메뉴 건너뛰기




Volumn 14, Issue 46, 2016, Pages 10926-10938

Cation-π interactions in CREBBP bromodomain inhibition: an electrostatic model for small-molecule binding affinity and selectivity

Author keywords

[No Author keywords available]

Indexed keywords

AMINO ACIDS; AROMATIC COMPOUNDS; AROMATIZATION; BINS; ELECTROSTATICS; LIGANDS; MOLECULES; POSITIVE IONS; PROTEINS; QUANTUM THEORY;

EID: 84998772555     PISSN: 14770520     EISSN: None     Source Type: Journal    
DOI: 10.1039/c6ob02234k     Document Type: Article
Times cited : (26)

References (87)
  • 1
    • 84974575080 scopus 로고    scopus 로고
    • Mechanisms of histone lysine-modifying enzymes: A computational perspective on the role of the protein environment
    • W. A. Cortopassi K. Kumar F. Duarte A. S. Pimentel R. S. Paton Mechanisms of histone lysine-modifying enzymes: A computational perspective on the role of the protein environment J. Mol. Graphics Modell. 2016 67 69-84
    • (2016) J. Mol. Graphics Modell. , vol.67 , pp. 69-84
    • Cortopassi, W.A.1    Kumar, K.2    Duarte, F.3    Pimentel, A.S.4    Paton, R.S.5
  • 4
    • 35948993829 scopus 로고    scopus 로고
    • Histone demethylase JHDM2A is critical for Tnp1 and Prm1 transcription and spermatogenesis
    • Y. Okada G. Scott M. K. Ray Y. Mishina Y. Zhang Histone demethylase JHDM2A is critical for Tnp1 and Prm1 transcription and spermatogenesis Nature 2007 450 7166 119-123
    • (2007) Nature , vol.450 , Issue.7166 , pp. 119-123
    • Okada, Y.1    Scott, G.2    Ray, M.K.3    Mishina, Y.4    Zhang, Y.5
  • 5
    • 84899973908 scopus 로고    scopus 로고
    • Targeting bromodomains: epigenetic readers of lysine acetylation
    • P. Filippakopoulos S. Knapp Targeting bromodomains: epigenetic readers of lysine acetylation Nat. Rev. Drug Discovery 2014 13 5 337-356
    • (2014) Nat. Rev. Drug Discovery , vol.13 , Issue.5 , pp. 337-356
    • Filippakopoulos, P.1    Knapp, S.2
  • 6
    • 34249027590 scopus 로고    scopus 로고
    • Structure-guided optimization of small molecules inhibiting human immunodeficiency virus 1 Tat association with the human coactivator p300/CREB binding protein-associated factor
    • C. Pan M. Mezei S. Mujtaba M. Muller L. Zeng J. Li Z. Wang M. M. Zhou Structure-guided optimization of small molecules inhibiting human immunodeficiency virus 1 Tat association with the human coactivator p300/CREB binding protein-associated factor J. Med. Chem. 2007 50 10 2285-2288
    • (2007) J. Med. Chem. , vol.50 , Issue.10 , pp. 2285-2288
    • Pan, C.1    Mezei, M.2    Mujtaba, S.3    Muller, M.4    Zeng, L.5    Li, J.6    Wang, Z.7    Zhou, M.M.8
  • 9
    • 84978245863 scopus 로고    scopus 로고
    • Selectivity on-target of bromodomain chemical probes by structure-guided medicinal chemistry and chemical biology
    • C. Galdeano A. Ciulli Selectivity on-target of bromodomain chemical probes by structure-guided medicinal chemistry and chemical biology Future Med. Chem. 2016 8 13 1655-1680
    • (2016) Future Med. Chem. , vol.8 , Issue.13 , pp. 1655-1680
    • Galdeano, C.1    Ciulli, A.2
  • 12
    • 84959420872 scopus 로고    scopus 로고
    • Discovery of CREBBP Bromodomain Inhibitors by High-Throughput Docking and Hit Optimization Guided by Molecular Dynamics
    • M. Xu A. Unzue J. Dong D. Spiliotopoulos C. Nevado A. Caflisch Discovery of CREBBP Bromodomain Inhibitors by High-Throughput Docking and Hit Optimization Guided by Molecular Dynamics J. Med. Chem. 2016 59 4 1340-1349
    • (2016) J. Med. Chem. , vol.59 , Issue.4 , pp. 1340-1349
