-
1
-
-
0023155210
-
Tertiary templates for proteins: use of packing criteria in the enumeration of allowed sequences for different structural classes
-
Ponder J.W., Richards F.M. Tertiary templates for proteins: use of packing criteria in the enumeration of allowed sequences for different structural classes. J Mol Biol 1987, 193:775-791.
-
(1987)
J Mol Biol
, vol.193
, pp. 775-791
-
-
Ponder, J.W.1
Richards, F.M.2
-
2
-
-
0030793767
-
De novo protein design: fully automated sequence selection
-
Dahiyat B.I., Mayo S.L. De novo protein design: fully automated sequence selection. Science 1997, 278:82-87.
-
(1997)
Science
, vol.278
, pp. 82-87
-
-
Dahiyat, B.I.1
Mayo, S.L.2
-
3
-
-
0035782661
-
Protein design-where we were, where we are, where we're going
-
Pokala N., Handel T.M. Protein design-where we were, where we are, where we're going. J Struct Biol 2001, 134:269-281.
-
(2001)
J Struct Biol
, vol.134
, pp. 269-281
-
-
Pokala, N.1
Handel, T.M.2
-
4
-
-
34548528158
-
Progress in computational protein design
-
Lippow S.M., Tidor B. Progress in computational protein design. Curr Opin Biotech 2007, 18:305-311.
-
(2007)
Curr Opin Biotech
, vol.18
, pp. 305-311
-
-
Lippow, S.M.1
Tidor, B.2
-
5
-
-
67650397253
-
Challenges in the computational design of proteins
-
Suarez M., Jaramillo A. Challenges in the computational design of proteins. J Roy Soc Interface 2009, 6:S477-S491.
-
(2009)
J Roy Soc Interface
, vol.6
-
-
Suarez, M.1
Jaramillo, A.2
-
8
-
-
27744498365
-
Electrostatics in computational protein design
-
Vizcarra C.L., Mayo S.L. Electrostatics in computational protein design. Curr Opin Chem Biol 2005, 9:622-626.
-
(2005)
Curr Opin Chem Biol
, vol.9
, pp. 622-626
-
-
Vizcarra, C.L.1
Mayo, S.L.2
-
9
-
-
34147169516
-
Potential energy functions for protein design
-
Boas F.E., Harbury P.B. Potential energy functions for protein design. Curr Opin Struct Biol 2007, 17:199-204.
-
(2007)
Curr Opin Struct Biol
, vol.17
, pp. 199-204
-
-
Boas, F.E.1
Harbury, P.B.2
-
10
-
-
0034625322
-
Trading accuracy for speed: a quantitative comparison of search algorithms in protein sequence design
-
Voigt C.A., Gordon D.B., Mayo S.L. Trading accuracy for speed: a quantitative comparison of search algorithms in protein sequence design. J Mol Biol 2000, 299:789-803.
-
(2000)
J Mol Biol
, vol.299
, pp. 789-803
-
-
Voigt, C.A.1
Gordon, D.B.2
Mayo, S.L.3
-
11
-
-
0036643430
-
Fast and Accurate Side-Chain Topology and Energy Refinement (FASTER) as a new method for protein structure optimization
-
Desmet J., Spriet J., Lasters I. Fast and Accurate Side-Chain Topology and Energy Refinement (FASTER) as a new method for protein structure optimization. Proteins 2002, 48:31-43.
-
(2002)
Proteins
, vol.48
, pp. 31-43
-
-
Desmet, J.1
Spriet, J.2
Lasters, I.3
-
12
-
-
0026335211
-
Construction of new ligand binding sites in proteins of known structure
-
Hellinga H.W., Richards F.M. Construction of new ligand binding sites in proteins of known structure. J Mol Biol 1991, 222:763-785.
-
(1991)
J Mol Biol
, vol.222
, pp. 763-785
-
-
Hellinga, H.W.1
Richards, F.M.2
-
13
-
-
0035807809
-
Enzyme-like proteins by computational design
-
Bolon D.N., Mayo S.L. Enzyme-like proteins by computational design. Proc Natl Acad Sci USA 2001, 98:14274-14279.
-
(2001)
Proc Natl Acad Sci USA
, vol.98
, pp. 14274-14279
-
-
Bolon, D.N.1
Mayo, S.L.2
-
14
-
-
33750963095
-
Combinatorial methods for small-molecule placement in computational enzyme design
-
Lassila J.K., Privett H.K., Allen B.D., Mayo S.L. Combinatorial methods for small-molecule placement in computational enzyme design. Proc Natl Acad Sci USA 2006, 103:16710-16715.
