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Volumn 34, Issue 3, 2008, Pages 337-346

Structure prediction and R115866 binding study of human CYP26A1: Homology modelling, fold recognition, molecular docking and MD simulations

Author keywords

CYP26A1; Docking; Molecular dynamics; Molecular modelling; R115866

Indexed keywords

AMINES; AMINO ACIDS; ANIMAL CELL CULTURE; BIOCHEMISTRY; COMPLEXATION; DOCKING; DYNAMICS; ENZYMES; FISCHER-TROPSCH SYNTHESIS; FLOW INTERACTIONS; FOOD ADDITIVES; HEALTH; HYDROGEN; HYDROGEN BONDS; HYDROPHOBICITY; MOLECULAR DYNAMICS; MOLECULAR MECHANICS; MOLECULES; ORGANIC ACIDS; PORPHYRINS; QUANTUM CHEMISTRY; STABILIZERS (AGENTS);

EID: 45849104255     PISSN: 08927022     EISSN: 10290435     Source Type: Journal    
DOI: 10.1080/08927020801930562     Document Type: Article
Times cited : (12)

References (50)
  • 1
    • 0036594861 scopus 로고    scopus 로고
    • Cytochrome p450 retinoic acid 4-hydroxylase inhibitors: Potential agents for cancer therapy
    • V.C.O. Njar, Cytochrome p450 retinoic acid 4-hydroxylase inhibitors: Potential agents for cancer therapy, Mini. Rev. Med. Chem. 2 (2002), p. 261.
    • (2002) Mini. Rev. Med. Chem , vol.2 , pp. 261
    • Njar, V.C.O.1
  • 2
    • 0025022256 scopus 로고
    • Retinoic acids in the treatment of acute promyelocytic leukemia
    • S. Castaigne et al., Retinoic acids in the treatment of acute promyelocytic leukemia, Nouv. Rev. Fr. Hematol. 32 (1990), p. 36.
    • (1990) Nouv. Rev. Fr. Hematol , vol.32 , pp. 36
    • Castaigne, S.1
  • 3
    • 0035969112 scopus 로고    scopus 로고
    • All trans retinoic acid in acute promyelocytic leukemia
    • L. Degos and Z.Y. Wang, All trans retinoic acid in acute promyelocytic leukemia, Oncogene 20 (2001), p. 7140.
    • (2001) Oncogene , vol.20 , pp. 7140
    • Degos, L.1    Wang, Z.Y.2
  • 4
    • 0034121403 scopus 로고    scopus 로고
    • Hemostatic abnormalities associated with acute promyelocytic leukemia and corrective effects of all-trans-retinoic acid or arsenic trioxide treatment
    • W.L. Zhao et al., Hemostatic abnormalities associated with acute promyelocytic leukemia and corrective effects of all-trans-retinoic acid or arsenic trioxide treatment, Chin. Med. J. 113 (2000), p. 236.
    • (2000) Chin. Med. J , vol.113 , pp. 236
    • Zhao, W.L.1
  • 5
    • 0029839230 scopus 로고    scopus 로고
    • Retinoic acid biosynthesis and metabolism
    • J.L. Napoli, Retinoic acid biosynthesis and metabolism, FASEB J. 10 (1996), p. 993.
    • (1996) FASEB J , vol.10 , pp. 993
    • Napoli, J.L.1
  • 6
    • 0021680776 scopus 로고
    • Retinoic acid metabolism by a system reconstituted with cytochrome P-450
    • M.A. Leo, S. Iida, and C.S. Lieber, Retinoic acid metabolism by a system reconstituted with cytochrome P-450, Arch. Biochem. Biophys. 234 (1984), p. 305.
    • (1984) Arch. Biochem. Biophys , vol.234 , pp. 305
    • Leo, M.A.1    Iida, S.2    Lieber, C.S.3
  • 7
    • 0027253707 scopus 로고
    • Kinetic evidence for the involvement of a common enzyme in the microsomal reduction of retinal and androstenedione in rat liver
    • R. Martini and M. Murray, Kinetic evidence for the involvement of a common enzyme in the microsomal reduction of retinal and androstenedione in rat liver, J. Steroid. Biochem. Mol. Biol. 45 (1993), p. 581.
