-
1
-
-
33646145955
-
PK values of the ionizable groups of proteins
-
Thurlkill, R. L.; Grimsley, G. R.; Scholtz, J. M.; Pace, C. N. pK values of the ionizable groups of proteins Protein Sci. 2006, 15, 1214-1218
-
(2006)
Protein Sci.
, vol.15
, pp. 1214-1218
-
-
Thurlkill, R.L.1
Grimsley, G.R.2
Scholtz, J.M.3
Pace, C.N.4
-
2
-
-
23844522011
-
Prediction and rationalization of protein pKa values using QM and QM/MM methods
-
Jensen, J. H.; Li, H.; Robertson, A. D.; Molina, P. A. Prediction and rationalization of protein pKa values using QM and QM/MM methods J. Phys. Chem. A 2005, 109, 6634-6643
-
(2005)
J. Phys. Chem. A
, vol.109
, pp. 6634-6643
-
-
Jensen, J.H.1
Li, H.2
Robertson, A.D.3
Molina, P.A.4
-
3
-
-
28644432877
-
Very fast empirical prediction and rationalization of protein pKa values
-
Li, H.; Robertson, A. D.; Jensen, J. H. Very fast empirical prediction and rationalization of protein pKa values Proteins 2005, 61, 704-721
-
(2005)
Proteins
, vol.61
, pp. 704-721
-
-
Li, H.1
Robertson, A.D.2
Jensen, J.H.3
-
4
-
-
57349090665
-
Very fast prediction and rationalization of pKa values for protein-ligand complexes
-
Bas, D. C.; Rogers, D. M.; Jensen, J. H. Very fast prediction and rationalization of pKa values for protein-ligand complexes Proteins 2008, 73, 765-783
-
(2008)
Proteins
, vol.73
, pp. 765-783
-
-
Bas, D.C.1
Rogers, D.M.2
Jensen, J.H.3
-
5
-
-
79951476387
-
PROPKA3: Consistent Treatment of Internal and Surface Residues in Empirical p Ka Predictions
-
Olsson, M. H. M.; Søndergaard, C. R.; Rostkowski, M.; Jensen, J. H. PROPKA3: Consistent Treatment of Internal and Surface Residues in Empirical p Ka Predictions J. Chem. Theory Comput. 2011, 7, 525-537
-
(2011)
J. Chem. Theory Comput.
, vol.7
, pp. 525-537
-
-
Olsson, M.H.M.1
Søndergaard, C.R.2
Rostkowski, M.3
Jensen, J.H.4
-
6
-
-
33748106496
-
Hydrogen bonding markedly reduces the pK of buried carboxyl groups in proteins
-
Thurlkill, R. L.; Grimsley, G. R.; Scholtz, J. M.; Pace, C. N. Hydrogen bonding markedly reduces the pK of buried carboxyl groups in proteins J. Mol. Biol. 2006, 362, 594-604
-
(2006)
J. Mol. Biol.
, vol.362
, pp. 594-604
-
-
Thurlkill, R.L.1
Grimsley, G.R.2
Scholtz, J.M.3
Pace, C.N.4
-
7
-
-
0037474539
-
Charge-Charge Interactions are Key Determinants of the pK Values of Ionizable Groups in Ribonuclease Sa (pI=3.5) and a Basic Variant (pI=10.2)
-
Laurents, D. V.; Huyghues-Despointes, B. M. P.; Bruix, M.; Thurlkill, R. L.; Schell, D.; Newsom, S.; Grimsley, G. R.; Shaw, K. L.; Treviño, S.; Rico, M.; Briggs, J. M.; Antosiewicz, J. M.; Scholtz, J. M.; Pace, C. N. Charge-Charge Interactions are Key Determinants of the pK Values of Ionizable Groups in Ribonuclease Sa (pI=3.5) and a Basic Variant (pI=10.2) J. Mol. Biol. 2003, 325, 1077-1092
-
(2003)
J. Mol. Biol.
, vol.325
, pp. 1077-1092
-
-
Laurents, D.V.1
Huyghues-Despointes, B.M.P.2
Bruix, M.3
Thurlkill, R.L.4
Schell, D.5
Newsom, S.6
Grimsley, G.R.7
Shaw, K.L.8
Treviño, S.9
Rico, M.10
Briggs, J.M.11
Antosiewicz, J.M.12
Scholtz, J.M.13
Pace, C.N.14
-
8
-
-
79955092337
-
Large shifts in pKa values of lysine residues buried inside a protein
-
Isom, D. G.; Castaneda, C. A.; Cannon, B. R.; Garcia-Moreno, B. Large shifts in pKa values of lysine residues buried inside a protein Proc. Natl. Acad. Sci. U. S. A. 2011, 108, 5260-5265
-
(2011)
Proc. Natl. Acad. Sci. U. S. A.
, vol.108
, pp. 5260-5265
-
-
Isom, D.G.1
Castaneda, C.A.2
Cannon, B.R.3
Garcia-Moreno, B.4
-
9
-
-
2942677105
-
The determinants of carboxyl pKa values in turkey ovomucoid third domain
-
Li, H.; Robertson, A. D.; Jensen, J. H. The determinants of carboxyl pKa values in turkey ovomucoid third domain Proteins 2004, 55, 689-704
-
(2004)
Proteins
, vol.55
, pp. 689-704
-
-
Li, H.1
Robertson, A.D.2
Jensen, J.H.3
-
10
-
-
34547557897
-
On the NMR analysis of pKa values in the unfolded state of proteins by extrapolation to zero denaturant
-
Quijada, J.; Lopez, G.; Versace, R.; Ramirez, L.; Tasayco, M. L. On the NMR analysis of pKa values in the unfolded state of proteins by extrapolation to zero denaturant Biophys. Chem. 2007, 129, 242-250
-
(2007)
Biophys. Chem.
