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Volumn 115, Issue 5, 2011, Pages 796-802

Coarse-grained molecular dynamics simulations of cobra cytotoxin A3 interactions with a lipid bilayer: Penetration of loops into membranes

Author keywords

[No Author keywords available]

Indexed keywords

AGRICULTURAL MACHINERY; AMINO ACIDS; CONFORMATIONS; DYNAMICS; LIPID BILAYERS;

EID: 79952838963     PISSN: 15206106     EISSN: 15205207     Source Type: Journal    
DOI: 10.1021/jp107599v     Document Type: Article
Times cited : (24)

References (26)
  • 1
    • 0034092709 scopus 로고    scopus 로고
    • Elucidation of the solution structure of cardiotoxin analogue V from the Taiwan cobra (Naja naja atra) - Identification of structural features important for the lethal action of snake venom cardiotoxins
    • Jayaraman, T. K.; Kumar, C. C.; Tsai, S.; Srisailam, S. H.; Chou, C. L.; Ho, C. Elucidation of the solution structure of cardiotoxin analogue V from the Taiwan cobra (Naja naja atra), identification of structural features important for the lethal action of snake venom cardiotoxins Protein Sci. 2000, 9, 637-646 (Pubitemid 30217612)
    • (2000) Protein Science , vol.9 , Issue.4 , pp. 637-646
    • Jayaraman, G.1    Kumar, T.K.S.2    Tsai, C.-C.3    Srisailam, S.4    Chou, S.-H.5    Ho, C.-L.6    Yu, C.7
  • 2
    • 18844458267 scopus 로고    scopus 로고
    • Interaction of three-finger toxins with phospholipid membranes: Comparison of S- and P-type cytotoxins
    • DOI 10.1042/BJ20041814
    • Dubovskii, P. V.; Lesovoy, D. M.; Dubinnyi, M. A.; Konshina, A. G.; Utkin, Y. N.; Efremov, R. G.; Arseniev, A. S. Interaction of three-finger toxins with phospholipid membranes: comparison of S- and P-type cytotoxins Biochem. J. 2005, 387, 807-815 (Pubitemid 40685716)
    • (2005) Biochemical Journal , vol.387 , Issue.3 , pp. 807-815
    • Dubovskii, P.V.1    Lesovoy, D.M.2    Dubinnyi, M.A.3    Konshina, A.G.4    Utkin, Y.N.5    Efremov, R.G.6    Arseniev, A.S.7
  • 4
    • 23944527363 scopus 로고    scopus 로고
    • Cancer cell injury by cytotoxins from cobra venom is mediated through lysosomal damage
    • DOI 10.1042/BJ20041892
    • Feofanov, A. V.; Sharonov, G. V.; Astapova, M. V.; Rodionov, D. I.; Utkin, Y. N.; Arseniev, A. S. Cancer cell injury by cytotoxins from cobra venom is mediated through lysosomal damage Biochem. J. 2005, 390, 11-18 (Pubitemid 41192226)
    • (2005) Biochemical Journal , vol.390 , Issue.1 , pp. 11-18
    • Feofanov, A.V.1    Sharonov, G.V.2    Astapova, M.V.3    Rodionov, D.I.4    Utkin, Y.N.5    Arseniev, A.S.6
  • 5
    • 0038746791 scopus 로고    scopus 로고
    • Peripheral binding mode and penetration depth of cobra cardiotoxin on phospholipidmembranes as studied by a combined FTIR and computer simulation approach
    • Huang, W. N.; Sue, S. C.; Wang, D. S.; Wu, P. L.; Wu, W. G. Peripheral binding mode and penetration depth of cobra cardiotoxin on phospholipidmembranes as studied by a combined FTIR and computer simulation approach Biochemistry 2003, 42, 7457-7466
    • (2003) Biochemistry , vol.42 , pp. 7457-7466
    • Huang, W.N.1    Sue, S.C.2    Wang, D.S.3    Wu, P.L.4    Wu, W.G.5
  • 6
    • 76249098904 scopus 로고    scopus 로고
    • Conformational Sampling of Influenza Fusion Peptide in Membrane Bilayers as a Function of Termini and Protonation States
    • Panahi, A; Feig, M. Conformational Sampling of Influenza Fusion Peptide in Membrane Bilayers as a Function of Termini and Protonation States J. Phys. Chem. B 2010, 114, 1407-1416
    • (2010) J. Phys. Chem. B , vol.114 , pp. 1407-1416
