메뉴 건너뛰기




Volumn 26, Issue 1, 2010, Pages 36-44

Hydration change on complexation of aromatic ligands with DNA: Molecular dynamics simulations

Author keywords

Aromatic ligand; Double helical DNA; Hydration index; Water release

Indexed keywords

AROMATIC COMPOUND; DACTINOMYCIN; DAUNORUBICIN; DNA; ETHIDIUM BROMIDE; MITOXANTRONE; MUTAGENIC AGENT; NOGALAMYCIN; PROFLAVINE; WATER;

EID: 77949348615     PISSN: 02337657     EISSN: 19936842     Source Type: Journal    
DOI: 10.7124/bc.000142     Document Type: Article
Times cited : (6)

References (26)
  • 2
    • 0036647051 scopus 로고    scopus 로고
    • Thermodynamics of Drug-DNA interactions
    • Haq I. Thermodynamics of Drug-DNA interactions. Arch. Biochem. Biophys. 2002. 403, N 1. P. 1-15.
    • (2002) Arch. Biochem. Biophys , vol.403 , Issue.1 , pp. 1-15
    • Haq, I.1
  • 3
    • 0033989272 scopus 로고    scopus 로고
    • Water regulation of actinomycin-D binding to DNA: The interplay among drug affinity, DNA long-range conformation, and hydration
    • Neto J. R., Colombo M. F. Water regulation of actinomycin-D binding to DNA: the interplay among drug affinity, DNA long-range conformation, and hydration. Biopolymers. 2000. 53, N 1. P. 46-59.
    • (2000) Biopolymers , vol.53 , Issue.1 , pp. 46-59
    • Neto, J.R.1    Colombo, M.F.2
  • 4
    • 34347400649 scopus 로고    scopus 로고
    • On the origin of the decrease in stability of the DNA hairpin d(GCGAAGC) on complexation with aromatic drugs
    • Kostjukov V. V., Lantushenko A. O., Davies D. B., Evstigneev M. P. On the origin of the decrease in stability of the DNA hairpin d(GCGAAGC) on complexation with aromatic drugs. Biophys. Chem. 2007. 129, N 1. P. 56-59.
    • (2007) Biophys. Chem , vol.129 , Issue.1 , pp. 56-59
    • Kostjukov, V.V.1    Lantushenko, A.O.2    Davies, D.B.3    Evstigneev, M.P.4
  • 5
    • 53549092801 scopus 로고    scopus 로고
    • Hydration of drug-DNA complexes: Greater water uptake for adriamycin compared to daunomycin
    • Yu H. J., Ren J. S., Chaires J. B., Qu X. G. Hydration of drug-DNA complexes: greater water uptake for adriamycin compared to daunomycin. J. Med. Chem. 2008. 51, N 19. P. 5909-5911.
    • (2008) J. Med. Chem , vol.51 , Issue.19 , pp. 5909-5911
    • Yu, H.J.1    Ren, J.S.2    Chaires, J.B.3    Qu, X.G.4
  • 6
    • 70149091049 scopus 로고    scopus 로고
    • Partition of thermodynamic energies of drug-DNA ñomplexation
    • Kostjukov V. V., Khomytova N. M., Evstigneev M. P. Partition of thermodynamic energies of drug-DNA ñomplexation. Biopolymers. 2009. 91, N 9. P. 773-790.
    • (2009) Biopolymers , vol.91 , Issue.9 , pp. 773-790
    • Kostjukov, V.V.1    Khomytova, N.M.2    Evstigneev, M.P.3
  • 7
    • 0035835086 scopus 로고    scopus 로고
    • Hydration changes for DNA intercalation reactions
    • Qu X., Chaires J. B. Hydration changes for DNA intercalation reactions. J. Am. Chem. Soc. 2001. 123, N 1. P. 1-3.
    • (2001) J. Am. Chem. Soc , vol.123 , Issue.1 , pp. 1-3
    • Qu, X.1    Chaires, J.B.2
  • 8
    • 65749105184 scopus 로고    scopus 로고
    • Hydrophobic contribution to the free energy of complexation of aromatic ligands with DNA
    • Kostjukov V. V., Khomytova N. M., Lantushenko A. O., Evstigneev M. P. Hydrophobic contribution to the free energy of complexation of aromatic ligands with DNA. Biopolym. cell. 2009. 25, N 2. P. 133-141.
    • (2009) Biopolym. Cell , vol.25 , Issue.2 , pp. 133-141
    • Kostjukov, V.V.1    Khomytova, N.M.2    Lantushenko, A.O.3    Evstigneev, M.P.4
