-
1
-
-
0017058392
-
Evolution of enzyme function and the development of catalytic efficiency
-
DOI 10.1021/bi00670a032
-
Albery, W. J., and Knowles, J. R. (1976) Evolution of enzyme function and the development of catalytic efficiency. Biochemistry 15, 5631-5640. (Pubitemid 8004280)
-
(1976)
Biochemistry
, vol.15
, Issue.25
, pp. 5631-5640
-
-
Albery, W.J.1
Knowles, J.R.2
-
2
-
-
0028918401
-
A proficient enzyme
-
Radzicka, A., and Wolfenden, R. (1995) A proficient enzyme. Science 267, 90-93.
-
(1995)
Science
, vol.267
, pp. 90-93
-
-
Radzicka, A.1
Wolfenden, R.2
-
3
-
-
0025763437
-
Enzyme catalysis: Not different, just better
-
Knowles, J. R. (1991) Enzyme catalysis: Not different, just better. Nature 350, 121-124. (Pubitemid 21912173)
-
(1991)
Nature
, vol.350
, Issue.6314
, pp. 121-124
-
-
Knowles, J.R.1
-
4
-
-
0032538627
-
Electrostatic origin of the catalytic power of enzymes and the role of preorganized active sites
-
DOI 10.1074/jbc.273.42.27035
-
Warshel, A. (1998) Electrostatic origin of the catalytic power of enzymes and the role of preorganized active sites. J. Biol. Chem. 273, 27035-27038. (Pubitemid 28500403)
-
(1998)
Journal of Biological Chemistry
, vol.273
, Issue.42
, pp. 27035-27038
-
-
Warshel, A.1
-
5
-
-
0035543093
-
The depth of chemical time and the power of enzymes as catalysts
-
Wolfenden, R., and Snider, M. J. (2001) The depth of chemical time and the power of enzymes as catalysts. Acc. Chem. Res. 34, 938-945.
-
(2001)
Acc. Chem. Res.
, vol.34
, pp. 938-945
-
-
Wolfenden, R.1
Snider, M.J.2
-
6
-
-
0041821836
-
A perspective on enzyme catalysis
-
DOI 10.1126/science.1085515
-
Benkovic, S. J., and Hammes-Schiffer, S. (2003) A perspective on enzyme catalysis. Science 301, 1196-1202. (Pubitemid 37052200)
-
(2003)
Science
, vol.301
, Issue.5637
, pp. 1196-1202
-
-
Benkovic, S.J.1
Hammes-Schiffer, S.2
-
7
-
-
0032500555
-
Solvation, reorganization energy, and biological catalysis
-
DOI 10.1074/jbc.273.41.26257
-
Cannon, W. R., and Benkovic, S. J. (1998) Solvation, reorganization energy, and biological catalysis. J. Biol. Chem. 273, 26257-26260. (Pubitemid 28471620)
-
(1998)
Journal of Biological Chemistry
, vol.273
, Issue.41
, pp. 26257-26260
-
-
Cannon, W.R.1
Benkovic, S.J.2
-
8
-
-
0346726109
-
How Enzymes Work: Analysis by Modern Rate Theory and Computer Simulations
-
DOI 10.1126/science.1088172
-
Garcia-Viloca, M., Gao, J., Karplus, M., and Truhlar, D. G. (2004) How enzymes work: Analysis by modern rate theory and computer simulations. Science 303, 186-195. (Pubitemid 38057561)
-
(2004)
Science
, vol.303
, Issue.5655
, pp. 186-195
-
-
Garcia-Viloca, M.1
Gao, J.2
Karplus, M.3
Truhlar, D.G.4
-
10
-
-
0016232066
-
Catalysis, binding and enzyme-substrate complementarity
-
Fersht, A. R. (1974) Catalysis, binding and enzyme-substrate complementarity. Proc. R. Soc. London, Ser. B 187, 397-407.
-
(1974)
Proc. R. Soc. London, Ser. B
, vol.187
, pp. 397-407
-
-
Fersht, A.R.1
-
11
-
-
0016811509
-
Natural selection and the Michaelis constant
-
Crowley, P. H. (1975) Natural selection and the Michaelis constant. J. Theor. Biol. 50, 461-475.
-
(1975)
J. Theor. Biol.
, vol.50
, pp. 461-475
-
-
Crowley, P.H.1
-
12
-
-
0021277007
-
Evolution of catalytic proteins or On the origin of enzyme species by means of natural selection
-
Kacser, H., and Beeby, R. (1984) Evolution of catalytic proteins or on the origin of enzyme species by means of natural selection. J. Mol. Evol. 20, 38-51. (Pubitemid 14116232)
-
(1984)
Journal of Molecular Evolution
, vol.20
, Issue.1
, pp. 38-51
-
-
Kacser, H.1
Beeby, R.2
-
13
-
-
68049100110
-
Absolute metabolite concentrations and implied enzyme active site occupancy in Escherichia coli
-
Bennett, B. D., Kimball, E. H., Gao, M., Osterhout, R., Van Dien, S. J., and Rabinowitz, J. D. (2009) Absolute metabolite concentrations and implied enzyme active site occupancy in Escherichia coli. Nat. Chem. Biol. 5, 593-599.