    • Panahi, A.1    Feig, M.2
  • 7
    • 33744983345 scopus 로고    scopus 로고
    • PH-dependence of intermediate steps of membrane fusion induced by the influenza fusion peptide
    • Chang, D. K.; Cheng, S. F. pH-dependence of intermediate steps of membrane fusion induced by the influenza fusion peptide Biochem. J. 2006, 396, 557-563
    • (2006) Biochem. J. , vol.396 , pp. 557-563
    • Chang, D.K.1    Cheng, S.F.2
  • 8
    • 0035979369 scopus 로고    scopus 로고
    • Membrane interactions of mutated forms of the influenza fusion peptide
    • DOI 10.1021/bi0107187
    • Epand, R. M.; Epand, R. F.; Martin, I.; Ruysschaert, J. M. Membrane Interactions of Mutated Forms of the Influenza Fusion Peptide Biochemistry 2001, 40, 8800-8807 (Pubitemid 32709512)
    • (2001) Biochemistry , vol.40 , Issue.30 , pp. 8800-8807
    • Epand, R.M.1    Epand, R.F.2    Martin, I.3    Ruysschaert, J.-M.4
  • 9
    • 33751265496 scopus 로고    scopus 로고
    • Interaction of influenza virus fusion peptide with lipid membranes: Effect of lysolipid
    • DOI 10.1007/s00232-006-0862-z
    • Ohki, S.; Baker, G. A.; Page, P. M.; McCarty, T. A.; Epand, R. M.; Bright, F. V. Interaction of Influenza Virus Fusion Peptide with Lipid Membranes: Effect of Lysolipid J. Membr. Biol. 2006, 211, 191-200 (Pubitemid 44800535)
    • (2006) Journal of Membrane Biology , vol.211 , Issue.3 , pp. 191-200
    • Ohki, S.1    Baker, G.A.2    Page, P.M.3    McCarty, T.A.4    Epand, R.M.5    Bright, F.V.6
  • 10
    • 57749204349 scopus 로고    scopus 로고
    • Steered molecular dynamics simulations of cobra cytotoxin interaction with zwitterionic lipid bilayer: No penetration of loop tips into membranes
    • DOI 10.1016/j.compbiolchem.2008.07.018, PII S1476927108000960
    • Levtsova, O. V.; Antonov, M. Y.; Mordvintsev, D. Y.; Utkin, Y. N.; Shaitan, K. V.; Kirpichnikov, M. P. Steered molecular dynamics simulations of cobra cytotoxin interaction with zwitterionic lipid bilayer: no penetration of loop tips into membranes Comput. Biol. Chem. 2009, 33, 29-32 (Pubitemid 50261024)
    • (2009) Computational Biology and Chemistry , vol.33 , Issue.1 , pp. 29-32
    • Levtsova, O.V.1    Antonov, M.Yu.2    Mordvintsev, D.Yu.3    Utkin, Yu.N.4    Shaitan, K.V.5    Kirpichnikov, M.P.6
  • 11
    • 2942527059 scopus 로고    scopus 로고
    • Interaction of cardiotoxin A5 with a membrane: Role of conformational heterogeneity and hydrophilic properties
    • Konshina, A. G.; Volynskiǐ, P. E.; Arsen'ev, A. S.; Efremov, R. G. Interaction of cardiotoxin A5 with a membrane: role of conformational heterogeneity and hydrophilic properties Bioorg. Khim. 2003, 29, 577-88
    • (2003) Bioorg. Khim. , vol.29 , pp. 577-588
    • Konshina, A.G.1    Volynskiǐ, P.E.2    Arsen'Ev, A.S.3    Efremov, R.G.4
  • 13
    • 64749106745 scopus 로고    scopus 로고
    • Systematic multiscale simulation of membrane protein systems
    • Ayton, G. S.; Voth, G. A. Systematic multiscale simulation of membrane protein systems Curr. Opin. Struct. Biol. 2009, 19, 138-144
    • (2009) Curr. Opin. Struct. Biol. , vol.19 , pp. 138-144
    • Ayton, G.S.1    Voth, G.A.2
  • 14
    • 53249125167 scopus 로고    scopus 로고
    • Four-Scale Description of Membrane Sculpting by BAR Domains
    • Arkhipov, A.; Yin, Y.; Schulten, K. Four-Scale Description of Membrane Sculpting by BAR Domains Biophys. J. 2008, 95, 2806-2821
    • (2008) Biophys. J. , vol.95 , pp. 2806-2821
    • Arkhipov, A.1    Yin, Y.2    Schulten, K.3
  • 15
    • 62249174766 scopus 로고    scopus 로고
