메뉴 건너뛰기




Volumn 75, Issue 2, 2009, Pages 486-498

In silico analyses of substrate interactions with human serum paraoxonase 1

Author keywords

Binding free energy decomposition; Bioscavengers; Docking; Esterase; Homology modeling; Human paraoxonase; Lac tonase; Molecular dynamics simulations; Phosphotriesterase

Indexed keywords

ARYLDIALKYLPHOSPHATASE 1; ESTER; LACTONE; PHOSPHORIC ACID TRIESTER; UNCLASSIFIED DRUG; ARYLDIALKYLPHOSPHATASE; PON1 PROTEIN, HUMAN;

EID: 66149157259     PISSN: 08873585     EISSN: 10970134     Source Type: Journal    
DOI: 10.1002/prot.22264     Document Type: Article
Times cited : (35)

References (36)
  • 2
    • 0345513276 scopus 로고
    • The differentiation of the A-type esterases in sheep serum
    • Main AR. The differentiation of the A-type esterases in sheep serum. Biochem J 1960;75:188-195.
    • (1960) Biochem J , vol.75 , pp. 188-195
    • Main, A.R.1
  • 3
    • 33947693913 scopus 로고    scopus 로고
    • Stoichiometric and catalytic scavengers as protection against nerve agent toxicity: A mini review
    • Lenz DE, Yeung D, Smith JR, Sweeney RE, Lumley LA, Cerasoli DM. Stoichiometric and catalytic scavengers as protection against nerve agent toxicity: a mini review. Toxicology 2007;233:31-39.
    • (2007) Toxicology , vol.233 , pp. 31-39
    • Lenz, D.E.1    Yeung, D.2    Smith, J.R.3    Sweeney, R.E.4    Lumley, L.A.5    Cerasoli, D.M.6
  • 4
    • 34250882686 scopus 로고    scopus 로고
    • Stability of highly purified human paraoxonase (PON1): Association with human phosphate binding protein (HPBP) is essential for preserving its active conformation(s)
    • Rochu D, Renault F, Clery-Barraud C, Chabriere E, Masson P. Stability of highly purified human paraoxonase (PON1): association with human phosphate binding protein (HPBP) is essential for preserving its active conformation(s). Biochim Biophys Acta 2007; 1774:874-883.
    • (2007) Biochim Biophys Acta , vol.1774 , pp. 874-883
    • Rochu, D.1    Renault, F.2    Clery-Barraud, C.3    Chabriere, E.4    Masson, P.5
  • 5
    • 0032877947 scopus 로고    scopus 로고
    • Human serum paraoxonase/arylesterase's retained hydrophobic N-terminal leader sequence associates with HDLs by binding phos-pholipids: Apolipoprotein A-I stabilizes activity
    • Sorenson RC, Bisgaier CL, Aviram M, Hsu C, Billecke S, La Du BN. Human serum paraoxonase/arylesterase's retained hydrophobic N-terminal leader sequence associates with HDLs by binding phos-pholipids: apolipoprotein A-I stabilizes activity. Arterioscler Thromb Vasc Biol 1999;19:2214-2225.
    • (1999) Arterioscler Thromb Vasc Biol , vol.19 , pp. 2214-2225
    • Sorenson, R.C.1    Bisgaier, C.L.2    Aviram, M.3    Hsu, C.4    Billecke, S.5    La Du, B.N.6
  • 7
    • 0036123993 scopus 로고    scopus 로고
    • Oxidative stress increases the expression of the CD36 scavenger receptor and the cellular uptake of oxidized low-density lipoprotein in macrophages from atherosclerotic mice: Protective role of antioxidants and of paraoxonase
    • Fuhrman B, Volkova N, Aviram M. Oxidative stress increases the expression of the CD36 scavenger receptor and the cellular uptake of oxidized low-density lipoprotein in macrophages from atherosclerotic mice: protective role of antioxidants and of paraoxonase. Atherosclerosis 2002;161:307-316.
    • (2002) Atherosclerosis , vol.161 , pp. 307-316
    • Fuhrman, B.1    Volkova, N.2    Aviram, M.3
  • 8
    • 21244491480 scopus 로고    scopus 로고
    • Human paraoxonases (PON1, PON2, and PON3) are lacto-nases with overlapping and distinct substrate specificities
    • Draganov DI, Teiber JF, Speelman A, Osawa Y, Sunahara R, La Du BN. Human paraoxonases (PON1, PON2, and PON3) are lacto-nases with overlapping and distinct substrate specificities. J Lipid Res 2005;46:1239-1247.
    • (2005) J Lipid Res , vol.46 , pp. 1239-1247
    • Draganov, D.I.1    Teiber, J.F.2    Speelman, A.3    Osawa, Y.4    Sunahara, R.5    La Du, B.N.6
  • 9
    • 17644367506 scopus 로고    scopus 로고
    • Structure-reactivity studies of serum par-aoxonase PON1 suggest that its native activity is lactonase
