-
1
-
-
0001858251
-
Application of a theory of enzyme specificity to protein synthesis
-
Koshland DE (1958) Application of a theory of enzyme specificity to protein synthesis. Proc Natl Acad Sci USA 44:98-104.
-
(1958)
Proc Natl Acad Sci USA
, vol.44
, pp. 98-104
-
-
Koshland, D.E.1
-
2
-
-
0001289724
-
The influence of configuration on enzyme activity. (Translated from German)
-
Fisher E (1894) The influence of configuration on enzyme activity. (Translated from German). Dtsch Chem Ges 27:2984-2993.
-
(1894)
Dtsch Chem Ges
, vol.27
, pp. 2984-2993
-
-
Fisher, E.1
-
3
-
-
33748614305
-
Computational and theoretical methods to explore the relation between enzyme dynamics and catalysis
-
Antoniou D, Basner J, Nunez S, Schwartz SD (2006) Computational and theoretical methods to explore the relation between enzyme dynamics and catalysis. Chem Rev 106:3170-3187.
-
(2006)
Chem Rev
, vol.106
, pp. 3170-3187
-
-
Antoniou, D.1
Basner, J.2
Nunez, S.3
Schwartz, S.D.4
-
4
-
-
33748619206
-
An NMR perspective on enzyme dynamics
-
Boehr DD, Dyson HJ, Wright PE (2006) An NMR perspective on enzyme dynamics. Chem Rev 106:3055-3079.
-
(2006)
Chem Rev
, vol.106
, pp. 3055-3079
-
-
Boehr, D.D.1
Dyson, H.J.2
Wright, P.E.3
-
6
-
-
33748633480
-
Electrostatic basis for enzyme catalysis
-
Warshel A, et al. (2006) Electrostatic basis for enzyme catalysis. Chem Rev 106:3210-3235.
-
(2006)
Chem Rev
, vol.106
, pp. 3210-3235
-
-
Warshel, A.1
-
7
-
-
0032966864
-
Antigen recognition by conformational selection
-
Berger C, et al. (1999) Antigen recognition by conformational selection. FEBS Lett 450:149-153.
-
(1999)
FEBS Lett
, vol.450
, pp. 149-153
-
-
Berger, C.1
-
8
-
-
0035432947
-
Molecular recognition by induced fit: How fit is the concept?
-
Bosshard HR (2001) Molecular recognition by induced fit: How fit is the concept? News Physiol Sci 16:171-173.
-
(2001)
News Physiol Sci
, vol.16
, pp. 171-173
-
-
Bosshard, H.R.1
-
9
-
-
0027943261
-
Conformational isomerism and the diversity of antibodies
-
Foote J, Milstein C (1994) Conformational isomerism and the diversity of antibodies. Proc Natl Acad Sci USA 91:10370-10374.
-
(1994)
Proc Natl Acad Sci USA
, vol.91
, pp. 10370-10374
-
-
Foote, J.1
Milstein, C.2
-
10
-
-
0033970020
-
Folding and binding cascades: Dynamic landscapes and population shifts
-
Kumar S, Ma B, Tsai CJ, Sinha N, Nussinov R (2000) Folding and binding cascades: Dynamic landscapes and population shifts. Protein Sci 9:10-19.
-
(2000)
Protein Sci
, vol.9
, pp. 10-19
-
-
Kumar, S.1
Ma, B.2
Tsai, C.J.3
Sinha, N.4
Nussinov, R.5
-
11
-
-
0029561993
-
Spectroscopic, calorimetric, and kinetic demonstration of conformational adaptation in peptide-antibody recognition
-
Leder L, et al. (1995) Spectroscopic, calorimetric, and kinetic demonstration of conformational adaptation in peptide-antibody recognition. Biochemistry 34:16509-16518.