, vol.129
, pp. 242-250
-
-
Quijada, J.1
Lopez, G.2
Versace, R.3
Ramirez, L.4
Tasayco, M.L.5
-
11
-
-
44349142271
-
Electrostatic effects in a network of polar and ionizable groups in staphylococcal nuclease
-
Baran, K. L.; Chimenti, M. S.; Schlessman, J. L.; Fitch, C. A.; Herbst, K. J.; Garcia- Moreno, B. E. Electrostatic effects in a network of polar and ionizable groups in staphylococcal nuclease J. Mol. Biol. 2008, 379, 1045-1062
-
(2008)
J. Mol. Biol.
, vol.379
, pp. 1045-1062
-
-
Baran, K.L.1
Chimenti, M.S.2
Schlessman, J.L.3
Fitch, C.A.4
Herbst, K.J.5
Garcia- Moreno, B.E.6
-
12
-
-
0036099192
-
Experimental pKa Values of Buried Residues: Analysis with Continuum Methods and Role ofWater Penetration
-
Fitch, C. A.; Karp, D. A.; Lee, K. K.; Stites, W. E.; Lattman, E. E.; García-Moreno, E. B. Experimental pKa Values of Buried Residues: Analysis with Continuum Methods and Role ofWater Penetration Biophys. J. 2002, 82, 3289-3304
-
(2002)
Biophys. J.
, vol.82
, pp. 3289-3304
-
-
Fitch, C.A.1
Karp, D.A.2
Lee, K.K.3
Stites, W.E.4
Lattman, E.E.5
García-Moreno, E.B.6
-
13
-
-
57049161455
-
Cysteine pK(a) values for the bacterial peroxiredoxin AhpC
-
Nelson, K. J.; Parsonage, D.; Hall, A.; Karplus, P. A.; Poole, L. B. Cysteine pK(a) values for the bacterial peroxiredoxin AhpC Biochemistry 2008, 47, 12860-12868
-
(2008)
Biochemistry
, vol.47
, pp. 12860-12868
-
-
Nelson, K.J.1
Parsonage, D.2
Hall, A.3
Karplus, P.A.4
Poole, L.B.5
-
14
-
-
58149476769
-
A summary of the measured pK values of the ionizable groups in folded proteins
-
Grimsley, G. R.; Scholtz, J. M.; Pace, C. N. A summary of the measured pK values of the ionizable groups in folded proteins Protein Sci. 2009, 18, 247-251
-
(2009)
Protein Sci.
, vol.18
, pp. 247-251
-
-
Grimsley, G.R.1
Scholtz, J.M.2
Pace, C.N.3
-
15
-
-
0033954256
-
The Protein Data Bank
-
Berman, H. M.; Westbrook, J.; Feng, Z.; Gilliland, G.; Bhat, T. N.; Weissig, H.; Shindyalov, I. N.; Bourne, P. E. The Protein Data Bank Nucleic Acids Res. 2000, 28, 235-242
-
(2000)
Nucleic Acids Res.
, vol.28
, pp. 235-242
-
-
Berman, H.M.1
Westbrook, J.2
Feng, Z.3
Gilliland, G.4
Bhat, T.N.5
Weissig, H.6
Shindyalov, I.N.7
Bourne, P.E.8
-
16
-
-
84869093036
-
Accurate pKa calculations for trimethylaminium ion with a variety of basis sets and methods combined with CPCM continuum solvation methods
-
Abul Kashem Liton, M.; Idrish Ali, M.; Tanvir Hossain, M. Accurate pKa calculations for trimethylaminium ion with a variety of basis sets and methods combined with CPCM continuum solvation methods Comput. Theor. Chem. 2012, 999, 1-6
-
(2012)
Comput. Theor. Chem.
, vol.999
, pp. 1-6
-
-
Abul Kashem Liton, M.1
Idrish Ali, M.2
Tanvir Hossain, M.3
-
17
-
-
37449017389
-
Accurate calculation of the pKa of trifluoroacetic acid using high-level ab initio calculations
-
Namazian, M.; Zakery, M.; Noorbala, M. R.; Coote, M. L. Accurate calculation of the pKa of trifluoroacetic acid using high-level ab initio calculations Chem. Phys. Lett. 2008, 451, 163-168
-
(2008)
Chem. Phys. Lett.
, vol.451
, pp. 163-168
-
-
Namazian, M.1
Zakery, M.2
Noorbala, M.R.3
Coote, M.L.4
-
19
-
-
0036385817
-
Calculation of aqueous dissociation constants of 1,2,4-triazole and tetrazole: A comparison of solvation modelsElectronic supplementary information (ESI) available: Calculated coordinates, atomic radii and charges of 1,2,4-triazole and tetrazole
-
Satchell, J. F.; Smith, B. J. Calculation of aqueous dissociation constants of 1,2,4-triazole and tetrazole: A comparison of solvation modelsElectronic supplementary information (ESI) available: Calculated coordinates, atomic radii and charges of 1,2,4-triazole and tetrazole Phys. Chem. Chem. Phys. 2002, 4, 4314-4318
-
(2002)
Phys. Chem. Chem. Phys.
, vol.4
, pp. 4314-4318
-
-
Satchell, J.F.1
Smith, B.J.2
-
21
-
-
0037026962
-
Comparison of different atomic charge schemes for predicting pKa variations in substituted anilines and phenols
-
Gross, K. C.; Seybold, P. G.; Hadad, C. M. Comparison of different atomic charge schemes for predicting pKa variations in substituted anilines and phenols Int. J. Quantum Chem. 2002, 90, 445-458
-
(2002)
Int. J. Quantum Chem.