-
(2006)
Proc Natl Acad Sci USA
, vol.103
, pp. 16710-16715
-
-
Lassila, J.K.1
Privett, H.K.2
Allen, B.D.3
Mayo, S.L.4
-
15
-
-
33751525692
-
New algorithms and an in silico benchmark for computational enzyme design
-
Zanghellini A., Jiang L., Wollacott A.M., Cheng G., Meiler J., Althoff E.A., Rothlisberger D., Baker D. New algorithms and an in silico benchmark for computational enzyme design. Protein Sci 2006, 15:2785-2794.
-
(2006)
Protein Sci
, vol.15
, pp. 2785-2794
-
-
Zanghellini, A.1
Jiang, L.2
Wollacott, A.M.3
Cheng, G.4
Meiler, J.5
Althoff, E.A.6
Rothlisberger, D.7
Baker, D.8
-
16
-
-
40449116114
-
De novo computational design of retro-aldol enzymes
-
Jiang L., Althoff E.A., Clemente F.R., Doyle L., Rothlisberger D., Zanghellini A., Gallaher J.L., Betker J.L., Tanaka F., Barbas C.F., et al. De novo computational design of retro-aldol enzymes. Science 2008, 319:1387-1391.
-
(2008)
Science
, vol.319
, pp. 1387-1391
-
-
Jiang, L.1
Althoff, E.A.2
Clemente, F.R.3
Doyle, L.4
Rothlisberger, D.5
Zanghellini, A.6
Gallaher, J.L.7
Betker, J.L.8
Tanaka, F.9
Barbas, C.F.10
-
17
-
-
43449098518
-
Kemp elimination catalysts by computational enzyme design
-
Röthlisberger D., Khersonsky O., Wollacott A.M., Jiang L., DeChancie J., Betker J., Gallaher J.L., Althoff E.A., Zanghellini A., Dym O., et al. Kemp elimination catalysts by computational enzyme design. Nature 2008, 453:190-195.
-
(2008)
Nature
, vol.453
, pp. 190-195
-
-
Röthlisberger, D.1
Khersonsky, O.2
Wollacott, A.M.3
Jiang, L.4
DeChancie, J.5
Betker, J.6
Gallaher, J.L.7
Althoff, E.A.8
Zanghellini, A.9
Dym, O.10
-
18
-
-
77954811495
-
Computational design of an enzyme catalyst for a stereoselective bimolecular Diels-Alder reaction
-
Siegel J.B., Zanghellini A., Lovick H.M., Kiss G., Lambert A.R., StClair J.L., Gallaher J.L., Hilvert D., Gelb M.H., Stoddard B., Houk K.N., Michael F.E., Baker D. Computational design of an enzyme catalyst for a stereoselective bimolecular Diels-Alder reaction. Science 2010, 329:309-313.
-
(2010)
Science
, vol.329
, pp. 309-313
-
-
Siegel, J.B.1
Zanghellini, A.2
Lovick, H.M.3
Kiss, G.4
Lambert, A.R.5
StClair, J.L.6
Gallaher, J.L.7
Hilvert, D.8
Gelb, M.H.9
Stoddard, B.10
Houk, K.N.11
Michael, F.E.12
Baker, D.13
-
19
-
-
0030987610
-
Probing the role of packing specificity in protein design
-
Dahiyat B.I., Mayo S.L. Probing the role of packing specificity in protein design. Proc Natl Acad Sci USA 1997, 94:10172-10177.
-
(1997)
Proc Natl Acad Sci USA
, vol.94
, pp. 10172-10177
-
-
Dahiyat, B.I.1
Mayo, S.L.2
-
20
-
-
0034641749
-
Native protein sequences are close to optimal for their structures
-
Kuhlman B., Baker D. Native protein sequences are close to optimal for their structures. Proc Natl Acad Sci USA 2000, 97:10383-10388.
-
(2000)
Proc Natl Acad Sci USA
, vol.97
, pp. 10383-10388
-
-
Kuhlman, B.1
Baker, D.2
-
21
-
-
34548764385
-
Computing van der Waals energies in the context of the rotamer approximation
-
Grigoryan G., Ochoa A., Keating A.E. Computing van der Waals energies in the context of the rotamer approximation. Proteins 2007, 68:863-878.
