메뉴 건너뛰기




Volumn 14, Issue 5, 2013, Pages 9947-9962

Molecular dynamics simulation of tryptophan hydroxylase-1: Binding modes and free energy analysis to phenylalanine derivative inhibitors

Author keywords

MM GBSA; Molecular dynamics simulation; Phenylalanine derivative; Tryptophan hydroxylase

Indexed keywords

NAPHTHALENE; OXYGENASE INHIBITOR; PHENYLALANINE DERIVATIVE; TRYPTOPHAN HYDROXYLASE; TRYPTOPHAN HYDROXYLASE 1; TRYPTOPHAN HYDROXYLASE 1 INHIBITOR; UNCLASSIFIED DRUG; ENZYME INHIBITOR; PHENYLALANINE; PROTEIN BINDING; TPH1 PROTEIN, HUMAN;

EID: 84877836823     PISSN: 16616596     EISSN: 14220067     Source Type: Journal    
DOI: 10.3390/ijms14059947     Document Type: Article
Times cited : (35)

References (39)
  • 1
    • 0345258497 scopus 로고    scopus 로고
    • The developmental role of serotonin: News from mouse molecular genetics
    • Gaspar, P.; Cases, O.; Maroteaux, L. The developmental role of serotonin: News from mouse molecular genetics. Nat. Rev. Neurosci. 2003, 4, 1002-1012.
    • (2003) Nat. Rev. Neurosci. , vol.4 , pp. 1002-1012
    • Gaspar, P.1    Cases, O.2    Maroteaux, L.3
  • 2
    • 15044361698 scopus 로고    scopus 로고
    • The serotonin syndrome
    • Boyer, E.W.; Shannon, M. The serotonin syndrome. N. Engl. J. Med. 2005, 352, 1112-1120.
    • (2005) N. Engl. J. Med. , vol.352 , pp. 1112-1120
    • Boyer, E.W.1    Shannon, M.2
  • 3
    • 0034929271 scopus 로고    scopus 로고
    • A structural approach into human tryptophan hydroxylase and its implications for the regulation of serotonin biosynthesis
    • Martinez, A.; Knappskog, P.M.; Haavik, J. A structural approach into human tryptophan hydroxylase and its implications for the regulation of serotonin biosynthesis. Curr. Med. Chem. 2001, 8, 1077-1091.
    • (2001) Curr. Med. Chem. , vol.8 , pp. 1077-1091
    • Martinez, A.1    Knappskog, P.M.2    Haavik, J.3
  • 5
    • 75549091083 scopus 로고    scopus 로고
    • Tryptophan hydroxylase as novel target for the treatment of depressive disorders
    • Matthes, S.; Mosienko, V.; Bashammakh, S.; Alenina, N.; Bader, M. Tryptophan hydroxylase as novel target for the treatment of depressive disorders. Pharmacology 2010, 85, 95-109.
    • (2010) Pharmacology , vol.85 , pp. 95-109
    • Matthes, S.1    Mosienko, V.2    Bashammakh, S.3    Alenina, N.4    Bader, M.5
  • 6
    • 64849088421 scopus 로고    scopus 로고
    • Role of serotonin in gastrointestinal motility and irritable bowel syndrome
    • Sikander, A.; Rana, S.V.; Prasad, K.K. Role of serotonin in gastrointestinal motility and irritable bowel syndrome. Clin. Chim. Acta 2009, 403, 47-55.
    • (2009) Clin. Chim. Acta , vol.403 , pp. 47-55
    • Sikander, A.1    Rana, S.V.2    Prasad, K.K.3
  • 8
    • 46849111572 scopus 로고    scopus 로고
    • Modulation of peripheral serotonin levels by novel tryptophan hydroxylase inhibitors for the potential treatment of functional gastrointestinal disorders
    • Shi, Z.C.; Devasagayaraj, A.; Gu, K.J.; Jin, H.; Marinelli, B.; Samala, L.; Scott, S.; Stouch, T.; Tunoori, A.; Wang, Y.; et al. Modulation of peripheral serotonin levels by novel tryptophan hydroxylase inhibitors for the potential treatment of functional gastrointestinal disorders. J. Med. Chem. 2008, 51, 3684-3687.