    • (1993) J. Steroid. Biochem. Mol. Biol , vol.45 , pp. 581
    • Martini, R.1    Murray, M.2
  • 8
    • 0034664168 scopus 로고    scopus 로고
    • Identification of human cytochrome P450 isoforms that contribute to all-trans-retinoic acid 4-hydroxylation
    • L.C. McSorley and A.K. Daly, Identification of human cytochrome P450 isoforms that contribute to all-trans-retinoic acid 4-hydroxylation, Biochem. Pharmacol. 60 (2000), p. 517.
    • (2000) Biochem. Pharmacol , vol.60 , pp. 517
    • McSorley, L.C.1    Daly, A.K.2
  • 9
    • 0030810985 scopus 로고    scopus 로고
    • CYP26, a novel mammalian cytochrome P450, is induced by retinoic acid and defines a new family
    • W.J. Ray et al., CYP26, a novel mammalian cytochrome P450, is induced by retinoic acid and defines a new family, J. Biol. Chem. 272 (1997), p. 18702.
    • (1997) J. Biol. Chem , vol.272 , pp. 18702
    • Ray, W.J.1
  • 10
    • 0031870013 scopus 로고    scopus 로고
    • Human retinoic acid (RA) 4-hydroxylase (CYP26) is highly specific for all-trans-RA and can be induced through RA receptors in human breast and colon carcinoma cells
    • E. Sonneveld et al., Human retinoic acid (RA) 4-hydroxylase (CYP26) is highly specific for all-trans-RA and can be induced through RA receptors in human breast and colon carcinoma cells, Cell Growth Differ. 9 (1998), p. 629.
    • (1998) Cell Growth Differ , vol.9 , pp. 629
    • Sonneveld, E.1
  • 11
    • 0032545034 scopus 로고    scopus 로고
    • Expression of cytochrome P450RAI (CYP26) in human fetal hepatic and cephalic tissues
    • M.E. Trofimova-Griffin and M.R. Juchau, Expression of cytochrome P450RAI (CYP26) in human fetal hepatic and cephalic tissues, Biochem. Biophys. Res. Commun. 252 (1998), p. 487.
    • (1998) Biochem. Biophys. Res. Commun , vol.252 , pp. 487
    • Trofimova-Griffin, M.E.1    Juchau, M.R.2
  • 12
    • 0033571688 scopus 로고    scopus 로고
    • A second CYP26 P450 in humans and zebrafish: CYP26B1
    • D.R. Nelson, A second CYP26 P450 in humans and zebrafish: CYP26B1, Arch. Biochem. Biophys. 371 (1999), p. 345.
    • (1999) Arch. Biochem. Biophys , vol.371 , pp. 345
    • Nelson, D.R.1
  • 13
    • 0347683479 scopus 로고    scopus 로고
    • A novel human cytochrome P450, CYP26C1, involved in metabolism of 9-cis and all-trans isomers of retinoic acid
    • M. Taimi et al., A novel human cytochrome P450, CYP26C1, involved in metabolism of 9-cis and all-trans isomers of retinoic acid, J. Biol. Chem. 279 (2004), p. 77.
    • (2004) J. Biol. Chem , vol.279 , pp. 77
    • Taimi, M.1
  • 14
    • 0030746211 scopus 로고    scopus 로고
    • cDNA cloning of human retinoic acidmetabolizing enzyme (hP450RAI) identifies a novel family of cytochromes P450
    • J.A. White et al., cDNA cloning of human retinoic acidmetabolizing enzyme (hP450RAI) identifies a novel family of cytochromes P450, J. Biol. Chem. 272 (1997), p. 18538.