, vol.90
, pp. 445-458
-
-
Gross, K.C.1
Seybold, P.G.2
Hadad, C.M.3
-
22
-
-
0030970305
-
Simulation of protein conformational freedom as a function of pH: Constant-pH molecular dynamics using implicit titration
-
Baptista, A. M.; Martel, P. J.; Petersen, S. B. Simulation of protein conformational freedom as a function of pH: constant-pH molecular dynamics using implicit titration Proteins: Struct., Funct., Genet. 1997, 27, 523-544
-
(1997)
Proteins: Struct., Funct., Genet.
, vol.27
, pp. 523-544
-
-
Baptista, A.M.1
Martel, P.J.2
Petersen, S.B.3
-
23
-
-
77953905304
-
Predicting pKa values with continuous constant pH molecular dynamics
-
Wallace, J. A.; Shen, J. K. Predicting pKa values with continuous constant pH molecular dynamics Methods Enzymol. 2009, 466, 455-475
-
(2009)
Methods Enzymol.
, vol.466
, pp. 455-475
-
-
Wallace, J.A.1
Shen, J.K.2
-
24
-
-
81055155931
-
PH replica-exchange method based on discrete protonation states
-
Itoh, S. G.; Damjanovic, A.; Brooks, B. R. pH replica-exchange method based on discrete protonation states Proteins 2011, 79, 3420-3436
-
(2011)
Proteins
, vol.79
, pp. 3420-3436
-
-
Itoh, S.G.1
Damjanovic, A.2
Brooks, B.R.3
-
25
-
-
80052803759
-
Computing Alchemical Free Energy Differences with Hamiltonian Replica Exchange Molecular Dynamics (H-REMD) Simulations
-
Meng, Y.; Dashti, D. S.; Roitberg, A. E. Computing Alchemical Free Energy Differences with Hamiltonian Replica Exchange Molecular Dynamics (H-REMD) Simulations J. Chem. Theory Comput. 2011, 7, 2721-2727
-
(2011)
J. Chem. Theory Comput.
, vol.7
, pp. 2721-2727
-
-
Meng, Y.1
Dashti, D.S.2
Roitberg, A.E.3
-
26
-
-
84869051811
-
Enhancing Conformation and Protonation State Sampling of Hen Egg White Lysozyme Using pH Replica Exchange Molecular Dynamics
-
Swails, J. M.; Roitberg, A. E. Enhancing Conformation and Protonation State Sampling of Hen Egg White Lysozyme Using pH Replica Exchange Molecular Dynamics J. Chem. Theory Comput. 2012, 8, 4393-4404
-
(2012)
J. Chem. Theory Comput.
, vol.8
, pp. 4393-4404
-
-
Swails, J.M.1
Roitberg, A.E.2
-
27
-
-
0025197061
-
PKa's of ionizable groups in proteins: Atomic detail from a continuum electrostatic model
-
Bashford, D.; Karplus, M. pKa's of ionizable groups in proteins: atomic detail from a continuum electrostatic model Biochemistry 1990, 29, 10219-10225
-
(1990)
Biochemistry
, vol.29
, pp. 10219-10225
-
-
Bashford, D.1
Karplus, M.2
-
28
-
-
0028305457
-
Prediction of pH-dependent properties of proteins
-
Antosiewicz, J.; McCammon, J. A.; Gilson, M. K. Prediction of pH-dependent properties of proteins J. Mol. Biol. 1994, 238, 415-436
-
(1994)
J. Mol. Biol.
, vol.238
, pp. 415-436
-
-
Antosiewicz, J.1
McCammon, J.A.2
Gilson, M.K.3
-
29
-
-
0029665693
-
The determinants of pKas in proteins
-
Antosiewicz, J.; McCammon, J. A.; Gilson, M. K. The determinants of pKas in proteins Biochemistry 1996, 35, 7819-7833
-
(1996)
Biochemistry
, vol.35
, pp. 7819-7833
-
-
Antosiewicz, J.1
McCammon, J.A.2
Gilson, M.K.3
-
30
-
-
84957665033
-
-
Ishikawa, Y. Oldehoeft, R. Reynders, J. Tholburn, M. Springer: Berlin, Lecture Notes in Computer Science
-
Bashford, D. In Scientific Computing in Object-Oriented Parallel Environments; Ishikawa, Y.; Oldehoeft, R.; Reynders, J.; Tholburn, M., Eds.; Springer: Berlin, 1997; Lecture Notes in Computer Science 1343, pp 233-240.
-
(1997)
Scientific Computing in Object-Oriented Parallel Environments
, vol.1343
, pp. 233-240
-
-
Bashford, D.1
-
32
-
-
84864473993
-
++ 3.0: Automating pK prediction and the preparation of biomolecular structures for atomistic molecular modeling and simulations
-
++ 3.0: automating pK prediction and the preparation of biomolecular structures for atomistic molecular modeling and simulations Nucleic Acids Res. 2012, 40, W537-41
-
(2012)
Nucleic Acids Res.
, vol.40
, pp. 537-541
-
-
Anandakrishnan, R.1
Aguilar, B.2
Onufriev, A.V.3
-
33
-
-
75249103961
-
A reliable and efficient first principles-based method for predicting pK(a) values. 2. Organic acids
-
Zhang, S.; Baker, J.; Pulay, P. A reliable and efficient first principles-based method for predicting pK(a) values. 2. Organic acids J. Phys. Chem. A 2010, 114, 432-442
-
(2010)
J. Phys. Chem. A
, vol.114
, pp. 432-442
-
-
Zhang, S.1
Baker, J.2
Pulay, P.3
-
34
-
-
75249088152
-
A reliable and efficient first principles-based method for predicting pK(a) values. 1. Methodology
-
Zhang, S.; Baker, J.; Pulay, P. A reliable and efficient first principles-based method for predicting pK(a) values. 1. Methodology J. Phys. Chem. A 2010, 114, 425-431
-
(2010)
J. Phys. Chem. A
, vol.114
, pp. 425-431
-
-
Zhang, S.1
Baker, J.2
Pulay, P.3
-
35
-
-
31144438952
-
Origin of the pKa perturbation of N-terminal cysteine in alpha- and 3(10)-helices: A computational DFT study
-
Roos, G.; Loverix, S.; Geerlings, P. Origin of the pKa perturbation of N-terminal cysteine in alpha- and 3(10)-helices: a computational DFT study J. Phys. Chem. B 2006, 110, 557-562
-
(2006)
J. Phys. Chem. B
, vol.110
, pp. 557-562
-
-
Roos, G.1
Loverix, S.2
Geerlings, P.3
-
36
-
-
70049106936
-
How thioredoxin dissociates its mixed disulfide
-
Roos, G.; Foloppe, N.; Van Laer, K.; Wyns, L.; Nilsson, L.; Geerlings, P.; Messens, J. How thioredoxin dissociates its mixed disulfide PLoS Comput. Biol. 2009, 5, e1000461
-
(2009)
PLoS Comput. Biol.
