-
1
-
-
33644876210
-
DrugBank: A comprehensive resource for in silico drug discovery and exploration
-
Wishart, D. S.; Knox, C.; Guo, A. C.; Shrivastava, S.; Hassanali, M.; Stothard, P.; Chang, Z.; Woolsey, J. DrugBank: a comprehensive resource for in silico drug discovery and exploration Nucleic Acids Res. 2006, suppl. 1, D668-D672
-
(2006)
Nucleic Acids Res.
, vol.1
-
-
Wishart, D.S.1
Knox, C.2
Guo, A.C.3
Shrivastava, S.4
Hassanali, M.5
Stothard, P.6
Chang, Z.7
Woolsey, J.8
-
2
-
-
38549151817
-
DrugBank: A knowledgebase for drugs, drug actions and drug targets
-
Wishart, D. S.; Knox, C.; Guo, A. C.; Cheng, D.; Shrivastava, S.; Tzur, D.; Gautam, B.; Hassanali, M. DrugBank: a knowledgebase for drugs, drug actions and drug targets Nucleic Acids Res. 2008, suppl. 1, D901-D906
-
(2008)
Nucleic Acids Res.
, vol.1
-
-
Wishart, D.S.1
Knox, C.2
Guo, A.C.3
Cheng, D.4
Shrivastava, S.5
Tzur, D.6
Gautam, B.7
Hassanali, M.8
-
3
-
-
78651287426
-
DrugBank 3.0: A comprehensive resource for "omics" research on drugs
-
Knox, C.; Law, V.; Jewison, T.; Liu, P.; Ly, S.; Frolkis, A.; Pon, A.; Banco, K.; Mak, C.; Neveu, V.; Djoumbou, Y.; Eisner, R.; Guo, A. C.; Wishart, D. S. DrugBank 3.0: a comprehensive resource for "Omics" research on drugs Nucleic Acids Res. 2011, suppl. 1, D1035-D1041
-
(2011)
Nucleic Acids Res.
, vol.1
-
-
Knox, C.1
Law, V.2
Jewison, T.3
Liu, P.4
Ly, S.5
Frolkis, A.6
Pon, A.7
Banco, K.8
Mak, C.9
Neveu, V.10
Djoumbou, Y.11
Eisner, R.12
Guo, A.C.13
Wishart, D.S.14
-
5
-
-
67749127877
-
Genetic polymorphism of metabolic enzymes P450 (CYP) as a susceptibility factor for drug response, toxicity, and cancer risk
-
Bozina, N.; Bradamante, V.; Lovric, M. Genetic polymorphism of metabolic enzymes P450 (CYP) as a susceptibility factor for drug response, toxicity, and cancer risk Arh. Hig. Rada. Toksikol. 2009, 2, 217-242
-
(2009)
Arh. Hig. Rada. Toksikol.
, vol.2
, pp. 217-242
-
-
Bozina, N.1
Bradamante, V.2
Lovric, M.3
-
6
-
-
79952083050
-
Genetic Polymorphism and Toxicology - With Emphasis on Cytochrome P450
-
Johansson, I.; Ingelman-Sundberg, M. Genetic Polymorphism and Toxicology-With Emphasis on Cytochrome P450 Toxicol. Sci. 2011, 1, 1-13
-
(2011)
Toxicol. Sci.
, vol.1
, pp. 1-13
-
-
Johansson, I.1
Ingelman-Sundberg, M.2
-
7
-
-
0027440404
-
Substrate stereoselectivity and enantiomer/enantiomer interaction in propranolol metabolism in rat liver microsomes
-
Masubuchi, Y.; Yamamoto, L. A.; Uesaka, M.; Fujita, S.; Narimatsu, S.; Suzuki, T. Substrate stereoselectivity and enantiomer/enantiomer interaction in propranolol metabolism in rat liver microsomes Biochem. Pharmacol. 1993, 10, 1759-1765
-
(1993)
Biochem. Pharmacol.
