-
1
-
-
0010621023
-
Three-dimensional structure of enzymes
-
W. H. Freeman & Co, New York
-
Fersht, A. (1999). Three-dimensional structure of enzymes. In Structure and Mechanism in Protein Science, W. H. Freeman & Co, New York.
-
(1999)
Structure and Mechanism in Protein Science
-
-
Fersht, A.1
-
2
-
-
0028916599
-
A hot spot of binding energy in a hormone-receptor interface
-
Clackson, T. & Wells, J. A. (1995). A hot spot of binding energy in a hormone-receptor interface. Science, 267, 383-386.
-
(1995)
Science
, vol.267
, pp. 383-386
-
-
Clackson, T.1
Wells, J.A.2
-
3
-
-
0000230329
-
Energetics of enzyme catalysis
-
Warshel, A. (1978). Energetics of enzyme catalysis. Proc. Natl Acad. Sci. USA, 75, 5250-5254.
-
(1978)
Proc. Natl. Acad. Sci. USA
, vol.75
, pp. 5250-5254
-
-
Warshel, A.1
-
4
-
-
0024278562
-
Evaluation of catalytic free energies in genetically modified proteins
-
Warshel, A., Sussman, F. & Hwang, J. K. (1988). Evaluation of catalytic free energies in genetically modified proteins. J. Mol. Biol. 201, 139-159.
-
(1988)
J. Mol. Biol.
, vol.201
, pp. 139-159
-
-
Warshel, A.1
Sussman, F.2
Hwang, J.K.3
-
5
-
-
0029775624
-
Clusters of charged residues in protein three-dimensional structures
-
Zhu, Z. Y. & Karlin, S. (1996). Clusters of charged residues in protein three-dimensional structures. Proc. Natl Acad. Sci. USA, 93, 8350-8355.
-
(1996)
Proc. Natl. Acad. Sci. USA
, vol.93
, pp. 8350-8355
-
-
Zhu, Z.Y.1
Karlin, S.2
-
6
-
-
0026055156
-
Analysis of the steric strain in the polypeptide backbone of protein molecules
-
Herzberg, O. & Moult, J. (1991). Analysis of the steric strain in the polypeptide backbone of protein molecules. Proteins: Struct. Funct. Genet. 11, 223-229.
-
(1991)
Proteins: Struct. Funct. Genet.
, vol.11
, pp. 223-229
-
-
Herzberg, O.1
Moult, J.2
-
7
-
-
0032538627
-
Electrostatic origin of the catalytic power of enzymes and the role of preorganized active sites
-
Warshel, A. (1998). Electrostatic origin of the catalytic power of enzymes and the role of preorganized active sites. J. Biol. Chem. 273, 27035-27038.
-
(1998)
J. Biol. Chem.
, vol.273
, pp. 27035-27038
-
-
Warshel, A.1
-
9
-
-
0015977588
-
The interpretation of protein structures: Total volume, group volume distributions and packing density
-
Richards, F. M. (1974). The interpretation of protein structures: total volume, group volume distributions and packing density. J. Mol. Biol. 82, 1-14.
-
(1974)
J. Mol. Biol.
, vol.82
, pp. 1-14
-
-
Richards, F.M.1
-
10
-
-
0028822917
-
Energised (entatic) states of groups and of secondary structures in proteins and metalloproteins
-
Williams, R. J. (1995). Energised (entatic) states of groups and of secondary structures in proteins and metalloproteins. Eur. J. Biochem. 234, 363-381.
-
(1995)
Eur. J. Biochem.
, vol.234
, pp. 363-381
-
-
Williams, R.J.1
-
11
-
-
0026723477
-
Effect of active site residues in barnase on activity and stability
-
Meiering, E. M., Serrano, L. & Fersht, A. R. (1992). Effect of active site residues in barnase on activity and stability. J. Mol. Biol. 225, 585-589.
-
(1992)
J. Mol. Biol.
, vol.225
, pp. 585-589
-
-
Meiering, E.M.1
Serrano, L.2
Fersht, A.R.3
-
12
-
-
0028774340
-
Stability and function: Two constraints in the evolution of barstar and other proteins
-
Schreiber, G., Buckle, A. M. & Fersht, A. R. (1994). Stability and function: two constraints in the evolution of barstar and other proteins. Structure, 2, 945-951.