-
(2007)
Proteins
, vol.68
, pp. 863-878
-
-
Grigoryan, G.1
Ochoa, A.2
Keating, A.E.3
-
22
-
-
0019406826
-
A native-like intermediate on the ribonuclease A folding pathway
-
Schmid F.X., Blaschek H. A native-like intermediate on the ribonuclease A folding pathway. Eur J Biochem 1981, 114:111-117.
-
(1981)
Eur J Biochem
, vol.114
, pp. 111-117
-
-
Schmid, F.X.1
Blaschek, H.2
-
23
-
-
0032484096
-
Single-molecule enzymatic dynamics
-
Lu H.P., Xun L., Xie S. Single-molecule enzymatic dynamics. Science 1998, 282:1877-1882.
-
(1998)
Science
, vol.282
, pp. 1877-1882
-
-
Lu, H.P.1
Xun, L.2
Xie, S.3
-
24
-
-
20044379583
-
Stretched exponential decay and correlations in the catalytic activity of fluctuating single lipase molecules
-
Flomenbom O., Velonia K., Loos D., Masuo S., Cotlet M., Engelborghs Y., Hofkens J., Rowan A.E., Nolte R.J.M., Van Der Auweraer M., et al. Stretched exponential decay and correlations in the catalytic activity of fluctuating single lipase molecules. Proc Natl Acad Sci USA 2005, 102:2368-2372.
-
(2005)
Proc Natl Acad Sci USA
, vol.102
, pp. 2368-2372
-
-
Flomenbom, O.1
Velonia, K.2
Loos, D.3
Masuo, S.4
Cotlet, M.5
Engelborghs, Y.6
Hofkens, J.7
Rowan, A.E.8
Nolte, R.J.M.9
Van Der Auweraer, M.10
-
26
-
-
33748619206
-
An NMR perspective on enzyme dynamics
-
Boehr D.D., Dyson H.J., Wright P.E. An NMR perspective on enzyme dynamics. Chem Rev 2006, 106:3055-3079.
-
(2006)
Chem Rev
, vol.106
, pp. 3055-3079
-
-
Boehr, D.D.1
Dyson, H.J.2
Wright, P.E.3
-
27
-
-
0016624901
-
Binding energy, specificity, and enzymic catalysis: circe effect
-
Jencks W.P. Binding energy, specificity, and enzymic catalysis: circe effect. Adv Enzymol 1975, 43:219-410.
-
(1975)
Adv Enzymol
, vol.43
, pp. 219-410
-
-
Jencks, W.P.1
-
28
-
-
0041821836
-
A perspective on enzyme catalysis
-
Benkovic S.J., Hammes-Schiffer S. A perspective on enzyme catalysis. Science 2003, 301:1196-1202.
-
(2003)
Science
, vol.301
, pp. 1196-1202
-
-
Benkovic, S.J.1
Hammes-Schiffer, S.2
-
29
-
-
0346726109
-
How enzymes work: analysis by modern rate theory and computer simulations
-
Garcia-Viloca M., Gao J., Karplus M., Truhlar D.G. How enzymes work: analysis by modern rate theory and computer simulations. Science 2004, 303:186-195.
-
(2004)
Science
, vol.303
, pp. 186-195
-
-
Garcia-Viloca, M.1
Gao, J.2
Karplus, M.3
Truhlar, D.G.4
-
30
-
-
62249181529
-
An integrated model for enzyme catalysis emerges from studies on hydrogen tunneling
-
Klinman J.P. An integrated model for enzyme catalysis emerges from studies on hydrogen tunneling. Chem Phys Lett 2009, 471:179-193.
-
(2009)
Chem Phys Lett
, vol.471
, pp. 179-193
-
-
Klinman, J.P.1
-
31
-
-
0026520387
-
Converting trypsin to chymotrypsin: the role of surface loops
-
Hedstrom L., Szilagyi L., Rutter W.J. Converting trypsin to chymotrypsin: the role of surface loops. Science 1992, 255:1249-1253.
-
(1992)
Science
, vol.255
, pp. 1249-1253
-
-
Hedstrom, L.1
Szilagyi, L.2
Rutter, W.J.3
-
32
-
-
0036147568
-
Multiple diverse ligands binding at a single protein site: a matter of pre-existing populations
-
Ma B., Shatsky M., Wolfson H.J., Nussinov R. Multiple diverse ligands binding at a single protein site: a matter of pre-existing populations. Protein Sci 2002, 11:184-197.