, vol.10
, pp. 1759-1765
-
-
Masubuchi, Y.1
Yamamoto, L.A.2
Uesaka, M.3
Fujita, S.4
Narimatsu, S.5
Suzuki, T.6
-
8
-
-
0028020099
-
Cytochrome P450 isozymes involved in propranolol metabolism in human liver microsomes. The role of CYP2D6 as ring-hydroxylase and CYP1A2 as N-desisopropylase
-
Masubuchi, Y.; Hosokawa, S.; Horie, T.; Suzuki, T.; Ohmori, S.; Kitada, M.; Narimatsu, S. Cytochrome P450 isozymes involved in propranolol metabolism in human liver microsomes. The role of CYP2D6 as ring-hydroxylase and CYP1A2 as N-desisopropylase Drug Metab. Dispos. 1994, 6, 909-915
-
(1994)
Drug Metab. Dispos.
, vol.6
, pp. 909-915
-
-
Masubuchi, Y.1
Hosokawa, S.2
Horie, T.3
Suzuki, T.4
Ohmori, S.5
Kitada, M.6
Narimatsu, S.7
-
9
-
-
0028356136
-
Inhibition of CYP2D6 activity by treatment with propranolol and the role of 4-hydroxy propranolol
-
Rowland, K.; Yeo, W. W.; Ellis, S. W.; Chadwick, I. G.; Haq, I.; Lennard, M. S.; Jackson, P. R.; Ramsay, L. E.; Tucker, G. T. Inhibition of CYP2D6 activity by treatment with propranolol and the role of 4-hydroxy propranolol Br. J. Clin. Pharmacol. 1994, 1, 9-14
-
(1994)
Br. J. Clin. Pharmacol.
, vol.1
, pp. 9-14
-
-
Rowland, K.1
Yeo, W.W.2
Ellis, S.W.3
Chadwick, I.G.4
Haq, I.5
Lennard, M.S.6
Jackson, P.R.7
Ramsay, L.E.8
Tucker, G.T.9
-
10
-
-
0016285277
-
Stereospecific Binding of Propranolol and Catecholamines to the ß-Adrenergic Receptor
-
Atlas, D.; Steer, M. L.; Levitzki, A. Stereospecific Binding of Propranolol and Catecholamines to the ß-Adrenergic Receptor Proc. Natl. Acad. Sci. U.S.A. 1974, 10, 4246-4248
-
(1974)
Proc. Natl. Acad. Sci. U.S.A.
, vol.10
, pp. 4246-4248
-
-
Atlas, D.1
Steer, M.L.2
Levitzki, A.3
-
11
-
-
0022384123
-
Receptor binding of propranolol is the missing link between plasma concentration kinetics and the effect-time course in man
-
Wellstein, A.; Palm, D.; Pitschner, H. F.; Belz, G. G. Receptor binding of propranolol is the missing link between plasma concentration kinetics and the effect-time course in man Eur. J. Clin. Pharmacol. 1985, 2, 131-147
-
(1985)
Eur. J. Clin. Pharmacol.
, vol.2
, pp. 131-147
-
-
Wellstein, A.1
Palm, D.2
Pitschner, H.F.3
Belz, G.G.4
-
12
-
-
0026500071
-
Lack of effect of ageing on the stereochemical disposition of propranolol
-
Zhou, H.; Whelan, E.; Wood, A. Lack of effect of ageing on the stereochemical disposition of propranolol Br. J. Clin. Pharmacol. 1992, 1, 121-123
-
(1992)
Br. J. Clin. Pharmacol.
, vol.1
, pp. 121-123
-
-
Zhou, H.1
Whelan, E.2
Wood, A.3
-
13
-
-
0026582350
-
Racemic (R,S)-propranolol versus half-dosed optically pure (S)-propranolol in humans at steady state: Hemodynamic effects, plasma concentrations, and influence on thyroid hormone levels
-
Stoschitzky, K.; Lindner, W.; Egginger, G.; Brunner, F.; Obermayer-Pietsch, B.; Passath, A.; Klein, W. Racemic (R,S)-propranolol versus half-dosed optically pure (S)-propranolol in humans at steady state: Hemodynamic effects, plasma concentrations, and influence on thyroid hormone levels Clin. Pharmacol. Ther. 1992, 4, 445-453
-
(1992)
Clin. Pharmacol. Ther.