, vol.5
, pp. 1000461
-
-
Roos, G.1
Foloppe, N.2
Van Laer, K.3
Wyns, L.4
Nilsson, L.5
Geerlings, P.6
Messens, J.7
-
37
-
-
84868206533
-
Understanding the pK(a) of redox cysteines: The key role of hydrogen bonding
-
Roos, G.; Foloppe, N.; Messens, J. Understanding the pK(a) of redox cysteines: the key role of hydrogen bonding Antioxid. Redox Signaling 2013, 18, 94-127
-
(2013)
Antioxid. Redox Signaling
, vol.18
, pp. 94-127
-
-
Roos, G.1
Foloppe, N.2
Messens, J.3
-
38
-
-
0000355040
-
Influence of pressure on the ionization of substituted phenols
-
Hamann, S. D.; Linton, M. Influence of pressure on the ionization of substituted phenols J. Chem. Soc., Faraday Trans. 1 1974, 70, 2239-2249
-
(1974)
J. Chem. Soc., Faraday Trans. 1
, vol.70
, pp. 2239-2249
-
-
Hamann, S.D.1
Linton, M.2
-
39
-
-
37049138648
-
Ionic dissociation of 4-substituted phenols and 2,6-dichloro- and 2,6-dimethyl-phenols in organic solvents
-
Fischer, A.; Leary, G. J.; Topsom, R. D.; Vaughan, J. Ionic dissociation of 4-substituted phenols and 2,6-dichloro- and 2,6-dimethyl-phenols in organic solvents J. Chem. Soc. B 1967, 846-851
-
(1967)
J. Chem. Soc. B
, pp. 846-851
-
-
Fischer, A.1
Leary, G.J.2
Topsom, R.D.3
Vaughan, J.4
-
40
-
-
0000024290
-
Hammett Substituent Constants for Electron-withdrawing Substituents: Dissociation of Phenols, Anilinium Ions and Dimethylanilinium Ions
-
Fickling, M. M.; Fischer, A.; Mann, B. R.; Packer, J.; Vaughan, J. Hammett Substituent Constants for Electron-withdrawing Substituents: Dissociation of Phenols, Anilinium Ions and Dimethylanilinium Ions J. Am. Chem. Soc. 1959, 81, 4226-4230
-
(1959)
J. Am. Chem. Soc.
, vol.81
, pp. 4226-4230
-
-
Fickling, M.M.1
Fischer, A.2
Mann, B.R.3
Packer, J.4
Vaughan, J.5
-
41
-
-
0002587695
-
264. Ionization constants of heterocyclic substances. Part II. Hydroxy-derivatives of nitrogenous six-membered ring-compounds
-
Albert, A.; Phillips, J. N. 264. Ionization constants of heterocyclic substances. Part II. Hydroxy-derivatives of nitrogenous six-membered ring-compounds J. Chem. Soc. 1956, 1294-1304
-
(1956)
J. Chem. Soc.
, pp. 1294-1304
-
-
Albert, A.1
Phillips, J.N.2
-
42
-
-
37049135447
-
Thermodynamic acidity constants of orthosubstituted benzenethiols
-
De Maria, P.; Fini, A.; Hall, F. M. Thermodynamic acidity constants of orthosubstituted benzenethiols J. Chem. Soc., Perkin Trans. 2 1974, 1443-1445
-
(1974)
J. Chem. Soc., Perkin Trans. 2
, pp. 1443-1445
-
-
De Maria, P.1
Fini, A.2
Hall, F.M.3
-
43
-
-
2642647072
-
Effects of substituents on the thermodynamic functions of ionisation of meta-substituted phenols
-
Bolton, P. D.; Hall, F. M.; Reece, I. H. Effects of substituents on the thermodynamic functions of ionisation of meta-substituted phenols J. Chem. Soc. B 1967, 709-712
-
(1967)
J. Chem. Soc. B
, pp. 709-712
-
-
Bolton, P.D.1
Hall, F.M.2
Reece, I.H.3
-
45
-
-
0001004445
-
Ionization of Substituted Phenols in Aqueous Solution
-
Ko, H. C.; O'Hara, W. F.; Hu, T.; Hepler, L. G. Ionization of Substituted Phenols in Aqueous Solution J. Am. Chem. Soc. 1964, 86, 1003-1004
-
(1964)
J. Am. Chem. Soc.
, vol.86
, pp. 1003-1004
-
-
Ko, H.C.1
O'Hara, W.F.2
Hu, T.3
Hepler, L.G.4
-
48
-
-
0000623118
-
Calculation of the pKa values of alcohols from.sigma. Constants and from the carbonyl frequencies of their esters
-
Takahashi, S.; Cohen, L. A.; Miller, H. K.; Peake, E. G. Calculation of the pKa values of alcohols from.sigma. constants and from the carbonyl frequencies of their esters J. Org. Chem. 1971, 36, 1205-1209
-
(1971)