    • Xu, M.1    Unzue, A.2    Dong, J.3    Spiliotopoulos, D.4    Nevado, C.5    Caflisch, A.6
  • 16
    • 84928607523 scopus 로고    scopus 로고
    • Probing the Relationship between Anti-Pneumocystis carinii Activity and DNA Binding of Bisamidines by Molecular Dynamics Simulations
    • T. Zolek D. Maciejewska J. Zabinski P. Kazmierczak M. Rezler Probing the Relationship between Anti-Pneumocystis carinii Activity and DNA Binding of Bisamidines by Molecular Dynamics Simulations Molecules 2015 20 4 5942-5964
    • (2015) Molecules , vol.20 , Issue.4 , pp. 5942-5964
    • Zolek, T.1    Maciejewska, D.2    Zabinski, J.3    Kazmierczak, P.4    Rezler, M.5
  • 17
    • 34247626260 scopus 로고    scopus 로고
    • A swift all-atom energy-based computational protocol to predict DNA-ligand binding affinity and ΔTm
    • S. A. Shaikh B. Jayaram A swift all-atom energy-based computational protocol to predict DNA-ligand binding affinity and ΔTm J. Med. Chem. 2007 50 9 2240-2244
    • (2007) J. Med. Chem. , vol.50 , Issue.9 , pp. 2240-2244
    • Shaikh, S.A.1    Jayaram, B.2
  • 19
  • 20
    • 84869003633 scopus 로고    scopus 로고
    • Engineering Tocopherol Selectivity in alpha-TTP: A Combined In Vitro/In Silico Study
    • R. E. Helbling W. Aeschimann F. Simona A. Stocker M. Cascella Engineering Tocopherol Selectivity in alpha-TTP: A Combined In Vitro/In Silico Study PLoS One 2012 7 11 e49195
    • (2012) PLoS One , vol.7 , Issue.11 , pp. e49195
    • Helbling, R.E.1    Aeschimann, W.2    Simona, F.3    Stocker, A.4    Cascella, M.5
  • 21
    • 27344436962 scopus 로고    scopus 로고
    • Measurements of binding thermodynamics in drug discovery
    • G. A. Holdgate W. H. J. Ward Measurements of binding thermodynamics in drug discovery Drug Discovery Today 2005 10 22 1543-1550
    • (2005) Drug Discovery Today , vol.10 , Issue.22 , pp. 1543-1550
    • Holdgate, G.A.1    Ward, W.H.J.2
  • 22
    • 0038100343 scopus 로고
    • Ion-Solvent Molecule Interactions in the Gas-Phase - the Potassium-Ion and Benzene
    • J. Sunner K. Nishizawa P. Kebarle Ion-Solvent Molecule Interactions in the Gas-Phase-the Potassium-Ion and Benzene J. Phys. Chem. 1981 85 13 1814-1820
    • (1981) J. Phys. Chem. , vol.85 , Issue.13 , pp. 1814-1820
    • Sunner, J.1    Nishizawa, K.2    Kebarle, P.3
  • 23
    • 33845376733 scopus 로고
    • Unconventional Ionic Hydrogen-Bonds .1. Ch-Delta+...X - Complexes of Quaternary Ions with Normal-Donors and Pi-Donors
    • M. Meotner C. A. Deakyne Unconventional Ionic Hydrogen-Bonds .1. Ch-Delta+...X-Complexes of Quaternary Ions with Normal-Donors and Pi-Donors J. Am. Chem. Soc. 1985 107 2 469-474
    • (1985) J. Am. Chem. Soc. , vol.107 , Issue.2 , pp. 469-474
    • Meotner, M.1    Deakyne, C.A.2
  • 25
    • 31144470854 scopus 로고    scopus 로고
    • The role of loop ZA and Pro371 in the function of yeast Gcn5p bromodomain revealed through molecular dynamics and experiment
    • F. Pizzitutti A. Giansanti P. Ballario P. Ornaghi P. Torreri G. Ciccotti P. Filetici The role of loop ZA and Pro371 in the function of yeast Gcn5p bromodomain revealed through molecular dynamics and experiment J. Mol. Recognit. 2006 19 1 1-9
    • (2006) J. Mol. Recognit. , vol.19 , Issue.1 , pp. 1-9
    • Pizzitutti, F.1    Giansanti, A.2    Ballario, P.3    Ornaghi, P.4    Torreri, P.5    Ciccotti, G.6    Filetici, P.7
  • 26
    • 84884188872 scopus 로고    scopus 로고
    • Mechanism and Kinetics of Acetyl-Lysine Binding to Bromodomains