, vol.4
, pp. 445-453
-
-
Stoschitzky, K.1
Lindner, W.2
Egginger, G.3
Brunner, F.4
Obermayer-Pietsch, B.5
Passath, A.6
Klein, W.7
-
14
-
-
24944497676
-
The role of phenylalanine 483 in cytochrome P450 2D6 is strongly substrate dependent
-
Lussenburg, B. M.; Keizers, P. H.; de Graaf, C.; Hidestrand, M.; Ingelman-Sundberg, M.; Vermeulen, N. P.; Commandeur, J. N. The role of phenylalanine 483 in cytochrome P450 2D6 is strongly substrate dependent Biochem. Pharmacol. 2005, 8, 1253-1261
-
(2005)
Biochem. Pharmacol.
, vol.8
, pp. 1253-1261
-
-
Lussenburg, B.M.1
Keizers, P.H.2
De Graaf, C.3
Hidestrand, M.4
Ingelman-Sundberg, M.5
Vermeulen, N.P.6
Commandeur, J.N.7
-
15
-
-
34347390240
-
Free energies of binding of R- and S-propranolol to wild-type and F483A mutant cytochrome P450 2D6 from molecular dynamics simulations
-
de Graaf, C.; Oostenbrink, C.; Keizers, P. H.; van Vugt-Lussenburg, B. M.; Commandeur, J. N.; Vermeulen, N. P. Free energies of binding of R- and S-propranolol to wild-type and F483A mutant cytochrome P450 2D6 from molecular dynamics simulations Eur. Biophys. J. 2007, 6, 589-599
-
(2007)
Eur. Biophys. J.
, vol.6
, pp. 589-599
-
-
De Graaf, C.1
Oostenbrink, C.2
Keizers, P.H.3
Van Vugt-Lussenburg, B.M.4
Commandeur, J.N.5
Vermeulen, N.P.6
-
16
-
-
84877078307
-
Rationalization of stereospecific binding of propranolol to cytochrome P450 2D6 by free energy calculations
-
Nagy, G.; Oostenbrink, C. Rationalization of stereospecific binding of propranolol to cytochrome P450 2D6 by free energy calculations Eur. Biophys. J. 2012, 12, 1065-1076
-
(2012)
Eur. Biophys. J.
, vol.12
, pp. 1065-1076
-
-
Nagy, G.1
Oostenbrink, C.2
-
17
-
-
33646092472
-
Crystal Structure of Human Cytochrome P450 2D6
-
Rowland, P.; Blaney, F. E.; Smyth, M. G.; Jones, J. J.; Leydon, V. R.; Oxbrow, A. K.; Lewis, C. J.; Tennant, M. G.; Modi, S.; Eggleston, D. S.; Chenery, R. J.; Bridges, A. M. Crystal Structure of Human Cytochrome P450 2D6 J. Biol. Chem. 2006, 11, 7614-7622
-
(2006)
J. Biol. Chem.
, vol.11
, pp. 7614-7622
-
-
Rowland, P.1
Blaney, F.E.2
Smyth, M.G.3
Jones, J.J.4
Leydon, V.R.5
Oxbrow, A.K.6
Lewis, C.J.7
Tennant, M.G.8
Modi, S.9
Eggleston, D.S.10
Chenery, R.J.11
Bridges, A.M.12
-
18
-
-
57349106476
-
Impact of plasticity and flexibility on docking results for cytochrome P450 2D6: A combined approach of molecular dynamics and ligand docking
-
Hritz, J.; de Ruiter, A.; Oostenbrink, C. Impact of plasticity and flexibility on docking results for cytochrome P450 2D6: a combined approach of molecular dynamics and ligand docking J. Med. Chem. 2008, 23, 7469-7477
-
(2008)
J. Med. Chem.
, vol.23
, pp. 7469-7477
-
-
Hritz, J.1
De Ruiter, A.2
Oostenbrink, C.3
-
19
-
-
0037157317
-
On the Hamiltonian replica exchange method for efficient sampling of biomolecular systems: Application to protein structure prediction
-
Fukunishi, H.; Watanabe, O.; Takada, S. On the Hamiltonian replica exchange method for efficient sampling of biomolecular systems: Application to protein structure prediction J. Chem. Phys. 2002, 20, 9058-9067
-
(2002)
J. Chem. Phys.
, vol.20
, pp. 9058-9067
-
-
Fukunishi, H.1
Watanabe, O.2
Takada, S.3
-
20
-
-
52049123291
-
Do enthalpy and entropy distinguish first in class from best in class?