-
(1994)
Structure
, vol.2
, pp. 945-951
-
-
Schreiber, G.1
Buckle, A.M.2
Fersht, A.R.3
-
13
-
-
0028896311
-
A relationship between protein stability and protein function
-
Shoichet, B. K., Baase, W. A., Kuroki, R. & Matthews, B. W. (1995). A relationship between protein stability and protein function. Proc. Natl Acad. Sci. USA, 92, 452-456.
-
(1995)
Proc. Natl. Acad. Sci. USA
, vol.92
, pp. 452-456
-
-
Shoichet, B.K.1
Baase, W.A.2
Kuroki, R.3
Matthews, B.W.4
-
14
-
-
0023662556
-
1H NMR spectroscopy of conformational changes accompanying substitutions for glutamic acid-43
-
1H NMR spectroscopy of conformational changes accompanying substitutions for glutamic acid-43. Biochemistry, 26, 6278-6286.
-
(1987)
Biochemistry
, vol.26
, pp. 6278-6286
-
-
Hibler, D.W.1
Stolowich, N.J.2
Reynolds, M.A.3
Gerlt, J.A.4
Wilde, J.A.5
Bolton, P.H.6
-
15
-
-
0025779523
-
Deletion of the omega-loop in the active site of staphylococcal nuclease. 1. Effect on catalysis and stability
-
Poole, L. B., Loveys, D. A., Hale, S. P., Gerlt, J. A., Stanczyk, S. M. & Bolton, P. H. (1991). Deletion of the omega-loop in the active site of staphylococcal nuclease. 1. Effect on catalysis and stability. Biochemistry, 30, 3621-3627.
-
(1991)
Biochemistry
, vol.30
, pp. 3621-3627
-
-
Poole, L.B.1
Loveys, D.A.2
Hale, S.P.3
Gerlt, J.A.4
Stanczyk, S.M.5
Bolton, P.H.6
-
16
-
-
0027054423
-
Mutation of conserved residues in Escherichia coli thioredoxin: Effects on stability and function
-
Gleason, F. K. (1992). Mutation of conserved residues in Escherichia coli thioredoxin: effects on stability and function. Protein Sci. 1, 609-616.
-
(1992)
Protein Sci.
, vol.1
, pp. 609-616
-
-
Gleason, F.K.1
-
17
-
-
0024363466
-
Amino acid substitutions that increase the thermal stability of the lambda Cro protein
-
Pakula, A. A. & Sauer, R. T. (1989). Amino acid substitutions that increase the thermal stability of the lambda Cro protein. Proteins: Struct. Funct. Genet. 5, 202-210.
-
(1989)
Proteins: Struct. Funct. Genet.
, vol.5
, pp. 202-210
-
-
Pakula, A.A.1
Sauer, R.T.2
-
18
-
-
1842366730
-
Effect of single amino acid replacements on the thermal stability of the NH2-terminal domain of phage lambda repressor
-
Hecht, M. H., Sturtevant, J. M. & Sauer, R. T. (1984). Effect of single amino acid replacements on the thermal stability of the NH2-terminal domain of phage lambda repressor. Proc. Natl Acad. Sci. USA, 81, 5685-5689.
-
(1984)
Proc. Natl. Acad. Sci. USA
, vol.81
, pp. 5685-5689
-
-
Hecht, M.H.1
Sturtevant, J.M.2
Sauer, R.T.3
-
19
-
-
0033976585
-
ProTherm, version 2.0: Thermodynamic database for proteins and mutants
-
Gromiha, M. M., An, J., Kono, H., Oobatake, M., Uedaira, H., Prabakaran, P. & Sarai, A. (2000). ProTherm, version 2.0: thermodynamic database for proteins and mutants. Nucl. Acids Res. 28, 283-285.
-
(2000)
Nucl. Acids Res.