    • A. Magno S. Steiner A. Caflisch Mechanism and Kinetics of Acetyl-Lysine Binding to Bromodomains J. Chem. Theory Comput. 2013 9 9 4225-4232
    • (2013) J. Chem. Theory Comput. , vol.9 , Issue.9 , pp. 4225-4232
    • Magno, A.1    Steiner, S.2    Caflisch, A.3
  • 29
    • 73349109506 scopus 로고    scopus 로고
    • Through-Space Effects of Substituents Dominate Molecular Electrostatic Potentials of Substituted Arenes
    • S. E. Wheeler K. N. Houk Through-Space Effects of Substituents Dominate Molecular Electrostatic Potentials of Substituted Arenes J. Chem. Theory Comput. 2009 5 9 2301-2312
    • (2009) J. Chem. Theory Comput. , vol.5 , Issue.9 , pp. 2301-2312
    • Wheeler, S.E.1    Houk, K.N.2
  • 30
    • 0033544354 scopus 로고    scopus 로고
    • Cation-π Interactions in Proteins: Can Simple Models Provide an Accurate Description?
    • H. Minoux C. Chipot Cation-π Interactions in Proteins: Can Simple Models Provide an Accurate Description? J. Am. Chem. Soc. 1999 121 44 10366-10372
    • (1999) J. Am. Chem. Soc. , vol.121 , Issue.44 , pp. 10366-10372
    • Minoux, H.1    Chipot, C.2
  • 32
    • 0030043489 scopus 로고    scopus 로고
    • Cation-pi interactions in chemistry and biology: a new view of benzene, Phe, Tyr, and Trp
    • D. A. Dougherty Cation-pi interactions in chemistry and biology: a new view of benzene, Phe, Tyr, and Trp Science 1996 271 5246 163-168
    • (1996) Science , vol.271 , Issue.5246 , pp. 163-168
    • Dougherty, D.A.1
  • 33
    • 0027402090 scopus 로고
    • Amino-aromatic interaction between histidine 197 of the neurokinin-1 receptor and CP 96345
    • T. M. Fong M. A. Cascieri H. Yu A. Bansal C. Swain C. D. Strader Amino-aromatic interaction between histidine 197 of the neurokinin-1 receptor and CP 96345 Nature 1993 362 6418 350-353
    • (1993) Nature , vol.362 , Issue.6418 , pp. 350-353
    • Fong, T.M.1    Cascieri, M.A.2    Yu, H.3    Bansal, A.4    Swain, C.5    Strader, C.D.6
  • 34
    • 0034665865 scopus 로고    scopus 로고
    • Contribution of cation-pi interactions to the stability of protein-DNA complexes
    • R. Wintjens J. Lievin M. Rooman E. Buisine Contribution of cation-pi interactions to the stability of protein-DNA complexes J. Mol. Biol. 2000 302 2 395-410
    • (2000) J. Mol. Biol. , vol.302 , Issue.2 , pp. 395-410
    • Wintjens, R.1    Lievin, J.2    Rooman, M.3    Buisine, E.4
  • 35
    • 67749097785 scopus 로고    scopus 로고
    • Substituent effects in cation/pi interactions and electrostatic potentials above the centers of substituted benzenes are due primarily to through-space effects of the substituents
    • S. E. Wheeler K. N. Houk Substituent effects in cation/pi interactions and electrostatic potentials above the centers of substituted benzenes are due primarily to through-space effects of the substituents J. Am. Chem. Soc. 2009 131 9 3126-3127
    • (2009) J. Am. Chem. Soc. , vol.131 , Issue.9 , pp. 3126-3127
    • Wheeler, S.E.1    Houk, K.N.2
  • 36
    • 84950303075 scopus 로고    scopus 로고
    • Accurate calculation of the absolute free energy of binding for drug molecules
    • M. Aldeghi A. Heifetz M. J. Bodkin S. Knappcd P. C. Biggin Accurate calculation of the absolute free energy of binding for drug molecules Chem. Sci. 2016 7 1 207-218
    • (2016) Chem. Sci. , vol.7 , Issue.1 , pp. 207-218
    • Aldeghi, M.1    Heifetz, A.2    Bodkin, M.J.3    Knappcd, S.4    Biggin, P.C.5
  • 37
    • 84879692312 scopus 로고    scopus 로고
    • Does bromodomain flexibility influence histone recognition?
