-
1
-
-
0034280643
-
Adaptive walks by the fittest among finite random mutants on a Mt. Fuji-type fitness landscape. II. Effect of small non-additivity
-
Aita, T., and Y. Husimi. 2000. Adaptive walks by the fittest among finite random mutants on a Mt. Fuji-type fitness landscape. II. Effect of small non-additivity. J. Math. Biol. 41:207-231.
-
(2000)
J. Math. Biol.
, vol.41
, pp. 207-231
-
-
Aita, T.1
Husimi, Y.2
-
2
-
-
58049215418
-
Structural consequences of effector protein complex formation in a diiron hydroxylase
-
Bailey, L. J., J. G. McCoy, G. N. Phillips, and B. G. Fox. 2008. Structural consequences of effector protein complex formation in a diiron hydroxylase. Proc. Natl. Acad. Sci. U. S. A. 105:19194-19198.
-
(2008)
Proc. Natl. Acad. Sci. U.S.A.
, vol.105
, pp. 19194-19198
-
-
Bailey, L.J.1
McCoy, J.G.2
Phillips, G.N.3
Fox, B.G.4
-
3
-
-
38949210848
-
Enzyme improvement in the absence of structural knowledge: A novel statistical approach
-
Barak, Y., Y. Nov, D. F. Ackerley, and A. Matin. 2008. Enzyme improvement in the absence of structural knowledge: a novel statistical approach. ISME J. 2:171-179.
-
(2008)
ISME J.
, vol.2
, pp. 171-179
-
-
Barak, Y.1
Nov, Y.2
Ackerley, D.F.3
Matin, A.4
-
4
-
-
0037109192
-
Additivity in protein-DNA interactions: How good an approximation is it?
-
Benos, P. V., M. L. Bulyk, and G. D. Stormo. 2002. Additivity in protein-DNA interactions: how good an approximation is it? Nucleic Acids Res. 30:4442-4451.
-
(2002)
Nucleic Acids Res.
, vol.30
, pp. 4442-4451
-
-
Benos, P.V.1
Bulyk, M.L.2
Stormo, G.D.3
-
5
-
-
77957826140
-
The influence of key residues in the tunnelentrance and the active site on activity and selectivity of toluene-4-monooxygenase
-
Brouk, M., N. L. Derry, J. Shainsky, Z. Ben-Barak Zelas, Y. Boyko, K. Dabush, and A. Fishman. 2010. The influence of key residues in the tunnelentrance and the active site on activity and selectivity of toluene-4-monooxygenase. J. Mol. Catal. B Enzym. 66:72-80.
-
(2010)
J. Mol. Catal. B Enzym.
, vol.66
, pp. 72-80
-
-
Brouk, M.1
Derry, N.L.2
Shainsky, J.3
Ben-Barak Zelas, Z.4
Boyko, Y.5
Dabush, K.6
Fishman, A.7
-
6
-
-
64449084990
-
Protein engineering of toluene monooxygenases for synthesis of hydroxytyrosol
-
Brouk, M., and A. Fishman. 2009. Protein engineering of toluene monooxygenases for synthesis of hydroxytyrosol. Food Chem. 116:114-121.
-
(2009)
Food Chem.
, vol.116
, pp. 114-121
-
-
Brouk, M.1
Fishman, A.2
-
7
-
-
40549093291
-
Proteinengineering of toluene monooxygenases for synthesis of chiral sulfoxides
-
Feingersch, R., J. Shainsky, T. K. Wood, and A. Fishman. 2008. Proteinengineering of toluene monooxygenases for synthesis of chiral sulfoxides. Appl. Environ. Microbiol. 74:1555-1566.
-
(2008)
Appl. Environ. Microbiol.
, vol.74
, pp. 1555-1566
-
-
Feingersch, R.1
Shainsky, J.2
Wood, T.K.3
Fishman, A.4
-
8
-
-
4644252576
-
Protein engineering of toluene 4-monooxygenase of Pseudomonas mendocina KR1 for synthesizing 4-nitrocatechol from nitrobenzene
-
Fishman, A., Y. Tao, W. E. Bentley, and T. K. Wood. 2004. Protein engineering of toluene 4-monooxygenase of Pseudomonas mendocina KR1 for synthesizing 4-nitrocatechol from nitrobenzene. Biotechnol. Bioeng. 87:779-790.
-
(2004)
Biotechnol. Bioeng.
, vol.87
, pp. 779-790
-
-
Fishman, A.1
Tao, Y.2
Bentley, W.E.3
Wood, T.K.4
-
9
-
-
33947095042
-
Improving catalytic function by ProSAR-driven enzyme evolution
-
Fox, R. J., S. C. Davis, E. C. Mundorff, L. M. Newman, V. Gavrilovic, S. K. Ma, L. M. Chung, C. Ching, S. Tam, S. Muley, J. Grate, J. Gruber, J. C. Whitman, R. A. Sheldon, and G. W. Huisman. 2007. Improving catalytic function by ProSAR-driven enzyme evolution. Nat. Biotechnol. 25:338-344.