J. Org. Chem.
, vol.36
, pp. 1205-1209
-
-
Takahashi, S.1
Cohen, L.A.2
Miller, H.K.3
Peake, E.G.4
-
50
-
-
37049134178
-
Thermodynamic acid dissociation constants of aromatic thiols
-
De Maria, P.; Fini, A.; Hall, F. M. Thermodynamic acid dissociation constants of aromatic thiols J. Chem. Soc., Perkin Trans. 2 1973, 1969-1971
-
(1973)
J. Chem. Soc., Perkin Trans. 2
, pp. 1969-1971
-
-
De Maria, P.1
Fini, A.2
Hall, F.M.3
-
51
-
-
1642391910
-
Inductive Effects on the Acid Dissociation Constants of Mercaptans
-
Kreevoy, M. M.; Harper, E. T.; Duvall, R. E.; Wilgus, H. S., III; Ditsch, L. T. Inductive Effects on the Acid Dissociation Constants of Mercaptans J. Am. Chem. Soc. 1960, 82, 4899-4902
-
(1960)
J. Am. Chem. Soc.
, vol.82
, pp. 4899-4902
-
-
Kreevoy, M.M.1
Harper, E.T.2
Duvall, R.E.3
Wilgus III, H.S.4
Ditsch, L.T.5
-
52
-
-
0000625641
-
Methylmercury(II) sulfhydryl interactions. Potentiometric determination of the formation constants for complexation of methylmercury(II) by sulfhydryl containing amino acids and related molecules, including glutathione
-
Arnold, A. P.; Canty, A. J. Methylmercury(II) sulfhydryl interactions. Potentiometric determination of the formation constants for complexation of methylmercury(II) by sulfhydryl containing amino acids and related molecules, including glutathione Can. J. Chem. 1983, 61, 1428-1434
-
(1983)
Can. J. Chem.
, vol.61
, pp. 1428-1434
-
-
Arnold, A.P.1
Canty, A.J.2
-
54
-
-
0000890897
-
The Effect of Structure on Mercaptan Dissociation Constants
-
Kreevoy, M. M.; Eichinger, B. E.; Stary, F. E.; Katz, E. A.; Sellstedt, J. H. The Effect of Structure on Mercaptan Dissociation Constants J. Org. Chem. 1964, 29, 1641-1642
-
(1964)
J. Org. Chem.
, vol.29
, pp. 1641-1642
-
-
Kreevoy, M.M.1
Eichinger, B.E.2
Stary, F.E.3
Katz, E.A.4
Sellstedt, J.H.5
-
55
-
-
0016942519
-
Ionization constants of water pollutants
-
Tsonopoulos, C.; Coulson, D. M.; Inman, L. B. Ionization constants of water pollutants J. Chem. Eng. Data 1976, 21, 190-193
-
(1976)
J. Chem. Eng. Data
, vol.21
, pp. 190-193
-
-
Tsonopoulos, C.1
Coulson, D.M.2
Inman, L.B.3
-
56
-
-
0000278832
-
Thermodynamics of the Ionization of Some Thiols in Aqueous Solution
-
Irving, R. J.; Nelander, L.; Wadsö, I.; Halvarson, H.; Nilsson, L. Thermodynamics of the Ionization of Some Thiols in Aqueous Solution Acta Chem. Scand. 1964, 18, 769-787
-
(1964)
Acta Chem. Scand.
, vol.18
, pp. 769-787
-
-
Irving, R.J.1
Nelander, L.2
Wadsö, I.3
Halvarson, H.4
Nilsson, L.5
-
58
-
-
33847088916
-
Nonlinear structure-reactivity correlations. Acyl transfer between sulfur and oxygen nucleophiles
-
Hupe, D. J.; Jencks, W. P. Nonlinear structure-reactivity correlations. Acyl transfer between sulfur and oxygen nucleophiles J. Am. Chem. Soc. 1977, 99, 451-464
-
(1977)
J. Am. Chem. Soc.
, vol.99
, pp. 451-464
-
-
Hupe, D.J.1
Jencks, W.P.2
-
59
-
-
70450206724
-
-
revision B.01; Gaussian, Inc. Wallingford, CT
-
Frisch, M. J.; Trucks, G. W.; Schlegel, H. B.; Scuseria, G. E.; Robb, M. A.; Cheeseman, J. R.; Scalmani, G.; Barone, V.; Mennucci, B.; Petersson, G. A.; Nakatsuji, H.; Caricato, M.; Li, X.; Hratchian, H. P.; Izmaylov, A. F.; Bloino, J.; Zheng, G.; Sonnenberg, J. L.; Hada, M.; Ehara, M.; Toyota, K.; Fukuda, R.; Hasegawa, J.; Ishida, M.; Nakajima, T.; Honda, Y.; Kitao, O.; Nakai, H.; Vreven, T.; Montgomery, J. A., Jr.; Peralta, J. E.; Ogliaro, F.; Bearpark, M.; Heyd, J. J.; Brothers, E.; Kudin, K. N.; Staroverov, V. N.; Kobayashi, R.; Normand, J.; Raghavachari, K.; Rendell, A.; Burant, J. C.; Iyengar, S. S.; Tomasi, J.; Cossi, M.; Rega, N.; Millam, J. M.; Klene, M.; Knox, J. E.; Cross, J. B.; Bakken, V.; Adamo, C.; Jaramillo, J.; Gomperts, R.; Stratmann, R. E.; Yazyev, O.; Austin, A. J.; Cammi, R.; Pomelli, C.; Ochterski, J. W.; Martin, R. L.; Morokuma, K.; Zakrzewski, V. G.; Voth, G. A.; Salvador, P.; Dannenberg, J. J.; Dapprich, S.; Daniels, A. D.; Farkas, O.; Foresman, J. B.; Ortiz, J. V.; Cioslowski, J.; Fox, D. J. Gaussian 09, revision B.01; Gaussian, Inc.: Wallingford, CT, 2010.
