-
2
-
-
0032479524
-
Complete structure of the 11-subunit bovine mitochondrial cytochrome bc1 complex
-
Iwata S, et al. (1998) Complete structure of the 11-subunit bovine mitochondrial cytochrome bc1 complex. Science 281(5373):64-71
-
(1998)
Science
, vol.281
, Issue.5373
, pp. 64-71
-
-
Iwata, S.1
-
3
-
-
0036001159
-
Structural basis of perturbed pKa values of catalytic groups in enzyme active sites
-
Harris TK, Turner GJ (2002) Structural basis of perturbed pKa values of catalytic groups in enzyme active sites. IUBMB Life 53(2):85-98
-
(2002)
IUBMB Life
, vol.53
, Issue.2
, pp. 85-98
-
-
Harris, T.K.1
Turner, G.J.2
-
4
-
-
0000230329
-
Energetics of enzyme catalysis
-
Warshel A (1978) Energetics of enzyme catalysis. Proc Natl Acad Sci USA 75(11): 5250-5254
-
(1978)
Proc Natl Acad Sci USA
, vol.75
, Issue.11
, pp. 5250-5254
-
-
Warshel, A.1
-
5
-
-
0032500555
-
Solvation, reorganization energy, and biological catalysis
-
Cannon WR, Benkovic SJ (1998) Solvation, reorganization energy, and biological catalysis. J Biol Chem 273(41):26257-26260
-
(1998)
J Biol Chem
, vol.273
, Issue.41
, pp. 26257-26260
-
-
Cannon, W.R.1
Benkovic, S.J.2
-
6
-
-
45549107077
-
Electrostatic basis for the unidirectionality of the primary proton transfer in cytochrome c oxidase
-
Pisliakov AV, Sharma PK, Chu ZT, Haranczyk M, Warshel A (2008) Electrostatic basis for the unidirectionality of the primary proton transfer in cytochrome c oxidase. Proc Natl Acad Sci USA 105(22):7726-7731
-
(2008)
Proc Natl Acad Sci USA
, vol.105
, Issue.22
, pp. 7726-7731
-
-
Pisliakov, A.V.1
Sharma, P.K.2
Chu, Z.T.3
Haranczyk, M.4
Warshel, A.5
-
7
-
-
79960546899
-
Structural-functional role of chloride in photosystem II
-
Rivalta I, et al. (2011) Structural-functional role of chloride in photosystem II. Biochemistry 50(29):6312-6315
-
(2011)
Biochemistry
, vol.50
, Issue.29
, pp. 6312-6315
-
-
Rivalta, I.1
-
8
-
-
0028204490
-
Do salt bridges stabilize proteins? A continuum electrostatic analysis
-
Hendsch ZS, Tidor B (1994) Do salt bridges stabilize proteins? A continuum electrostatic analysis. Protein Sci 3(2):211-226
-
(1994)
Protein Sci
, vol.3
, Issue.2
, pp. 211-226
-
-
Hendsch, Z.S.1
Tidor, B.2
-
9
-
-
77958001543
-
Charges in the hydrophobic interior of proteins
-
Isom DG, Castañeda CA, Cannon BR, Velu PD, García-Moreno E B (2010) Charges in the hydrophobic interior of proteins. Proc Natl Acad Sci USA 107(37):16096-16100
-
(2010)
Proc Natl Acad Sci USA
, vol.107
, Issue.37
, pp. 16096-16100
-
-
Isom, D.G.1
Castañeda, C.A.2
Cannon, B.R.3
Velu, P.D.4
García-Moreno, E.B.5
-
10
-
-
79955092337
-
Large shifts in pKa values of lysine residues buried inside a protein
-
Isom DG, Castañeda CA, Cannon BR, García-Moreno E B (2011) Large shifts in pKa values of lysine residues buried inside a protein. Proc Natl Acad Sci USA 108(13): 5260-5265
-
(2011)
Proc Natl Acad Sci USA
, vol.108
, Issue.13
, pp. 5260-5265
-
-
Isom, D.G.1
Castañeda, C.A.2
Cannon, B.R.3
García-Moreno, E.B.4
-
11
-
-
0033850087
-
High apparent dielectric constants in the interior of a protein reflect water penetration
-