-
(2009)
Nat Chem. Biol.
, vol.5
, pp. 593-599
-
-
Bennett, B.D.1
Kimball, E.H.2
Gao, M.3
Osterhout, R.4
Van Dien, S.J.5
Rabinowitz, J.D.6
-
14
-
-
0028566137
-
Evolutionary optimization of enzyme kinetic parameters; effect of constraints
-
Klipp, E., and Heinrich, R. (1994) Evolutionary optimization of enzyme kinetic parameters; effect of constraints. J. Theor. Biol. 171, 309-323.
-
(1994)
J. Theor. Biol.
, vol.171
, pp. 309-323
-
-
Klipp, E.1
Heinrich, R.2
-
15
-
-
0000108051
-
Estimation of upper bounds for the rates of enzymatic reactions
-
Mavrovountis, M. L., and Stephanopoulos, G. N. (1990) Estimation of upper bounds for the rates of enzymatic reactions. Chem. Eng. Commun. 93, 221-236.
-
(1990)
Chem. Eng. Commun.
, vol.93
, pp. 221-236
-
-
Mavrovountis, M.L.1
Stephanopoulos, G.N.2
-
16
-
-
0025923478
-
Mathematical analysis of enzymic reaction systems using optimization principles
-
Heinrich, R., Schuster, S., and Holzhutter, H. G. (1991) Mathematical analysis of enzymic reaction systems using optimization principles. Eur. J. Biochem. 201, 1-21.
-
(1991)
Eur. J. Biochem.
, vol.201
, pp. 1-21
-
-
Heinrich, R.1
Schuster, S.2
Holzhutter, H.G.3
-
17
-
-
0037008011
-
Multiple conformational changes in enzyme catalysis
-
DOI 10.1021/bi0260839
-
Hammes, G. G. (2002) Multiple conformational changes in enzyme catalysis. Biochemistry 41, 8221-8228. (Pubitemid 34705475)
-
(2002)
Biochemistry
, vol.41
, Issue.26
, pp. 8221-8228
-
-
Hammes, G.G.1
-
18
-
-
0000107082
-
Diffusion-controlled reaction rate to a buried active site
-
Samson, R., and Deutch, J. M. (1978) Diffusion-controlled reaction rate to a buried active site. J. Chem. Phys. 68, 285-290.
-
(1978)
J. Chem. Phys.
, vol.68
, pp. 285-290
-
-
Samson, R.1
Deutch, J.M.2
-
19
-
-
33847797897
-
Orientation constrains and rotational diffusion in bimolecular solution kinetics. A Simplification
-
Schurr, J. M., and Schmitz, K. S. (1976) Orientation constrains and rotational diffusion in bimolecular solution kinetics. A Simplification. J. Phys. Chem. 80, 1934-1936.
-
(1976)
J. Chem. Phys.
, vol.80
, pp. 1934-1936
-
-
Schurr, J.M.1
Schmitz, K.S.2
-
20
-
-
0004214524
-
-
Longmans & Green, London
-
Haldane, J. B. S. (1930) Enzymes, Longmans & Green, London.
-
(1930)
Enzymes
-
-
Haldane, J.B.S.1
-
21
-
-
0015350850
-
The influence of the geometric properties of the active centre on the specificity of R-chymotrypsin catalysis
-
Dorovska, V. N., Varfolomeyev, S. D., Kazanskaya, N. F., Klyosov, A. A., and Martinek, K. (1972) The influence of the geometric properties of the active centre on the specificity of R-chymotrypsin catalysis. FEBS Lett. 23, 122-124.
-
(1972)
FEBS Lett.
, vol.23
, pp. 122-124
-
-
Dorovska, V.N.1
Varfolomeyev, S.D.2
Kazanskaya, N.F.3
Klyosov, A.A.4
Martinek, K.5
-
22
-
-
0015922129
-
Mechanism of chymotrypsin. Structure, reactivity, and nonproductive binding relationships
-
Fastrez, J., and Fersht, A. R. (1973) Mechanism of chymotrypsin. Structure, reactivity, and nonproductive binding relationships. Biochemistry 12, 1067-1074.
-
(1973)
Biochemistry
, vol.12
, pp. 1067-1074
-
-
Fastrez, J.1
Fersht, A.R.2
-
23
-
-
0017106834
-
Binding energy and enzymic catalysis
-
Page, M. I. (1976) Binding energy and enzymic catalysis. Biochem. Biophys. Res. Commun. 72, 456-461.
-
(1976)
Biochem. Biophys. Res. Commun.