-
(2007)
Nat. Biotechnol.
, vol.25
, pp. 338-344
-
-
Fox, R.J.1
Davis, S.C.2
Mundorff, E.C.3
Newman, L.M.4
Gavrilovic, V.5
Ma, S.K.6
Chung, L.M.7
Ching, C.8
Tam, S.9
Muley, S.10
Grate, J.11
Gruber, J.12
Whitman, J.C.13
Sheldon, R.A.14
Huisman, G.W.15
-
10
-
-
39149125127
-
Enzyme optimization: Moving from blind evolution to statistical exploration of sequence-function space
-
Fox, R. J., and G. W. Huisman. 2008. Enzyme optimization: moving from blind evolution to statistical exploration of sequence-function space. Trends Biotechnol. 26:132-138.
-
(2008)
Trends Biotechnol.
, vol.26
, pp. 132-138
-
-
Fox, R.J.1
Huisman, G.W.2
-
11
-
-
33847030736
-
Industrial biotechnology for the production of bio-based chemicals: A cradle-tograve perspective
-
Hatti-Kaul, R., U. Tornvall, L. Gustafsson, and P. Borjesson. 2007. Industrial biotechnology for the production of bio-based chemicals: a cradle-tograve perspective. Trends Biotechnol. 25:119-124.
-
(2007)
Trends Biotechnol.
, vol.25
, pp. 119-124
-
-
Hatti-Kaul, R.1
Tornvall, U.2
Gustafsson, L.3
Borjesson, P.4
-
12
-
-
84889999886
-
-
Illanes, A. (ed.). 2008. Enzyme biocatalysis: principles and applications. Springer, New York, NY
-
Illanes, A. (ed.). 2008. Enzyme biocatalysis: principles and applications. Springer, New York, NY.
-
-
-
-
13
-
-
70349934718
-
Antidiabetic and antioxidant effects of hydroxytyrosol and oleuropein from olive leaves in alloxan-diabetic rats
-
Jemai, H., A. El Feki, and S. Sayadi. 2009. Antidiabetic and antioxidant effects of hydroxytyrosol and oleuropein from olive leaves in alloxan-diabetic rats. J. Agric. Food Chem. 57:8798-8804.
-
(2009)
J. Agric. Food Chem.
, vol.57
, pp. 8798-8804
-
-
Jemai, H.1
El Feki, A.2
Sayadi, S.3
-
14
-
-
0023647382
-
Towards a general theory of adaptive walks on rugged landscapes
-
Kauffman, S., and S. Levin. 1987. Towards a general theory of adaptive walks on rugged landscapes. J. Theor. Biol. 128:11-45.
-
(1987)
J. Theor. Biol.
, vol.128
, pp. 11-45
-
-
Kauffman, S.1
Levin, S.2
-
15
-
-
68049111471
-
Finding better protein engineering strategies
-
Kazlauskas, R. J., and U. T. Bornscheuer. 2009. Finding better protein engineering strategies. Nat. Chem. Biol. 5:526-529.
-
(2009)
Nat. Chem. Biol.
, vol.5
, pp. 526-529
-
-
Kazlauskas, R.J.1
Bornscheuer, U.T.2
-
18
-
-
34147184400
-
Engineering proteinase K using machine learning and synthetic genes
-
Liao, J., M. K. Warmuth, S. Govindarajan, J. E. Ness, R. P. Wang, C. Gustafsson, and J. Minshull. 2007. Engineering proteinase K using machine learning and synthetic genes. BMC Biotechnol. 7:16.
-
(2007)
BMC Biotechnol.
, vol.7
, pp. 16
-
-
Liao, J.1
Warmuth, M.K.2
Govindarajan, S.3
Ness, J.E.4
Wang, R.P.5
Gustafsson, C.6
Minshull, J.7
-
19
-
-
3042526826
-
Effects of differing phenolic content in dietary olive oils on lipids and LDL oxidation
-
Marrugat, J., M. I. Covas, M. Fit, H. Schroder, E. Miro-Casas, E. Gimeno, M. C. Lopez-Sabater, R. de la Torre, and M. Farre. 2004. Effects of differing phenolic content in dietary olive oils on lipids and LDL oxidation. Eur. J. Nutr. 43:140-147.
-
(2004)
Eur. J. Nutr.