, vol.28
, pp. 283-285
-
-
Gromiha, M.M.1
An, J.2
Kono, H.3
Oobatake, M.4
Uedaira, H.5
Prabakaran, P.6
Sarai, A.7
-
21
-
-
0036121221
-
Structural milestones in the reaction pathway of an amide hydrolase: Substrate, acyl, and product complexes of cephalothin with AmpC beta-lactamase
-
Beadle, B. M., Trehan, I., Focia, P. J. & Shoichet, B. K. (2002). Structural milestones in the reaction pathway of an amide hydrolase: substrate, acyl, and product complexes of cephalothin with AmpC beta-lactamase. Structure, 10, 413-424.
-
(2002)
Structure
, vol.10
, pp. 413-424
-
-
Beadle, B.M.1
Trehan, I.2
Focia, P.J.3
Shoichet, B.K.4
-
22
-
-
0025091910
-
The diversity of the catalytic properties of class A beta-lactamases
-
Matagne, A., Misselyn-Bauduin, A. M., Joris, B., Erpicum, T., Granier, B. & Frere, J. M. (1990). The diversity of the catalytic properties of class A beta-lactamases. Biochem. J. 265, 131-146.
-
(1990)
Biochem. J.
, vol.265
, pp. 131-146
-
-
Matagne, A.1
Misselyn-Bauduin, A.M.2
Joris, B.3
Erpicum, T.4
Granier, B.5
Frere, J.M.6
-
23
-
-
0032803407
-
Class C beta-lactamases operate at the diffusion limit for turnover of their preferred cephalosporin substrates
-
Bulychev, A. & Mobashery, S. (1999). Class C beta-lactamases operate at the diffusion limit for turnover of their preferred cephalosporin substrates. Antimicrob. Agents Chemother. 43, 1743-1746.
-
(1999)
Antimicrob. Agents Chemother.
, vol.43
, pp. 1743-1746
-
-
Bulychev, A.1
Mobashery, S.2
-
24
-
-
0032872887
-
Functional analyses of AmpC beta-lactamase through differential stability
-
Beadle, B. M., McGovern, S. L., Patera, A. & Shoichet, B. K. (1999). Functional analyses of AmpC beta-lactamase through differential stability. Protein Sci. 8, 1816-1824.
-
(1999)
Protein Sci.
, vol.8
, pp. 1816-1824
-
-
Beadle, B.M.1
McGovern, S.L.2
Patera, A.3
Shoichet, B.K.4
-
25
-
-
0025022490
-
Refined crystal structure of beta-lactamase from Citrobacter freundii indicates a mechanism for beta-lactam hydrolysis
-
Oefner, C., D'Arcy, A., Daly, J. J., Gubernator, K., Charnas, R. L., Heinze, I. et al. (1990). Refined crystal structure of beta-lactamase from Citrobacter freundii indicates a mechanism for beta-lactam hydrolysis. Nature, 343, 284-288.
-
(1990)
Nature
, vol.343
, pp. 284-288
-
-
Oefner, C.1
D'Arcy, A.2
Daly, J.J.3
Gubernator, K.4
Charnas, R.L.5
Heinze, I.6
-
26
-
-
0028224698
-
Crystallographic structure of a phosphonate derivative of the Enterobacter cloacae P99 cephalosporinase: Mechanistic interpretation of a beta-lactamase transition-state analog
-
Lobkovsky, E., Billings, E. M., Moews, P. C., Rahil, J., Pratt, R. F. & Knox, J. R. (1994). Crystallographic structure of a phosphonate derivative of the Enterobacter cloacae P99 cephalosporinase: mechanistic interpretation of a beta-lactamase transition-state analog. Biochemistry, 33, 6762-6772.
-
(1994)
Biochemistry
, vol.33
, pp. 6762-6772
-
-
Lobkovsky, E.1
Billings, E.M.2
Moews, P.C.3
Rahil, J.4
Pratt, R.F.5
Knox, J.R.6
-
27
-
-
0034327676
-
Crystal structures of substrate and inhibitor complexes with AmpC beta-lactamase: Possible implications for substrate-assisted catalysis
-
Patera, A., Blaszczak, L. C. & Shoichet, B. K. (2000). Crystal structures of substrate and inhibitor complexes with AmpC beta-lactamase: possible implications for substrate-assisted catalysis. J. Am. Chem. Soc. 122, 10504-10512.