Dwyer JJ, et al. (2000) High apparent dielectric constants in the interior of a protein reflect water penetration. Biophys J 79(3):1610-1620
-
(2000)
Biophys J
, vol.79
, Issue.3
, pp. 1610-1620
-
-
Dwyer, J.J.1
-
12
-
-
0040321024
-
Experimental measurement of the effective dielectric in the hydrophobic core of a protein
-
García-Moreno E B, et al. (1997) Experimental measurement of the effective dielectric in the hydrophobic core of a protein. Biophys Chem 64(1-3):211-224
-
(1997)
Biophys Chem
, vol.64
, Issue.1-3
, pp. 211-224
-
-
García-Moreno, E.B.1
-
13
-
-
56649102324
-
High tolerance for ionizable residues in the hydrophobic interior of proteins
-
Isom DG, Cannon BR, Castañeda CA, Robinson A, García-Moreno E B (2008) High tolerance for ionizable residues in the hydrophobic interior of proteins. Proc Natl Acad Sci USA 105(46):17784-17788
-
(2008)
Proc Natl Acad Sci USA
, vol.105
, Issue.46
, pp. 17784-17788
-
-
Isom, D.G.1
Cannon, B.R.2
Castañeda, C.A.3
Robinson, A.4
García-Moreno, E.B.5
-
14
-
-
0035451052
-
What are the dielectric "constants" of proteins and how to validate electrostatic models
-
Schutz CN, Warshel A (2001) What are the dielectric "constants" of proteins and how to validate electrostatic models? Proteins 44(4):400-417
-
(2001)
Proteins
, vol.44
, Issue.4
, pp. 400-417
-
-
Schutz, C.N.1
Warshel, A.2
-
15
-
-
67349203635
-
The pK(a) values of acidic and basic residues buried at the same internal location in a protein are governed by different factors
-
Harms MJ, et al. (2009) The pK(a) values of acidic and basic residues buried at the same internal location in a protein are governed by different factors. J Mol Biol 389(1):34-47
-
(2009)
J Mol Biol
, vol.389
, Issue.1
, pp. 34-47
-
-
Harms, M.J.1
-
16
-
-
70349307220
-
Molecular determinants of the pKa values of Asp and Glu residues in staphylococcal nuclease
-
Castañeda CA, et al. (2009) Molecular determinants of the pKa values of Asp and Glu residues in staphylococcal nuclease. Proteins 77(3):570-588
-
(2009)
Proteins
, vol.77
, Issue.3
, pp. 570-588
-
-
Castañeda, C.A.1
-
18
-
-
0028305457
-
Prediction of pH-dependent properties of proteins
-
Antosiewicz J, McCammon JA, Gilson MK (1994) Prediction of pH-dependent properties of proteins. J Mol Biol 238(3):415-436
-
(1994)
J Mol Biol
, vol.238
, Issue.3
, pp. 415-436
-
-
Antosiewicz, J.1
Mc Cammon, J.A.2
Gilson, M.K.3
-
19
-
-
62149122220
-
Progress in ab initio QM/MM freeenergy simulations of electrostatic energies in proteins: Accelerated QM/MM studies of pKa, redox reactions and solvation free energies
-
Kamerlin SCL, Haranczyk M, Warshel A (2009) Progress in ab initio QM/MM freeenergy simulations of electrostatic energies in proteins: Accelerated QM/MM studies of pKa, redox reactions and solvation free energies. J Phys Chem B 113(5):1253-1272
-
(2009)
J Phys Chem B
, vol.113
, Issue.5
, pp. 1253-1272
-
-
Kamerlin, S.C.L.1
Haranczyk, M.2
Warshel, A.3
-
20
-
-
84961973436
-
Theoretical studies of salt-bridge formation by amino acid side chains in low and medium polarity environments
-