, vol.43
, pp. 140-147
-
-
Marrugat, J.1
Covas, M.I.2
Fit, M.3
Schroder, H.4
Miro-Casas, E.5
Gimeno, E.6
Lopez-Sabater, M.C.7
De La Torre, R.8
Farre, M.9
-
20
-
-
25144476090
-
Mutations of toluene-4-monooxygenase that alter regiospecificity of indole oxidation and lead to production of novel indigoid pigments
-
McClay, K., C. Boss, I. Keresztes, and R. J. Steffan. 2005. Mutations of toluene-4-monooxygenase that alter regiospecificity of indole oxidation and lead to production of novel indigoid pigments. Appl. Environ. Microbiol. 71:5476-5483.
-
(2005)
Appl. Environ. Microbiol.
, vol.71
, pp. 5476-5483
-
-
McClay, K.1
Boss, C.2
Keresztes, I.3
Steffan, R.J.4
-
21
-
-
0037022829
-
Combined participation of hydroxylase active site residues and effector protein binding in a para to ortho modulation of toluene 4-monooxygenase regiospecificity
-
Mitchell, K. H., J. M. Studts, and B. G. Fox. 2002. Combined participation of hydroxylase active site residues and effector protein binding in a para to ortho modulation of toluene 4-monooxygenase regiospecificity. Biochemistry 41:3176-3188.
-
(2002)
Biochemistry
, vol.41
, pp. 3176-3188
-
-
Mitchell, K.H.1
Studts, J.M.2
Fox, B.G.3
-
22
-
-
15944369582
-
Modeling and analysis of protein design under resource constraints
-
Nov, Y., and L. M. Wein. 2005. Modeling and analysis of protein design under resource constraints. J. Comput. Biol. 12:247-282.
-
(2005)
J. Comput. Biol.
, vol.12
, pp. 247-282
-
-
Nov, Y.1
Wein, L.M.2
-
23
-
-
71849104042
-
Enzyme engineering for enantioselectivity: From trial-and-error to rational design?
-
Otten, L. G., F. Hollmann, and I. W. Arends. 2010. Enzyme engineering for enantioselectivity: from trial-and-error to rational design? Trends Biotechnol. 28:46-54.
-
(2010)
Trends Biotechnol.
, vol.28
, pp. 46-54
-
-
Otten, L.G.1
Hollmann, F.2
Arends, I.W.3
-
24
-
-
34248567845
-
Iterative saturation mutagenesis (ISM) for rapid directed evolution of functional enzymes
-
Reetz, M. T., and J. D. Carballeira. 2007. Iterative saturation mutagenesis (ISM) for rapid directed evolution of functional enzymes. Nat. Protoc. 2:891-903.
-
(2007)
Nat. Protoc.
, vol.2
, pp. 891-903
-
-
Reetz, M.T.1
Carballeira, J.D.2
-
25
-
-
54349090614
-
Addressing the numbers problem in directed evolution
-
Reetz, M. T., D. Kahakeaw, and R. Lohmer. 2008. Addressing the numbers problem in directed evolution. Chembiochem 9:1797-1804.
-
(2008)
Chembiochem
, vol.9
, pp. 1797-1804
-
-
Reetz, M.T.1
Kahakeaw, D.2
Lohmer, R.3
-
26
-
-
33846302851
-
Learning from directed evolution: Further lessons from theoretical investigations into cooperative mutations in lipase enantioselectivity
-
Reetz, M. T., M. Puls, J. D. Carballeira, A. Vogel, K. E. Jaeger, T. Eggert, W. Thiel, M. Bocola, and N. Otte. 2007. Learning from directed evolution: further lessons from theoretical investigations into cooperative mutations in lipase enantioselectivity. Chembiochem 8:106-112.
-
(2007)
Chembiochem
, vol.8
, pp. 106-112
-
-
Reetz, M.T.1
Puls, M.2
Carballeira, J.D.3
Vogel, A.4
Jaeger, K.E.5
Eggert, T.6
Thiel, W.7
Bocola, M.8
Otte, N.9
-
27
-
-
0004136246
-
-
3rd ed., Cold Spring Harbor Laboratory Press, New York, NY
-
Sambrook, J., and D. W. Russell. 2001. Molecular cloning: a laboratory manual, 3rd ed. Cold Spring Harbor Laboratory Press, New York, NY.
-
(2001)
Molecular Cloning: A Laboratory Manual
-
-
Sambrook, J.1
Russell, D.W.2
-
28
-
-
65249152992
-
Advances in generating functional diversity for directed protein evolution
-
Shivange, A. V., J. Marienhagen, H. Mundhada, A. Schenk, and U. Schwaneberg. 2009. Advances in generating functional diversity for directed protein evolution. Curr. Opin. Chem. Biol. 13:19-25.
-
(2009)
Curr. Opin. Chem. Biol.