-
(1995)
Biochemistry
, vol.34
, pp. 16509-16518
-
-
Leder, L.1
-
12
-
-
0036147568
-
Multiple diverse ligands binding at a single protein site: A matter of pre-existing populations
-
Ma B, Shatsky M, Wolfson HJ, Nussinov R (2002) Multiple diverse ligands binding at a single protein site: A matter of pre-existing populations. Protein Sci 11:184-197.
-
(2002)
Protein Sci
, vol.11
, pp. 184-197
-
-
Ma, B.1
Shatsky, M.2
Wolfson, H.J.3
Nussinov, R.4
-
13
-
-
0033621104
-
Folding and binding cascades: Shifts in energy landscapes
-
Tsai CJ, Ma B, Nussinov R (1999) Folding and binding cascades: Shifts in energy landscapes. Proc Natl Acad Sci USA 96:9970-9972.
-
(1999)
Proc Natl Acad Sci USA
, vol.96
, pp. 9970-9972
-
-
Tsai, C.J.1
Ma, B.2
Nussinov, R.3
-
14
-
-
0030810528
-
A monoclonal antibody induces opening of a coiled coil. Global protection of amide protons from H/D exchange decreases by up to 1000-fold in antibody-bound triple-stranded coiled coil
-
Durr E, Bosshard HR (1997) A monoclonal antibody induces opening of a coiled coil. Global protection of amide protons from H/D exchange decreases by up to 1000-fold in antibody-bound triple-stranded coiled coil. Eur J Biochem 249:325-329.
-
(1997)
Eur J Biochem
, vol.249
, pp. 325-329
-
-
Durr, E.1
Bosshard, H.R.2
-
15
-
-
78651189765
-
On the nature of allosteric transitions: A plausible model
-
Monod J, Wyman J, Changeux JP (1965) On the nature of allosteric transitions: A plausible model. J Mol Biol 12:88-118.
-
(1965)
J Mol Biol
, vol.12
, pp. 88-118
-
-
Monod, J.1
Wyman, J.2
Changeux, J.P.3
-
16
-
-
21244440196
-
Conservation of μs-ms enzyme motions in the apo- and substrate-mimicked state
-
Beach H, Cole R, Gill ML, Loria JP (2005) Conservation of μs-ms enzyme motions in the apo- and substrate-mimicked state. J Am Chem Soc 127:9167-9176.
-
(2005)
J Am Chem Soc
, vol.127
, pp. 9167-9176
-
-
Beach, H.1
Cole, R.2
Gill, M.L.3
Loria, J.P.4
-
17
-
-
33644556820
-
Enzyme dynamics along the reaction coordinate: Critical role of a conserved residue
-
Kovrigin EL, Loria JP (2006) Enzyme dynamics along the reaction coordinate: Critical role of a conserved residue. Biochemistry 45:2636-2647.
-
(2006)
Biochemistry
, vol.45
, pp. 2636-2647
-
-
Kovrigin, E.L.1
Loria, J.P.2
-
18
-
-
27744499156
-
Intrinsic dynamics of an enzyme underlies catalysis
-
Eisenmesser EZ, et al. (2005) Intrinsic dynamics of an enzyme underlies catalysis. Nature 438:117-121.
-
(2005)
Nature
, vol.438
, pp. 117-121
-
-
Eisenmesser, E.Z.1
-
19
-
-
0035928796
-
Backbone dynamics in dihydrofolate reductase complexes: Role of loop flexibility in the catalytic mechanism
-
Osborne MJ, Schnell J, Benkovic SJ, Dyson HJ, Wright PE (2001) Backbone dynamics in dihydrofolate reductase complexes: Role of loop flexibility in the catalytic mechanism. Biochemistry 40:9846-9859.
-
(2001)
Biochemistry
, vol.40
, pp. 9846-9859
-
-
Osborne, M.J.1
Schnell, J.2
Benkovic, S.J.3
Dyson, H.J.4
Wright, P.E.5
-
20
-
-
0019889093
-
On the three-dimensional structure and catalytic mechanism of triose phosphate isomerase
-
Alber T, et al. (1981) On the three-dimensional structure and catalytic mechanism of triose phosphate isomerase. Philos Trans R Soc Lond B Biol Sci 293:159-171.