Nagy PI, Erhardt PW (2010) Theoretical studies of salt-bridge formation by amino acid side chains in low and medium polarity environments. J Phys Chem B 114(49):16436-16442
-
(2010)
J Phys Chem B
, vol.114
, Issue.49
, pp. 16436-16442
-
-
Nagy, P.I.1
Erhardt, P.W.2
-
21
-
-
84861960391
-
Structural reorganization triggered by charging of Lys residues in the hydrophobic interior of a protein
-
Chimenti MS, et al. (2012) Structural reorganization triggered by charging of Lys residues in the hydrophobic interior of a protein. Structure 20(6):1071-1085
-
(2012)
Structure
, vol.20
, Issue.6
, pp. 1071-1085
-
-
Chimenti, M.S.1
-
22
-
-
0029977512
-
Mobile unnatural amino acid side chains in the core of staphylococcal nuclease
-
Wynn R, Harkins PC, Richards FM, Fox RO (1996) Mobile unnatural amino acid side chains in the core of staphylococcal nuclease. Protein Sci 5(6):1026-1031
-
(1996)
Protein Sci
, vol.5
, Issue.6
, pp. 1026-1031
-
-
Wynn, R.1
Harkins, P.C.2
Richards, F.M.3
Fox, R.O.4
-
23
-
-
0016400371
-
Carbon-13 nuclear magnetic resonance titration shifts in amino acids
-
Quirt AR, et al. (1974) Carbon-13 nuclear magnetic resonance titration shifts in amino acids. J Am Chem Soc 96(2):570-574
-
(1974)
J Am Chem Soc
, vol.96
, Issue.2
, pp. 570-574
-
-
Quirt, A.R.1
-
24
-
-
78650906637
-
Structural origins of high apparent dielectric constants experienced by ionizable groups in the hydrophobic core of a protein
-
ChimentiMS, Castañeda CA, Majumdar A, García-Moreno E B (2011) Structural origins of high apparent dielectric constants experienced by ionizable groups in the hydrophobic core of a protein. J Mol Biol 405(2):361-377
-
(2011)
J Mol Biol
, vol.405
, Issue.2
, pp. 361-377
-
-
Chimenti, M.S.1
Castañeda, C.A.2
Majumdar, A.3
García-Moreno, E.B.4
-
25
-
-
0031283399
-
Complete measurement of the pKa values of the carboxyl and imidazole groups in Bacillus circulans xylanase
-
Joshi MD, Hedberg A, McIntosh LP (1997) Complete measurement of the pKa values of the carboxyl and imidazole groups in Bacillus circulans xylanase. Protein Sci 6(12): 2667-2670
-
(1997)
Protein Sci
, vol.6
, Issue.12
, pp. 2667-2670
-
-
Joshi, M.D.1
Hedberg, A.2
Mc Intosh, L.P.3
-
26
-
-
0028232021
-
Individual ionization constants of all the carboxyl groups in ribonuclease HI from Escherichia coli determined by NMR
-
Oda Y, et al. (1994) Individual ionization constants of all the carboxyl groups in ribonuclease HI from Escherichia coli determined by NMR. Biochemistry 33(17): 5275-5284
-
(1994)
Biochemistry
, vol.33
, Issue.17
, pp. 5275-5284
-
-
Oda, Y.1
-
27
-
-
0021504608
-
The use of double mutants to detect structural changes in the active site of the tyrosyl-tRNA synthetase (Bacillus stearothermophilus
-
Carter PJ, Winter G, Wilkinson AJ, Fersht AR (1984) The use of double mutants to detect structural changes in the active site of the tyrosyl-tRNA synthetase (Bacillus stearothermophilus). Cell 38(3):835-840
-
(1984)
Cell
, vol.38
, Issue.3
, pp. 835-840
-
-
Carter, P.J.1
Winter, G.2
Wilkinson, A.J.3
Fersht, A.R.4
-
28
-
-
81055154363
-
Arginine residues at internal positions in a protein are always charged
-