-
(2002)
Protein Sci
, vol.11
, pp. 184-197
-
-
Ma, B.1
Shatsky, M.2
Wolfson, H.J.3
Nussinov, R.4
-
33
-
-
0038148710
-
Conformational diversity and protein evolution-a 60-year-old hypothesis revisited
-
James L.C., Tawfik D.S. Conformational diversity and protein evolution-a 60-year-old hypothesis revisited. Trends Biochem Sci 2003, 28:361-368.
-
(2003)
Trends Biochem Sci
, vol.28
, pp. 361-368
-
-
James, L.C.1
Tawfik, D.S.2
-
34
-
-
0345306764
-
Design of a novel globular protein fold with atomic-level accuracy
-
Kuhlman B., Dantas G., Ireton G.C., Varani G., Stoddard B.L., Baker D. Design of a novel globular protein fold with atomic-level accuracy. Science 2003, 302:1364-1368.
-
(2003)
Science
, vol.302
, pp. 1364-1368
-
-
Kuhlman, B.1
Dantas, G.2
Ireton, G.C.3
Varani, G.4
Stoddard, B.L.5
Baker, D.6
-
35
-
-
33646373921
-
High-resolution structural validation of the computational redesign of human U1A protein
-
Dobson N., Dantas G., Baker D., Varani G. High-resolution structural validation of the computational redesign of human U1A protein. Structure 2006, 14:847-856.
-
(2006)
Structure
, vol.14
, pp. 847-856
-
-
Dobson, N.1
Dantas, G.2
Baker, D.3
Varani, G.4
-
36
-
-
33846603216
-
High-resolution structural and thermodynamic analysis of extreme stabilization of human procarboxypeptidase by computational protein design
-
Dantas G., Corrent C., Reichow S.L., Havranek J.J., Eletr Z.M., Isern N.G., Kuhlman B., Varani G., Merritt E.A., Baker D. High-resolution structural and thermodynamic analysis of extreme stabilization of human procarboxypeptidase by computational protein design. J Mol Biol 2007, 366:1209-1221.
-
(2007)
J Mol Biol
, vol.366
, pp. 1209-1221
-
-
Dantas, G.1
Corrent, C.2
Reichow, S.L.3
Havranek, J.J.4
Eletr, Z.M.5
Isern, N.G.6
Kuhlman, B.7
Varani, G.8
Merritt, E.A.9
Baker, D.10
-
37
-
-
34547691430
-
Full-sequence computational design and solution structure of a thermostable protein variant
-
Shah P.S., Hom G.K., Ross S.A., Lassila J.K., Crowhurst K.A., Mayo S.L. Full-sequence computational design and solution structure of a thermostable protein variant. J Mol Biol 2007, 372:1-6.
-
(2007)
J Mol Biol
, vol.372
, pp. 1-6
-
-
Shah, P.S.1
Hom, G.K.2
Ross, S.A.3
Lassila, J.K.4
Crowhurst, K.A.5
Mayo, S.L.6
-
38
-
-
0033566738
-
Solution structure and dynamics of a designed hydrophobic core variant of ubiquitin
-
Johnson E.C., Lazar G.A., Desjarlais J.R., Handel T.M. Solution structure and dynamics of a designed hydrophobic core variant of ubiquitin. Structure 1999, 7:967-976.
-
(1999)
Structure
, vol.7
, pp. 967-976
-
-
Johnson, E.C.1
Lazar, G.A.2
Desjarlais, J.R.3
Handel, T.M.4
-
39
-
-
0032744041
-
Effect of hydrophobic core packing on sidechain dynamics
-
Johnson E.C., Handel T.M. Effect of hydrophobic core packing on sidechain dynamics. J Biomol NMR 1999, 15:135-143.
-
(1999)
J Biomol NMR
, vol.15
, pp. 135-143
-
-
Johnson, E.C.1
Handel, T.M.2
-
40
-
-
0035859875
-
Dynamics of a de novo designed three-helix bundle protein studied by 15N, 13C, and 2H NMR relaxation methods
-
Walsh S.T.R., Lee A.L., DeGrado W.F., Wand A.J. Dynamics of a de novo designed three-helix bundle protein studied by 15N, 13C, and 2H NMR relaxation methods. Biochemistry 2001, 40:9560-9569.