-
Freire, E. Do enthalpy and entropy distinguish first in class from best in class? Drug Discov. Today 2008, 19-20, 869-874
-
(2008)
Drug Discov. Today
, vol.1920
, pp. 869-874
-
-
Freire, E.1
-
21
-
-
74149083849
-
Adding calorimetric data to decision making in lead discovery: A hot tip
-
Ladbury, J. E.; Klebe, G.; Freire, E. Adding calorimetric data to decision making in lead discovery: a hot tip Nat. Rev. Drug Discov. 2010, 1, 23-27
-
(2010)
Nat. Rev. Drug Discov.
, vol.1
, pp. 23-27
-
-
Ladbury, J.E.1
Klebe, G.2
Freire, E.3
-
22
-
-
84863812540
-
Ligand Binding Stepwise Disrupts Water Network in Thrombin: Enthalpic and Entropic Changes Reveal Classical Hydrophobic Effect
-
Biela, A.; Sielaff, F.; Terwesten, F.; Heine, A.; Steinmetzer, T.; Klebe, G. Ligand Binding Stepwise Disrupts Water Network in Thrombin: Enthalpic and Entropic Changes Reveal Classical Hydrophobic Effect J. Med. Chem. 2012, 13, 6094-6110
-
(2012)
J. Med. Chem.
, vol.13
, pp. 6094-6110
-
-
Biela, A.1
Sielaff, F.2
Terwesten, F.3
Heine, A.4
Steinmetzer, T.5
Klebe, G.6
-
23
-
-
84877768087
-
Entropy-enthalpy compensation: Role and ramifications in biomolecular ligand recognition and design
-
Chodera, J. D.; Mobley, D. L. Entropy-enthalpy compensation: role and ramifications in biomolecular ligand recognition and design Annu. Rev. Biophys. 2013, 121-142
-
(2013)
Annu. Rev. Biophys.
, pp. 121-142
-
-
Chodera, J.D.1
Mobley, D.L.2
-
24
-
-
84872859789
-
Molecular Recognition and Ligand Association
-
Baron, R.; McCammon, J. A. Molecular Recognition and Ligand Association Annu. Rev. Phys. Chem. 2013, 1, 151-175
-
(2013)
Annu. Rev. Phys. Chem.
, vol.1
, pp. 151-175
-
-
Baron, R.1
McCammon, J.A.2
-
25
-
-
84887106527
-
Computation of binding energies including their enthalpy and entropy components for protein-ligand complexes using support vector machines
-
Koppisetty, C. A. K.; Frank, M.; Kemp, G. J. L.; Nyholm, P. Computation of binding energies including their enthalpy and entropy components for protein-ligand complexes using support vector machines J. Chem. Inf. Model. 2013, 13, 2559-2570
-
(2013)
J. Chem. Inf. Model.
, vol.13
, pp. 2559-2570
-
-
Koppisetty, C.A.K.1
Frank, M.2
Kemp, G.J.L.3
Nyholm, P.4
-
26
-
-
33645903407
-
Solvation thermodynamics of nonionic solutes
-
Ben-Naim, A.; Marcus, Y. Solvation thermodynamics of nonionic solutes J. Chem. Phys. 1984, 4, 2016-2027
-
(1984)