    • S. Steiner A. Magno D. Z. Huang A. Caflisch Does bromodomain flexibility influence histone recognition? FEBS Lett. 2013 587 14 2158-2163
    • (2013) FEBS Lett. , vol.587 , Issue.14 , pp. 2158-2163
    • Steiner, S.1    Magno, A.2    Huang, D.Z.3    Caflisch, A.4
  • 39
    • 84928162427 scopus 로고    scopus 로고
    • Insight into the key interactions of bromodomain inhibitors based on molecular docking, interaction fingerprinting, molecular dynamics and binding free energy calculation
    • T. Ran Z. M. Zhang K. J. Liu Y. Lu H. F. Li J. X. Xu X. Xiong Y. M. Zhang A. Y. Xu S. Lu H. C. Liu T. Lu Y. D. Chen Insight into the key interactions of bromodomain inhibitors based on molecular docking, interaction fingerprinting, molecular dynamics and binding free energy calculation Mol. BioSyst. 2015 11 5 1295-1304
    • (2015) Mol. BioSyst. , vol.11 , Issue.5 , pp. 1295-1304
    • Ran, T.1    Zhang, Z.M.2    Liu, K.J.3    Lu, Y.4    Li, H.F.5    Xu, J.X.6    Xiong, X.7    Zhang, Y.M.8    Xu, A.Y.9    Lu, S.10    Liu, H.C.11    Lu, T.12    Chen, Y.D.13
  • 40
    • 84869228349 scopus 로고    scopus 로고
    • Effect of atomic charge, solvation, entropy, and ligand protonation state on MM-PB(Gb)SA binding energies of HIV protease
    • D. P. Oehme R. T. Brownlee D. J. Wilson Effect of atomic charge, solvation, entropy, and ligand protonation state on MM-PB(GB)SA binding energies of HIV protease J. Comput. Chem. 2012 33 32 2566-2580
    • (2012) J. Comput. Chem. , vol.33 , Issue.32 , pp. 2566-2580
    • Oehme, D.P.1    Brownlee, R.T.2    Wilson, D.J.3
  • 41
    • 84896275199 scopus 로고    scopus 로고
    • Computing Clinically Relevant Binding Free Energies of HIV-1 Protease Inhibitors
    • D. W. Wright B. A. Hall O. A. Kenway S. Jha P. V. Coveney Computing Clinically Relevant Binding Free Energies of HIV-1 Protease Inhibitors J. Chem. Theory Comput. 2014 10 3 1228-1241
    • (2014) J. Chem. Theory Comput. , vol.10 , Issue.3 , pp. 1228-1241
    • Wright, D.W.1    Hall, B.A.2    Kenway, O.A.3    Jha, S.4    Coveney, P.V.5
  • 42
    • 79951996670 scopus 로고    scopus 로고
    • Assessing the Performance of the Molecular Mechanics/Poisson Boltzmann Surface Area and Molecular Mechanics/Generalized Born Surface Area Methods. II. The Accuracy of Ranking Poses Generated From Docking
    • T. J. Hou J. M. Wang Y. Y. Li W. Wang Assessing the Performance of the Molecular Mechanics/Poisson Boltzmann Surface Area and Molecular Mechanics/Generalized Born Surface Area Methods. II. The Accuracy of Ranking Poses Generated From Docking J. Comput. Chem. 2011 32 5 866-877
    • (2011) J. Comput. Chem. , vol.32 , Issue.5 , pp. 866-877
    • Hou, T.J.1    Wang, J.M.2    Li, Y.Y.3    Wang, W.4
  • 43
    • 80053299829 scopus 로고    scopus 로고
    • A molecular mechanics approach to modeling protein-ligand interactions: relative binding affinities in congeneric series
    • C. Rapp C. Kalyanaraman A. Schiffmiller E. L. Schoenbrun M. P. Jacobson A molecular mechanics approach to modeling protein-ligand interactions: relative binding affinities in congeneric series J. Chem. Inf. Model. 2011 51 9 2082-2089
    • (2011) J. Chem. Inf. Model. , vol.51 , Issue.9 , pp. 2082-2089
    • Rapp, C.1    Kalyanaraman, C.2    Schiffmiller, A.3    Schoenbrun, E.L.4    Jacobson, M.P.5
  • 44
    • 11944270178 scopus 로고
    • Cation-Pi Interactions - Nonadditive Effects Are Critical in Their Accurate Representation
    • J. W. Caldwell P. A. Kollman Cation-Pi Interactions-Nonadditive Effects Are Critical in Their Accurate Representation J. Am. Chem. Soc. 1995 117 14 4177-4178
    • (1995) J. Am. Chem. Soc. , vol.117 , Issue.14 , pp. 4177-4178
    • Caldwell, J.W.1    Kollman, P.A.2
  • 45