Harms MJ, Schlessman JL, Sue GR, García-Moreno E B (2011) Arginine residues at internal positions in a protein are always charged. Proc Natl Acad Sci USA 108(47): 18954-18959
-
(2011)
Proc Natl Acad Sci USA
, vol.108
, Issue.47
, pp. 18954-18959
-
-
Harms, M.J.1
Schlessman, J.L.2
Sue, G.R.3
García-Moreno, E.B.4
-
30
-
-
0032475836
-
The low barrier hydrogen bond in enzymatic catalysis
-
Cleland WW, Frey PA, Gerlt JA (1998) The low barrier hydrogen bond in enzymatic catalysis. J Biol Chem 273(40):25529-25532
-
(1998)
J Biol Chem
, vol.273
, Issue.40
, pp. 25529-25532
-
-
Cleland, W.W.1
Frey, P.A.2
Gerlt, J.A.3
-
31
-
-
0028030684
-
Low-barrier hydrogen bonds and enzymic catalysis
-
Cleland WW, Kreevoy MM (1994) Low-barrier hydrogen bonds and enzymic catalysis. Science 264(5167):1887-1890
-
(1994)
Science
, vol.264
, Issue.5167
, pp. 1887-1890
-
-
Cleland, W.W.1
Kreevoy, M.M.2
-
32
-
-
0031127432
-
Understanding enzymic catalysis: The importance of short, strong hydrogen bonds
-
Gerlt JA, Kreevoy MM, Cleland W, Frey PA (1997) Understanding enzymic catalysis: The importance of short, strong hydrogen bonds. Chem Biol 4(4):259-267
-
(1997)
Chem Biol
, vol.4
, Issue.4
, pp. 259-267
-
-
Gerlt, J.A.1
Kreevoy, M.M.2
Cleland, W.3
Frey, P.A.4
-
33
-
-
0029040169
-
On low-barrier hydrogen bonds and enzyme catalysis
-
Warshel A, Papazyan A, Kollman PA, Cleland WW (1995) On low-barrier hydrogen bonds and enzyme catalysis. Science 269(5220):102-106
-
(1995)
Science
, vol.269
, Issue.5220
, pp. 102-106
-
-
Warshel, A.1
Papazyan, A.2
Kollman, P.A.3
Cleland, W.W.4
-
34
-
-
0025234587
-
PH-induced denaturation of proteins: A single salt bridge contributes 3-5 kcal/mol to the free energy of folding of T4 lysozyme
-
Anderson DE, Becktel WJ, Dahlquist FW (1990) pH-induced denaturation of proteins: A single salt bridge contributes 3-5 kcal/mol to the free energy of folding of T4 lysozyme. Biochemistry 29(9):2403-2408
-
(1990)
Biochemistry
, vol.29
, Issue.9
, pp. 2403-2408
-
-
Anderson, D.E.1
Becktel, W.J.2
Dahlquist, F.W.3
-
35
-
-
0029564595
-
Are buried salt bridges important for protein stability and conformational specificity
-
Waldburger CD, Schildbach JF, Sauer RT (1995) Are buried salt bridges important for protein stability and conformational specificity? Nat Struct Biol 2(2):122-128
-
(1995)
Nat Struct Biol
, vol.2
, Issue.2
, pp. 122-128
-
-
Waldburger, C.D.1
Schildbach, J.F.2
Sauer, R.T.3
-
36
-
-
1242299059
-
Protein stabilization by salt bridges: Concepts, experimental approaches and clarification of some misunderstandings
-
Bosshard HR, Marti DN, Jelesarov I (2004) Protein stabilization by salt bridges: Concepts, experimental approaches and clarification of some misunderstandings. J Mol Recognit 17(1):1-16
-
(2004)
J Mol Recognit
, vol.17
, Issue.1
, pp. 1-16
-
-
Bosshard, H.R.1
Marti, D.N.2
Jelesarov, I.3
-
37
-
-
0023645866
-
What about protein polarity
-
Warshel A (1987) What about protein polarity? Nature 330(6143):15-16
-
(1987)
Nature
, vol.330
, Issue.6143
, pp. 15-16
-
-
Warshel, A.1
-
38
-
-
39649113537
-