J. Chem. Phys.
, vol.4
, pp. 2016-2027
-
-
Ben-Naim, A.1
Marcus, Y.2
-
27
-
-
0742321703
-
Entropic Contributions in Cosolvent Binding to Hydrophobic Solutes in Water
-
van der Vegt, N. F. A.; van Gunsteren, W. F. Entropic Contributions in Cosolvent Binding to Hydrophobic Solutes in Water J. Phys. Chem. B 2004, 3, 1056-1064
-
(2004)
J. Phys. Chem. B
, vol.3
, pp. 1056-1064
-
-
Van Der Vegt, N.F.A.1
Van Gunsteren, W.F.2
-
28
-
-
33745795988
-
Confusing cause and effect: Energy-entropy compensation in the preferential solvation of a nonpolar solute in dimethyl sulfoxide/water mixtures
-
Ozal, T. A.; van der Vegt, N. F. Confusing cause and effect: energy-entropy compensation in the preferential solvation of a nonpolar solute in dimethyl sulfoxide/water mixtures J. Phys. Chem. B 2006, 24, 12104-12112
-
(2006)
J. Phys. Chem. B
, vol.24
, pp. 12104-12112
-
-
Ozal, T.A.1
Van Der Vegt, N.F.2
-
29
-
-
70450194691
-
Thermodynamic and structural effects of conformational constraints in protein-ligand interactions. Entropic paradoxy associated with ligand preorganization
-
DeLorbe, J. E.; Clements, J. H.; Teresk, M. G.; Benfield, A. P.; Plake, H. R.; Millspaugh, L. E.; Martin, S. F. Thermodynamic and structural effects of conformational constraints in protein-ligand interactions. Entropic paradoxy associated with ligand preorganization J. Am. Chem. Soc. 2009, 46, 16758-16770
-
(2009)
J. Am. Chem. Soc.
, vol.46
, pp. 16758-16770
-
-
Delorbe, J.E.1
Clements, J.H.2
Teresk, M.G.3
Benfield, A.P.4
Plake, H.R.5
Millspaugh, L.E.6
Martin, S.F.7
-
30
-
-
77956075440
-
Water in Cavity - Ligand Recognition
-
Baron, R.; Setny, P.; McCammon, A. J. Water in Cavity-Ligand Recognition J. Am. Chem. Soc. 2010, 34, 12091-12097
-
(2010)
J. Am. Chem. Soc.
, vol.34
, pp. 12091-12097
-
-
Baron, R.1
Setny, P.2
McCammon, A.J.3
-
31
-
-
84866489777
-
Binding free energy, energy and entropy calculations using simple model systems
-
Lai, B.; Oostenbrink, C. Binding free energy, energy and entropy calculations using simple model systems Theor. Chem. Acc. 2012, 10, 1-13
-
(2012)
Theor. Chem. Acc.
, vol.10
, pp. 1-13
-
-
Lai, B.1
Oostenbrink, C.2
-
32
-
-
84886933840
-
Water Networks Contribute to Enthalpy/Entropy Compensation in Protein-Ligand Binding
-
Breiten, B.; Lockett, M. R.; Sherman, W.; Fujita, S.; Al-Sayah, M. H.; Lange, H.; Bowers, C. M.; Heroux, A.; Krilov, G.; Whitesides, G. M. Water Networks Contribute to Enthalpy/Entropy Compensation in Protein-Ligand Binding J. Am. Chem. Soc. 2013, 41, 15579-15584
-
(2013)
J. Am. Chem. Soc.
, vol.41
, pp. 15579-15584
-
-
Breiten, B.1
Lockett, M.R.2
Sherman, W.3
Fujita, S.4
Al-Sayah, M.H.5
Lange, H.6
Bowers, C.M.7
Heroux, A.8
Krilov, G.9
Whitesides, G.M.10
-
33
-
-
0030134642
-
Estimating the Relative Free Energy of Different Molecular States with Respect to a Single Reference State
-
Liu, H.; Mark, A. E.; van Gunsteren, W. F. Estimating the Relative Free Energy of Different Molecular States with Respect to a Single Reference State J. Phys. Chem. 1996, 22, 9485-9494
-
(1996)
J. Phys. Chem.
, vol.22
, pp. 9485-9494
-
-
Liu, H.1
Mark, A.E.2
Van Gunsteren, W.F.3
-
34
-
-
84877711542
-
Free-energy differences between states with different conformational ensembles
-
Garate, J. A.; Oostenbrink, C. Free-energy differences between states with different conformational ensembles J. Comput. Chem. 2013, 16, 1398-1408
-
(2013)