  • 10
    • 52049116876 scopus 로고    scopus 로고
    • Electrostatic contribution to the energy of binding of aromatic ligands with DNA
    • Kostjukov V. V., Khomytova N. M., Davies D. B., Evstigneev M. P. Electrostatic contribution to the energy of binding of aromatic ligands with DNA. Biopolymers. 2008. 89, N 8. P. 680-690.
    • (2008) Biopolymers , vol.89 , Issue.8 , pp. 680-690
    • Kostjukov, V.V.1    Khomytova, N.M.2    Davies, D.B.3    Evstigneev, M.P.4
  • 12
    • 0027993455 scopus 로고
    • Hydration and partial compressibility of biological compounds
    • Chalikian T. V., Sarvazyan A. P., Breslauer K. J. Hydration and partial compressibility of biological compounds. Biophys. Chem. 1994. 51, N 2. P. 89-109.
    • (1994) Biophys. Chem , vol.51 , Issue.2 , pp. 89-109
    • Chalikian, T.V.1    Sarvazyan, A.P.2    Breslauer, K.J.3
  • 13
    • 0026238664 scopus 로고
    • Dependence of the hydration shell structure in the minor groove of the DNA double helix on the groove width as revealed by Monte Carlo simulation
    • Teplukhin A. V., Poltev V. I., Chuprina V. P. Dependence of the hydration shell structure in the minor groove of the DNA double helix on the groove width as revealed by Monte Carlo simulation. Biopolymers. 1991. 31, N 12. P. 1445-1453.
    • (1991) Biopolymers , vol.31 , Issue.12 , pp. 1445-1453
    • Teplukhin, A.V.1    Poltev, V.I.2    Chuprina, V.P.3
  • 14
    • 0037012390 scopus 로고    scopus 로고
    • Intercalators. 1. Nature of stacking interactions between intercalators (Ethidium, Daunomycin, Ellipticine, and 4'6-diaminide-2-phenylindole) and DNA base pairs
    • Reha D., Kabelac M., Ryjacek F., Sponer J., Elstner M., Suhai S., Hobza P. Intercalators. 1. Nature of stacking interactions between intercalators (Ethidium, Daunomycin, Ellipticine, and 4'6-diaminide-2-phenylindole) and DNA base pairs. J. Amer. Chem. Soc. 2002. 124, N 13. P. 3366-3376.
    • (2002) J. Amer. Chem. Soc , vol.124 , Issue.13 , pp. 3366-3376
    • Reha, D.1    Kabelac, M.2    Ryjacek, F.3    Sponer, J.4    Elstner, M.5    Suhai, S.6    Hobza, P.7
  • 15
    • 0030710155 scopus 로고    scopus 로고
    • Electrostatic and nonelectrostatic contributions to the binding free energies of anthracycline antibiotics to DNA
    • Baginski M., Fogolari F., Briggs J. M. Electrostatic and nonelectrostatic contributions to the binding free energies of anthracycline antibiotics to DNA. J. Mol. Biol. 1997. 274, N 2. P. 253-267.
    • (1997) J. Mol. Biol , vol.274 , Issue.2 , pp. 253-267
    • Baginski, M.1    Fogolari, F.2    Briggs, J.M.3
  • 16
    • 48249123805 scopus 로고    scopus 로고
    • On the molecular mechanism of drug intercalation into DNA: A simulation study of the intercalation pathway, free energy, and DNA structural changes
    • Mukherjee A., Lavery R., Bagchi B., Hynes J. T. On the molecular mechanism of drug intercalation into DNA: a simulation study of the intercalation pathway, free energy, and DNA structural changes. J. Am. Chem. Soc. 2008. 130, N 30. P. 9747-9755.
    • (2008) J. Am. Chem. Soc , vol.130 , Issue.30 , pp. 9747-9755
    • Mukherjee, A.1    Lavery, R.2    Bagchi, B.3    Hynes, J.T.4
  • 17
    • 33846850207 scopus 로고    scopus 로고
    • Hydration changes accompanying the binding of minor groove ligands with
    • Degtyareva N. N., Wallace B. D., Bryant A. R., Loo K. M., Petty J. T. Hydration changes accompanying the binding of minor groove ligands with DNA. Biophys. J. 2007. 92, N 3. P. 959-965.
