
-
-
Hua, L.1
Zhou, R.2
Thirumalai, D.3
Berne, B.J.4
-
47
-
-
28944435120
-
Effect of pressure on the conformation of proteins. A molecular dynamics simulation of lysozyme
-
McCarthy AN, Grigera. JR. Effect of pressure on the conformation of proteins. A molecular dynamics simulation of lysozyme. J Mol Graph Model 2006;24:254-261.
-
(2006)
J Mol Graph Model
, vol.24
, pp. 254-261
-
-
McCarthy, A.N.1
Grigera, J.R.2
-
48
-
-
39349084155
-
Influence of pressure on the slow and fast fractional relaxation dynamics in lysozyme: A simulation study
-
Calandrini V, Kneller GR. Influence of pressure on the slow and fast fractional relaxation dynamics in lysozyme: a simulation study. J Chem Phys 2008;128:065102-65108
-
(2008)
J Chem Phys
, vol.128
, pp. 65102-65108
-
-
Calandrini, V.1
Kneller, G.R.2
-
49
-
-
33646012000
-
A molecular dynamics simulation of Snase and its hydration shell at high temperature and high pressure
-
Smolin N, Winter R. A molecular dynamics simulation of Snase and its hydration shell at high temperature and high pressure. BBAProteins Proteomics 2006;1764:522-534.
-
(2006)
BBAProteins Proteomics
, vol.1764
, pp. 522-534
-
-
Smolin, N.1
Winter, R.2
-
50
-
-
38949207174
-
Effect of temperature, pressure, and cosolvents on structural and dynamic properties of the hydration shell of Snase: A molecular dynamics computer simulation study
-
Smolin N, Winter R. Effect of temperature, pressure, and cosolvents on structural and dynamic properties of the hydration shell of Snase: a molecular dynamics computer simulation study. J Phys Chem B 2008;112:997-1006.
-
(2008)
J Phys Chem B
, vol.112
, pp. 997-1006
-
-
Smolin, N.1
Winter, R.2
-
51
-
-
33646472558
-
Pressure denaturation of apomyoglobin: A molecular dynamics simulation study
-
McCarthy AN, Grigera JR. Pressure denaturation of apomyoglobin: a molecular dynamics simulation study. Biochim Biophys Acta 2006;1764:506-515.
-
(2006)
Biochim Biophys Acta
, vol.1764
, pp. 506-515
-
-
McCarthy, A.N.1
Grigera, J.R.2
-
52
-
-
30344443095
-
Pressure effect on the stability and the conformational dynamics of the D-galactose/D-glucosebinding protein from
-
Marabotti A, Herman P, Staiano M, Varriale A, de Champdoré M, Rossi M, Gryczynski Z, D'Auria S. Pressure effect on the stability and the conformational dynamics of the D-galactose/D-glucosebinding protein from Escherichia coli Prot Struct Punct Bioinfo 2006;62: 193-201.
-
(2006)
Escherichia Coli Prot Struct Punct Bioinfo
, vol.62
, pp. 193-201
-
-
Marabotti, A.1
Herman, P.2
Staiano, M.3
Varriale, A.4
De Champdoré, M.5
Rossi, M.6
Gryczynski, Z.7
D'Auria, S.8
-
53
-
-
33748267512
-
Protein under pressure: Molecular dynamics simulation of the arc repressor
-
Trzesniak D, Lins RD, van Gunsteren WF. Protein under pressure: molecular dynamics simulation of the arc repressor. Proteins 2006; 65:136-144.
-
(2006)
Proteins
, vol.65
, pp. 136-144
-
-
Trzesniak, D.1
Lins, R.D.2
Van Gunsteren, W.F.3
-
54
-
-
2942750547
-
Cytochrome c: The effect of temperature and pressure from molecular dynamics simulations
-
Prabhakaran M, Gursahani SH, Verma CS, Garduno-Juarez R, Renugopalakrishnan V. Cytochrome c: the effect of temperature and pressure from molecular dynamics simulations. J Phys Chem. Solids 2004;65:1615-1622.