J. Comput. Chem.
, vol.16
, pp. 1398-1408
-
-
Garate, J.A.1
Oostenbrink, C.2
-
35
-
-
37649014404
-
On searching in, sampling of, and dynamically moving through conformational space of biomolecular systems: A review
-
Christen, M.; van Gunsteren, W. F. On searching in, sampling of, and dynamically moving through conformational space of biomolecular systems: A review J. Comput. Chem. 2008, 2, 157-166
-
(2008)
J. Comput. Chem.
, vol.2
, pp. 157-166
-
-
Christen, M.1
Van Gunsteren, W.F.2
-
36
-
-
36849122972
-
High-Temperature Equation of State by a Perturbation Method. I. Nonpolar Gases
-
Zwanzig, R. W. High-Temperature Equation of State by a Perturbation Method. I. Nonpolar Gases J. Chem. Phys. 1954, 8, 1420-1426
-
(1954)
J. Chem. Phys.
, vol.8
, pp. 1420-1426
-
-
Zwanzig, R.W.1
-
37
-
-
84865478440
-
Free energy calculations give insight into the stereoselective hydroxylation of alpha-ionones by engineered cytochrome P450 BM3 mutants
-
de Beer, S. B.; Venkataraman, H.; Geerke, D. P.; Oostenbrink, C.; Vermeulen, N. P. Free energy calculations give insight into the stereoselective hydroxylation of alpha-ionones by engineered cytochrome P450 BM3 mutants J. Chem. Inf. Model. 2012, 8, 2139-2148
-
(2012)
J. Chem. Inf. Model.
, vol.8
, pp. 2139-2148
-
-
De Beer, S.B.1
Venkataraman, H.2
Geerke, D.P.3
Oostenbrink, C.4
Vermeulen, N.P.5
-
38
-
-
84855932348
-
Free energy calculations from one-step perturbations
-
Oostenbrink, C. Free energy calculations from one-step perturbations Methods Mol. Biol. 2012, 487-499
-
(2012)
Methods Mol. Biol.
, pp. 487-499
-
-
Oostenbrink, C.1
-
39
-
-
0028710015
-
Local elevation: A method for improving the searching properties of molecular dynamics simulation
-
Huber, T.; Torda, A. E.; van Gunsteren, W. F. Local elevation: a method for improving the searching properties of molecular dynamics simulation J. Comput. Aided Mol. Des. 1994, 6, 695-708
-
(1994)
J. Comput. Aided Mol. Des.
, vol.6
, pp. 695-708
-
-
Huber, T.1
Torda, A.E.2
Van Gunsteren, W.F.3
-
40
-
-
72449125773
-
Using the local elevation method to construct optimized umbrella sampling potentials: Calculation of the relative free energies and interconversion barriers of glucopyranose ring conformers in water
-
Hansen, H. S.; Hunenberger, P. H. Using the local elevation method to construct optimized umbrella sampling potentials: calculation of the relative free energies and interconversion barriers of glucopyranose ring conformers in water J. Comput. Chem. 2010, 1, 1-23
-
(2010)
J. Comput. Chem.
, vol.1
, pp. 1-23
-
-
Hansen, H.S.1
Hunenberger, P.H.2
-
41
-
-
77956573932
-
Enhanced Conformational Sampling in Molecular Dynamics Simulations of Solvated Peptides: Fragment-Based Local Elevation Umbrella Sampling
-
Hansen, H. S.; Daura, X.; Hünenberger, P. H. Enhanced Conformational Sampling in Molecular Dynamics Simulations of Solvated Peptides: Fragment-Based Local Elevation Umbrella Sampling J. Chem. Theory Comput. 2010, 9, 2598-2621
-
(2010)
J. Chem. Theory Comput.
, vol.9
, pp. 2598-2621
-
-
Hansen, H.S.1
Daura, X.2
Hünenberger, P.H.3
-
42
-
-
36549101599
-
A thermodynamic analysis of solvation
-
Yu, H.; Karplus, M. A thermodynamic analysis of solvation J. Chem. Phys. 1988, 4, 2366-2379
-
(1988)