-
(1981)
Philos Trans R Soc Lond B Biol Sci
, vol.293
, pp. 159-171
-
-
Alber, T.1
-
21
-
-
0016810498
-
Structure of chicken muscle triose phosphate isomerase determined crystallographically at 2.5 angstrom resolution using amino acid sequence data
-
Banner DW, et al. (1975) Structure of chicken muscle triose phosphate isomerase determined crystallographically at 2.5 angstrom resolution using amino acid sequence data. Nature 255:609-614.
-
(1975)
Nature
, vol.255
, pp. 609-614
-
-
Banner, D.W.1
-
22
-
-
0023868490
-
Reconstruction by site-directed mutagenesis of the transition state for the activation of tyrosine by the tyrosyl-tRNA synthetase: Amobile loop envelopes the transition state in an induced-fit mechanism
-
Fersht AR, Knill-Jones JW, Bedouelle H, Winter G (1988) Reconstruction by site-directed mutagenesis of the transition state for the activation of tyrosine by the tyrosyl-tRNA synthetase: Amobile loop envelopes the transition state in an induced-fit mechanism. Biochemistry 27:1581-1587.
-
(1988)
Biochemistry
, vol.27
, pp. 1581-1587
-
-
Fersht, A.R.1
Knill-Jones, J.W.2
Bedouelle, H.3
Winter, G.4
-
23
-
-
0025331920
-
Crystallographic analysis of the complex between triosephosphate isomerase and 2-phosphoglycolate at 2.5-Å resolution: Implications for catalysis
-
Lolis E, Petsko GA (1990) Crystallographic analysis of the complex between triosephosphate isomerase and 2-phosphoglycolate at 2.5-Å resolution: Implications for catalysis. Biochemistry 29:6619-6625.
-
(1990)
Biochemistry
, vol.29
, pp. 6619-6625
-
-
Lolis, E.1
Petsko, G.A.2
-
24
-
-
0037422593
-
Optimal alignment for enzymatic proton transfer: Structure of the Michaelis complex of triosephosphate isomerase at 1.2-Å resolution
-
Jogl G, Rozovsky S, McDermott AE, Tong L (2003) Optimal alignment for enzymatic proton transfer: Structure of the Michaelis complex of triosephosphate isomerase at 1.2-Å resolution. Proc Natl Acad Sci USA 100:50-55.
-
(2003)
Proc Natl Acad Sci USA
, vol.100
, pp. 50-55
-
-
Jogl, G.1
Rozovsky, S.2
McDermott, A.E.3
Tong, L.4
-
25
-
-
0025276041
-
Stabilization of a reaction intermediate as a catalytic device: Definition of the functional role of the flexible loop in triosephosphate isomerase
-
Pompliano DL, Peyman A, Knowles JR (1990) Stabilization of a reaction intermediate as a catalytic device: Definition of the functional role of the flexible loop in triosephosphate isomerase. Biochemistry 29:3186-3194.
-
(1990)
Biochemistry
, vol.29
, pp. 3186-3194
-
-
Pompliano, D.L.1
Peyman, A.2
Knowles, J.R.3
-
26
-
-
0026782489
-
Segmental motion in catalysis: Investigation of a hydrogen bond critical for loop closure in the reaction of triosephosphate isomerase
-
Sampson NS, Knowles JR (1992) Segmental motion in catalysis: Investigation of a hydrogen bond critical for loop closure in the reaction of triosephosphate isomerase. Biochemistry 31:8488-8494.
-
(1992)
Biochemistry
, vol.31
, pp. 8488-8494
-
-
Sampson, N.S.1
Knowles, J.R.2
-
27
-
-
0025272834
-
Mammalian and avian liver phosphoenolpyruvate carboxykinase - Alternate substrates and inhibition by analogs of oxaloacetate
-
Ash DE, Emig FA, Chowdhury SA, Satoh Y, Schramm VL (1990) Mammalian and avian liver phosphoenolpyruvate carboxykinase - Alternate substrates and inhibition by analogs of oxaloacetate. J Biol Chem 265:7377-7384.