    • 0027436998 scopus 로고
    • A Mechanism for Ion Selectivity in Potassium Channels - Computational Studies of Cation-Pi Interactions
    • R. A. Kumpf D. A. Dougherty A Mechanism for Ion Selectivity in Potassium Channels-Computational Studies of Cation-Pi Interactions Science 1993 261 5129 1708-1710
    • (1993) Science , vol.261 , Issue.5129 , pp. 1708-1710
    • Kumpf, R.A.1    Dougherty, D.A.2
  • 46
    • 11944270178 scopus 로고
    • Cation-.pi. Interactions: Nonadditive Effects Are Critical in Their Accurate Representation
    • J. W. Caldwell P. A. Kollman Cation-.pi. Interactions: Nonadditive Effects Are Critical in Their Accurate Representation J. Am. Chem. Soc. 1995 117 14 4177-4178
    • (1995) J. Am. Chem. Soc. , vol.117 , Issue.14 , pp. 4177-4178
    • Caldwell, J.W.1    Kollman, P.A.2
  • 49
    • 0032514762 scopus 로고    scopus 로고
    • From ab initio quantum mechanics to molecular neurobiology: a cation-pi binding site in the nicotinic receptor
    • W. Zhong J. P. Gallivan Y. Zhang L. Li H. A. Lester D. A. Dougherty From ab initio quantum mechanics to molecular neurobiology: a cation-pi binding site in the nicotinic receptor Proc. Natl. Acad. Sci. U. S. A. 1998 95 21 12088-12093
    • (1998) Proc. Natl. Acad. Sci. U. S. A. , vol.95 , Issue.21 , pp. 12088-12093
    • Zhong, W.1    Gallivan, J.P.2    Zhang, Y.3    Li, L.4    Lester, H.A.5    Dougherty, D.A.6
  • 50
    • 0034624393 scopus 로고    scopus 로고
    • A computational study of cation-pi interactions vs salt bridges in aqueous media: Implications for protein engineering
    • J. P. Gallivan D. A. Dougherty A computational study of cation-pi interactions vs salt bridges in aqueous media: Implications for protein engineering J. Am. Chem. Soc. 2000 122 5 870-874
    • (2000) J. Am. Chem. Soc. , vol.122 , Issue.5 , pp. 870-874
    • Gallivan, J.P.1    Dougherty, D.A.2
  • 51
    • 84876275836 scopus 로고    scopus 로고
    • The cation-pi interaction
    • D. A. Dougherty The cation-pi interaction Acc. Chem. Res. 2013 46 4 885-893
    • (2013) Acc. Chem. Res. , vol.46 , Issue.4 , pp. 885-893
    • Dougherty, D.A.1
  • 53
    • 0034831404 scopus 로고    scopus 로고
    • The origin of the cation/pi interaction: The significant importance of the induction in Li+ and Na+ complexes
    • S. Tsuzuki M. Yoshida T. Uchimaru M. Mikami The origin of the cation/pi interaction: The significant importance of the induction in Li+ and Na+ complexes J. Phys. Chem. A 2001 105 4 769-773
    • (2001) J. Phys. Chem. A , vol.105 , Issue.4 , pp. 769-773
    • Tsuzuki, S.1    Yoshida, M.2    Uchimaru, T.3    Mikami, M.4
  • 54
    • 82955229556 scopus 로고    scopus 로고
    • Substituent effects on non-covalent interactions with aromatic rings: insights from computational chemistry
    • R. K. Raju J. W. Bloom Y. An S. E. Wheeler Substituent effects on non-covalent interactions with aromatic rings: insights from computational chemistry ChemPhysChem 2011 12 17 3116-3130
    • (2011) ChemPhysChem , vol.12 , Issue.17 , pp. 3116-3130
    • Raju, R.K.1    Bloom, J.W.2    An, Y.3    Wheeler, S.E.4
  • 58
    • 77951962870 scopus 로고    scopus 로고
    • The calculation of small molecular interactions by the differences of separate total energies. Some procedures with reduced errors
    • S. F. Boys F. Bernardi The calculation of small molecular interactions by the differences of separate total energies. Some procedures with reduced errors Mol. Phys. 2002 100 1 65-73
    • (2002) Mol. Phys. , vol.100 , Issue.1 , pp. 65-73
    • Boys, S.F.1    Bernardi, F.2
  • 59
    • 30244527819 scopus 로고    scopus 로고
    • How does basis set superposition error change the potential surfaces for hydrogen bonded dimers?