J. Chem. Phys.
, vol.4
, pp. 2366-2379
-
-
Yu, H.1
Karplus, M.2
-
43
-
-
1542531903
-
Estimating entropies from molecular dynamics simulations
-
Peter, C.; Oostenbrink, C.; van Dorp, A.; van Gunsteren, W. F. Estimating entropies from molecular dynamics simulations J. Chem. Phys. 2004, 6, 2652-2661
-
(2004)
J. Chem. Phys.
, vol.6
, pp. 2652-2661
-
-
Peter, C.1
Oostenbrink, C.2
Van Dorp, A.3
Van Gunsteren, W.F.4
-
44
-
-
84856215641
-
Architecture, implementation and parallelisation of the GROMOS software for biomolecular simulation
-
Schmid, N.; Christ, C. D.; Christen, M.; Eichenberger, A. P.; van Gunsteren, W. F. Architecture, implementation and parallelisation of the GROMOS software for biomolecular simulation Comput. Phys. Commun. 2012, 4, 890-903
-
(2012)
Comput. Phys. Commun.
, vol.4
, pp. 890-903
-
-
Schmid, N.1
Christ, C.D.2
Christen, M.3
Eichenberger, A.P.4
Van Gunsteren, W.F.5
-
45
-
-
80054003196
-
GROMOS++ Software for the Analysis of Biomolecular Simulation Trajectories
-
Eichenberger, A. P.; Allison, J. R.; Dolenc, J.; Geerke, D. P.; Horta, B. A. C.; Meier, K.; Oostenbrink, C.; Schmid, N.; Steiner, D.; Wang, D.; van Gunsteren, W. F. GROMOS++ Software for the Analysis of Biomolecular Simulation Trajectories J. Chem. Theory Comput. 2011, 10, 3379-3390
-
(2011)
J. Chem. Theory Comput.
, vol.10
, pp. 3379-3390
-
-
Eichenberger, A.P.1
Allison, J.R.2
Dolenc, J.3
Geerke, D.P.4
Horta, B.A.C.5
Meier, K.6
Oostenbrink, C.7
Schmid, N.8
Steiner, D.9
Wang, D.10
Van Gunsteren, W.F.11
-
46
-
-
0035425883
-
An improved GROMOS96 force field for aliphatic hydrocarbons in the condensed phase
-
Schuler, L. D.; Daura, X.; van Gunsteren, W. F. An improved GROMOS96 force field for aliphatic hydrocarbons in the condensed phase J. Comput. Chem. 2001, 11, 1205-1218
-
(2001)
J. Comput. Chem.
, vol.11
, pp. 1205-1218
-
-
Schuler, L.D.1
Daura, X.2
Van Gunsteren, W.F.3
-
47
-
-
17844363454
-
An improved nucleic acid parameter set for the GROMOS force field
-
Soares, T. A.; Hünenberger, P. H.; Kastenholz, M. A.; Kräutler, V.; Lenz, T.; Lins, R. D.; Oostenbrink, C.; van Gunsteren, W. F. An improved nucleic acid parameter set for the GROMOS force field J. Comput. Chem. 2005, 7, 725-737
-
(2005)
J. Comput. Chem.
, vol.7
, pp. 725-737
-
-
Soares, T.A.1
Hünenberger, P.H.2
Kastenholz, M.A.3
Kräutler, V.4
Lenz, T.5
Lins, R.D.6
Oostenbrink, C.7
Van Gunsteren, W.F.8
-
48
-
-
0002775934
-
Interaction models for water in relation to protein hydration
-
Pullman, B. D. Reidel Publishing Company
-
Berendsen, H.; Postma, J.; van Gunsteren, W.; Hermans, J. Interaction models for water in relation to protein hydration. In Intermolecular Forces; Pullman, B., Ed.; D. Reidel Publishing Company, 1981; pp 331-342.