    • Khersonsky O, Tawfik DS. Structure-reactivity studies of serum par-aoxonase PON1 suggest that its native activity is lactonase. Biochemistry 2005;44:6371-6382.
    • (2005) Biochemistry , vol.44 , pp. 6371-6382
    • Khersonsky, O.1    Tawfik, D.S.2
  • 12
    • 0034972434 scopus 로고    scopus 로고
    • Crystal structure of diisopropylfluorophosphatase from Loligo vulgaris
    • Scharff EI, Koepke J, Fritzsch G, Lucke C, Ruterjans H. Crystal structure of diisopropylfluorophosphatase from Loligo vulgaris. Structure 2001;9:493-502.
    • (2001) Structure , vol.9 , pp. 493-502
    • Scharff, E.I.1    Koepke, J.2    Fritzsch, G.3    Lucke, C.4    Ruterjans, H.5
  • 13
    • 18444379944 scopus 로고    scopus 로고
    • Analysis of active-site amino-acid residues of human serum paraoxonase using competitive substrates
    • Yeung DT, Lenz DE, Cerasoli DM. Analysis of active-site amino-acid residues of human serum paraoxonase using competitive substrates. FEBS J 2005;272:2225-2230.
    • (2005) FEBS J , vol.272 , pp. 2225-2230
    • Yeung, D.T.1    Lenz, D.E.2    Cerasoli, D.M.3
  • 14
    • 33749510670 scopus 로고    scopus 로고
    • Binding of a designed substrate analogue to diisopropyl fluorophosphatase: Implications for the phosphotriesterase mechanism
    • Blum MM, Lohr F, Richardt A, Ruterjans H, Chen JC. Binding of a designed substrate analogue to diisopropyl fluorophosphatase: implications for the phosphotriesterase mechanism. J Am Chem Soc 2006;128:12750-12757.
    • (2006) J Am Chem Soc , vol.128 , pp. 12750-12757
    • Blum, M.M.1    Lohr, F.2    Richardt, A.3    Ruterjans, H.4    Chen, J.C.5
  • 16
    • 0033064116 scopus 로고    scopus 로고
    • Human serum paraoxonase (PON1): Identification of essential amino acid residues by group-selective labelling and site-directed mutagenesis
    • Josse D, Xie W, Masson P, Lockridge O. Human serum paraoxonase (PON1): identification of essential amino acid residues by group-selective labelling and site-directed mutagenesis. Chem Biol Interact 1999;119-120:71-78.
    • (1999) Chem Biol Interact
    • Josse, D.1    Xie, W.2    Masson, P.3    Lockridge, O.4
  • 17
    • 33646373929 scopus 로고    scopus 로고
    • The histidine 115-histidine 134 dyad mediates the lactonase activity of mammalian serum paraoxonases
    • Khersonsky O, Tawfik DS. The histidine 115-histidine 134 dyad mediates the lactonase activity of mammalian serum paraoxonases. J Biol Chem 2006;281:7649-7656.
    • (2006) J Biol Chem , vol.281 , pp. 7649-7656
    • Khersonsky, O.1    Tawfik, D.S.2
  • 18
    • 34347252999 scopus 로고    scopus 로고
    • Paraoxonase (PON1) polymorphism and activity as the determinants of sensitivity to organophosphates in human subjects
    • Sirivarasai J, Kaojarern S, Yoovathaworn K, Sura T. Paraoxonase (PON1) polymorphism and activity as the determinants of sensitivity to organophosphates in human subjects. Chem Biol Interact 2007;168:184-192.
    • (2007) Chem Biol Interact , vol.168 , pp. 184-192
    • Sirivarasai, J.1    Kaojarern, S.2    Yoovathaworn, K.3    Sura, T.4
  • 19
    • 0347635518 scopus 로고    scopus 로고
    • Directed evolution of mammalian paraoxonases PON1 and PON3 for bacterial expression and catalytic specialization
    • Aharoni A, Gaidukov L, Yagur S, Toker L, Silman I, Tawfik DS. Directed evolution of mammalian paraoxonases PON1 and PON3 for bacterial expression and catalytic specialization. Proc Natl Acad Sci USA 2004;101:482-487.
    • (2004) Proc Natl Acad Sci USA , vol.101 , pp. 482-487
    • Aharoni, A.1    Gaidukov, L.2    Yagur, S.3    Toker, L.4    Silman, I.5    Tawfik, D.S.6
  • 22
    • 66449090483 scopus 로고    scopus 로고
    • SYBYL. Molecular Modelling Software, V7.0. St. Louis, MO: Tripos Associates; 2004.
    • SYBYL. Molecular Modelling Software, V7.0. St. Louis, MO: Tripos Associates; 2004.
  • 24
    • 0027490731 scopus 로고
    • Recognition of errors in three-dimensional structures of proteins
    • Sippl MJ. Recognition of errors in three-dimensional structures of proteins. Proteins 1993;17:355-362.