, vol.13
, pp. 19-25
-
-
Shivange, A.V.1
Marienhagen, J.2
Mundhada, H.3
Schenk, A.4
Schwaneberg, U.5
-
29
-
-
17444385968
-
Regiospecific oxidation of naphthalene and fluorene by toluene monooxygenases and engineered toluene 4-monooxygenases of Pseudomonas mendocina KR1
-
Tao, Y., W. E. Bentley, and T. K. Wood. 2005. Regiospecific oxidation of naphthalene and fluorene by toluene monooxygenases and engineered toluene 4-monooxygenases of Pseudomonas mendocina KR1. Biotechnol. Bioeng. 90:85-94.
-
(2005)
Biotechnol. Bioeng.
, vol.90
, pp. 85-94
-
-
Tao, Y.1
Bentley, W.E.2
Wood, T.K.3
-
30
-
-
3042815981
-
Altering toluene 4-monooxygenase by active-site engineering for the synthesis of 3-methoxycatechol, methoxyhydroquinone, and methylhydroquinone
-
Tao, Y., A. Fishman, W. E. Bentley, and T. K. Wood. 2004. Altering toluene 4-monooxygenase by active-site engineering for the synthesis of 3-methoxycatechol, methoxyhydroquinone, and methylhydroquinone. J. Bacteriol. 186: 4705-4713.
-
(2004)
J. Bacteriol.
, vol.186
, pp. 4705-4713
-
-
Tao, Y.1
Fishman, A.2
Bentley, W.E.3
Wood, T.K.4
-
31
-
-
3242763195
-
Oxidation of benzene to phenol, catechol, and 1,2,3-trihydroxybenzene by toluene 4-monooxygenase of Pseudomonas mendocina KR1 and toluene 3-monooxygenase of Ralstonia pickettii PKO1
-
Tao, Y., A. Fishman, W. E. Bentley, and T. K. Wood. 2004. Oxidation of benzene to phenol, catechol, and 1,2,3-trihydroxybenzene by toluene 4-monooxygenase of Pseudomonas mendocina KR1 and toluene 3-monooxygenase of Ralstonia pickettii PKO1. Appl. Environ. Microbiol. 70: 3814-3820.
-
(2004)
Appl. Environ. Microbiol.
, vol.70
, pp. 3814-3820
-
-
Tao, Y.1
Fishman, A.2
Bentley, W.E.3
Wood, T.K.4
-
33
-
-
65249177164
-
Directed enzyme evolution: Climbing fitness peaks one amino acid at a time
-
Tracewell, C. A., and F. H. Arnold. 2009. Directed enzyme evolution: climbing fitness peaks one amino acid at a time. Curr. Opin. Chem. Biol. 13:3-9.
-
(2009)
Curr. Opin. Chem. Biol.
, vol.13
, pp. 3-9
-
-
Tracewell, C.A.1
Arnold, F.H.2
-
34
-
-
20444476857
-
The phenolic compounds of olive oil: Structure, biological activity and beneficial effects on human health
-
Tripoli, E., M. Giammanco, G. Tabacchi, D. Di Majo, S. Giammanco, and M. La Guardia. 2005. The phenolic compounds of olive oil: structure, biological activity and beneficial effects on human health. Nutr. Res. Rev. 18:98-112.
-
(2005)
Nutr. Res. Rev.
, vol.18
, pp. 98-112
-
-
Tripoli, E.1
Giammanco, M.2
Tabacchi, G.3
Di Majo, D.4
Giammanco, S.5
La Guardia, M.6
-
35
-
-
68049106179
-
Directed evolution drives the next generation of biocatalysts
-
Turner, N. J. 2009. Directed evolution drives the next generation of biocatalysts. Nat. Chem. Biol. 5:567-573.
-
(2009)
Nat. Chem. Biol.
, vol.5
, pp. 567-573
-
-
Turner, N.J.1
-
36
-
-
14544277660
-
Alpha-subunit positions methionine 180 and glutamate 214 of Pseudomonas stutzeri OX1 toluene-o-xylene monooxygenase influence catalysis
-
Vardar, G., and T. K. Wood. 2005. Alpha-subunit positions methionine 180 and glutamate 214 of Pseudomonas stutzeri OX1 toluene-o-xylene monooxygenase influence catalysis. J. Bacteriol. 187:1511-1514.
-
(2005)
J. Bacteriol.
, vol.187
, pp. 1511-1514
-
-
Vardar, G.1
Wood, T.K.2
-
37
-
-
0033770580
-
Rational evolutionary design: The theory of in vitro protein evolution
-
Voigt, C. A., S. Kauffman, and Z. G. Wang. 2000. Rational evolutionary design: the theory of in vitro protein evolution. Adv. Protein Chem. 55:79-160.
-
(2000)
Adv. Protein Chem.
, vol.55
, pp. 79-160
-
-
Voigt, C.A.1
Kauffman, S.2
Wang, Z.G.3
|