, vol.72
, pp. 456-461
-
-
Page, M.I.1
-
24
-
-
0019333190
-
Probing the limits of protein-amino acid side chain recognition with the aminoacyltRNA synthetases. Discrimination against phenylalanine by tyrosyltRNA synthetases
-
Fersht, A. R., Shindler, J. S., and Tsui, W. C. (1980) Probing the limits of protein-amino acid side chain recognition with the aminoacyltRNA synthetases. Discrimination against phenylalanine by tyrosyltRNA synthetases. Biochemistry 19, 5520-5524.
-
(1980)
Biochemistry
, vol.19
, pp. 5520-5524
-
-
Fersht, A.R.1
Shindler, J.S.2
Tsui, W.C.3
-
25
-
-
0033621044
-
The maximal affinity of ligands
-
DOI 10.1073/pnas.96.18.9997
-
Kuntz, I. D., Chen, K., Sharp, K. A., and Kollman, P. A. (1999) The maximal affinity of ligands. Proc. Natl. Acad. Sci. U.S.A. 96, 9997-10002. (Pubitemid 29422500)
-
(1999)
Proceedings of the National Academy of Sciences of the United States of America
, vol.96
, Issue.18
, pp. 9997-10002
-
-
Kuntz, I.D.1
Chen, K.2
Sharp, K.A.3
Kollman, P.A.4
-
26
-
-
33845364148
-
Fragment-based drug design: How big is too big?
-
DOI 10.1021/jm060511h
-
Hajduk, P. J. (2006) Fragment-based drug design: How big is too big? J. Med. Chem. 49, 6972-6976. (Pubitemid 44885985)
-
(2006)
Journal of Medicinal Chemistry
, vol.49
, Issue.24
, pp. 6972-6976
-
-
Hajduk, P.J.1
-
27
-
-
0033082703
-
The β-lactamase cycle: A tale of selective pressure and bacterial ingenuity
-
DOI 10.1039/a705983c
-
Matagne, A., Dubus, A., Galleni, M., and Frere, J. M. (1999) The β-lactamase cycle: A tale of selective pressure and bacterial ingenuity. Nat. Prod. Rep. 16, 1-19. (Pubitemid 29092067)
-
(1999)
Natural Product Reports
, vol.16
, Issue.1
, pp. 1-19
-
-
Matagne, A.1
Dubus, A.2
Galleni, M.3
Frere, J.-M.4
-
29
-
-
2142763912
-
Review of the BRENDA database
-
Pharkya, P., Nikolaev, E. V., and Maranas, C. D. (2003) Review of the BRENDA Database. Metab. Eng. 5, 71-73.
-
(2003)
Metab. Eng.
, vol.5
, pp. 71-73
-
-
Pharkya, P.1
Nikolaev, E.V.2
Maranas, C.D.3
-
30
-
-
38549126643
-
KEGG for linking genomes to life and the environment
-
DOI 10.1093/nar/gkm882
-
Kanehisa, M., Araki, M., Goto, S., Hattori, M., Hirakawa, M., Itoh, M., Katayama, T., Kawashima, S., Okuda, S., Tokimatsu, T., and Yamanishi, Y. (2008) KEGG for linking genomes to life and the environment. Nucleic Acids Res. 36, D480-D484. (Pubitemid 351149770)
-
(2008)
Nucleic Acids Research
, vol.36
, Issue.SUPPL. 1
-
-
Kanehisa, M.1
Araki, M.2
Goto, S.3
Hattori, M.4
Hirakawa, M.5
Itoh, M.6
Katayama, T.7
Kawashima, S.8
Okuda, S.9
Tokimatsu, T.10
Yamanishi, Y.11
-
31
-
-
33846647495
-
Bringing metabolic networks to life: Integration of kinetic, metabolic, and proteomic data
-
Liebermeister, W., and Klipp, E. (2006) Bringing metabolic networks to life: Integration of kinetic, metabolic, and proteomic data. Theor. Biol. Med. Modell. 3, 42.
-
(2006)
Theor. Biol. Med. Modell.
, vol.3
, pp. 42
-
-
Liebermeister, W.1
Klipp, E.2
-
32
-
-
0026662512
-
Systems analysis of the tricarboxylic acid cycle in Dictyostelium discoideum. I. The basis for model construction
-
Wright, B. E., Butler, M. H., and Albe, K. R. (1992) Systems analysis of the tricarboxylic acid cycle in Dictyostelium discoideum. I. The basis for model construction. J. Biol. Chem. 267, 3101-3105.
-
(1992)
J. Biol. Chem.
, vol.267
, pp. 3101-3105
-
-
Wright, B.E.1
Butler, M.H.2
Albe, K.R.3
-
33
-
-
45849108388
-
Biochemistry. How enzymes work
-
Ringe, D., and Petsko, G. A. (2008) Biochemistry. How enzymes work. Science 320, 1428-1429.