-
(1990)
J Biol Chem
, vol.265
, pp. 7377-7384
-
-
Ash, D.E.1
Emig, F.A.2
Chowdhury, S.A.3
Satoh, Y.4
Schramm, V.L.5
-
28
-
-
39649124209
-
Differential inhibition of cytosolic PEPCK by substrate analogues. Kinetic and structural characterization of inhibitor recognition
-
Stiffin R, M, Sullivan SM, Carlson GM, Holyoak T (2008) Differential inhibition of cytosolic PEPCK by substrate analogues. Kinetic and structural characterization of inhibitor recognition. Biochemistry 47:2099-2109.
-
(2008)
Biochemistry
, vol.47
, pp. 2099-2109
-
-
Stiffin, R.M.1
Sullivan, S.M.2
Carlson, G.M.3
Holyoak, T.4
-
29
-
-
33745814413
-
Structural insights into the mechanism of PEPCK catalysis
-
Holyoak T, Sullivan SM, Nowak T (2006) Structural insights into the mechanism of PEPCK catalysis. Biochemistry 45:8254-8263.
-
(2006)
Biochemistry
, vol.45
, pp. 8254-8263
-
-
Holyoak, T.1
Sullivan, S.M.2
Nowak, T.3
-
30
-
-
0023055771
-
Stereochemical course of thiophosphoryl transfer catalyzed by cytosolic phosphoenolpyruvate carboxykinase
-
Konopka JM, Lardy HA, Frey PA (1986) Stereochemical course of thiophosphoryl transfer catalyzed by cytosolic phosphoenolpyruvate carboxykinase. Biochemistry 25:5571-5575.
-
(1986)
Biochemistry
, vol.25
, pp. 5571-5575
-
-
Konopka, J.M.1
Lardy, H.A.2
Frey, P.A.3
-
31
-
-
0021759420
-
Stereochemical course of thiophosphoryl group transfer catalyzed by mitochondrial phosphoenolpyruvate carboxykinase
-
Sheu KF, et al. (1984) Stereochemical course of thiophosphoryl group transfer catalyzed by mitochondrial phosphoenolpyruvate carboxykinase. Biochemistry 23:1779-1783.
-
(1984)
Biochemistry
, vol.23
, pp. 1779-1783
-
-
Sheu, K.F.1
-
32
-
-
34548509216
-
Structures of rat cytosolic PEPCK: Insight into the mechanism of phosphorylation and decarboxylation of oxaloacetic acid
-
Sullivan SM, Holyoak T (2007) Structures of rat cytosolic PEPCK: Insight into the mechanism of phosphorylation and decarboxylation of oxaloacetic acid. Biochemistry 46:10078-10088.
-
(2007)
Biochemistry
, vol.46
, pp. 10078-10088
-
-
Sullivan, S.M.1
Holyoak, T.2
-
33
-
-
0027751260
-
Mutational and kinetic analysis of a mobile loop in tyrosyl-tRNA synthetase
-
First EA, Fersht AR (1993) Mutational and kinetic analysis of a mobile loop in tyrosyl-tRNA synthetase. Biochemistry 32:13658-13663.
-
(1993)
Biochemistry
, vol.32
, pp. 13658-13663
-
-
First, E.A.1
Fersht, A.R.2
-
34
-
-
0025015392
-
Anatomy of a conformational change: Hinged "lid" motion of the triosephosphate isomerase loop
-
Joseph D, Petsko GA, Karplus M (1990) Anatomy of a conformational change: Hinged "lid" motion of the triosephosphate isomerase loop. Science 249:1425-1428.