-
(2010)
Gaussian 09
-
-
Frisch, M.J.1
Trucks, G.W.2
Schlegel, H.B.3
Scuseria, G.E.4
Robb, M.A.5
Cheeseman, J.R.6
Scalmani, G.7
Barone, V.8
Mennucci, B.9
Petersson, G.A.10
Nakatsuji, H.11
Caricato, M.12
Li, X.13
Hratchian, H.P.14
Izmaylov, A.F.15
Bloino, J.16
Zheng, G.17
Sonnenberg, J.L.18
Hada, M.19
Ehara, M.20
Toyota, K.21
Fukuda, R.22
Hasegawa, J.23
Ishida, M.24
Nakajima, T.25
Honda, Y.26
Kitao, O.27
Nakai, H.28
Vreven, T.29
Montgomery, Jr.J.A.30
Peralta, J.E.31
Ogliaro, F.32
Bearpark, M.33
Heyd, J.J.34
Brothers, E.35
Kudin, K.N.36
Staroverov, V.N.37
Kobayashi, R.38
Normand, J.39
Raghavachari, K.40
Rendell, A.41
Burant, J.C.42
Iyengar, S.S.43
Tomasi, J.44
Cossi, M.45
Rega, N.46
Millam, J.M.47
Klene, M.48
Knox, J.E.49
Cross, J.B.50
Bakken, V.51
Adamo, C.52
Jaramillo, J.53
Gomperts, R.54
Stratmann, R.E.55
Yazyev, O.56
Austin, A.J.57
Cammi, R.58
Pomelli, C.59
Ochterski, J.W.60
Martin, R.L.61
Morokuma, K.62
Zakrzewski, V.G.63
Voth, G.A.64
Salvador, P.65
Dannenberg, J.J.66
Dapprich, S.67
Daniels, A.D.68
Farkas, O.69
Foresman, J.B.70
Ortiz, J.V.71
Cioslowski, J.72
Fox, D.J.73
more..
-
60
-
-
0345491105
-
Development of the Colle-Salvetti correlation-energy formula into a functional of the electron density
-
Lee, C.; Yang, W.; Parr, R. G. Development of the Colle-Salvetti correlation-energy formula into a functional of the electron density Phys. Rev. B 1988, 37, 785-789
-
(1988)
Phys. Rev. B
, vol.37
, pp. 785-789
-
-
Lee, C.1
Yang, W.2
Parr, R.G.3
-
61
-
-
4243553426
-
Density-functional exchange-energy approximation with correct asymptotic behavior
-
Becke, A. D. Density-functional exchange-energy approximation with correct asymptotic behavior Phys. Rev. A 1988, 38, 3098-3100
-
(1988)
Phys. Rev. A
, vol.38
, pp. 3098-3100
-
-
Becke, A.D.1
-
62
-
-
34250817103
-
A new mixing of Hartree-Fock and local density-functional theories
-
Becke, A. D. A new mixing of Hartree-Fock and local density-functional theories J. Chem. Phys. 1993, 98, 1372-1377
-
(1993)
J. Chem. Phys.
, vol.98
, pp. 1372-1377
-
-
Becke, A.D.1
-
63
-
-
0035836323
-
Left-right correlation energy
-
Handy, N. C.; Cohen, A. J. Left-right correlation energy Mol. Phys. 2001, 99, 403-412
-
(2001)
Mol. Phys.
, vol.99
, pp. 403-412
-
-
Handy, N.C.1
Cohen, A.J.2
-
64
-
-
0000235295
-
Assessment of a new local exchange functional OPTX
-
Hoe, W.-M.; Cohen, A. J.; Handy, N. C. Assessment of a new local exchange functional OPTX Chem. Phys. Lett. 2001, 341, 319-328
-
(2001)
Chem. Phys. Lett.
, vol.341
, pp. 319-328
-
-
Hoe, W.-M.1
Cohen, A.J.2
Handy, N.C.3
-
65
-
-
4243943295
-
Generalized Gradient Approximation Made Simple
-
Perdew, J. P.; Burke, K.; Ernzerhof, M. Generalized Gradient Approximation Made Simple Phys. Rev. Lett. 1996, 77, 3865-3868
-
(1996)
Phys. Rev. Lett.
, vol.77
, pp. 3865-3868
-
-
Perdew, J.P.1
Burke, K.2
Ernzerhof, M.3
-
66
-
-
0001475454
-
Toward reliable density functional methods without adjustable parameters: The PBE0 model
-
Adamo, C.; Barone, V. Toward reliable density functional methods without adjustable parameters: The PBE0 model J. Chem. Phys. 1999, 110, 6158
-
(1999)
J. Chem. Phys.
, vol.110
, pp. 6158
-
-
Adamo, C.1
Barone, V.2
-
67
-
-
43049141516
-
The M06 suite of density functionals for main group thermochemistry, thermochemical kinetics, noncovalent interactions, excited states, and transition elements: Two new functionals and systematic testing of four M06-class functionals and 12 other functionals
-
Zhao, Y.; Truhlar, D. G. The M06 suite of density functionals for main group thermochemistry, thermochemical kinetics, noncovalent interactions, excited states, and transition elements: two new functionals and systematic testing of four M06-class functionals and 12 other functionals Theor. Chem. Acc. 2008, 120, 215-241
-
(2008)
Theor. Chem. Acc.
, vol.120
, pp. 215-241
-
-
Zhao, Y.1
Truhlar, D.G.2
-
68
-
-
40549127108
-
Density functionals with broad applicability in chemistry
-
Zhao, Y.; Truhlar, D. G. Density functionals with broad applicability in chemistry Acc. Chem. Res. 2008, 41, 157-167
-
(2008)
Acc. Chem. Res.