-
(2008)
Science
, vol.320
, pp. 1428-1429
-
-
Ringe, D.1
Petsko, G.A.2
-
34
-
-
0033581167
-
The temperature dependence of enzyme rate enhancements [8]
-
DOI 10.1021/ja991280p
-
Wolfenden, R., Snider, M., Ridgway, C., and Miller, B. (1999) The Temperature Dependence of Enzyme Rate Enhancements. J. Am. Chem. Soc. 121, 7419-7420. (Pubitemid 29400173)
-
(1999)
Journal of the American Chemical Society
, vol.121
, Issue.32
, pp. 7419-7420
-
-
Wolfenden, R.1
Snider, M.2
Ridgway, C.3
Miller, B.4
-
35
-
-
33646583168
-
Despite slow catalysis and confused substrate specificity, all ribulose bisphosphate carboxylases may be nearly perfectly optimized
-
DOI 10.1073/pnas.0600605103
-
Tcherkez, G. G., Farquhar, G. D., and Andrews, T. J. (2006) Despite slow catalysis and confused substrate specificity, all ribulose bisphosphate carboxylases may be nearly perfectly optimized. Proc. Natl. Acad. Sci. U.S.A. 103, 7246-7251. (Pubitemid 43727818)
-
(2006)
Proceedings of the National Academy of Sciences of the United States of America
, vol.103
, Issue.19
, pp. 7246-7251
-
-
Tcherkez, G.G.B.1
Farquhar, G.D.2
Andrews, T.J.3
-
36
-
-
0020484823
-
Investigation of diffusion-limited rates of chymotrypsin reactions by viscosity variation
-
Brouwer, A. C., and Kirsch, J. F. (1982) Investigation of diffusion-limited rates of chymotrypsin reactions by viscosity variation. Biochemistry 21, 1302-1307.
-
(1982)
Biochemistry
, vol.21
, pp. 1302-1307
-
-
Brouwer, A.C.1
Kirsch, J.F.2
-
37
-
-
0025945388
-
Subsite interactions of ribonuclease T1: Viscosity effects indicate that the ratelimiting step of GpN transesterification depends on the nature of N
-
Steyaert, J., Wyns, L., and Stanssens, P. (1991) Subsite interactions of ribonuclease T1: Viscosity effects indicate that the ratelimiting step of GpN transesterification depends on the nature of N. Biochemistry 30, 8661-8665.
-
(1991)
Biochemistry
, vol.30
, pp. 8661-8665
-
-
Steyaert, J.1
Wyns, L.2
Stanssens, P.3
-
38
-
-
0028120487
-
Alkaline phosphatase is an almost perfect enzyme
-
Simopoulos, T. T., and Jencks, W. P. (1994) Alkaline phosphatase is an almost perfect enzyme. Biochemistry 33, 10375-10380. (Pubitemid 24281803)
-
(1994)
Biochemistry
, vol.33
, Issue.34
, pp. 10375-10380
-
-
Simopoulos, T.T.1
Jencks, W.P.2
-
39
-
-
0033118836
-
Bacillus subtilis chorismate mutase is partially diffusion-controlled
-
DOI 10.1046/j.1432-1327.1999.00169.x
-
Mattei, P., Kast, P., and Hilvert, D. (1999) Bacillus subtilis chorismate mutase is partially diffusion-controlled. Eur. J. Biochem. 261, 25-32. (Pubitemid 29166063)
-
(1999)
European Journal of Biochemistry
, vol.261
, Issue.1
, pp. 25-32
-
-
Mattei, P.1
Kast, P.2
Hilvert, D.3
-
40
-
-
0035807053
-
A novel engineered subtilisin BPN0 lacking a low-barrier hydrogen bond in the catalytic triad
-
DOI 10.1021/bi015542n
-
Stratton, J. R., Pelton, J. G., and Kirsch, J. F. (2001) A novel engineered subtilisin BPN0 lacking a low-barrier hydrogen bond in the catalytic triad. Biochemistry 40, 10411-10416. (Pubitemid 32816651)
-
(2001)
Biochemistry
, vol.40
, Issue.35
, pp. 10411-10416
-
-
Stratton, J.R.1
Pelton, J.G.2
Kirsch, J.F.3
-
41
-
-
19344370852
-
Expression, purification and characterization of recombinant (E)-β-farnesene synthase from Artemisia annua
-
DOI 10.1016/j.phytochem.2005.03.027, PII S0031942205001421
-
Picaud, S., Brodelius, M., and Brodelius, P. E. (2005) Expression, purification and characterization of recombinant (E)-β-farnesene synthase from Artemisia annua. Phytochemistry 66, 961-967. (Pubitemid 40717486)
-
(2005)
Phytochemistry
, vol.66
, Issue.9
, pp. 961-967
-
-
Picaud, S.1
Brodelius, M.2
Brodelius, P.E.3
-
42
-
-
17744370937
-
Expression, purification, and characterization of recombinant amorpha-4,11-diene synthase from Artemisia annua L
-