    • (1997) J. Biol. Chem , vol.272 , pp. 18538
    • White, J.A.1
  • 15
    • 33748504147 scopus 로고    scopus 로고
    • Homology model of human retinoic acid metabolising enzyme cytochrome P450 26A1 (CYP26A1): Active site architecture and ligand binding
    • M.S. Gomaa et al., Homology model of human retinoic acid metabolising enzyme cytochrome P450 26A1 (CYP26A1): Active site architecture and ligand binding, J. Enzyme Inhib. Med. Chem. 21 (2006), p. 361.
    • (2006) J. Enzyme Inhib. Med. Chem , vol.21 , pp. 361
    • Gomaa, M.S.1
  • 16
    • 0025183708 scopus 로고
    • Basic local alignment search tool
    • S.F. Altschul et al., Basic local alignment search tool, J. Mol. Biol. 215 (1990), p. 403.
    • (1990) J. Mol. Biol , vol.215 , pp. 403
    • Altschul, S.F.1
  • 17
    • 0035853108 scopus 로고    scopus 로고
    • Crystal structure of cytochrome P450 14alpha -sterol demethylase (CYP51) from Mycobacterium tuberculosis in complex with azole inhibitors
    • L.M. Podust, T.L. Poulos, and M.R. Waterman, Crystal structure of cytochrome P450 14alpha -sterol demethylase (CYP51) from Mycobacterium tuberculosis in complex with azole inhibitors, Proc. Natl Acad. Sci. USA 98 (2001), p. 3068.
    • (2001) Proc. Natl Acad. Sci. USA , vol.98 , pp. 3068
    • Podust, L.M.1    Poulos, T.L.2    Waterman, M.R.3
  • 18
    • 0017411710 scopus 로고
    • The Protein Data Bank: A computer-based archival file for macromolecular structures
    • F.C. Bernstein et al., The Protein Data Bank: a computer-based archival file for macromolecular structures, J. Mol. Biol. 112 (1977), p. 535.
    • (1977) J. Mol. Biol , vol.112 , pp. 535
    • Bernstein, F.C.1
  • 19
    • 4644301430 scopus 로고    scopus 로고
    • The structure of human microsomal cytochrome P450 3A4 determined by X-ray crystallography to 2.05-Å resolution
    • J.K. Yano et al., The structure of human microsomal cytochrome P450 3A4 determined by X-ray crystallography to 2.05-Å resolution, J. Biol. Chem. 279 (2004), p. 38091.
    • (2004) J. Biol. Chem , vol.279 , pp. 38091
    • Yano, J.K.1
  • 20
    • 0027968068 scopus 로고
    • CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, positions-specific gap penalties and weight matrix choice
    • J.D. Thompson, D.G. Higgins, and T.J. Gibson, CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, positions-specific gap penalties and weight matrix choice, Nucleic Acids Res. 22 (1994), p. 4673.
    • (1994) Nucleic Acids Res , vol.22 , pp. 4673
    • Thompson, J.D.1    Higgins, D.G.2    Gibson, T.J.3
  • 21
    • 0029046744 scopus 로고
    • An assessment of amino acid exchange matrices in aligning protein sequences: The twilight zone revisited
    • G. Vogt, T. Etzold, and P. Argos, An assessment of amino acid exchange matrices in aligning protein sequences: the twilight zone revisited, J. Mol. Biol. 249 (1995), p. 816.
    • (1995) J. Mol. Biol , vol.249 , pp. 816
    • Vogt, G.1    Etzold, T.2    Argos, P.3
  • 22
    • 0031746105 scopus 로고    scopus 로고
    • Fold prediction by a hierarchy of sequence, threading, and modeling methods
    • L. Jaroszewski et al., Fold prediction by a hierarchy of sequence, threading, and modeling methods, Protein sci. 7 (1998), p. 1431.
    • (1998) Protein sci , vol.7 , pp. 1431
    • Jaroszewski, L.1
  • 23
    • 0033514990 scopus 로고    scopus 로고
    • Structure of a cytochrome P450-redox partner electron-transfer complex
    • I.F. Sevrioukova et al., Structure of a cytochrome P450-redox partner electron-transfer complex, Proc. Natl Acad. Sci. USA 96 (1999), p. 1863.