    • (2007) DNA. Biophys. J , vol.92 , Issue.3 , pp. 959-965
    • Degtyareva, N.N.1    Wallace, B.D.2    Bryant, A.R.3    Loo, K.M.4    Petty, J.T.5
  • 18
    • 0037472849 scopus 로고    scopus 로고
    • Spectroscopic and calorimetric study of DNA interaction with a new series of actinocin derivatives
    • Maleev V., Semenov M., Kruglova E. B., Bolbukh T., Gasan A., Bereznyak E., Shestopalova A. Spectroscopic and calorimetric study of DNA interaction with a new series of actinocin derivatives. J. Mol. Struct. 2003. 645, N 2. P. 145-158.
    • (2003) J. Mol. Struct , vol.645 , Issue.2 , pp. 145-158
    • Maleev, V.1    Semenov, M.2    Kruglova, E.B.3    Bolbukh, T.4    Gasan, A.5    Bereznyak, E.6    Shestopalova, A.7
  • 19
    • 0000137680 scopus 로고    scopus 로고
    • Volumetric properties of nucleic acids
    • Chalikian T. V., Breslauer K. J. Volumetric properties of nucleic acids. Biopolymers. 1998. 48, N 4. P. 264-280.
    • (1998) Biopolymers , vol.48 , Issue.4 , pp. 264-280
    • Chalikian, T.V.1    Breslauer, K.J.2
  • 20
    • 0025194402 scopus 로고
    • Hydration of dAˑdT polymers: Role of water in the thermodynamics of ethidium and propidium intercalation
    • Marky L. A., Macgregor R. B. J. Hydration of dAˑdT polymers: role of water in the thermodynamics of ethidium and propidium intercalation. Biochemistry. 1990. 29, N 20. P. 4805-4811.
    • (1990) Biochemistry , vol.29 , Issue.20 , pp. 4805-4811
    • Marky, L.A.1    Macgregor, R.2
  • 21
    • 0038451250 scopus 로고    scopus 로고
    • Hydration changes accompanying nucleic acid intercalation reactions: Volumetric characterizations
    • Han F., Chalikian T. V. Hydration changes accompanying nucleic acid intercalation reactions: volumetric characterizations. J. Amer. Chem. Soc. 2003. 125, N 24. P. 7219-7229.
    • (2003) J. Amer. Chem. Soc , vol.125 , Issue.24 , pp. 7219-7229
    • Han, F.1    Chalikian, T.V.2
  • 22
    • 33846303216 scopus 로고    scopus 로고
    • Volume and hydration changes of DNA-ligand interactions
    • Shi X., Macgregor R. B. J. Volume and hydration changes of DNA-ligand interactions. Biophys. Chem. 2007. 125, N 2. P. 471-482.
    • (2007) Biophys. Chem , vol.125 , Issue.2 , pp. 471-482
    • Shi, X.1    Macgregor, R.2
  • 23
    • 0028931707 scopus 로고
    • The osmotic sensitivity of netroðsin analog binding to DNA
    • Sidorova N. Y., Rau D. C. The osmotic sensitivity of netroðsin analog binding to DNA. Biopolymers. 1995. 35, N 4. P. 377-384.
    • (1995) Biopolymers , vol.35 , Issue.4 , pp. 377-384
    • Sidorova, N.Y.1    Rau, D.C.2
  • 24
    • 3543040694 scopus 로고    scopus 로고
    • A molecular thermodynamic view of DNA-drug interactions: A case of 25 minorgroove binders
    • Shaikh S. A., Ahmed S. R., Jayaram B. A molecular thermodynamic view of DNA-drug interactions: a case of 25 minorgroove binders. Arch. Biochem. Biophys. 2004. 429, N 1. P. 81-99.
    • (2004) Arch. Biochem. Biophys , vol.429 , Issue.1 , pp. 81-99
    • Shaikh, S.A.1    Ahmed, S.R.2    Jayaram, B.3
  • 26
    • 0035899736 scopus 로고    scopus 로고
    • Properties of water solutions of electrolytes and nonelectrolytes
    • Zavitsas A. A. Properties of water solutions of electrolytes and nonelectrolytes. J. Phys. Chem. B. 2001. 105, N 32. P.7805-7817.
    • (2001) J. Phys. Chem. B , vol.105 , Issue.32 , pp. 7805-7817
    • Zavitsas, A.A.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.