-
(2001)
Biochemistry
, vol.40
, pp. 9560-9569
-
-
Walsh, S.T.R.1
Lee, A.L.2
DeGrado, W.F.3
Wand, A.J.4
-
41
-
-
49749132270
-
NMR-detected conformational exchange observed in a computationally designed variant of protein GB1
-
Crowhurst K.A., Mayo S.L. NMR-detected conformational exchange observed in a computationally designed variant of protein GB1. Prot Eng Des Sel 2008, 21:577-587.
-
(2008)
Prot Eng Des Sel
, vol.21
, pp. 577-587
-
-
Crowhurst, K.A.1
Mayo, S.L.2
-
42
-
-
31944435091
-
Computational design of a single amino acid sequence that can switch between two distinct folds
-
Ambroggio X.I., Kuhlman B. Computational design of a single amino acid sequence that can switch between two distinct folds. J Am Chem Soc 2006, 128:1154-1161.
-
(2006)
J Am Chem Soc
, vol.128
, pp. 1154-1161
-
-
Ambroggio, X.I.1
Kuhlman, B.2
-
43
-
-
15244362226
-
Dioxane contributes to the altered conformation and oligomerization state of a designed engrailed homeodomain variant
-
Hom G.K., Lassila J.K., Thomas L.M., Mayo S.L. Dioxane contributes to the altered conformation and oligomerization state of a designed engrailed homeodomain variant. Protein Sci 2005, 14:1115-1119.
-
(2005)
Protein Sci
, vol.14
, pp. 1115-1119
-
-
Hom, G.K.1
Lassila, J.K.2
Thomas, L.M.3
Mayo, S.L.4
-
44
-
-
77649271939
-
Evoltionary optimization of computationally designed enzymes: Kemp eliminases of the KE07 series
-
Khersonsky O., Röthlisberger D., Dym O., Albeck S., Jackson C.J., Baker D., Tawfik D.S. Evoltionary optimization of computationally designed enzymes: Kemp eliminases of the KE07 series. J Mol Biol 2010, 396:1025-1042.
-
(2010)
J Mol Biol
, vol.396
, pp. 1025-1042
-
-
Khersonsky, O.1
Röthlisberger, D.2
Dym, O.3
Albeck, S.4
Jackson, C.J.5
Baker, D.6
Tawfik, D.S.7
-
45
-
-
77950437360
-
Origins of catalysis in computationally designed retroaldolase enzymes
-
Lassila J.K., Baker D., Herschlag D. Origins of catalysis in computationally designed retroaldolase enzymes. Proc Natl Acad Sci USA 2010, 107:4937-4942.
-
(2010)
Proc Natl Acad Sci USA
, vol.107
, pp. 4937-4942
-
-
Lassila, J.K.1
Baker, D.2
Herschlag, D.3
-
46
-
-
56749170877
-
Catalytic mechanism and performance of computationally designed enzymes for Kemp elimination
-
Alexandrova A.N., Röthlisberger D., Baker D., Jorgensen W.L. Catalytic mechanism and performance of computationally designed enzymes for Kemp elimination. J Am Chem Soc 2008, 130:15907-15915.
-
(2008)
J Am Chem Soc
, vol.130
, pp. 15907-15915
-
-
Alexandrova, A.N.1
Röthlisberger, D.2
Baker, D.3
Jorgensen, W.L.4
-
47
-
-
70349632843
-
The influence of protein dynamics on the success of computational enzyme design
-
Ruscio J.Z., Kohn J.E., Ball K.A., Head-Gordon T. The influence of protein dynamics on the success of computational enzyme design. J Am Chem Soc 2009, 131:14111-14115.
-
(2009)
J Am Chem Soc
, vol.131
, pp. 14111-14115
-
-
Ruscio, J.Z.1
Kohn, J.E.2
Ball, K.A.3
Head-Gordon, T.4
-
48
-
-
73249124179
-
Computational design of ligand binding is not a solved problem
-
Schreier B., Stumpp C., Wiesner S., Höcker B. Computational design of ligand binding is not a solved problem. Proc Natl Acad Sci USA 2009, 106:18491-18496.