    • S. Simon M. Duran J. J. Dannenberg How does basis set superposition error change the potential surfaces for hydrogen bonded dimers? J. Chem. Phys. 1996 105 24 11024-11031
    • (1996) J. Chem. Phys. , vol.105 , Issue.24 , pp. 11024-11031
    • Simon, S.1    Duran, M.2    Dannenberg, J.J.3
  • 60
    • 43049141516 scopus 로고    scopus 로고
    • 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
    • Y. Zhao D. G. Truhlar 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 1-3 215-241
    • (2008) Theor. Chem. Acc. , vol.120 , Issue.1-3 , pp. 215-241
    • Zhao, Y.1    Truhlar, D.G.2
  • 61
    • 0011682081 scopus 로고
    • Quadratic Configuration-Interaction - a General Technique for Determining Electron Correlation Energies
    • J. A. Pople M. Headgordon K. Raghavachari Quadratic Configuration-Interaction-a General Technique for Determining Electron Correlation Energies J. Chem. Phys. 1987 87 10 5968-5975
    • (1987) J. Chem. Phys. , vol.87 , Issue.10 , pp. 5968-5975
    • Pople, J.A.1    Headgordon, M.2    Raghavachari, K.3
  • 62
    • 79952943559 scopus 로고    scopus 로고
    • Effect of the damping function in dispersion corrected density functional theory
    • S. Grimme S. Ehrlich L. Goerigk Effect of the damping function in dispersion corrected density functional theory J. Comput. Chem. 2011 32 7 1456-1465
    • (2011) J. Comput. Chem. , vol.32 , Issue.7 , pp. 1456-1465
    • Grimme, S.1    Ehrlich, S.2    Goerigk, L.3
  • 63
    • 66349120487 scopus 로고    scopus 로고
    • 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
    • A. V. Marenich C. J. Cramer D. G. Truhlar 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 18 6378-6396
    • (2009) J. Phys. Chem. B , vol.113 , Issue.18 , pp. 6378-6396
    • Marenich, A.V.1    Cramer, C.J.2    Truhlar, D.G.3
  • 64
    • 84962385262 scopus 로고    scopus 로고
    • Self-consistent reaction field model for aqueous and nonaqueous solutions based on accurate polarized partial charges
    • A. V. Marenich R. M. Olson C. P. Kelly C. J. Cramer D. G. Truhlar Self-consistent reaction field model for aqueous and nonaqueous solutions based on accurate polarized partial charges J. Chem. Theory Comput. 2007 3 6 2011-2033
    • (2007) J. Chem. Theory Comput. , vol.3 , Issue.6 , pp. 2011-2033
    • Marenich, A.V.1    Olson, R.M.2    Kelly, C.P.3    Cramer, C.J.4    Truhlar, D.G.5
  • 65
    • 34547858913 scopus 로고    scopus 로고
    • Structure and acetyl-lysine recognition of the bromodomain
    • S. Mujtaba L. Zeng M. M. Zhou Structure and acetyl-lysine recognition of the bromodomain Oncogene 2007 26 37 5521-5527
    • (2007) Oncogene , vol.26 , Issue.37 , pp. 5521-5527
    • Mujtaba, S.1    Zeng, L.2    Zhou, M.M.3
  • 66
    • 84998956418 scopus 로고    scopus 로고
    • Spartan'14, Wavefunction, Inc. Irvine, CA
    • Spartan'14, Wavefunction, Inc. Irvine, CA
  • 67
    • 84862614975 scopus 로고    scopus 로고
    • University of California, San Francisco
    • D. A. Case, et al., AMBER 12, University of California, San Francisco, 2012
    • (2012) AMBER 12