-
(2004)
J Phys Chem. Solids
, vol.65
, pp. 1615-1622
-
-
Prabhakaran, M.1
Gursahani, S.H.2
Verma, C.S.3
Garduno-Juarez, R.4
Renugopalakrishnan, V.5
-
55
-
-
3843062211
-
Molecular dynamics simulations of HPr under hydrostatic pressure
-
Canalia M, Malliavin TE. Molecular dynamics simulations of HPr under hydrostatic pressure. Biopolymers 2004;74:377-388.
-
(2004)
Biopolymers
, vol.74
, pp. 377-388
-
-
Canalia, M.1
Malliavin, T.E.2
-
57
-
-
37649031797
-
Reversible temperature and pressure denaturation of a protein fragment: A replica exchange molecular dynamics simulation study
-
Paschek D, Garcia AE. Reversible temperature and pressure denaturation of a protein fragment: a replica exchange molecular dynamics simulation study. Phys Rev Lett 2004;93:238105-238114
-
(2004)
Phys Rev Lett
, vol.93
, pp. 238105-238114
-
-
Paschek, D.1
Garcia, A.E.2
-
58
-
-
56649083699
-
Computing the stability diagram of the Trp-cage miniprotein
-
Paschek D, Hempel S, Garcia AE. Computing the stability diagram of the Trp-cage miniprotein. Proc Natl Acad Sci USA 2008; 105; 17754-17759.
-
(2008)
Proc Natl Acad Sci USA
, vol.105
, pp. 17754-17759
-
-
Paschek, D.1
Hempel, S.2
Garcia, A.E.3
-
60
-
-
0029859688
-
Intrinsic compressibility and volume compression in solvated proteins by molecular dynamics simulation at high pressure
-
Paci E, Marchi M. Intrinsic compressibility and volume compression in solvated proteins by molecular dynamics simulation at high pressure. Proc Natl Acad Sci USA 1996;93:11609-11614.
-
(1996)
Proc Natl Acad Sci USA
, vol.93
, pp. 11609-11614
-
-
Paci, E.1
Marchi, M.2
-
61
-
-
33947400552
-
Pressure dependence of the compressibility of a micelle and a protein: Insights from cavity formation analysis
-
Pereira B, Jain S, Sarupria S, Yang L, Garde S. Pressure dependence of the compressibility of a micelle and a protein: insights from cavity formation analysis. Mol Phys 2007;105:189-199.
-
(2007)
Mol Phys
, vol.105
, pp. 189-199
-
-
Pereira, B.1
Jain, S.2
Sarupria, S.3
Yang, L.4
Garde, S.5
-
62
-
-
20644465398
-
Insights into protein compressibility from molecular dynamics simulations
-
Dadarlat VM, Post CB. Insights into protein compressibility from molecular dynamics simulations. J Phys Chem B 2001;105:715-724.
-
(2001)
J Phys Chem B
, vol.105
, pp. 715-724
-
-
Dadarlat, V.M.1
Post, C.B.2
-
63
-
-
33845422105
-
Decomposition of protein experimental compressibility into intrinsic and hydration shell contributions
-
Dadarlat VM, Post CB. Decomposition of protein experimental compressibility into intrinsic and hydration shell contributions. Biophys J 2006;91:4544-4554.
-
(2006)
Biophys J
, vol.91
, pp. 4544-4554
-
-
Dadarlat, V.M.1
Post, C.B.2
-
64
-
-
0008047756
-
The hydration of globular proteins as derived from volume and compressibility measurements Cross Correlating Thermodynamic and Structural Data
-
Chalikian TV, Totrov M, Abagyan R, Breslauer KJ. The hydration of globular proteins as derived from volume and compressibility measurements: cross correlating thermodynamic and structural data J Mol Biol 1996;260:588-603.