DOI 10.1016/j.abb.2005.02.012
-
Picaud, S., Olofsson, L., Brodelius, M., and Brodelius, P. E. (2005) Expression, purification, and characterization of recombinant amorpha-4,11-diene synthase from Artemisia annua L. Arch. Biochem. Biophys. 436, 215-226. (Pubitemid 40576262)
-
(2005)
Archives of Biochemistry and Biophysics
, vol.436
, Issue.2
, pp. 215-226
-
-
Picaud, S.1
Olofsson, L.2
Brodelius, M.3
Brodelius, P.E.4
-
43
-
-
33745631233
-
Identifying and manipulating structural determinates linking catalytic specificities in terpene synthases
-
DOI 10.1073/pnas.0601605103
-
Greenhagen, B. T., O'Maille, P. E., Noel, J. P., and Chappell, J. (2006) Identifying and manipulating structural determinates linking catalytic specificities in terpene synthases. Proc. Natl. Acad. Sci. U.S.A. 103, 9826-9831. (Pubitemid 43993582)
-
(2006)
Proceedings of the National Academy of Sciences of the United States of America
, vol.103
, Issue.26
, pp. 9826-9831
-
-
Greenhagen, B.T.1
O'Maille, P.E.2
Noel, J.P.3
Chappell, J.4
-
44
-
-
33644846511
-
Generation of phenylpropanoid pathway-derived volatiles in transgenic plants: Rose alcohol acetyltransferase produces phenylethyl acetate and benzyl acetate in petunia flowers
-
DOI 10.1007/s11103-005-4924-x
-
Guterman, I., Masci, T., Chen, X., Negre, F., Pichersky, E., Dudareva, N., Weiss, D., and Vainstein, A. (2006) Generation of phenylpropanoid pathway-derived volatiles in transgenic plants: Rose alcohol acetyltransferase produces phenylethyl acetate and benzyl acetate in petunia flowers. Plant Mol. Biol. 60, 555-563. (Pubitemid 43363230)
-
(2006)
Plant Molecular Biology
, vol.60
, Issue.4
, pp. 555-563
-
-
Guterman, I.1
Masci, T.2
Chen, X.3
Negre, F.4
Pichersky, E.5
Dudareva, N.6
Weiss, D.7
Vainstein, A.8
-
45
-
-
79958085103
-
Terpene indole alkaloid biosynthesis
-
(Romeo, J. T., Ed.) Springer, Berlin
-
O'Connor, S. E., and McCoy, E. (2006) Terpene indole alkaloid biosynthesis. In Recent Advances in Phytochemistry (Romeo, J. T., Ed.) Springer, Berlin.
-
(2006)
Recent Advances in Phytochemistry
-
-
O'Connor, S.E.1
McCoy, E.2
-
46
-
-
35348952662
-
Interception of the enzymatic conversion of farnesyl diphosphate to 5-epi-aristolochene by using a fluoro substrate analogue: 1-Fluorogermacrene A from (2E,6Z)-6-fluorofarnesyl diphosphate
-
DOI 10.1002/cbic.200700398
-
Faraldos, J. A., Zhao, Y., O'Maille, P. E., Noel, J. P., and Coates, R. M. (2007) Interception of the enzymatic conversion of farnesyl diphosphate to 5-epi-aristolochene by using a fluoro substrate analogue: 1-Fluorogermacrene A from (2E,6Z)-6-fluorofarnesyl diphosphate. ChemBioChem 8, 1826-1833. (Pubitemid 47612872)
-
(2007)
ChemBioChem
, vol.8
, Issue.15
, pp. 1826-1833
-
-
Faraldos, J.A.1
Zhao, Y.2
O'Maille, P.E.3
Noel, J.P.4
Coates, R.M.5
-
47
-
-
78549294465
-
Integrating carbon-halogen bond formation into medicinal plant metabolism
-
Runguphan, W., Qu, X., and O'Connor, S. E. (2010) Integrating carbon-halogen bond formation into medicinal plant metabolism. Nature 468, 461-464.
-
(2010)
Nature
, vol.468
, pp. 461-464
-
-
Runguphan, W.1
Qu, X.2
O'Connor, S.E.3
-
49
-
-
0029083357
-
Role of binding energy with coenzyme A in catalysis by 3-oxoacid coenzyme A transferase
-
Whitty, A., Fierke, C. A., and Jencks, W. P. (1995) Role of binding energy with coenzyme A in catalysis by 3-oxoacid coenzyme A transferase. Biochemistry 34, 11678-11689.
-
(1995)
Biochemistry
, vol.34
, pp. 11678-11689
-
-
Whitty, A.1
Fierke, C.A.2
Jencks, W.P.3
-
50
-
-
33644980943
-
Directed evolution of RuBisCO hypermorphs through genetic selection in engineered E. coli
-
Parikh, M. R., Greene, D. N., Woods, K. K., and Matsumura, I. (2006) Directed evolution of RuBisCO hypermorphs through genetic selection in engineered E. coli. Protein Eng., Des. Sel. 19, 113-119.
