-
1
-
-
0035843166
-
Improving enzymes by using them in organic solvents
-
DOI 10.1038/35051719
-
A. M. Klibanov, Nature 409, 241 (2001). 10.1038/35051719 (Pubitemid 32144293)
-
(2001)
Nature
, vol.409
, Issue.6817
, pp. 241-246
-
-
Klibanov, A.M.1
-
3
-
-
34548613757
-
Effects of organic solvents on the enzyme activity of Trypanosoma cruzi glyceraldehyde-3-phosphate dehydrogenase in calorimetric assays
-
DOI 10.1016/j.ab.2007.06.042, PII S0003269707004307
-
H. J. Wiggers, J. Cheleski, A. Zottis, G. Oliva, A. D. Andricopulo, and C. A. Montanari, Anal. Biochem. 370, 107 (2007). 10.1016/j.ab.2007.06.042 (Pubitemid 47404493)
-
(2007)
Analytical Biochemistry
, vol.370
, Issue.1
, pp. 107-114
-
-
Wiggers, H.J.1
Cheleski, J.2
Zottis, A.3
Oliva, G.4
Andricopulo, A.D.5
Montanari, C.A.6
-
4
-
-
0024287893
-
-
available online at
-
A. Zaks and A. M. Klibanov, J. Biol. Chem. 263, 8017 (1988); available online at http://www.scopus.com/record/display.url?eid=2-s2.0-0024287893origin= inwardtxGid=42SR4C981oBL9-WueBwuCPv%3a7.
-
(1988)
J. Biol. Chem.
, vol.263
, pp. 8017
-
-
Zaks, A.1
Klibanov, A.M.2
-
5
-
-
0031577566
-
Activation of adenylate kinase by denaturants is due to the increasing conformational flexibility at its active sites
-
DOI 10.1006/bbrc.1997.7301
-
H. J. Zhang, X. R. Sheng, X. M. Pan, and J. M. Zhou, Biochem. Biophys. Res. Commun. 238, 382 (1997). 10.1006/bbrc.1997.7301 (Pubitemid 27464393)
-
(1997)
Biochemical and Biophysical Research Communications
, vol.238
, Issue.2
, pp. 382-386
-
-
Zhang, H.-J.1
Sheng, X.-R.2
Pan, X.-M.3
Zhou, J.-M.4
-
6
-
-
0029917031
-
-
available online at
-
Y. X. Fan, M. Ju, J. M. Zhou, and C. L. Tsou, Biochem. J. 315, 97 (1996); available online at http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1217202/.
-
(1996)
Biochem. J.
, vol.315
, pp. 97
-
-
Fan, Y.X.1
Ju, M.2
Zhou, J.M.3
Tsou, C.L.4
-
7
-
-
0037007068
-
Computational mapping identifies the binding sites of organic solvents on proteins
-
DOI 10.1073/pnas.062398499
-
S. Dennis, T. Kortvelyesi, and S. Vajda, Proc. Natl. Acad. Sci. U.S.A. 99, 4290 (2002). 10.1073/pnas.062398499 (Pubitemid 34285978)
-
(2002)
Proceedings of the National Academy of Sciences of the United States of America
, vol.99
, Issue.7
, pp. 4290-4295
-
-
Dennis, S.1
Kortvelyesi, T.2
Vajda, S.3
-
8
-
-
0026726004
-
-
10.1021/bi00152a015
-
F. D. Sonnichsen, J. E. Van Eyk, R. S. Hodges, and B. D. Sykes, Biochemistry 31, 8790 (1992). 10.1021/bi00152a015
-
(1992)
Biochemistry
, vol.31
, pp. 8790
-
-
Sonnichsen, F.D.1
Van Eyk, J.E.2
Hodges, R.S.3
Sykes, B.D.4
-
10
-
-
0028963362
-
-
10.1073/pnas.92.8.3626
-
J. N. Onuchic, P. G. Wolynes, Z. Luthey-Schulten, and N. D. Socci, Proc. Natl. Acad. Sci. U.S.A. 92, 3626 (1995). 10.1073/pnas.92.8.3626
-
(1995)
Proc. Natl. Acad. Sci. U.S.A.
, vol.92
, pp. 3626
-
-
Onuchic, J.N.1
Wolynes, P.G.2
Luthey-Schulten, Z.3
Socci, N.D.4
-
12
-
-
0028947257
-
-
10.1002/prot.340210302
-
J. D. Bryngelson, J. N. Onuchic, N. D. Socci, and P. G. Wolynes, Proteins 21, 167 (1995). 10.1002/prot.340210302
-
(1995)
Proteins
, vol.21
, pp. 167
-
-
Bryngelson, J.D.1
Onuchic, J.N.2
Socci, N.D.3
Wolynes, P.G.4
-
13
-
-
0031104802
-
Why are enzymes less active in organic solvents than in water?