    • (1999) Proc. Natl Acad. Sci. USA , vol.96 , pp. 1863
    • Sevrioukova, I.F.1
  • 24
    • 0010621578 scopus 로고    scopus 로고
    • Molecular modeling of mammalian cytochrome P450s
    • R. Dai, M.R. Pincus, and F.K. Friedman, Molecular modeling of mammalian cytochrome P450s, Cell. Mol. Life Sci. 57 (2000), p. 487.
    • (2000) Cell. Mol. Life Sci , vol.57 , pp. 487
    • Dai, R.1    Pincus, M.R.2    Friedman, F.K.3
  • 25
    • 0033967525 scopus 로고    scopus 로고
    • Theoretical investigation of substrate specificity for cytochromes P450 IA2, P450 IID6 and P450 IIIA4
    • F.D. Rienzo et al., Theoretical investigation of substrate specificity for cytochromes P450 IA2, P450 IID6 and P450 IIIA4, J. Comput. Aid. Mol. Des. 14 (2000), p. 93.
    • (2000) J. Comput. Aid. Mol. Des , vol.14 , pp. 93
    • Rienzo, F.D.1
  • 26
    • 0031730172 scopus 로고    scopus 로고
    • Inhibition of human cytochrome P450 1A2 by flavones: A molecular modeling study
    • R. Dai et al., Inhibition of human cytochrome P450 1A2 by flavones: a molecular modeling study, J. Protein Chem. 17 (1998), p. 643.
    • (1998) J. Protein Chem , vol.17 , pp. 643
    • Dai, R.1
  • 27
    • 0032910377 scopus 로고    scopus 로고
    • Molecular modeling of CYP2B6, the human CYP2B isoform, by homology with the substrate-bound CYP102 crystal structure: Evaluation of CYP2B6 substrate characteristics, the cytochrome b5 binding site and comparisons with CYP2B1 and CYP2B4
    • D.F. Lewis et al., Molecular modeling of CYP2B6, the human CYP2B isoform, by homology with the substrate-bound CYP102 crystal structure: evaluation of CYP2B6 substrate characteristics, the cytochrome b5 binding site and comparisons with CYP2B1 and CYP2B4, Xenobiotica 29 (1999), p. 361.
    • (1999) Xenobiotica , vol.29 , pp. 361
    • Lewis, D.F.1
  • 28
    • 0021757436 scopus 로고
    • A new force field for molecular mechanical simulation of nucleic acids and proteins
    • S.J. Weiner et al., A new force field for molecular mechanical simulation of nucleic acids and proteins, J. Am. Chem. Soc. 106 (1984), p. 765.
    • (1984) J. Am. Chem. Soc , vol.106 , pp. 765
    • Weiner, S.J.1
  • 29
  • 30
    • 33645961739 scopus 로고
    • A smooth particle mesh Ewald method
    • U. Essmann et al., A smooth particle mesh Ewald method, J. Chem. Phys. 103 (1995), p. 8577.
    • (1995) J. Chem. Phys , vol.103 , pp. 8577
    • Essmann, U.1
  • 31
    • 0000243829 scopus 로고
    • PROCHECK: A program to check the stereochemical quality of protein structures
    • R.A. Laskowski et al., PROCHECK: a program to check the stereochemical quality of protein structures, J. Appl. Cryst. 26 (1993), p. 283.
    • (1993) J. Appl. Cryst , vol.26 , pp. 283
    • Laskowski, R.A.1
  • 32
    • 0025830469 scopus 로고
    • A method to identify protein sequences that fold into a known three-dimensional structure
    • J.U. Bowie, R. Luthy, and D. Eisenberg, A method to identify protein sequences that fold into a known three-dimensional structure, Science 253 (1991), p. 164.