    • (2008) J. Med. Chem. , vol.51 , pp. 3684-3687
    • Shi, Z.C.1    Devasagayaraj, A.2    Gu, K.J.3    Jin, H.4    Marinelli, B.5    Samala, L.6    Scott, S.7    Stouch, T.8    Tunoori, A.9    Wang, Y.10
  • 9
    • 77957747818 scopus 로고    scopus 로고
    • The two faces of serotonin in bone biology
    • Ducy, P.; Karsenty, G. The two faces of serotonin in bone biology. J. Cell Biol. 2010, 191, 7-13.
    • (2010) J. Cell Biol. , vol.191 , pp. 7-13
    • Ducy, P.1    Karsenty, G.2
  • 10
    • 79953694768 scopus 로고    scopus 로고
    • 5-HT and bone biology
    • Ducy, P. 5-HT and bone biology. Curr. Opin. Pharmacol. 2011, 11, 34-38.
    • (2011) Curr. Opin. Pharmacol. , vol.11 , pp. 34-38
    • Ducy, P.1
  • 11
    • 80051960097 scopus 로고    scopus 로고
    • LRP5, serotonin, and bone: Complexity, contradictions, and conundrums
    • Goltzman, D. LRP5, serotonin, and bone: Complexity, contradictions, and conundrums. J. Bone Miner. Res. 2011, 26, 1997-2001.
    • (2011) J. Bone Miner. Res. , vol.26 , pp. 1997-2001
    • Goltzman, D.1
  • 12
    • 77949270283 scopus 로고    scopus 로고
    • Pharmacological inhibition of gut-derived serotonin synthesis is a potential bone anabolic treatment for osteoporosis
    • Yadav, V.K.; Balaji, S.; Suresh, P.S.; Liu, X.S.; Lu, X.; Li, Z.S.; Guo, X.E.; Mann, J.J.; Balapure, A.K.; Gershon, M.D.; et al. Pharmacological inhibition of gut-derived serotonin synthesis is a potential bone anabolic treatment for osteoporosis. Nat. Med. 2010, 16, 308-312.
    • (2010) Nat. Med. , vol.16 , pp. 308-312
    • Yadav, V.K.1    Balaji, S.2    Suresh, P.S.3    Liu, X.S.4    Lu, X.5    Li, Z.S.6    Guo, X.E.7    Mann, J.J.8    Balapure, A.K.9    Gershon, M.D.10
  • 13
    • 79960640529 scopus 로고    scopus 로고
    • Levels of serotonin, sclerostin, bone turnover markers as well as bone density and microarchitecture in patients with high-bone-mass phenotype due to a mutation in Lrp5
    • Frost, M.; Andersen, T.; Gossiel, F.; Hansen, S.; Bollerslev, J.; van Hul, W.; Eastell, R.; Kassem, M.; Brixen, K. Levels of serotonin, sclerostin, bone turnover markers as well as bone density and microarchitecture in patients with high-bone-mass phenotype due to a mutation in Lrp5. J. Bone Miner. Res. 2011, 26, 1721-1728.
    • (2011) J. Bone Miner. Res. , vol.26 , pp. 1721-1728
    • Frost, M.1    Andersen, T.2    Gossiel, F.3    Hansen, S.4    Bollerslev, J.5    van Hul, W.6    Eastell, R.7    Kassem, M.8    Brixen, K.9
  • 15
    • 79551714477 scopus 로고    scopus 로고
    • LX-1031, a tryptophan 5-hydroxylase inhibitor, and its potential in chronic diarrhea associated with increased serotonin
    • Camilleri, M. LX-1031, a tryptophan 5-hydroxylase inhibitor, and its potential in chronic diarrhea associated with increased serotonin. Neurogastroenterol. Motil. 2011, 23, 193-200.
    • (2011) Neurogastroenterol. Motil. , vol.23 , pp. 193-200
    • Camilleri, M.1
  • 16
    • 84861566872 scopus 로고    scopus 로고
    • Combined structure-based pharmacophore and 3D-QSAR studies on phenylalanine series compounds as TPH1 inhibitors