-
DOI 10.1016/S0167-7799(97)01013-5, PII S0167779997010135
-
A. M. Klibanov, Trends Biotechnol. 15, 97 (1997). 10.1016/S0167-7799(97) 01013-5 (Pubitemid 27151825)
-
(1997)
Trends in Biotechnology
, vol.15
, Issue.3
, pp. 97-101
-
-
Klibanov, A.1
-
15
-
-
33750945327
-
A backbone-based theory of protein folding
-
DOI 10.1073/pnas.0606843103
-
G. D. Rose, P. J. Fleming, J. R. Banavar, and A. Maritan, Proc. Natl. Acad. Sci. U.S.A. 103, 16623 (2006). 10.1073/pnas.0606843103 (Pubitemid 44737304)
-
(2006)
Proceedings of the National Academy of Sciences of the United States of America
, vol.103
, Issue.45
, pp. 16623-16633
-
-
Rose, G.D.1
Fleming, P.J.2
Banavar, J.R.3
Maritan, A.4
-
16
-
-
0024655878
-
Enzymatic catalysis in monophasic organic solvents
-
DOI 10.1016/0141-0229(89)90094-X
-
J. S. Dordick, Enzyme Microb. Technol. 11, 194 (1989). 10.1016/0141-0229(89)90094-X (Pubitemid 19097691)
-
(1989)
Enzyme and Microbial Technology
, vol.11
, Issue.4
, pp. 194-211
-
-
Dordick, J.S.1
-
18
-
-
0030010408
-
Intermediate states in protein folding
-
DOI 10.1006/jmbi.1996.0280
-
P. L. Privalov, J. Mol. Biol. 258, 707 (1996). 10.1006/jmbi.1996.0280 (Pubitemid 26150874)
-
(1996)
Journal of Molecular Biology
, vol.258
, Issue.5
, pp. 707-725
-
-
Privalov, P.L.1
-
19
-
-
80055081145
-
-
10.1126/science.1208351
-
K. Lindorff-Larsen, S. Piana, R. O. Dror, and D. E. Shaw, Science 334, 517 (2011). 10.1126/science.1208351
-
(2011)
Science
, vol.334
, pp. 517
-
-
Lindorff-Larsen, K.1
Piana, S.2
Dror, R.O.3
Shaw, D.E.4
-
20
-
-
0032554078
-
Hydrophobic interactions in aqueous urea solutions with implications for the mechanism of protein denaturation
-
DOI 10.1021/ja972053v
-
A. Wallqvist, D. G. Covell, and D. Thirumalai, J. Am. Chem. Soc. 120, 427 (1998). 10.1021/ja972053v (Pubitemid 28062530)
-
(1998)
Journal of the American Chemical Society
, vol.120
, Issue.2
, pp. 427-428
-
-
Wallqvist, A.1
Covell, D.G.2
Thirumalai, D.3
-
21
-
-
0030701981
-
-
10.1002/(SICI)1097-0134(199712)29:4492::AID-PROT93.0.CO;2-A
-
S. Bhattacharjya and P. Balaram, Proteins 29, 492 (1997). 10.1002/(SICI)1097-0134(199712)29:4492::AID-PROT93.0.CO;2-A
-
(1997)
Proteins
, vol.29
, pp. 492
-
-
Bhattacharjya, S.1
Balaram, P.2
-
22
-
-
33749430111
-
-
available online at
-
K. Hamaguchi, J. Biochem. 56, 441 (1964); available online at http://www.scopus.com/record/display.url?eid=2-s2.0-33749430111origin= inwardtxGid=42SR4C981oBL9-WueBwuCPv%3a11.
-
(1964)