-
(2009)
Proc Natl Acad Sci USA
, vol.106
, pp. 18491-18496
-
-
Schreier, B.1
Stumpp, C.2
Wiesner, S.3
Höcker, B.4
-
49
-
-
70350053005
-
Key protein-design papers challenged
-
Hayden E.C. Key protein-design papers challenged. Nature 2009, 461:859.
-
(2009)
Nature
, vol.461
, pp. 859
-
-
Hayden, E.C.1
-
50
-
-
0037217406
-
Automated design of specificity in molecular recognition
-
Havranek J.J., Harbury P.B. Automated design of specificity in molecular recognition. Nat Struct Biol 2003, 10:45-52.
-
(2003)
Nat Struct Biol
, vol.10
, pp. 45-52
-
-
Havranek, J.J.1
Harbury, P.B.2
-
51
-
-
44949229094
-
Design of protein-ligand binding based on the molecular-mechanics energy model
-
Boas F.E., Harbury P.B. Design of protein-ligand binding based on the molecular-mechanics energy model. J Mol Biol 2008, 380:415-424.
-
(2008)
J Mol Biol
, vol.380
, pp. 415-424
-
-
Boas, F.E.1
Harbury, P.B.2
-
52
-
-
70350334391
-
Computer-aided design of functional protein interactions
-
Mandell D.J., Kortemme T. Computer-aided design of functional protein interactions. Nat Chem Biol 2009, 5:797-807.
-
(2009)
Nat Chem Biol
, vol.5
, pp. 797-807
-
-
Mandell, D.J.1
Kortemme, T.2
-
53
-
-
77952849163
-
An efficient algorithm for multistate protein design based on FASTER
-
Allen B.D., Mayo S.L. An efficient algorithm for multistate protein design based on FASTER. J Comput Chem 2010, 31:904-916.
-
(2010)
J Comput Chem
, vol.31
, pp. 904-916
-
-
Allen, B.D.1
Mayo, S.L.2
-
54
-
-
77957754814
-
-
Computational protein design of structural ensembles: validation by automated screening of combinatorial libraries. Proc Natl Acad Sci USA, In Press.
-
Allen BD, Nisthal A, Mayo SL: Computational protein design of structural ensembles: validation by automated screening of combinatorial libraries. Proc Natl Acad Sci USA, In Press.
-
-
-
Allen, B.D.1
Nisthal, A.2
Mayo, S.L.3
-
55
-
-
33745620457
-
Ultra-fast evaluation of protein energies directly from sequence
-
Grigoryan G., Zhou F., Lustig S.R., Ceder G., Morgan D., Keating A.E. Ultra-fast evaluation of protein energies directly from sequence. PLoS Comput Biol 2006, 2:551-563.
-
(2006)
PLoS Comput Biol
, vol.2
, pp. 551-563
-
-
Grigoryan, G.1
Zhou, F.2
Lustig, S.R.3
Ceder, G.4
Morgan, D.5
Keating, A.E.6
-
56
-
-
69249136329
-
Cluster expansion models for flexible-backbone protein energetics
-
Apgar J.R., Hahn S., Grigoryan G., Keating A.E. Cluster expansion models for flexible-backbone protein energetics. J Comput Chem 2009, 30:2402-2413.
-
(2009)
J Comput Chem
, vol.30
, pp. 2402-2413
-
-
Apgar, J.R.1
Hahn, S.2
Grigoryan, G.3
Keating, A.E.4
-
57
-
-
65249171530
-
Design of protein-interaction specificity gives selective bZIP-binding peptides
-
Grigoryan G., Reinke A.W., Keating A.E. Design of protein-interaction specificity gives selective bZIP-binding peptides. Nature 2009, 458:859-864.
-
(2009)
Nature
, vol.458
, pp. 859-864
-
-
Grigoryan, G.1
Reinke, A.W.2
Keating, A.E.3
-
58
-
-
70349775833
-
Backbone flexibility in computational protein design
-
Mandell D.J., Kortemme T. Backbone flexibility in computational protein design. Curr Opin Biotech 2009, 20:420-428.
-
(2009)
Curr Opin Biotech
, vol.20
, pp. 420-428
-
-
Mandell, D.J.1
Kortemme, T.2
-
60
-
-
62649153772
-
Computational structure-based redesign of enzyme activity
-
Chen C.Y., Georgiev I., Anderson A.C., Donald B.R. Computational structure-based redesign of enzyme activity. Proc Natl Acad Sci USA 2009, 106:3764-3769.