, vol.41
, pp. 157-167
-
-
Zhao, Y.1
Truhlar, D.G.2
-
69
-
-
33845328066
-
A new local density functional for main-group thermochemistry, transition metal bonding, thermochemical kinetics, and noncovalent interactions
-
Zhao, Y.; Truhlar, D. G. A new local density functional for main-group thermochemistry, transition metal bonding, thermochemical kinetics, and noncovalent interactions J. Chem. Phys. 2006, 125, 194101
-
(2006)
J. Chem. Phys.
, vol.125
, pp. 194101
-
-
Zhao, Y.1
Truhlar, D.G.2
-
70
-
-
0842341771
-
Development and use of quantum mechanical molecular models. 76. AM1: A new general purpose quantum mechanical molecular model
-
Dewar, M. J. S.; Zoebisch, E. G.; Healy, E. F.; Stewart, J. J. P. Development and use of quantum mechanical molecular models. 76. AM1: a new general purpose quantum mechanical molecular model J. Am. Chem. Soc. 1985, 107, 3902-3909
-
(1985)
J. Am. Chem. Soc.
, vol.107
, pp. 3902-3909
-
-
Dewar, M.J.S.1
Zoebisch, E.G.2
Healy, E.F.3
Stewart, J.J.P.4
-
71
-
-
84988129057
-
Optimization of parameters for semiempirical methods I. Method
-
Stewart, J. J. P. Optimization of parameters for semiempirical methods I. Method J. Comput. Chem. 1989, 10, 209-220
-
(1989)
J. Comput. Chem.
, vol.10
, pp. 209-220
-
-
Stewart, J.J.P.1
-
72
-
-
35448937584
-
Optimization of parameters for semiempirical methods V: Modification of NDDO approximations and application to 70 elements
-
Stewart, J. J. P. Optimization of parameters for semiempirical methods V: modification of NDDO approximations and application to 70 elements J. Mol. Model. 2007, 13, 1173-1213
-
(2007)
J. Mol. Model.
, vol.13
, pp. 1173-1213
-
-
Stewart, J.J.P.1
-
73
-
-
33745597056
-
RM1: A reparameterization of AM1 for H, C, N, O, P, S, F, Cl, Br, and i
-
Rocha, G. B.; Freire, R. O.; Simas, A. M.; Stewart, J. J. P. RM1: a reparameterization of AM1 for H, C, N, O, P, S, F, Cl, Br, and I J. Comput. Chem. 2006, 27, 1101-1111
-
(2006)
J. Comput. Chem.
, vol.27
, pp. 1101-1111
-
-
Rocha, G.B.1
Freire, R.O.2
Simas, A.M.3
Stewart, J.J.P.4
-
74
-
-
66349120487
-
Universal solvation model based on solute electron density and on a continuum model of the solvent defined by the bulk dielectric constant and atomic surface tensions
-
Marenich, A. V.; Cramer, C. J.; Truhlar, D. G. Universal solvation model based on solute electron density and on a continuum model of the solvent defined by the bulk dielectric constant and atomic surface tensions J. Phys. Chem. B 2009, 113, 6378-6396
-
(2009)
J. Phys. Chem. B
, vol.113
, pp. 6378-6396
-
-
Marenich, A.V.1
Cramer, C.J.2
Truhlar, D.G.3
-
75
-
-
84962381218
-
Continuous surface charge polarizable continuum models of solvation. I. General formalism
-
Scalmani, G.; Frisch, M. J. Continuous surface charge polarizable continuum models of solvation. I. General formalism J. Chem. Phys. 2010, 132, 114110
-
(2010)
J. Chem. Phys.
, vol.132
, pp. 114110
-
-
Scalmani, G.1
Frisch, M.J.2
-
76
-
-
84961985847
-
Quantum Calculation of Molecular Energies and Energy Gradients in Solution by a Conductor Solvent Model
-
Barone, V.; Cossi, M. Quantum Calculation of Molecular Energies and Energy Gradients in Solution by a Conductor Solvent Model J. Phys. Chem. A 1998, 102, 1995-2001
-
(1998)
J. Phys. Chem. A
, vol.102
, pp. 1995-2001
-
-
Barone, V.1
Cossi, M.2
-
77
-
-
11644266970
-
Electronic Population Analysis on LCAO[Single Bond]MO Molecular Wave Functions. i
-
Mulliken, R. S. Electronic Population Analysis on LCAO[Single Bond]MO Molecular Wave Functions. I J. Chem. Phys. 1955, 23, 1833-1840
-
(1955)
J. Chem. Phys.
, vol.23
, pp. 1833-1840
-
-
Mulliken, R.S.1
-
78
-
-
16444378435
-
On the Non-Orthogonality Problem Connected with the Use of Atomic Wave Functions in the Theory of Molecules and Crystals
-
Löwdin, P.-O. On the Non-Orthogonality Problem Connected with the Use of Atomic Wave Functions in the Theory of Molecules and Crystals J. Chem. Phys. 1950, 18, 365-375
-
(1950)
J. Chem. Phys.
, vol.18
, pp. 365-375
-
-
Löwdin, P.-O.1
-
79
-
-
36148995600
-
Natural population analysisa
-
Reed, A. E.; Weinstock, R. B.; Weinhold, F. Natural population analysisa J. Chem. Phys. 1985, 83, 735-746
-
(1985)
J. Chem. Phys.
, vol.83
, pp. 735-746
-
-
Reed, A.E.1
Weinstock, R.B.2
Weinhold, F.3
-
80
-
-
84986468608
-
An approach to computing electrostatic charges for molecules
-
Singh, U. C.; Kollman, P. A. An approach to computing electrostatic charges for molecules J. Comput. Chem. 1984, 5, 129-145
-
(1984)