-
(1981)
Intermolecular Forces
, pp. 331-342
-
-
Berendsen, H.1
Postma, J.2
Van Gunsteren, W.3
Hermans, J.4
-
49
-
-
33750587438
-
Molecular dynamics with coupling to an external bath
-
Berendsen, H. J. C.; Postma, J. P. M.; van Gunsteren, W. F.; DiNola, A.; Haak, J. R. Molecular dynamics with coupling to an external bath J. Chem. Phys. 1984, 8, 3684-3690
-
(1984)
J. Chem. Phys.
, vol.8
, pp. 3684-3690
-
-
Berendsen, H.J.C.1
Postma, J.P.M.2
Van Gunsteren, W.F.3
Dinola, A.4
Haak, J.R.5
-
50
-
-
0000432120
-
The potential calculation and some applications
-
Hockney, R. W. The potential calculation and some applications Meth. Comput. Phys. 1970, 136-211
-
(1970)
Meth. Comput. Phys.
, pp. 136-211
-
-
Hockney, R.W.1
-
51
-
-
33646940952
-
Numerical integration of the cartesian equations of motion of a system with constraints: Molecular dynamics of n-alkanes
-
Ryckaert, J.; Ciccotti, G.; Berendsen, H. J. C. Numerical integration of the cartesian equations of motion of a system with constraints: molecular dynamics of n-alkanes J. Comput. Phys. 1977, 3, 327-341
-
(1977)
J. Comput. Phys.
, vol.3
, pp. 327-341
-
-
Ryckaert, J.1
Ciccotti, G.2
Berendsen, H.J.C.3
-
52
-
-
4043152127
-
A fast pairlist-construction algorithm for molecular simulations under periodic boundary conditions
-
Heinz, T. N.; Hünenberger, P. H. A fast pairlist-construction algorithm for molecular simulations under periodic boundary conditions J. Comput. Chem. 2004, 12, 1474-1486
-
(2004)
J. Comput. Chem.
, vol.12
, pp. 1474-1486
-
-
Heinz, T.N.1
Hünenberger, P.H.2
-
53
-
-
4544369164
-
A generalized reaction field method for molecular dynamics simulations
-
Tironi, I. G.; Sperb, R.; Smith, P. E.; van Gunsteren, W. F. A generalized reaction field method for molecular dynamics simulations J. Chem. Phys. 1995, 13, 5451-5459
-
(1995)
J. Chem. Phys.
, vol.13
, pp. 5451-5459
-
-
Tironi, I.G.1
Sperb, R.2
Smith, P.E.3
Van Gunsteren, W.F.4
-
54
-
-
0035878765
-
Comparison of four methods to compute the dielectric permittivity of liquids from molecular dynamics simulations
-
Heinz, T. N.; van Gunsteren, W. F.; Hünenberger, P. H. Comparison of four methods to compute the dielectric permittivity of liquids from molecular dynamics simulations J. Chem. Phys. 2001, 3, 1125-1136
-
(2001)
J. Chem. Phys.
, vol.3
, pp. 1125-1136
-
-
Heinz, T.N.1
Van Gunsteren, W.F.2
Hünenberger, P.H.3
-
57
-
-
0001351515
-
Estimation of absolute and relative entropies of macromolecules using the covariance matrix
-
Schlitter, J. Estimation of absolute and relative entropies of macromolecules using the covariance matrix Chem. Phys. Lett. 1993, 6, 617-621
-
(1993)
Chem. Phys. Lett.
, vol.6
, pp. 617-621
-
-
Schlitter, J.1
-
58
-
-
80053201454
-
Biophysical and physicochemical methods differentiate highly ligand-efficient human D-amino acid oxidase inhibitors
-
Lange, J. H.; Venhorst, J.; van Dongen, M. J.; Frankena, J.; Bassissi, F.; de Bruin, N. M.; den Besten, C.; de Beer, S. B.; Oostenbrink, C.; Markova, N.; Kruse, C. G. Biophysical and physicochemical methods differentiate highly ligand-efficient human D-amino acid oxidase inhibitors Eur. J. Med. Chem. 2011, 10, 4808-4819
-
(2011)
Eur. J. Med. Chem.
, vol.10
, pp. 4808-4819
-
-
Lange, J.H.1
Venhorst, J.2
Van Dongen, M.J.3
Frankena, J.4
Bassissi, F.5
De Bruin, N.M.6
Den Besten, C.7
De Beer, S.B.8
Oostenbrink, C.9
Markova, N.10
Kruse, C.G.11
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