-
(1996)
J Mol Biol
, vol.260
, pp. 588-603
-
-
Chalikian, T.V.1
Totrov, M.2
Abagyan, R.3
Breslauer, K.J.4
-
65
-
-
0027535729
-
Hydrationai and intrinsic compressibilities of globular-proteins
-
Kharakoz DP, Sarvazyan AP. Hydrationai and intrinsic compressibilities of globular-proteins. Biopolymers 1993;33:11-26.
-
(1993)
Biopolymers
, vol.33
, pp. 11-26
-
-
Kharakoz, D.P.1
Sarvazyan, A.P.2
-
66
-
-
39749155117
-
Water penetration in the low and high pressure native states of ubiquitin
-
Day R, Garcia AE. Water penetration in the low and high pressure native states of ubiquitin. Prot Struc Func Bioinfo 2008;70:1175-1184.
-
(2008)
Prot Struc Func Bioinfo
, vol.70
, pp. 1175-1184
-
-
Day, R.1
Garcia, A.E.2
-
67
-
-
28044463816
-
Cooperative water filling of a nonpolar protein cavity observed by high-pressure crystallography and simulation
-
Collins MD, Hummer G, Quillin ML, Matthews BW, Gruner SM. Cooperative water filling of a nonpolar protein cavity observed by high-pressure crystallography and simulation. Proc Natl Acad Sci USA 2005; 102: 16668-16671.
-
(2005)
Proc Natl Acad Sci USA
, vol.102
, pp. 16668-16671
-
-
Collins, M.D.1
Hummer, G.2
Quillin, M.L.3
Matthews, B.W.4
Gruner, S.M.5
-
68
-
-
34548433080
-
Theoretical study of the partial molar volume change associated with the pressure-induced structural transition of ubiquitin
-
DOI 10.1110/ps.072909007
-
68. Imai T, Ohyama S, Kovalenko A, Hirata F. Theoretical study of the partial molar volume change associated with the pressure-induced structural transition of ubiquitin. Protein Sci 2007;16: 1927-1933. (Pubitemid 47367115)
-
(2007)
Protein Science
, vol.16
, Issue.9
, pp. 1927-1933
-
-
Imai, T.1
Ohyama, S.2
Kovalenko, A.3
Hirata, F.4
-
69
-
-
0029011701
-
A second generation force field for the simulations of proteins, nucleic acids and organic molecules
-
Cornell WD, Cieplak P, Bayly CI, Gould IR, Merz KM Jr, Ferguson DM, Spellmeyer DC, Fox T, Caldwell JW, Kollman PA. A second generation force field for the simulations of proteins, nucleic acids and organic molecules. J Am Chem Soc 1995;117:5179-5197.
-
(1995)
J Am Chem Soc
, vol.117
, pp. 5179-5197
-
-
Cornell, W.D.1
Cieplak, P.2
Bayly, C.I.3
Gould, I.R.4
Jr, M.K.M.5
Ferguson, D.M.6
Spellmeyer, D.C.7
Fox, T.8
Caldwell, J.W.9
Kollman, P.A.10
-
71
-
-
0035789518
-
GROMACS 3.0: A package for molecular simulation and trajectory analysis
-
Lindahl E, Hess B, van der Spoel D. GROMACS 3.0: a package for molecular simulation and trajectory analysis. J Mol Mod 2001;7: 306-317.
-
(2001)
J Mol Mod
, vol.7
, pp. 306-317
-
-
Lindahl, E.1
Hess, B.2
Van Der Spoel, D.3
-
72
-
-
33846823909
-
Particle mesh Ewald: An N log(N) method for Ewald sums in large systems
-
Darden T, York D, Pedersen L. Particle mesh Ewald: an N log(N) method for Ewald sums in large systems. J Chem Phys 1993:98:10089-10092.