J. Biochem.
, vol.56
, pp. 441
-
-
Hamaguchi, K.1
-
27
-
-
79952096670
-
-
10.1021/jp109622h
-
S. Roy, S. Banerjee, N. Biyani, B. Jana, and B. Bagchi, J. Phys. Chem. B 115, 685 (2011). 10.1021/jp109622h
-
(2011)
J. Phys. Chem. B
, vol.115
, pp. 685
-
-
Roy, S.1
Banerjee, S.2
Biyani, N.3
Jana, B.4
Bagchi, B.5
-
28
-
-
84859228882
-
-
See supplementary material at E-JCPSA6-136-023212 for dimethyl sulfoxide induced structural transformations and non-monotonic concentration dependence of conformational fluctuation around active site of Lysozyme. This document contains a snapshot of lysozyme highlighting some important residues surrounding the catalytic active site, arrangement of the residues of -domain of lysozyme forming a structured core at 20 DMSO mole fraction, radial distribution functions (g(r)) of methyl groups of DMSO from phenyl alanine (PHE-34), orientation of DMSO around phenyl alanine (PHE-34), asparagine (ASN-44), and a table for average interaction energy between PHE-34 and methyl groups of DMSO at various mole fraction of DMSO
-
See supplementary material at http://dx.doi.org/10.1063/1.3694268 E-JCPSA6-136-023212 for dimethyl sulfoxide induced structural transformations and non-monotonic concentration dependence of conformational fluctuation around active site of Lysozyme. This document contains a snapshot of lysozyme highlighting some important residues surrounding the catalytic active site, arrangement of the residues of -domain of lysozyme forming a structured core at 20 DMSO mole fraction, radial distribution functions (g(r)) of methyl groups of DMSO from phenyl alanine (PHE-34), orientation of DMSO around phenyl alanine (PHE-34), asparagine (ASN-44), and a table for average interaction energy between PHE-34 and methyl groups of DMSO at various mole fraction of DMSO.
-
-
-
-
30
-
-
4444282928
-
-
10.1002/jcc.20090
-
C. Oostenbrink, A. Villa, A. E. Mark, and W. F. van Gunsteren, J. Comput. Chem. 25, 1656 (2004). 10.1002/jcc.20090
-
(2004)
J. Comput. Chem.
, vol.25
, pp. 1656
-
-
Oostenbrink, C.1
Villa, A.2
Mark, A.E.3
Van Gunsteren, W.F.4
-
32
-
-
0442326613
-
-
10.1021/jp035034i
-
D. P. Geerke, C. Oostenbrink, N. F. A. van der Vegt, and W. F. van Gunsteren, J. Phys. Chem. B 108, 1436 (2004). 10.1021/jp035034i
-
(2004)
J. Phys. Chem. B
, vol.108
, pp. 1436
-
-
Geerke, D.P.1
Oostenbrink, C.2
Van Der Vegt, N.F.A.3
Van Gunsteren, W.F.4
-
33
-
-
0001538909
-
-
10.1103/PhysRevA.31.1695
-
W. G. Hoover, Phys. Rev. A. 31, 1695 (1985). 10.1103/PhysRevA.31.1695
-
(1985)
Phys. Rev. A.
, vol.31
, pp. 1695
-
-
Hoover, W.G.1
-
34
-
-
34547809547
-
-
10.1063/1.447334
-
S. Nose, J. Chem. Phys. 81, 511 (1984). 10.1063/1.447334
-
(1984)
J. Chem. Phys.
, vol.81
, pp. 511
-
-
Nose, S.1
-
35
-
-
0019707626
-
Polymorphic transitions in single crystals: A new molecular dynamics method
-
DOI 10.1063/1.328693
-
M. Parinello and A. Rahman, J. Appl. Phys. 52, 7182 (1981). 10.1063/1.328693 (Pubitemid 12456820)
-
(1981)
Journal of Applied Physics
, vol.52
, Issue.12
, pp. 7182-7190
-
-
Parrinello, M.1
Rahman, A.2
-
36
-
-
27344454932
-
-
10.1002/jcc.20291
-
D. van der Spoel, E. Lindahl, B. Hess, G. Groenhof, A. E. Mark, and H. J. C. Berendsen, J. Comput. Chem. 26, 1701 (2006). 10.1002/jcc.20291
-
(2006)
J. Comput. Chem.
, vol.26
, pp. 1701
-
-
Van Der Spoel, D.1
Lindahl, E.2
Hess, B.3
Groenhof, G.4
Mark, A.E.5
Berendsen, H.J.C.6
-
38
-
-
79953823548
-
-
10.1126/science.1198542
-
G. Bhabha, J. Lee, D. C. Ekiert, J. Gam, I. A. Wilson, H. J. Dyson, S. J. Benkovic, and P. E. Wright, Science 332, 234 (2011). 10.1126/science.1198542
-
(2011)
Science
, vol.332
, pp. 234
-
-
Bhabha, G.1
Lee, J.2
Ekiert, D.C.3
Gam, J.4
Wilson, I.A.5
Dyson, H.J.6
Benkovic, S.J.7
Wright, P.E.8
-
39
-
-
0242268469
-
Nonlinear elasticity, proteinquakes, and the energy landscapes of functional transitions in proteins
-
DOI 10.1073/pnas.2135471100
-
O. Miyashita, J. N. Onuchic, and P. G. Wolynes, Proc. Natl. Acad. Sci. U.S.A. 100, 12570 (2003). 10.1073/pnas.2135471100 (Pubitemid 37339939)
-
(2003)
Proceedings of the National Academy of Sciences of the United States of America
, vol.100
, Issue.22
, pp. 12570-12575
-
-
Miyashita, O.1
Onuchic, J.N.2
Wolynes, P.G.3
-
43
-
-
0030322669
-
-
10.1016/S1359-0278(96)00060-0
-
J. N. Onuchic, P. G. Wolynes, Z. Luthey-Schulten, and N. D. Socci, Folding Des. 1, 441 (1996). 10.1016/S1359-0278(96)00060-0
-
(1996)
Folding Des.