    • Case, D.A.1
  • 68
    • 33748538349 scopus 로고    scopus 로고
    • Automatic atom type and bond type perception in molecular mechanical calculations
    • J. M. Wang W. Wang P. A. Kollman D. A. Case Automatic atom type and bond type perception in molecular mechanical calculations J. Mol. Graphics Modell. 2006 25 2 247-260
    • (2006) J. Mol. Graphics Modell. , vol.25 , Issue.2 , pp. 247-260
    • Wang, J.M.1    Wang, W.2    Kollman, P.A.3    Case, D.A.4
  • 70
    • 0021107965 scopus 로고
    • Solvent-Accessible Surfaces of Proteins and Nucleic-Acids
    • M. L. Connolly Solvent-Accessible Surfaces of Proteins and Nucleic-Acids Science 1983 221 4612 709-713
    • (1983) Science , vol.221 , Issue.4612 , pp. 709-713
    • Connolly, M.L.1
  • 71
    • 4143095330 scopus 로고
    • Electron-Affinities of the 1st-Row Atoms Revisited - Systematic Basis-Sets and Wave-Functions
    • R. A. Kendall T. H. Dunning R. J. Harrison Electron-Affinities of the 1st-Row Atoms Revisited-Systematic Basis-Sets and Wave-Functions J. Chem. Phys. 1992 96 9 6796-6806
    • (1992) J. Chem. Phys. , vol.96 , Issue.9 , pp. 6796-6806
    • Kendall, R.A.1    Dunning, T.H.2    Harrison, R.J.3
  • 74
    • 84928313330 scopus 로고    scopus 로고
    • The MM-PBSA and MM-GBSA methods to estimate ligand-binding affinities
    • S. Genheden U. Ryde The MM-PBSA and MM-GBSA methods to estimate ligand-binding affinities Expert Opin. Drug Discovery 2015 10 5 449-461
    • (2015) Expert Opin. Drug Discovery , vol.10 , Issue.5 , pp. 449-461
    • Genheden, S.1    Ryde, U.2
  • 75
    • 84905269946 scopus 로고    scopus 로고
    • Structure-based virtual screening of novel, high-affinity BRD4 inhibitors
    • C. Muvva E. R. Singam S. S. Raman V. Subramanian Structure-based virtual screening of novel, high-affinity BRD4 inhibitors Mol. BioSyst. 2014 10 9 2384-2397
    • (2014) Mol. BioSyst. , vol.10 , Issue.9 , pp. 2384-2397
    • Muvva, C.1    Singam, E.R.2    Raman, S.S.3    Subramanian, V.4
  • 77
    • 34249799922 scopus 로고    scopus 로고
    • Cation-pi interactions involving aromatic amino acids
    • D. A. Dougherty Cation-pi interactions involving aromatic amino acids J. Nutr. 2007 137 1504S-1508S
    • (2007) J. Nutr. , vol.137 , pp. 1504S-1508S
    • Dougherty, D.A.1
  • 78
    • 0029967521 scopus 로고    scopus 로고
    • Cation-pi interactions in simple aromatics: Electrostatics provide a predictive tool
    • S. Mecozzi A. P. West D. A. Dougherty Cation-pi interactions in simple aromatics: Electrostatics provide a predictive tool J. Am. Chem. Soc. 1996 118 9 2307-2308
    • (1996) J. Am. Chem. Soc. , vol.118 , Issue.9 , pp. 2307-2308
    • Mecozzi, S.1    West, A.P.2    Dougherty, D.A.3
  • 79
    • 84969523100 scopus 로고    scopus 로고
    • et al., Fragment-Based Discovery of a Selective and Cell-Active Benzodiazepinone CBP/EP300 Bromodomain Inhibitor (CPI-637)
    • A. M. Taylor et al., Fragment-Based Discovery of a Selective and Cell-Active Benzodiazepinone CBP/EP300 Bromodomain Inhibitor (CPI-637) ACS Med. Chem. Lett. 2016 7 5 531-536