-
(1993)
J Chem Phys
, vol.98
, pp. 10089-10092
-
-
Darden, T.1
York, D.2
Pedersen, L.3
-
73
-
-
33750587438
-
Molecular dynamics with coupling to an external bath
-
Berendsen HJC, Postma JPM, van Gunsteren WF, DiNola A, Haak JR. Molecular dynamics with coupling to an external bath. J Chem. Phys 1984;81:3684-3690.
-
(1984)
J Chem. Phys
, vol.81
, pp. 3684-3690
-
-
Berendsen, H.J.C.1
Postma, J.P.M.2
Van Gunsteren, W.F.3
Dinola, A.4
Haak, J.R.5
-
74
-
-
84986440341
-
SETTLE: An analytical version of the shake and rattle algorithm for rigid water models
-
Miyamoto S, Kollman PA. SETTLE: an analytical version of the shake and rattle algorithm for rigid water models. J Comput Chem 1992;13:952-962.
-
(1992)
J Comput Chem
, vol.13
, pp. 952-962
-
-
Miyamoto, S.1
Kollman, P.A.2
-
75
-
-
33646940952
-
Numerical-integration of cartesian equations of motion of a system with constraints-molecular-dynamics of N-alkanes
-
Ryckaert JP, Ciccotti G, Berendsen. HJC. Numerical-integration of cartesian equations of motion of a system with constraints-molecular-dynamics of N-alkanes. J Comput Phys 1977;23:327-341.
-
(1977)
J Comput Phys
, vol.23
, pp. 327-341
-
-
Ryckaert, J.P.1
Ciccotti, G.2
Berendsen, H.J.C.3
-
76
-
-
0242290884
-
A molecular dynamics method for calculating molecular volume changes appropriate for biomolecular simulation
-
De Vane R, Ridley C, Larsen RW, Space B, Moore PB, Chan SI. A molecular dynamics method for calculating molecular volume changes appropriate for biomolecular simulation. Biophys J 2003;85:2801-2807.
-
(2003)
Biophys J
, vol.85
, pp. 2801-2807
-
-
De Vane, R.1
Ridley, C.2
Larsen, R.W.3
Space, B.4
Moore, P.B.5
Chan, S.I.6
-
77
-
-
34250434907
-
Structure in aqueous solutions of nonpolar solutes from the standpoint of scaled-particle theory
-
Stillinger FH. Structure in aqueous solutions of nonpolar solutes from the standpoint of scaled-particle theory. J Sol Chem 1973;2:141-158.
-
(1973)
J Sol Chem
, vol.2
, pp. 141-158
-
-
Stillinger, F.H.1
-
78
-
-
0000643005
-
Thornton JM Modelling protein unfolding: A solvent insertion protocol
-
Goodfellow JM, Knaggs M, Williams MA, Thornton JM Modelling protein unfolding: a solvent insertion protocol. Faraday Discuss 1996;103:339-347.
-
(1996)
Faraday Discuss
, vol.103
, pp. 339-347
-
-
Goodfellow, J.M.1
Knaggs, M.2
Williams, M.A.3
-
80
-
-
0020997912
-
Dictionary of protein secondary structure- Pattern-recognition of hydrogen-bonded and geometrical features
-
Kabsch W, Sander C. Dictionary of protein secondary structure- pattern-recognition of hydrogen-bonded and geometrical features. Biopolymers 1983;22:2577-2637.
-
(1983)
Biopolymers
, vol.22
, pp. 2577-2637
-
-
Kabsch, W.1
Sander, C.2
-
81
-
-
0024963569
-
Residual structure in large fragments of Staphylococcal nuclease-effects of amino-acid substitutions
-
Shortle D, Meeker AK. Residual structure in large fragments of Staphylococcal nuclease-effects of amino-acid substitutions. Biochemistry 1989;28:936-944.