Generation of nucleophilic character in the Cys25/His159 ion pair of papain involves Trp177 but not Asp158
-
Gul S, et al. (2008) Generation of nucleophilic character in the Cys25/His159 ion pair of papain involves Trp177 but not Asp158. Biochemistry 47(7):2025-2035
-
(2008)
Biochemistry
, vol.47
, Issue.7
, pp. 2025-2035
-
-
Gul, S.1
-
39
-
-
4243518910
-
Influence of the pK(a) value of the buried, active-site cysteine on the redox properties of thioredoxin-like oxidoreductases
-
Mössner E, Iwai H, Glockshuber R (2000) Influence of the pK(a) value of the buried, active-site cysteine on the redox properties of thioredoxin-like oxidoreductases. FEBS Lett 477(1-2):21-26
-
(2000)
FEBS Lett
, vol.477
, Issue.1-2
, pp. 21-26
-
-
Mössner, E.1
Iwai, H.2
Glockshuber, R.3
-
40
-
-
84887711854
-
Uncovering the determinants of a highly perturbed tyrosine pKa in the active site of ketosteroid isomerase
-
Schwans JP, Sunden F, Gonzalez A, Tsai Y, Herschlag D (2013) Uncovering the determinants of a highly perturbed tyrosine pKa in the active site of ketosteroid isomerase. Biochemistry 52(44):7840-7855
-
(2013)
Biochemistry
, vol.52
, Issue.44
, pp. 7840-7855
-
-
Schwans, J.P.1
Sunden, F.2
Gonzalez, A.3
Tsai, Y.4
Herschlag, D.5
-
41
-
-
84867093396
-
Engineering a model protein cavity to catalyze the Kemp elimination
-
Merski M, Shoichet BK (2012) Engineering a model protein cavity to catalyze the Kemp elimination. Proc Natl Acad Sci USA 109(40):16179-16183
-
(2012)
Proc Natl Acad Sci USA
, vol.109
, Issue.40
, pp. 16179-16183
-
-
Merski, M.1
Shoichet, B.K.2
-
42
-
-
0028103275
-
Collaborative Computational Project Number 4 1994 the CCP4 suite: Programs for protein crystallography
-
Bailey S; Collaborative Computational Project, Number 4 (1994) The CCP4 suite: Programs for protein crystallography. Acta Crystallogr D Biol Crystallogr 50(Pt 5): 760-763
-
Acta Crystallogr D Biol Crystallogr
, vol.50
, Issue.PART 5
, pp. 760-763
-
-
Bailey, S.1
-
43
-
-
13244281317
-
Coot: Model-building tools for molecular graphics
-
Pt 1
-
Emsley P, Cowtan K (2004) Coot: Model-building tools for molecular graphics. Acta Crystallogr D Biol Crystallogr 60(Pt 12 Pt 1):2126-2132
-
(2004)
Acta Crystallogr D Biol Crystallogr
, vol.60
, Issue.PART 12
, pp. 2126-2132
-
-
Emsley, P.1
Cowtan, K.2
-
44
-
-
0029400480
-
NMRPipe: A multidimensional spectral processing system based on UNIX pipes
-
Delaglio F, et al. (1995) NMRPipe: A multidimensional spectral processing system based on UNIX pipes. J Biomol NMR 6(3):277-293
-
(1995)
J Biomol NMR
, vol.6
, Issue.3
, pp. 277-293
-
-
Delaglio, F.1
-
45
-
-
84905996335
-
-
Sparky 3 (Univ of California, San Francisco
-
Goddard T, Kneller D (2008) Sparky 3 (Univ of California, San Francisco
-
(2008)
-
-
Goddard, T.1
Kneller, D.2
-
46
-
-
80052318273
-
Thermodynamic principles for the engineering of pH-driven conformational switches and acid insensitive proteins
-
Bell-Upp P, et al. (2011) Thermodynamic principles for the engineering of pH-driven conformational switches and acid insensitive proteins. Biophys Chem 159(1):217-226.
-
(2011)
Biophys Chem
, vol.159
, Issue.1
, pp. 217-226
-
-
Bell-Upp, P.1
|