-
(2006)
Protein Eng., Des. Sel.
, vol.19
, pp. 113-119
-
-
Parikh, M.R.1
Greene, D.N.2
Woods, K.K.3
Matsumura, I.4
-
51
-
-
34250700987
-
Artificially evolved Synechococcus PCC6301 Rubisco variants exhibit improvements in folding and catalytic efficiency
-
DOI 10.1042/BJ20070071
-
Greene, D. N., Whitney, S. M., and Matsumura, I. (2007) Artificially evolved Synechococcus PCC6301 Rubisco variants exhibit improvements in folding and catalytic efficiency. Biochem. J. 404, 517-524. (Pubitemid 46953926)
-
(2007)
Biochemical Journal
, vol.404
, Issue.3
, pp. 517-524
-
-
Greene, D.N.1
Whitney, S.M.2
Matsumura, I.3
-
52
-
-
77649245472
-
Cross-species analysis traces adaptation of Rubisco towards optimality in a low dimensional landscape
-
Savir, Y., Noor, E., Milo, R., and Tlusty, T. (2010) Cross-species analysis traces adaptation of Rubisco towards optimality in a low dimensional landscape. Proc. Natl. Acad. Sci. U.S.A. 107, 3475-3480.
-
(2010)
Proc. Natl. Acad. Sci. U.S.A.
, vol.107
, pp. 3475-3480
-
-
Savir, Y.1
Noor, E.2
Milo, R.3
Tlusty, T.4
-
53
-
-
77957316716
-
An exciting but challenging road ahead for computational enzyme design
-
Baker, D. (2010) An exciting but challenging road ahead for computational enzyme design. Protein Sci. 19, 1817-1819.
-
(2010)
Protein Sci.
, vol.19
, pp. 1817-1819
-
-
Baker, D.1
-
54
-
-
79952437832
-
Optimization of the in-silico-designed kemp eliminase KE70 by computational design and directed evolution
-
Khersonsky, O., Rothlisberger, D., Wollacott, A. M., Murphy, P., Dym, O., Albeck, S., Kiss, G., Houk, K. N., Baker, D., and Tawfik, D. S. (2011) Optimization of the In-Silico-Designed Kemp Eliminase KE70 by Computational Design and Directed Evolution. J. Mol. Biol. 407, 391-412.
-
(2011)
J. Mol. Biol.
, vol.407
, pp. 391-412
-
-
Khersonsky, O.1
Rothlisberger, D.2
Wollacott, A.M.3
Murphy, P.4
Dym, O.5
Albeck, S.6
Kiss, G.7
Houk, K.N.8
Baker, D.9
Tawfik, D.S.10
-
55
-
-
78651517511
-
Exploiting plug-and-play synthetic biology for drug discovery and production in microorganisms
-
Medema, M. H., Breitling, R., Bovenberg, R., and Takano, E. (2011) Exploiting plug-and-play synthetic biology for drug discovery and production in microorganisms. Nat. Rev. Microbiol. 9, 131-137.
-
(2011)
Nat. Rev. Microbiol.
, vol.9
, pp. 131-137
-
-
Medema, M.H.1
Breitling, R.2
Bovenberg, R.3
Takano, E.4
-
56
-
-
77952517931
-
Biosynthesis: Is it time to go retro?
-
Bachmann, B. O. (2010) Biosynthesis: Is it time to go retro? Nat. Chem. Biol. 6, 390-393.
-
(2010)
Nat. Chem. Biol.
, vol.6
, pp. 390-393
-
-
Bachmann, B.O.1
-
57
-
-
62649122977
-
Synthetic metabolism: Engineering biology at the protein and pathway scales
-
Martin, C. H., Nielsen, D. R., Solomon, K. V., and Prather, K. L. (2009) Synthetic metabolism: Engineering biology at the protein and pathway scales. Chem. Biol. 16, 277-286.
-
(2009)
Chem. Biol.
, vol.16
, pp. 277-286
-
-
Martin, C.H.1
Nielsen, D.R.2
Solomon, K.V.3
Prather, K.L.4
-
58
-
-
77956371200
-
Combining metabolic and protein engineering of a terpenoid biosynthetic pathway for overproduction and selectivity control
-
Leonard, E., Ajikumar, P. K., Thayer, K., Xiao, W. H., Mo, J. D., Tidor, B., Stephanopoulos, G., and Prather, K. L. (2010) Combining metabolic and protein engineering of a terpenoid biosynthetic pathway for overproduction and selectivity control. Proc. Natl. Acad. Sci. U.S.A. 107, 13654-13659.
-
(2010)
Proc. Natl. Acad. Sci. U.S.A.