-
(2000)
J. Am. Chem. Soc.
, vol.122
, pp. 10504-10512
-
-
Patera, A.1
Blaszczak, L.C.2
Shoichet, B.K.3
-
28
-
-
0035967506
-
Inhibition of class C beta-lactamases: Structure of a reaction intermediate with a cephem sulfone
-
Crichlow, G. V., Nukaga, M., Doppalapudi, V. R., Buynak, J. D. & Knox, J. R. (2001). Inhibition of class C beta-lactamases: structure of a reaction intermediate with a cephem sulfone. Biochemistry, 40, 6233-6239.
-
(2001)
Biochemistry
, vol.40
, pp. 6233-6239
-
-
Crichlow, G.V.1
Nukaga, M.2
Doppalapudi, V.R.3
Buynak, J.D.4
Knox, J.R.5
-
29
-
-
0035822659
-
Structures of ceftazidime and its transition-state analogue in complex with AmpC beta-lactamase: Implications for resistance mutations and inhibitor design
-
Powers, R. A., Caselli, E., Focia, P. J., Prati, F. & Shoichet, B. K. (2001). Structures of ceftazidime and its transition-state analogue in complex with AmpC beta-lactamase: implications for resistance mutations and inhibitor design. Biochemistry, 40, 9207-9214.
-
(2001)
Biochemistry
, vol.40
, pp. 9207-9214
-
-
Powers, R.A.1
Caselli, E.2
Focia, P.J.3
Prati, F.4
Shoichet, B.K.5
-
30
-
-
0025062342
-
Role of lysine-67 in the active site of class C beta-lactamase from Citrobacter freundii GN346
-
Tsukamoto, K., Tachibana, K., Yamazaki, N., Ishii, Y., Ujiie, K., Nishida, N. & Sawai, T. (1990). Role of lysine-67 in the active site of class C beta-lactamase from Citrobacter freundii GN346. Eur. J. Biochem. 188, 15-22.
-
(1990)
Eur. J. Biochem.
, vol.188
, pp. 15-22
-
-
Tsukamoto, K.1
Tachibana, K.2
Yamazaki, N.3
Ishii, Y.4
Ujiie, K.5
Nishida, N.6
Sawai, T.7
-
31
-
-
0028216595
-
Role of residue Lys315 in the mechanism of action of the Enterobacter cloacae 908R beta-lactamase
-
Monnaie, D., Dubus, A., Cooke, D., Marchand-Brynaert, J., Normark, S. & Frere, J. M. (1994). Role of residue Lys315 in the mechanism of action of the Enterobacter cloacae 908R beta-lactamase. Biochemistry, 33, 5193-5201.
-
(1994)
Biochemistry
, vol.33
, pp. 5193-5201
-
-
Monnaie, D.1
Dubus, A.2
Cooke, D.3
Marchand-Brynaert, J.4
Normark, S.5
Frere, J.M.6
-
32
-
-
0029068208
-
Role of asparagine 152 in catalysis of beta-lactam hydrolysis by Escherichia coli AmpC beta-lactamase studied by site-directed mutagenesis
-
Dubus, A., Normark, S., Kania, M. & Page, M. G. (1995). Role of asparagine 152 in catalysis of beta-lactam hydrolysis by Escherichia coli AmpC beta-lactamase studied by site-directed mutagenesis. Biochemistry, 34, 7757-7764.
-
(1995)
Biochemistry
, vol.34
, pp. 7757-7764
-
-
Dubus, A.1
Normark, S.2
Kania, M.3
Page, M.G.4
-
33
-
-
0029817551
-
The roles of residues Tyr150, Glu272, and His314 in class C beta-lactamases
-
Dubus, A., Ledent, P., Lamotte-Brasseur, J. & Frere, J. M. (1996). The roles of residues Tyr150, Glu272, and His314 in class C beta-lactamases. Proteins: Struct. Funct. Genet. 25, 473-485.
-
(1996)
Proteins: Struct. Funct. Genet.
, vol.25
, pp. 473-485
-
-
Dubus, A.1
Ledent, P.2
Lamotte-Brasseur, J.3
Frere, J.M.4
-
34
-
-
0032487847
-
Structure-based enhancement of boronic acid-based inhibitors of AmpC beta-lactamase
-
Weston, G. S., Blazquez, J., Baquero, F. & Shoichet, B. K. (1998). Structure-based enhancement of boronic acid-based inhibitors of AmpC beta-lactamase. J. Med. Chem. 41, 4577-4586.