-
(1989)
Biochemistry
, vol.28
, pp. 936-944
-
-
Shortle, D.1
Meeker, A.K.2
-
82
-
-
0025005525
-
Contributions of the large hydrophobic amino-acids to the stability of Staphylococcal nuclease
-
Shortle D, Stites WE, Meeker AK. Contributions of the large hydrophobic amino-acids to the stability of Staphylococcal nuclease. Biochemistry 1990;29:8033-8041.
-
(1990)
Biochemistry
, vol.29
, pp. 8033-8041
-
-
Shortle, D.1
Stites, W.E.2
Meeker, A.K.3
-
84
-
-
39049121161
-
The fbldon substructure of Staphylococcal nuclease
-
Bedard S, Mayne LC, Peterson RW, Wand AJ, Englander SW. The fbldon substructure of Staphylococcal nuclease. J Mol Biol 2008; 376:1142-1154.
-
(2008)
J Mol Biol
, vol.376
, pp. 1142-1154
-
-
Bedard, S.1
Mayne, L.C.2
Peterson, R.W.3
Wand, A.J.4
Englander, S.W.5
-
85
-
-
0027180821
-
Effects of amino-acid substitutions on the pressure denaturation of Staphylococcal nuclease as monitored by fluorescence and nuclear-magnetic- resonauce spectroscopy
-
Royer CA, Hinck AP, Loh SN, Prehoda. KE, Peng XD, Jonas J, Markley JL. Effects of amino-acid substitutions on the pressure denaturation of Staphylococcal nuclease as monitored by fluorescence and nuclear-magnetic- resonauce spectroscopy. Biochemistry 1993;32:5222-5232.
-
(1993)
Biochemistry
, vol.32
, pp. 5222-5232
-
-
Royer, C.A.1
Hinck, A.P.2
Loh, S.N.3
Prehoda, K.E.4
Peng, X.D.5
Jonas, J.6
Markley, J.L.7
-
86
-
-
0034692902
-
Increasing the thermostability of Staphylococcal nuclease: Implications for the origin of protein thermostability
-
Chen JM, Lu ZQ, Sakon J, Stites WE. Increasing the thermostability of Staphylococcal nuclease: implications for the origin of protein thermostability. J Mol Biol 2000;303:125-130.
-
(2000)
J Mol Biol
, vol.303
, pp. 125-130
-
-
Chen, J.M.1
Lu, Z.Q.2
Sakon, J.3
Stites, W.E.4
-
87
-
-
0035815110
-
Expansivity and isothermal compressibility changes associated with temperature and pressure unfolding of Staphylococcal nuclease
-
Seemann H, Winter R, Royer CA. Volume, expansivity and isothermal compressibility changes associated with temperature and pressure unfolding of Staphylococcal nuclease. J Mol Biol 2001;307: 1091-1102.
-
(2001)
J Mol Biol
, Issue.307
, pp. 1091-1102
-
-
Seemann, H.1
Winter, R.2
Volume, R.C.A.3
-
88
-
-
1642409882
-
Effects of chaotropic and kosmotropic solvents on the pressure-induced unfolding and denaturation of proteins: An FT-IR study on Staphylococcal nuclease
-
Herberhold H, Royer CA, Winter R. Effects of chaotropic and kosmotropic solvents on the pressure-induced unfolding and denaturation of proteins: an FT-IR study on Staphylococcal nuclease. Biochemistry 2004;43:3336-3345.
-
(2004)
Biochemistry
, vol.43
, pp. 3336-3345
-
-
Herberhold, H.1
Royer, C.A.2
Winter, R.3
-
89
-
-
0037437224
-
On the temperature-pressure free-energy landscape of proteins
-
Ravindra R, Winter R. On the temperature-pressure free-energy landscape of proteins. Chem Phys Chem 2003;4:359-365.
-
(2003)
Chem Phys Chem
, vol.4
, pp. 359-365
-
-
Ravindra, R.1
Winter, R.2
-
90
-
-
38949201628
-
On the molecular origins of volumetric data
-
Chalikian TV. On the molecular origins of volumetric data. J Phys Chem B 2008;112:911-917.