, vol.107
, pp. 13654-13659
-
-
Leonard, E.1
Ajikumar, P.K.2
Thayer, K.3
Xiao, W.H.4
Mo, J.D.5
Tidor, B.6
Stephanopoulos, G.7
Prather, K.L.8
-
59
-
-
77952717854
-
Design and analysis of synthetic carbon fixation pathways
-
Bar-Even, A., Noor, E., Lewis, N. E., and Milo, R. (2010) Design and analysis of synthetic carbon fixation pathways. Proc. Natl. Acad. Sci. U.S.A. 107, 8889-8894.
-
(2010)
Proc. Natl. Acad. Sci. U.S.A.
, vol.107
, pp. 8889-8894
-
-
Bar-Even, A.1
Noor, E.2
Lewis, N.E.3
Milo, R.4
-
60
-
-
0032729822
-
Competition for enzymes in metabolic pathways: Implications for optimal distributions of enzyme concentrations and for the distribution of flux control
-
Klipp, E., and Heinrich, R. (1999) Competition for enzymes in metabolic pathways: Implications for optimal distributions of enzyme concentrations and for the distribution of flux control. BioSystems 54, 1-14.
-
(1999)
BioSystems
, vol.54
, pp. 1-14
-
-
Klipp, E.1
Heinrich, R.2
-
61
-
-
30944460113
-
Fluctuating enzymes: Lessons from single-molecule studies
-
Min, W., English, B. P., Luo, G., Cherayil, B. J., Kou, S. C., and Xie, X. S. (2005) Fluctuating enzymes: Lessons from single-molecule studies. Acc. Chem. Res. 38, 923-931.
-
(2005)
Acc. Chem. Res.
, vol.38
, pp. 923-931
-
-
Min, W.1
English, B.P.2
Luo, G.3
Cherayil, B.J.4
Kou, S.C.5
Xie, X.S.6
-
62
-
-
0037180453
-
Conformational-relaxation models of single-enzyme kinetics
-
DOI 10.1073/pnas.232376799
-
Lerch, H. P., Mikhailov, A. S., and Hess, B. (2002) Conformational- relaxation models of single-enzyme kinetics. Proc. Natl. Acad. Sci. U. S. A. 99, 15410-15415. (Pubitemid 35403948)
-
(2002)
Proceedings of the National Academy of Sciences of the United States of America
, vol.99
, Issue.24
, pp. 15410-15415
-
-
Lerch, H.-P.1
Mikhailov, A.S.2
Hess, B.3
-
63
-
-
70350340728
-
The role of dynamic conformational ensembles in biomolecular recognition
-
Boehr, D. D., Nussinov, R., and Wright, P. E. (2009) The role of dynamic conformational ensembles in biomolecular recognition. Nat. Chem. Biol. 5, 789-796.
-
(2009)
Nat. Chem. Biol.
, vol.5
, pp. 789-796
-
-
Boehr, D.D.1
Nussinov, R.2
Wright, P.E.3
-
64
-
-
0026344818
-
Estimation of macromolecule concentrations and excluded volume effects for the cytoplasm of Escherichia coli
-
Zimmerman, S. B., and Trach, S. O. (1991) Estimation of macromolecule concentrations and excluded volume effects for the cytoplasm of Escherichia coli. J. Mol. Biol. 222, 599-620.
-
(1991)
J. Mol. Biol.
, vol.222
, pp. 599-620
-
-
Zimmerman, S.B.1
Trach, S.O.2
-
65
-
-
77950905613
-
Differential glucose repression in common yeast strains in response to HXK2 deletion
-
Kummel, A., Ewald, J. C., Fendt, S. M., Jol, S. J., Picotti, P., Aebersold, R., Sauer, U., Zamboni, N., and Heinemann, M. (2010) Differential glucose repression in common yeast strains in response to HXK2 deletion. FEMS Yeast Res 10, 322-332.