-
(1998)
J. Med. Chem.
, vol.41
, pp. 4577-4586
-
-
Weston, G.S.1
Blazquez, J.2
Baquero, F.3
Shoichet, B.K.4
-
35
-
-
0000243829
-
PROCHECK: A program to check the stereochemical quality of protein structures
-
Laskowski, R. A., MacArthur, M. W., Moss, D. S. & Thornton, J. M. (1993). PROCHECK: a program to check the stereochemical quality of protein structures. J. Appl. Crystallog. 26, 283-291.
-
(1993)
J. Appl. Crystallog.
, vol.26
, pp. 283-291
-
-
Laskowski, R.A.1
MacArthur, M.W.2
Moss, D.S.3
Thornton, J.M.4
-
36
-
-
0024253532
-
Evidence for an oxyanion hole in serine beta-lactamases and DD-peptidases
-
Murphy, B. P. & Pratt, R. F. (1988). Evidence for an oxyanion hole in serine beta-lactamases and DD-peptidases. Biochem. J. 256, 669-672.
-
(1988)
Biochem. J.
, vol.256
, pp. 669-672
-
-
Murphy, B.P.1
Pratt, R.F.2
-
37
-
-
0032542009
-
Three-dimensional structure of AmpC beta-lactamase from Escherichia coli bound to a transition-state analogue: Possible implications for the oxyanion hypothesis and for inhibitor design
-
Usher, K. C., Blaszczak, L. C., Weston, G. S., Shoichet, B. K. & Remington, S. J. (1998). Three-dimensional structure of AmpC beta-lactamase from Escherichia coli bound to a transition-state analogue: possible implications for the oxyanion hypothesis and for inhibitor design. Biochemistry, 37, 16082-16092.
-
(1998)
Biochemistry
, vol.37
, pp. 16082-16092
-
-
Usher, K.C.1
Blaszczak, L.C.2
Weston, G.S.3
Shoichet, B.K.4
Remington, S.J.5
-
38
-
-
0033642945
-
Structural stability of binding sites: Consequences for binding affinity and allosteric effects
-
Luque, I. & Freire, E. (2000). Structural stability of binding sites: consequences for binding affinity and allosteric effects. Proteins: Struct. Funct. Genet. (Suppl), 63-71.
-
(2000)
Proteins: Struct. Funct. Genet. (Suppl)
, pp. 63-71
-
-
Luque, I.1
Freire, E.2
-
39
-
-
0035965145
-
Prediction of functionally important residues based solely on the computed energetics of protein structure
-
Elcock, A. H. (2001). Prediction of functionally important residues based solely on the computed energetics of protein structure. J. Mol. Biol. 312, 885-896.
-
(2001)
J. Mol. Biol.
, vol.312
, pp. 885-896
-
-
Elcock, A.H.1
-
40
-
-
0035940421
-
THEMATICS: A simple computational predictor of enzyme function from structure
-
Ondrechen, M. J., Clifton, J. G. & Ringe, D. (2001). THEMATICS: a simple computational predictor of enzyme function from structure. Proc. Natl Acad. Sci. USA, 98, 12473-12478.
-
(2001)
Proc. Natl. Acad. Sci. USA
, vol.98
, pp. 12473-12478
-
-
Ondrechen, M.J.1
Clifton, J.G.2
Ringe, D.3
-
41
-
-
0033976524
-
Biological function made crystal clear - Annotation of hypothetical proteins via structural genomics
-
Eisenstein, E., Gilliland, G. L., Herzberg, O., Moult, J., Orban, J., Poljak, R. J. et al. (2000). Biological function made crystal clear - annotation of hypothetical proteins via structural genomics. Curr. Opin. Biotechnol. 11, 25-30.
-
(2000)
Curr. Opin. Biotechnol.
, vol.11
, pp. 25-30
-
-
Eisenstein, E.1
Gilliland, G.L.2
Herzberg, O.3
Moult, J.4
Orban, J.5
Poljak, R.J.6
-
42
-
-
0033961632
-
Finding function through structural genomics
-
Shapiro, L. & Harris, T. (2000). Finding function through structural genomics. Curr. Opin. Biotechnol. 11, 31-35.