    • Self assembly of peptides near or within membranes using coarse grained MD simulations
    • Khalfa, A.; Treptow, W.; Maigret, B.; Tarek, M. Self assembly of peptides near or within membranes using coarse grained MD simulations Chem. Phys. 2009, 358, 161-170
    • (2009) Chem. Phys. , vol.358 , pp. 161-170
    • Khalfa, A.1    Treptow, W.2    Maigret, B.3    Tarek, M.4
  • 17
    • 45949109759 scopus 로고    scopus 로고
    • Gating Motions in Voltage-Gated Potassium Channels Revealed by Coarse-Grained Molecular Dynamics Simulations
    • Treptow, W.; Marrink, S. J.; Tarek, M. Gating Motions in Voltage-Gated Potassium Channels Revealed by Coarse-Grained Molecular Dynamics Simulations J. Phys. Chem. B 2008, 112, 3277-3282
    • (2008) J. Phys. Chem. B , vol.112 , pp. 3277-3282
    • Treptow, W.1    Marrink, S.J.2    Tarek, M.3
  • 18
    • 57049124381 scopus 로고    scopus 로고
    • CGDB: A database of membrane protein/lipid interactions by coarse-grained molecular dynamics simulations
    • Chetwynd, A. P.; Scott, K. A.; Mokrab, Y.; Sansom, M. S. P. CGDB: A database of membrane protein/lipid interactions by coarse-grained molecular dynamics simulations Mol. Membr. Biol. 2008, 25, 662-669
    • (2008) Mol. Membr. Biol. , vol.25 , pp. 662-669
    • Chetwynd, A.P.1    Scott, K.A.2    Mokrab, Y.3    Sansom, M.S.P.4
  • 22
    • 77149124571 scopus 로고    scopus 로고
    • Comment on using a too large integration time step in molecular dynamics simulations of coarse-grained molecular models
    • Marrink, S. J.; Periole, X.; Tieleman, D. P.; Vries, D. Comment on using a too large integration time step in molecular dynamics simulations of coarse-grained molecular models Phys. Chem. Chem. Phys. 2010, 12, 2254-2256
    • (2010) Phys. Chem. Chem. Phys. , vol.12 , pp. 2254-2256
    • Marrink, S.J.1    Periole, X.2    Tieleman, D.P.3    Vries, D.4
  • 23
    • 1642485164 scopus 로고    scopus 로고
    • Coarse grained model for semiquantitative lipid simulations
    • Marrink, S. J.; Vries, A. H.; Mark, A. E. Coarse grained model for semiquantitative lipid simulations J. Phys. Chem. B 2004, 108, 750-760
    • (2004) J. Phys. Chem. B , vol.108 , pp. 750-760
    • Marrink, S.J.1    Vries, A.H.2    Mark, A.E.3
  • 24
    • 0000640945 scopus 로고
    • Andersen's canonical-ensemble molecular dynamics for molecules with constraints
    • Ryckaert, J. P.; Ciccotti, G. Andersen's canonical-ensemble molecular dynamics for molecules with constraints Mol. Phys. 1986, 58, 1125-1136
    • (1986) Mol. Phys. , vol.58 , pp. 1125-1136
    • Ryckaert, J.P.1    Ciccotti, G.2
  • 25
    • 0034700147 scopus 로고    scopus 로고
    • A host-guest system to study structure-function relationships of membrane fusion peptides
    • Han, X.; Tamm, L. K. A host-guest system to study structure-function relationships of membrane fusion peptides Proc. Natl. Acad. Sci. U.S.A. 2000, 97, 13097-13102
    • (2000) Proc. Natl. Acad. Sci. U.S.A. , vol.97 , pp. 13097-13102
    • Han, X.1    Tamm, L.K.2
  • 26
    • 33751155630 scopus 로고    scopus 로고
    • Rotational diffusion and order parameters of a liquid crystalline polymer studied by ESR: Molecular weight dependence
    • Xu, D.; Budil, D. E.; Ober, C. K.; Freed, J. H. Rotational diffusion and order parameters of a liquid crystalline polymer studied by ESR: molecular weight dependence J. Phys. Chem. 1996, 100, 15867-15872 (Pubitemid 126838034)
    • (1996) Journal of Physical Chemistry , vol.100 , Issue.39 , pp. 15867-15872
    • Xu, D.1    Budil, D.E.2    Ober, C.K.3    Freed, J.H.4


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