-
(1990)
Science
, vol.249
, pp. 1425-1428
-
-
Joseph, D.1
Petsko, G.A.2
Karplus, M.3
-
35
-
-
18444386228
-
Crystal structure of human cytosolic phosphoenolpyruvate carboxykinase reveals a new GTP-binding site
-
Dunten P, et al. (2002) Crystal structure of human cytosolic phosphoenolpyruvate carboxykinase reveals a new GTP-binding site. J Mol Biol 316:257-264.
-
(2002)
J Mol Biol
, vol.316
, pp. 257-264
-
-
Dunten, P.1
-
36
-
-
21844443838
-
Crystal structure of Anaerobiospirillum succiniciproducens PEP carboxykinase reveals an important active site loop
-
Cotelesage JJH, Prasad L, Zeikus JG, Laivenieks M, Delbaere LTJ (2005) Crystal structure of Anaerobiospirillum succiniciproducens PEP carboxykinase reveals an important active site loop. Int J Biochem Cell Biol 37:1829.
-
(2005)
Int J Biochem Cell Biol
, vol.37
, pp. 1829
-
-
Cotelesage, J.J.H.1
Prasad, L.2
Zeikus, J.G.3
Laivenieks, M.4
Delbaere, L.T.J.5
-
37
-
-
0016255660
-
Kinetic and magnetic resonance studies of the interaction of oxalate with pyruvate kinase
-
Reed GH, Morgan SD (1974) Kinetic and magnetic resonance studies of the interaction of oxalate with pyruvate kinase. Biochemistry 13:3537-3541.
-
(1974)
Biochemistry
, vol.13
, pp. 3537-3541
-
-
Reed, G.H.1
Morgan, S.D.2
-
38
-
-
0016232066
-
Catalysis, binding and enzyme-substrate complementarity
-
Fersht AR (1974) Catalysis, binding and enzyme-substrate complementarity. Proc R Soc Lond B Biol Sci 187:397-407.
-
(1974)
Proc R Soc Lond B Biol Sci
, vol.187
, pp. 397-407
-
-
Fersht, A.R.1
-
39
-
-
0345894320
-
Active site loop motion in triosephosphate isomerase: T-jump relaxation spectroscopy of thermal activation
-
Desamero R, Rozovsky S, Zhadin N, McDermott A, Callender R (2003) Active site loop motion in triosephosphate isomerase: T-jump relaxation spectroscopy of thermal activation. Biochemistry 42:2941-2951.
-
(2003)
Biochemistry
, vol.42
, pp. 2941-2951
-
-
Desamero, R.1
Rozovsky, S.2
Zhadin, N.3
McDermott, A.4
Callender, R.5
-
40
-
-
0028049327
-
Dynamics of a flexible loop in dihydrofolate reductase from Escherichia coli and its implication for catalysis
-
Falzone CJ, Wright PE, Benkovic SJ (1994) Dynamics of a flexible loop in dihydrofolate reductase from Escherichia coli and its implication for catalysis. Biochemistry 33:439-442.
-
(1994)
Biochemistry
, vol.33
, pp. 439-442
-
-
Falzone, C.J.1
Wright, P.E.2
Benkovic, S.J.3
-
41
-
-
0023187070
-
The use of site-directed mutagenesis and time-resolved fluorescence spectroscopy to assign the fluorescence contributions of individual tryptophan residues in Bacillus stearothermophilus lactate dehydrogenase
-
Waldman AD, et al. (1987) The use of site-directed mutagenesis and time-resolved fluorescence spectroscopy to assign the fluorescence contributions of individual tryptophan residues in Bacillus stearothermophilus lactate dehydrogenase. Biochim Biophys Acta 913:66-71.
-
(1987)
Biochim Biophys Acta
, vol.913
, pp. 66-71
-
-
Waldman, A.D.1
-
42
-
-
0033524485
-
Motional dynamics of the catalytic loop in OMP synthase
-
Wang GP, Cahill SM, Liu X, Girvin ME, Grubmeyer C (1999) Motional dynamics of the catalytic loop in OMP synthase. Biochemistry 38:284-295.