-
(2000)
Curr. Opin. Biotechnol.
, vol.11
, pp. 31-35
-
-
Shapiro, L.1
Harris, T.2
-
43
-
-
0024520745
-
Site-directed mutagenesis by overlap extension using the polymerase chain reaction
-
Ho, S. N., Hunt, H. D., Horton, R. M., Pullen, J. K. & Pease, L. R. (1989). Site-directed mutagenesis by overlap extension using the polymerase chain reaction. Gene, 77, 51-59.
-
(1989)
Gene
, vol.77
, pp. 51-59
-
-
Ho, S.N.1
Hunt, H.D.2
Horton, R.M.3
Pullen, J.K.4
Pease, L.R.5
-
44
-
-
0004101503
-
-
National Institute of Standards and Technology Technical Note 1401, National Institute of Standards and Technology, US Department of Commerce Technology Administration, Washington, DC
-
Kirchhoff, W. (1993). EXAM: a two-state thermodynamic analysis program. National Institute of Standards and Technology Technical Note 1401, National Institute of Standards and Technology, US Department of Commerce Technology Administration, Washington, DC.
-
(1993)
EXAM: A Two-State Thermodynamic Analysis Program
-
-
Kirchhoff, W.1
-
45
-
-
0023442217
-
Protein stability curves
-
Becktel, W. J. & Schellman, J. A. (1987). Protein stability curves. Biopolymers, 26, 1859-1877.
-
(1987)
Biopolymers
, vol.26
, pp. 1859-1877
-
-
Becktel, W.J.1
Schellman, J.A.2
-
46
-
-
0031059866
-
Processing of X-ray diffraction data collected in oscillation mode
-
Otwinowski, Z. & Minor, W. (1997). Processing of X-ray diffraction data collected in oscillation mode. Methods Enzymol. 276, 307-326.
-
(1997)
Methods Enzymol.
, vol.276
, pp. 307-326
-
-
Otwinowski, Z.1
Minor, W.2
-
47
-
-
3543012707
-
Crystallography & NMR system: A new software suite for macromolecular structure determination
-
Brünger, A. T., Adams, P. D., Clore, G. M., DeLano, W. L., Gros, P., Grosse-Kunstleve, R. W. et al. (1998). Crystallography & NMR system: a new software suite for macromolecular structure determination. Acta Crystallog. sect. D, 54, 905-921.
-
(1998)
Acta Crystallog. Sect. D
, vol.54
, pp. 905-921
-
-
Brünger, A.T.1
Adams, P.D.2
Clore, G.M.3
DeLano, W.L.4
Gros, P.5
Grosse-Kunstleve, R.W.6
-
48
-
-
84889120137
-
Improved methods for building protein models in electron density maps and the location of errors in these models
-
Jones, T. A., Zou, J. Y., Cowan, S. W. & Kjeldgaard, . (1991). Improved methods for building protein models in electron density maps and the location of errors in these models. Acta Crystallog. sect. A, 47, 110-119.
-
(1991)
Acta Crystallog. Sect. A
, vol.47
, pp. 110-119
-
-
Jones, T.A.1
Zou, J.Y.2
Cowan, S.W.3
Kjeldgaard4
-
49
-
-
0023977089
-
The MIDAS display system
-
Ferrin, T. E., Huang, C. C., Jarvis, L. E. & Langridge, R. (1988). The MIDAS display system. J. Mol. Graph. 6, 13-27.
-
(1988)
J. Mol. Graph.
, vol.6
, pp. 13-27
-
-
Ferrin, T.E.1
Huang, C.C.2
Jarvis, L.E.3
Langridge, R.4
-
50
-
-
0027609916
-
SETOR: Hardware-lighted three-dimensional solid model representations of macromolecules
-
Evans, S. V. (1993). SETOR: hardware-lighted three-dimensional solid model representations of macromolecules. J. Mol. Graph. 11, 134-138. and 127-128.
-
(1993)
J. Mol. Graph.
, vol.11
, pp. 134-138
-
-
Evans, S.V.1
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