    • (1993) Proteins , vol.17 , pp. 355-362
    • Sippl, M.J.1
  • 26
    • 66449131577 scopus 로고    scopus 로고
    • Case DA, Darden T, Cheatham TE, III, Simmerling CL, Wang J, Duke RE, Luo R, Merz KM, Wang B, Pearlman DA, Crowley M, Brozell S, Tsui V, Gohlke H, Mongan J, Hornak V, Cui G, Beroza P, Schafmeister C, Caldwell JW, Ross WS, Kollman PA. AMBER 9. San Francisco: University of California; 2006.
    • Case DA, Darden T, Cheatham TE, III, Simmerling CL, Wang J, Duke RE, Luo R, Merz KM, Wang B, Pearlman DA, Crowley M, Brozell S, Tsui V, Gohlke H, Mongan J, Hornak V, Cui G, Beroza P, Schafmeister C, Caldwell JW, Ross WS, Kollman PA. AMBER 9. San Francisco: University of California; 2006.
  • 27
    • 33646940952 scopus 로고
    • Numerical integration of the Cartesian equation of motion of a system with constraints: Molecular dynamics of n-alkanes
    • Ryckaert JP, Ciccotti G, Berendsen JC. Numerical integration of the Cartesian equation of motion of a system with constraints: molecular dynamics of n-alkanes. J Comput Phys 1977;23:327-341.
    • (1977) J Comput Phys , vol.23 , pp. 327-341
    • Ryckaert, J.P.1    Ciccotti, G.2    Berendsen, J.C.3
  • 28
    • 33846823909 scopus 로고
    • Particle mesh Ewald-an N.Log(N) method for Ewald sums in large systems
    • Darden T, York D, Pedersen L. Particle mesh Ewald-an N.Log(N) method for Ewald sums in large systems. J Chem Phys 1993;98: 10089-10092.
    • (1993) J Chem Phys , vol.98 , pp. 10089-10092
    • Darden, T.1    York, D.2    Pedersen, L.3
  • 30
    • 33947716119 scopus 로고    scopus 로고
    • A semiempirical free energy force field with charge-based desolvation
    • Huey R, Morris GM, Olson AJ, Goodsell DS. A semiempirical free energy force field with charge-based desolvation. J Comput Chem 2007;28:1145-1152.
    • (2007) J Comput Chem , vol.28 , pp. 1145-1152
    • Huey, R.1    Morris, G.M.2    Olson, A.J.3    Goodsell, D.S.4
  • 31
    • 40749120187 scopus 로고    scopus 로고
    • DOVIS: An implementation for high-throughput virtual screening using Auto-Dock
    • Zhang S, Kumar K, Jiang X, Wallqvist A, Reifman J. DOVIS: an implementation for high-throughput virtual screening using Auto-Dock. BMC Bioinformatics 2008;9:126.
    • (2008) BMC Bioinformatics , vol.9 , pp. 126
    • Zhang, S.1    Kumar, K.2    Jiang, X.3    Wallqvist, A.4    Reifman, J.5
  • 32
    • 0032466648 scopus 로고    scopus 로고
    • Continuum solvent studies of the stability of RNA hairpin loops and helices
    • Srinivasan J, Miller J, Kollman PA, Case DA. Continuum solvent studies of the stability of RNA hairpin loops and helices. J Biomol Struct Dyn 1998;16:671-682.
    • (1998) J Biomol Struct Dyn , vol.16 , pp. 671-682
    • Srinivasan, J.1    Miller, J.2    Kollman, P.A.3    Case, D.A.4
  • 34
    • 20644449471 scopus 로고    scopus 로고
    • Modification of the generalized Born model suitable for macromolecules
    • Onufriev A, Bashford D, Case DA. Modification of the generalized Born model suitable for macromolecules. J Phys Chem B 2000;104: 3712-3720.
    • (2000) J Phys Chem B , vol.104 , pp. 3712-3720
    • Onufriev, A.1    Bashford, D.2    Case, D.A.3
  • 35
    • 0030040323 scopus 로고    scopus 로고
    • Reduced surface: An efficient way to compute molecular surfaces
    • Sanner MF, Olson AJ, Spehner JC. Reduced surface: an efficient way to compute molecular surfaces. Biopolymers 1996;38:305-320.
    • (1996) Biopolymers , vol.38 , pp. 305-320
    • Sanner, M.F.1    Olson, A.J.2    Spehner, J.C.3
  • 36
    • 0042710087 scopus 로고    scopus 로고
    • Computational alanine scanning to probe protein-protein interactions: A novel approach to evaluate binding free energies
    • Massova I, Kollman PA. Computational alanine scanning to probe protein-protein interactions: a novel approach to evaluate binding free energies. J Am Chem Soc 1999;121:8133-8143.
    • (1999) J Am Chem Soc , vol.121 , pp. 8133-8143
    • Massova, I.1    Kollman, P.A.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.