    • (1991) Science , vol.253 , pp. 164
    • Bowie, J.U.1    Luthy, R.2    Eisenberg, D.3
  • 33
    • 0026610767 scopus 로고
    • Assessment of protein models with three-dimensional profiles
    • R. Luthy, J.U. Bowie, and D. Eisenberg, Assessment of protein models with three-dimensional profiles, Nature 356 (1992), p. 83.
    • (1992) Nature , vol.356 , pp. 83
    • Luthy, R.1    Bowie, J.U.2    Eisenberg, D.3
  • 34
    • 0027180507 scopus 로고
    • Verification of protein structures: Patterns of nonbonded atomic interactions
    • C. Colovos and T.O. Yeates, Verification of protein structures: patterns of nonbonded atomic interactions, Protein Sci. 2 (1993), p. 1511.
    • (1993) Protein Sci , vol.2 , pp. 1511
    • Colovos, C.1    Yeates, T.O.2
  • 36
    • 0026542989 scopus 로고
    • Substrate recognition sites in cytochrome P450 family 2 (CYP2) proteins inferred from comparative analyses of amino acid and coding nucleotide sequences
    • O. Gotoh, Substrate recognition sites in cytochrome P450 family 2 (CYP2) proteins inferred from comparative analyses of amino acid and coding nucleotide sequences, J. Biol. Chem. 267 (1992), p. 83.
    • (1992) J. Biol. Chem , vol.267 , pp. 83
    • Gotoh, O.1
  • 37
    • 19244376476 scopus 로고    scopus 로고
    • R115866 inhibits all-trans-retinoic acid metabolism and exerts retinoidal effects in rodents
    • P. Stoppie et al., R115866 inhibits all-trans-retinoic acid metabolism and exerts retinoidal effects in rodents, J. Pharmacol. Exp. Ther. 293 (2000), p. 304.
    • (2000) J. Pharmacol. Exp. Ther , vol.293 , pp. 304
    • Stoppie, P.1
  • 38
    • 11644261806 scopus 로고    scopus 로고
    • Automated docking using a lamarckian genetic algorithm and an empirical binding free energy function
    • G.M. Morris et al., Automated docking using a lamarckian genetic algorithm and an empirical binding free energy function, J. Comput. Chem. 19 (1998), p. 1639.
    • (1998) J. Comput. Chem , vol.19 , pp. 1639
    • Morris, G.M.1
  • 39
    • 0028786006 scopus 로고    scopus 로고
    • E.L. Schwartz et al., Inhibition of all-trans-retinoic acid metabolism by fluconazole in vitro and in patients with acute promyelocytic leukemia, Biochem. Pharmacol. 50 (1995), p. 923.
    • E.L. Schwartz et al., Inhibition of all-trans-retinoic acid metabolism by fluconazole in vitro and in patients with acute promyelocytic leukemia, Biochem. Pharmacol. 50 (1995), p. 923.
  • 40
    • 0033970047 scopus 로고    scopus 로고
    • Mammalian microsomal cytochrome P450 monooxygenase: Structural adaptations for membrane binding and functional diversity
    • P.A. Williams et al., Mammalian microsomal cytochrome P450 monooxygenase: structural adaptations for membrane binding and functional diversity, Mol.Cell 5 (2000), p. 121.
    • (2000) Mol.Cell , vol.5 , pp. 121
    • Williams, P.A.1
  • 41
    • 0032530321 scopus 로고    scopus 로고
    • Identification of a meander region praline residue critical for heme binding to cytochrome P450: Implications for the catalytic function of human CYP4B1
    • Y.M. Zheng et al., Identification of a meander region praline residue critical for heme binding to cytochrome P450: implications for the catalytic function of human CYP4B1, Biochemistry 37 (1998), p. 12847.
    • (1998) Biochemistry , vol.37 , pp. 12847
    • Zheng, Y.M.1
  • 42
    • 0023960283 scopus 로고
    • Cytochrome P450: Molecular architecture, mechanism, and prospects for rational inhibitor design
    • T.L. Poulos, Cytochrome P450: Molecular architecture, mechanism, and prospects for rational inhibitor design, Pharm. Res. 5 (1988), p. 67.