J. Comput. Chem.
, vol.5
, pp. 129-145
-
-
Singh, U.C.1
Kollman, P.A.2
-
81
-
-
84986513567
-
Determining atom-centered monopoles from molecular electrostatic potentials. The need for high sampling density in formamide conformational analysis
-
Breneman, C. M.; Wiberg, K. B. Determining atom-centered monopoles from molecular electrostatic potentials. The need for high sampling density in formamide conformational analysis J. Comput. Chem. 1990, 11, 361-373
-
(1990)
J. Comput. Chem.
, vol.11
, pp. 361-373
-
-
Breneman, C.M.1
Wiberg, K.B.2
-
82
-
-
3042524904
-
A well-behaved electrostatic potential based method using charge restraints for deriving atomic charges: The RESP model
-
Bayly, C. I.; Cieplak, P.; Cornell, W.; Kollman, P. A. A well-behaved electrostatic potential based method using charge restraints for deriving atomic charges: the RESP model J. Phys. Chem. 1993, 97, 10269-10280
-
(1993)
J. Phys. Chem.
, vol.97
, pp. 10269-10280
-
-
Bayly, C.I.1
Cieplak, P.2
Cornell, W.3
Kollman, P.A.4
-
83
-
-
33746614482
-
Gaussian basis sets for use in correlated molecular calculations. I. The atoms boron through neon and hydrogen
-
Dunning, T. H. Gaussian basis sets for use in correlated molecular calculations. I. The atoms boron through neon and hydrogen J. Chem. Phys. 1989, 90, 1007-1023
-
(1989)
J. Chem. Phys.
, vol.90
, pp. 1007-1023
-
-
Dunning, T.H.1
-
84
-
-
0242663237
-
A point-charge force field for molecular mechanics simulations of proteins based on condensed-phase quantum mechanical calculations
-
Duan, Y.; Wu, C.; Chowdhury, S.; Lee, M. C.; Xiong, G.; Zhang, W.; Yang, R.; Cieplak, P.; Luo, R.; Lee, T.; Caldwell, J.; Wang, J.; Kollman, P. A point-charge force field for molecular mechanics simulations of proteins based on condensed-phase quantum mechanical calculations J. Comput. Chem. 2003, 24, 1999-2012
-
(2003)
J. Comput. Chem.
, vol.24
, pp. 1999-2012
-
-
Duan, Y.1
Wu, C.2
Chowdhury, S.3
Lee, M.C.4
Xiong, G.5
Zhang, W.6
Yang, R.7
Cieplak, P.8
Luo, R.9
Lee, T.10
Caldwell, J.11
Wang, J.12
Kollman, P.13
-
85
-
-
84862614975
-
-
University of California: San Fransisco, CA
-
Case, D. AMBER 12; University of California: San Fransisco, CA, 2012.
-
(2012)
AMBER 12
-
-
Case, D.1
-
86
-
-
2942532422
-
Development and testing of a general amber force field
-
Wang, J.; Wolf, R. M.; Caldwell, J. W.; Kollman, P. A.; Case, D. A. Development and testing of a general amber force field J. Comput. Chem. 2004, 25, 1157-1174
-
(2004)
J. Comput. Chem.
, vol.25
, pp. 1157-1174
-
-
Wang, J.1
Wolf, R.M.2
Caldwell, J.W.3
Kollman, P.A.4
Case, D.A.5
-
87
-
-
1842479952
-
Exploring protein native states and large-scale conformational changes with a modified generalized born model
-
Onufriev, A.; Bashford, D.; Case, D. A. Exploring protein native states and large-scale conformational changes with a modified generalized born model Proteins 2004, 55, 383-394
-
(2004)
Proteins
, vol.55
, pp. 383-394
-
-
Onufriev, A.1
Bashford, D.2
Case, D.A.3
-
88
-
-
36749107785
-
Molecular dynamics simulations at constant pressure and/or temperature
-
Andersen, H. C. Molecular dynamics simulations at constant pressure and/or temperature J. Chem. Phys. 1980, 72, 2384-2393
-
(1980)
J. Chem. Phys.
, vol.72
, pp. 2384-2393
-
-
Andersen, H.C.1
-
89
-
-
84890116075
-
An extensible interface for QM/MM molecular dynamics simulations with AMBER
-
Gotz, A. W.; Clark, M. A.; Walker, R. C. An extensible interface for QM/MM molecular dynamics simulations with AMBER J. Comput. Chem. 2014, 35, 95-108
-
(2014)
J. Comput. Chem.
, vol.35
, pp. 95-108
-
-
Gotz, A.W.1
Clark, M.A.2
Walker, R.C.3
-
90
-
-
70349971100
-
Enzymatic catalysis: The emerging role of conceptual density functional theory
-
Roos, G.; Geerlings, P.; Messens, J. Enzymatic catalysis: the emerging role of conceptual density functional theory J. Phys. Chem. B 2009, 113, 13465-13475
-
(2009)
J. Phys. Chem. B
, vol.113
, pp. 13465-13475
-
-
Roos, G.1
Geerlings, P.2
Messens, J.3
-
91
-
-
80051968896
-
Predicting pK(a) values of substituted phenols from atomic charges: Comparison of different quantum mechanical methods and charge distribution schemes
-
Svobodova Varekova, R.; Geidl, S.; Ionescu, C.-M.; Skrehota, O.; Kudera, M.; Sehnal, D.; Bouchal, T.; Abagyan, R.; Huber, H. J.; Koca, J. Predicting pK(a) values of substituted phenols from atomic charges: comparison of different quantum mechanical methods and charge distribution schemes J. Chem. Inf. Model. 2011, 51, 1795-1806
-
(2011)
J. Chem. Inf. Model.
, vol.51
, pp. 1795-1806
-
-
Svobodova Varekova, R.1
Geidl, S.2
Ionescu, C.-M.3
Skrehota, O.4
Kudera, M.5
Sehnal, D.6
Bouchal, T.7
Abagyan, R.8
Huber, H.J.9
Koca, J.10
|