-
(2009)
Proc Natl Acad Sci USA
, vol.106
, pp. 3764-3769
-
-
Chen, C.Y.1
Georgiev, I.2
Anderson, A.C.3
Donald, B.R.4
-
61
-
-
70349463121
-
Computational design of Candida biodinii xylose reductase for altered cofactor specificity
-
Khoury G.A., Fazelina H., Chin J.W., Pantazes R.J., Cirino P.C., Maranas C.D. Computational design of Candida biodinii xylose reductase for altered cofactor specificity. Protein Sci 2009, 18:2125-2138.
-
(2009)
Protein Sci
, vol.18
, pp. 2125-2138
-
-
Khoury, G.A.1
Fazelina, H.2
Chin, J.W.3
Pantazes, R.J.4
Cirino, P.C.5
Maranas, C.D.6
-
62
-
-
66349133914
-
Motif-directed flexible backbone design of functional interactions
-
Havranek J.J., Baker D. Motif-directed flexible backbone design of functional interactions. Protein Sci 2009, 18:1293-1305.
-
(2009)
Protein Sci
, vol.18
, pp. 1293-1305
-
-
Havranek, J.J.1
Baker, D.2
-
63
-
-
67249107701
-
Alteration of enzyme specificity by computational loop remodeling and design
-
Murphy P.M., Bolduc J.M., Gallaher J.L., Stoddard B.L., Baker D. Alteration of enzyme specificity by computational loop remodeling and design. Proc Natl Acad Sci USA 2009, 106:9215-9220.
-
(2009)
Proc Natl Acad Sci USA
, vol.106
, pp. 9215-9220
-
-
Murphy, P.M.1
Bolduc, J.M.2
Gallaher, J.L.3
Stoddard, B.L.4
Baker, D.5
-
64
-
-
74549207309
-
Assessing computational methods for predicting protein stability upon mutation: good on average but not in the details
-
Popatov V., Cohen M., Schreiber G. Assessing computational methods for predicting protein stability upon mutation: good on average but not in the details. Prot Eng Des Sel 2009, 22:553-560.
-
(2009)
Prot Eng Des Sel
, vol.22
, pp. 553-560
-
-
Popatov, V.1
Cohen, M.2
Schreiber, G.3
-
65
-
-
0035936702
-
Statistical theory for protein combinatorial libraries. Packing interactions, backbone flexibility, and the sequence variability of a main-chain structure
-
Kono H., Saven J.G. Statistical theory for protein combinatorial libraries. Packing interactions, backbone flexibility, and the sequence variability of a main-chain structure. J Mol Biol 2001, 306:607-628.
-
(2001)
J Mol Biol
, vol.306
, pp. 607-628
-
-
Kono, H.1
Saven, J.G.2
-
66
-
-
0037059061
-
Combining computational and experimental screening for rapid optimization of protein properties
-
Hayes R.J., Bentzien J., Ary M.L., Hwang M.Y., Jacinto J.M., Vielmetter J., Kundu A., Dahiyat B.I. Combining computational and experimental screening for rapid optimization of protein properties. Proc Natl Acad Sci USA 2002, 99:15926-15931.
-
(2002)
Proc Natl Acad Sci USA
, vol.99
, pp. 15926-15931
-
-
Hayes, R.J.1
Bentzien, J.2
Ary, M.L.3
Hwang, M.Y.4
Jacinto, J.M.5
Vielmetter, J.6
Kundu, A.7
Dahiyat, B.I.8
-
68
-
-
27944437517
-
Automated design of degenerate codon libraries
-
Mena M.A., Daugherty P.S. Automated design of degenerate codon libraries. Prot Eng Des Sel 2005, 18:559-561.
-
(2005)
Prot Eng Des Sel
, vol.18
, pp. 559-561
-
-
Mena, M.A.1
Daugherty, P.S.2
-
69
-
-
33846102955
-
Computationally designed libraries of fluorescent proteins evaluated by preservation and diversity of function
-
Treynor T.P., Vizcarra C.L., Nedelcu D., Mayo S.L. Computationally designed libraries of fluorescent proteins evaluated by preservation and diversity of function. Proc Natl Acad Sci USA 2007, 104:48-53.
-
(2007)
Proc Natl Acad Sci USA
, vol.104
, pp. 48-53
-
-
Treynor, T.P.1
Vizcarra, C.L.2
Nedelcu, D.3
Mayo, S.L.4
|