, vol.1
, pp. 441
-
-
Onuchic, J.N.1
Wolynes, P.G.2
Luthey-Schulten, Z.3
Socci, N.D.4
-
44
-
-
0029633154
-
-
10.1016/0010-4655(95)00055-K
-
W. F. V. Gunsteren, P. H. Hiinenberger, A. E. Mark, P. E. Smith, and I. G. Tironi, Comput. Phys. Commun. 91, 305 (1995). 10.1016/0010-4655(95)00055-K
-
(1995)
Comput. Phys. Commun.
, vol.91
, pp. 305
-
-
Gunsteren, W.F.V.1
Hiinenberger, P.H.2
Mark, A.E.3
Smith, P.E.4
Tironi, I.G.5
-
45
-
-
0037442337
-
Molecular dynamics simulations of end-to-end contact formation in hydrocarbon chains in water and aqueous urea solution
-
DOI 10.1021/ja020496f
-
R. D. Mountain and D. Thirumalai, J. Am. Chem. Soc. 125, 1950 (2003). 10.1021/ja020496f (Pubitemid 36232587)
-
(2003)
Journal of the American Chemical Society
, vol.125
, Issue.7
, pp. 1950-1957
-
-
Mountain, R.D.1
Thirumalai, D.2
-
48
-
-
0000561390
-
-
10.1021/ja00013a013
-
A. Yadav, R. M. Jackson, J. J. Holbrook, and A. Warshel, J. Am. Chem. SOC. 113, 4800 (1991). 10.1021/ja00013a013
-
(1991)
J. Am. Chem. SOC.
, vol.113
, pp. 4800
-
-
Yadav, A.1
Jackson, R.M.2
Holbrook, J.J.3
Warshel, A.4
-
49
-
-
37349007321
-
On the relationship between thermal stability and catalytic power of enzymes
-
DOI 10.1021/bi701732a
-
M. Roca, H. Liu, B. Messer, and A. Warshel, Biochemistry 46, 15076 (2007). 10.1021/bi701732a (Pubitemid 350308899)
-
(2007)
Biochemistry
, vol.46
, Issue.51
, pp. 15076-15088
-
-
Roca, M.1
Liu, H.2
Messer, B.3
Warshel, A.4
-
50
-
-
34249104188
-
The catalytic effect of dihydrofolate reductase and its mutants is determined by reorganization energies
-
DOI 10.1021/bi700201w
-
H. Liu and A. Warshel, Biochemistry 46, 6011 (2007). 10.1021/bi700201w (Pubitemid 46799163)
-
(2007)
Biochemistry
, vol.46
, Issue.20
, pp. 6011-6025
-
-
Liu, H.1
Warshel, A.2
-
51
-
-
33646935697
-
Dynamical contributions to enzyme catalysis: Critical tests of a popular hypothesis
-
DOI 10.1021/cr040427e
-
M. H. M. Olsson, W. W. Parson, and A. Warshel, Chem. Rev. 106, 1737 (2006). 10.1021/cr040427e (Pubitemid 43792778)
-
(2006)
Chemical Reviews
, vol.106
, Issue.5
, pp. 1737-1756
-
-
Olsson, M.H.M.1
Parson, W.W.2
Warshel, A.3
-
52
-
-
25444514520
-
Water dynamics in the hydration layer around proteins and micelles
-
DOI 10.1021/cr020661+
-
B. Bagchi, Chem. Rev. 105, 3197 (2005). 10.1021/cr020661+ (Pubitemid 41430808)
-
(2005)
Chemical Reviews
, vol.105
, Issue.9
, pp. 3197-3219
-
-
Bagchi, B.1
-
54
-
-
84857649865
-
-
10.1016/j.cplett.2011.12.065
-
B. Bagchi, Chem. Phys. Lett. 529, 1 (2012). 10.1016/j.cplett.2011.12.065
-
(2012)
Chem. Phys. Lett.
, vol.529
, pp. 1
-
-
Bagchi, B.1
|