    • (2016) ACS Med. Chem. Lett. , vol.7 , Issue.5 , pp. 531-536
    • Taylor, A.M.1
  • 81
    • 84971207232 scopus 로고    scopus 로고
    • Stacking Interactions between 9-Methyladenine and Heterocycles Commonly Found in Pharmaceuticals
    • Y. An A. C. Doney R. B. Andrade S. E. Wheeler Stacking Interactions between 9-Methyladenine and Heterocycles Commonly Found in Pharmaceuticals J. Chem. Inf. Model. 2016 56 5 906-914
    • (2016) J. Chem. Inf. Model. , vol.56 , Issue.5 , pp. 906-914
    • An, Y.1    Doney, A.C.2    Andrade, R.B.3    Wheeler, S.E.4
  • 82
    • 82955229556 scopus 로고    scopus 로고
    • Substituent Effects on Non-Covalent Interactions with Aromatic Rings: Insights from Computational Chemistry
    • R. K. Raju J. W. G. Bloom Y. An S. E. Wheeler Substituent Effects on Non-Covalent Interactions with Aromatic Rings: Insights from Computational Chemistry ChemPhysChem 2011 12 3116-3130
    • (2011) ChemPhysChem , vol.12 , pp. 3116-3130
    • Raju, R.K.1    Bloom, J.W.G.2    An, Y.3    Wheeler, S.E.4
  • 83
    • 84870203103 scopus 로고    scopus 로고
    • Understanding Substituent Effects in Noncovalent Interactions Involving Aromatic Rings
    • S. E. Wheeler Understanding Substituent Effects in Noncovalent Interactions Involving Aromatic Rings Acc. Chem. Res. 2013 46 4 1029-1038
    • (2013) Acc. Chem. Res. , vol.46 , Issue.4 , pp. 1029-1038
    • Wheeler, S.E.1
  • 85
    • 66149156829 scopus 로고    scopus 로고
    • Hydrogen Bonding and Pi-Stacking: How Reliable are Force Fields? A Critical Evaluation of Force Field Descriptions of Non-Bonded Interactions
    • R. S. Paton J. M. Goodman Hydrogen Bonding and Pi-Stacking: How Reliable are Force Fields? A Critical Evaluation of Force Field Descriptions of Non-Bonded Interactions J. Chem. Inf. Model. 2009 49 944-955
    • (2009) J. Chem. Inf. Model. , vol.49 , pp. 944-955
    • Paton, R.S.1    Goodman, J.M.2
  • 86
    • 84904438047 scopus 로고    scopus 로고
    • Assessing the performance of MM-PBSA and MM-GBSA methods. 4. Accuracies of MM-PBSA and MM-GBSA methodologies evaluated by various simulation protocols using PDBbind data set
    • H. Y. Sun Y. Y. Li S. Tian L. Xu T. J. Hou Assessing the performance of MM-PBSA and MM-GBSA methods. 4. Accuracies of MM-PBSA and MM-GBSA methodologies evaluated by various simulation protocols using PDBbind data set Phys. Chem. Chem. Phys. 2014 16 31 16719-16729
    • (2014) Phys. Chem. Chem. Phys. , vol.16 , Issue.31 , pp. 16719-16729
    • Sun, H.Y.1    Li, Y.Y.2    Tian, S.3    Xu, L.4    Hou, T.J.5
  • 87
    • 84874599204 scopus 로고    scopus 로고
    • Recognition of Methylated Peptides by Drosophila melanogaster Polycomb Chromodomain
    • R. S. L. Stein N. Li W. He E. Komives W. Wang Recognition of Methylated Peptides by Drosophila melanogaster Polycomb Chromodomain J. Proteome Res. 2013 12 3 1467-1477
    • (2013) J. Proteome Res. , vol.12 , Issue.3 , pp. 1467-1477
    • Stein, R.S.L.1    Li, N.2    He, W.3    Komives, E.4    Wang, W.5


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.