-
(2008)
J Phys Chem B
, vol.112
, pp. 911-917
-
-
Chalikian, T.V.1
-
91
-
-
68849115938
-
Quantifying water density fluctuations and compressibility of hydration shells of hydrophobic solutes and proteins
-
Sarupria S, Garde S. Quantifying water density fluctuations and compressibility of hydration shells of hydrophobic solutes and proteins. Phys Rev Lett 2009;1003:037803-1-037803-37804
-
(2009)
Phys Rev Lett
, vol.1003
, pp. 378031-3780337804
-
-
Sarupria, S.1
Garde, S.2
-
92
-
-
0043194011
-
Dissociation of amyloid fibrils of alpha-synuclein and transthyretin by pressure reveals their reversible nature and the formation of water-excluded cavities
-
Foguel D, Suarez MC, Ferrao-Gonzales AD, Porto TCR, Palmieri L, Einsiedler CM, Andrade LR, Lashuei HA, Lansbury PT, Kelly JW, Silva JL. Dissociation of amyloid fibrils of alpha-synuclein and transthyretin by pressure reveals their reversible nature and the formation of water-excluded cavities. Proc Natl Acad Sci USA 2003; 100:9831-9836.
-
(2003)
Proc Natl Acad Sci USA
, vol.100
, pp. 9831-9836
-
-
Foguel, D.1
Suarez, M.C.2
Ferrao-Gonzales, A.D.3
Porto, T.C.R.4
Palmieri, L.5
Einsiedler, C.M.6
Andrade, L.R.7
Lashuei, H.A.8
Lansbury, P.T.9
Kelly, J.W.10
Silva, J.L.11
-
93
-
-
0037171119
-
High-resolution nuclear magnetic resonance studies of proteins
-
Jonas J. High-resolution nuclear magnetic resonance studies of proteins. Biochim Biophys Acta 2002;1595:145-159.
-
(2002)
Biochim Biophys Acta
, vol.1595
, pp. 145-159
-
-
Jonas, J.1
-
94
-
-
0035478292
-
Pressure provides new insights into protein folding, dynamics and structure
-
Silva JL, Foguel D, Royer CA. Pressure provides new insights into protein folding, dynamics and structure. Trends Biochem Sci 2001; 26:612-618.
-
(2001)
Trends Biochem Sci
, vol.26
, pp. 612-618
-
-
Silva, J.L.1
Foguel, D.2
Royer, C.A.3
-
95
-
-
1642488929
-
Pressure-dissociable reversible assembly of intrinsically denatured lysozyme is a precursor for amyloid fibrils
-
Niraula TN, Konno T, Li H, Yamada H, Akasaka K, Tachibana H. Pressure-dissociable reversible assembly of intrinsically denatured lysozyme is a precursor for amyloid fibrils. Proc Natl Acad Sci USA 2004;101:4089-4093.
-
(2004)
Proc Natl Acad Sci USA
, vol.101
, pp. 4089-4093
-
-
Niraula, T.N.1
Konno, T.2
Li, H.3
Yamada, H.4
Akasaka, K.5
Tachibana, H.6
-
97
-
-
0001605140
-
Quasi-chemical theories of associated liquids
-
Pratt LR, Laviolette RA. Quasi-chemical theories of associated liquids. Mol Phys 1998;94:909-915.
-
(1998)
Mol Phys
, vol.94
, pp. 909-915
-
-
Pratt, L.R.1
Laviolette, R.A.2
-
98
-
-
46149084929
-
Role of attractive methane-water interactions in the potential of mean force between methane molecules in water
-
Ashtagiri D, Merchant S, Pratt LR. Role of attractive methane-water interactions in the potential of mean force between methane molecules in water. J Chem Phys 2008;128:244512-244517
-
(2008)
J Chem Phys
, vol.128
, pp. 244512-244517
-
-
Ashtagiri, D.1
Merchant, S.2
Pratt, L.R.3
|