    • (1988) Pharm. Res , vol.5 , pp. 67
    • Poulos, T.L.1
  • 43
    • 0031473847 scopus 로고    scopus 로고
    • SWISS-MODEL and the Swiss-PdbViewer: An environment for comparative protein modeling
    • N. Guex and M.C. Peitsch, SWISS-MODEL and the Swiss-PdbViewer: an environment for comparative protein modeling, Electrophoresis 18 (1997), p. 2714.
    • (1997) Electrophoresis , vol.18 , pp. 2714
    • Guex, N.1    Peitsch, M.C.2
  • 44
    • 0038637141 scopus 로고    scopus 로고
    • Threonine-205 in the F helix of P450 2B1 contributes to androgen 16ß-hydroxylation activity and mechanism-based inactivation
    • H.L. Lin et al., Threonine-205 in the F helix of P450 2B1 contributes to androgen 16ß-hydroxylation activity and mechanism-based inactivation, J. Pharmacol. Exp. Ther. 306 (2003), p. 744.
    • (2003) J. Pharmacol. Exp. Ther , vol.306 , pp. 744
    • Lin, H.L.1
  • 45
    • 0029643786 scopus 로고
    • Structure and function of cytochromes P450: A comparative analysis of three crystal structures
    • C.A. Hasemann et al., Structure and function of cytochromes P450: a comparative analysis of three crystal structures, Structure 3 (1995), p. 41.
    • (1995) Structure , vol.3 , pp. 41
    • Hasemann, C.A.1
  • 46
    • 0035856545 scopus 로고    scopus 로고
    • Pivotal role of water in the mechanism of P450BM-3
    • D.C. Haines et al., Pivotal role of water in the mechanism of P450BM-3, Biochemistry 40 (2001), p. 13456.
    • (2001) Biochemistry , vol.40 , pp. 13456
    • Haines, D.C.1
  • 47
    • 0035954246 scopus 로고    scopus 로고
    • Putative helix F contributes to regioselectivity of hydroxylation in mitochondrial cytochrome P450 27A1
    • I.A. Pikuleva, A. Puchkaev, and I. Bjorkhem, Putative helix F contributes to regioselectivity of hydroxylation in mitochondrial cytochrome P450 27A1, Biochemistry 40 (2001), p. 7621.
    • (2001) Biochemistry , vol.40 , pp. 7621
    • Pikuleva, I.A.1    Puchkaev, A.2    Bjorkhem, I.3
  • 48
    • 0029643786 scopus 로고
    • Structure and function of cytochromes P450: A comparative analysis of three crystal structures
    • C.A. Hasemann et al., Structure and function of cytochromes P450: a comparative analysis of three crystal structures, Structure 3 (1995), p. 41.
    • (1995) Structure , vol.3 , pp. 41
    • Hasemann, C.A.1
  • 49
    • 0034094331 scopus 로고    scopus 로고
    • Antifungal activity of itraconazole compared with hydroxy-itraconazole in vitro
    • F.C. Odds and H.V. Bossche, Antifungal activity of itraconazole compared with hydroxy-itraconazole in vitro, J. Antimicrob. Chemother. 45 (2000), p. 371.
    • (2000) J. Antimicrob. Chemother , vol.45 , pp. 371
    • Odds, F.C.1    Bossche, H.V.2
  • 50
    • 19244376476 scopus 로고    scopus 로고
    • R115866 Inhibits All-trans-Retinoic Acid metabolism and exerts retinoidal effects in rodents
    • P. Stoppie et al., R115866 Inhibits All-trans-Retinoic Acid metabolism and exerts retinoidal effects in rodents, J. Pharmacol. Exp. Ther. 293 (2000), p. 304.
    • (2000) J. Pharmacol. Exp. Ther , vol.293 , pp. 304
    • Stoppie, P.1


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