-
(1999)
Biochemistry
, vol.38
, pp. 284-295
-
-
Wang, G.P.1
Cahill, S.M.2
Liu, X.3
Girvin, M.E.4
Grubmeyer, C.5
-
43
-
-
0029000872
-
Dynamics of the flexible loop of triosephosphate isomerase: The loop motion is not ligand gated
-
Williams JC, McDermott AE (1995) Dynamics of the flexible loop of triosephosphate isomerase: The loop motion is not ligand gated. Biochemistry 34:8309-8319.
-
(1995)
Biochemistry
, vol.34
, pp. 8309-8319
-
-
Williams, J.C.1
McDermott, A.E.2
-
44
-
-
36749008588
-
Large-scale allosteric conformational transitions of adenylate kinase appear to involve a population-shift mechanism
-
Arora K, Brooks CL, III. (2007) Large-scale allosteric conformational transitions of adenylate kinase appear to involve a population-shift mechanism. Proc Natl Acad Sci USA 104:18496-18501.
-
(2007)
Proc Natl Acad Sci USA
, vol.104
, pp. 18496-18501
-
-
Arora, K.1
Brooks III, C.L.2
-
45
-
-
0023702575
-
A unifying model of the thermodynamics of formation of dehydrogenase-ligand complexes
-
Fisher HF (1988) A unifying model of the thermodynamics of formation of dehydrogenase-ligand complexes. Adv Enzymol Relat Areas Mol Biol 61:1-46.
-
(1988)
Adv Enzymol Relat Areas Mol Biol
, vol.61
, pp. 1-46
-
-
Fisher, H.F.1
-
46
-
-
0016624901
-
Binding energy, specificity, and enzymic catalysis: The circe effect
-
Jencks WP (1975) Binding energy, specificity, and enzymic catalysis: The circe effect. Adv Enzymol Relat Areas Mol Biol 43:219-410.
-
(1975)
Adv Enzymol Relat Areas Mol Biol
, vol.43
, pp. 219-410
-
-
Jencks, W.P.1
-
48
-
-
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
-
49
-
-
0000560808
-
MOLREP: An automated program for molecular replacement
-
Vagin A, Teplyakov A (1997) MOLREP: An automated program for molecular replacement. J Appl Crystallogr 30:1022-1025.
-
(1997)
J Appl Crystallogr
, vol.30
, pp. 1022-1025
-
-
Vagin, A.1
Teplyakov, A.2
-
50
-
-
0028103275
-
The Ccp4 Suite: Programs for protein crystallography
-
Bailey S (1994) The Ccp4 Suite: Programs for protein crystallography. Acta Crystallogr D50:760-763.
-
(1994)
Acta Crystallogr
, vol.D50
, pp. 760-763
-
-
Bailey, S.1
-
51
-
-
13244281317
-
Coot: Model-building tools for molecular graphics
-
Emsley P, and Cowtan K (2004) Coot: Model-building tools for molecular graphics. Acta Crystallogr D60: 2126-2132.
-
(2004)
Acta Crystallogr
, vol.D60
, pp. 2126-2132
-
-
Emsley, P.1
Cowtan, K.2
-
52
-
-
33646260450
-
Optimal description of a protein structure in terms of multiple groups undergoing TLS motion
-
Painter J, Merritt EA (2006) Optimal description of a protein structure in terms of multiple groups undergoing TLS motion. Acta Crystallogr D62:439-450.
-
(2006)
Acta Crystallogr
, vol.D62
, pp. 439-450
-
-
Painter, J.1
Merritt, E.A.2
-
53
-
-
33645158291
-
TLSMD web server for the generation of multi-group TLS models
-
Painter J, Merritt EA (2006) TLSMD web server for the generation of multi-group TLS models. J Appl Crystallogr 39:109-111.
-
(2006)
J Appl Crystallogr
, vol.39
, pp. 109-111
-
-
Painter, J.1
Merritt, E.A.2
|