-
(2010)
FEMS Yeast Res
, vol.10
, pp. 322-332
-
-
Kummel, A.1
Ewald, J.C.2
Fendt, S.M.3
Jol, S.J.4
Picotti, P.5
Aebersold, R.6
Sauer, U.7
Zamboni, N.8
Heinemann, M.9
-
66
-
-
11144324238
-
13C-labeled cell extracts as internal standards
-
DOI 10.1016/j.ab.2004.09.001, PII S0003269704007237
-
Wu, L., Mashego, M. R., van Dam, J. C., Proell, A. M., Vinke, J. L., Ras, C., van Winden, W. A., van Gulik, W. M., and Heijnen, J. J. (2005) Quantitative analysis of the microbial metabolome by isotope dilution mass spectrometry using uniformly 13C-labeled cell extracts as internal standards. Anal. Biochem. 336, 164-171. (Pubitemid 40038013)
-
(2005)
Analytical Biochemistry
, vol.336
, Issue.2
, pp. 164-171
-
-
Wu, L.1
Mashego, M.R.2
Van Dam, J.C.3
Proell, A.M.4
Vinke, J.L.5
Ras, C.6
Van Winden, W.A.7
Van Gulik, W.M.8
Heijnen, J.J.9
-
67
-
-
34247612307
-
Multiple high-throughput analyses monitor the response of E. coli to perturbations
-
DOI 10.1126/science.1132067
-
Ishii, N., Nakahigashi, K., Baba, T., Robert, M., Soga, T., Kanai, A., Hirasawa, T., Naba, M., Hirai, K., Hoque, A., Ho, P. Y., Kakazu, Y., Sugawara, K., Igarashi, S., Harada, S., Masuda, T., Sugiyama, N., Togashi, T., Hasegawa, M., Takai, Y., Yugi, K., Arakawa, K., Iwata, N., Toya, Y., Nakayama, Y., Nishioka, T., Shimizu, K., Mori, H., and Tomita, M. (2007) Multiple high-throughput analyses monitor the response of E. coli to perturbations. Science 316, 593-597. (Pubitemid 46683144)
-
(2007)
Science
, vol.316
, Issue.5824
, pp. 593-597
-
-
Ishii, N.1
Nakahigashi, K.2
Baba, T.3
Robert, M.4
Soga, T.5
Kanai, A.6
Hirasawa, T.7
Naba, M.8
Hirai, K.9
Hoque, A.10
Ho, P.Y.11
Kakazu, Y.12
Sugawara, K.13
Igarashi, S.14
Harada, S.15
Masuda, T.16
Sugiyama, N.17
Togashi, T.18
Hasegawa, M.19
Takai, Y.20
Yugi, K.21
Arakawa, K.22
Iwata, N.23
Toya, Y.24
Nakayama, Y.25
Nishioka, T.26
Shimizu, K.27
Mori, H.28
Tomita, M.29
more..
-
68
-
-
66149122635
-
High-throughput quantitative metabolomics: Workflow for cultivation, quenching, and analysis of yeast in a multiwell format
-
Ewald, J. C., Heux, S., and Zamboni, N. (2009) High-throughput quantitative metabolomics: Workflow for cultivation, quenching, and analysis of yeast in a multiwell format. Anal. Chem. 81, 3623-3629.
-
(2009)
Anal. Chem.
, vol.81
, pp. 3623-3629
-
-
Ewald, J.C.1
Heux, S.2
Zamboni, N.3
-
69
-
-
77951125481
-
Tradeoff between enzyme and metabolite efficiency maintains metabolic homeostasis upon perturbations in enzyme capacity
-
Fendt, S. M., Buescher, J. M., Rudroff, F., Picotti, P., Zamboni, N., and Sauer, U. (2010) Tradeoff between enzyme and metabolite efficiency maintains metabolic homeostasis upon perturbations in enzyme capacity. Mol. Syst. Biol. 6, 356.
-
(2010)
Mol. Syst. Biol.
, vol.6
, pp. 356
-
-
Fendt, S.M.1
Buescher, J.M.2
Rudroff, F.3
Picotti, P.4
Zamboni, N.5
Sauer, U.6
-
70
-
-
76249130402
-
Metabolic fluxes during strong carbon catabolite repression by malate in Bacillus subtilis
-
Kleijn, R. J., Buescher, J. M., Le Chat, L., Jules, M., Aymerich, S., and Sauer, U. (2010) Metabolic fluxes during strong carbon catabolite repression by malate in Bacillus subtilis. J. Biol. Chem. 285, 1587-1596.
-
(2010)
J. Biol. Chem.
, vol.285
, pp. 1587-1596
-
-
Kleijn, R.J.1
Buescher, J.M.2
Le Chat, L.3
Jules, M.4
Aymerich, S.5
Sauer, U.6
-
71
-
-
65549087156
-
Advances in analysis of microbial metabolic fluxes via 13C isotopic labeling
-
Tang, Y. J., Martin, H. G., Myers, S., Rodriguez, S., Baidoo, E. E., and Keasling, J. D. (2009) Advances in analysis of microbial metabolic fluxes via 13C isotopic labeling. Mass Spectrom. Rev. 28, 362-375.
-
(2009)
Mass Spectrom. Rev.
, vol.28
, pp. 362-375
-
-
Tang, Y.J.1
Martin, H.G.2
Myers, S.3
Rodriguez, S.4
Baidoo, E.E.5
Keasling, J.D.6
-
72
-
-
14244256095
-
Experimental identification and quantification of glucose metabolism in seven bacterial species
-
DOI 10.1128/JB.187.5.1581-1590.2005
-
Fuhrer, T., Fischer, E., and Sauer, U. (2005) Experimental identification and quantification of glucose metabolism in seven bacterial species. J. Bacteriol. 187, 1581-1590. (Pubitemid 40289358)
-
(2005)
Journal of Bacteriology
, vol.187
, Issue.5
, pp. 1581-1590
-
-
Fuhrer, T.1
Fischer, E.2
Sauer, U.3
|