    • Ouyang, L.; He, G.; Huang, W.; Song, X.; Wu, F.; Xiang, M. Combined structure-based pharmacophore and 3D-QSAR studies on phenylalanine series compounds as TPH1 inhibitors. Int. J. Mol. Sci. 2012, 13, 5348-5363.
    • (2012) Int. J. Mol. Sci. , vol.13 , pp. 5348-5363
    • Ouyang, L.1    He, G.2    Huang, W.3    Song, X.4    Wu, F.5    Xiang, M.6
  • 19
    • 50849136880 scopus 로고    scopus 로고
    • Comparative molecular dynamics simulations of histone deacetylase-like protein: Binding modes and free energy analysis to hydroxamic acid inhibitors
    • Yan, C.; Xiu, Z.; Li, X.; Li, S.; Hao, C.; Teng, H. Comparative molecular dynamics simulations of histone deacetylase-like protein: Binding modes and free energy analysis to hydroxamic acid inhibitors. Proteins-Struct. Funct. Bioinforma. 2008, 73, 134-149.
    • (2008) Proteins-Struct. Funct. Bioinforma. , vol.73 , pp. 134-149
    • Yan, C.1    Xiu, Z.2    Li, X.3    Li, S.4    Hao, C.5    Teng, H.6
  • 20
    • 80054911951 scopus 로고    scopus 로고
    • LigPlot+: Multiple ligand-protein interaction diagrams for drug discovery
    • Laskowski, R.A.; Swindells, M.B. LigPlot+: Multiple ligand-protein interaction diagrams for drug discovery. J. Chem. Inf. Model. 2011, 51, 2778-2786.
    • (2011) J. Chem. Inf. Model. , vol.51 , pp. 2778-2786
    • Laskowski, R.A.1    Swindells, M.B.2
  • 21
    • 0028922586 scopus 로고
    • LIGPLOT-A program to generate schematic diagrams of protein ligand interactions
    • Wallace, A.C.; Laskowski, R.A.; Thornton, J.M., LIGPLOT-A program to generate schematic diagrams of protein ligand interactions. Protein Eng. 1995, 8, 127-134.
    • (1995) Protein Eng. , vol.8 , pp. 127-134
    • Wallace, A.C.1    Laskowski, R.A.2    Thornton, J.M.3
  • 23
    • 84877831105 scopus 로고    scopus 로고
    • Version 2.0; TRIPOS Associates, Inc.: St. Louis, MO, USA
    • Sybyl-X Molecular Modeling Software Packages, Version 2.0; TRIPOS Associates, Inc.: St. Louis, MO, USA, 2012.
    • (2012) Sybyl-X Molecular Modeling Software Packages
  • 25
    • 79951672431 scopus 로고    scopus 로고
    • The molecular mechanism studies of chirality effect of PHA-739358 on Aurora kinase A by molecular dynamics simulation and free energy calculations
    • Cheng, Y.H.; Cui, W.; Chen, Q.A.; Tung, C.H.; Ji, M.J.; Zhang, F.S. The molecular mechanism studies of chirality effect of PHA-739358 on Aurora kinase A by molecular dynamics simulation and free energy calculations. J. Comput. Aided Mol. Des. 2011, 25, 171-180.
    • (2011) J. Comput. Aided Mol. Des. , vol.25 , pp. 171-180
    • Cheng, Y.H.1    Cui, W.2    Chen, Q.A.3    Tung, C.H.4    Ji, M.J.5    Zhang, F.S.6
  • 26
    • 84860120754 scopus 로고    scopus 로고
    • Identification of novel potential beta-N-Acetyl-D-hexosaminidase inhibitors by virtual screening, molecular dynamics simulation and MM-PBSA calculations
    • Liu, J.; Liu, M.; Yao, Y.; Wang, J.; Li, Y.; Li, G.; Wang, Y. Identification of novel potential beta-N-Acetyl-D-hexosaminidase inhibitors by virtual screening, molecular dynamics simulation and MM-PBSA calculations. Int. J. Mol. Sci. 2012, 13, 4545-4563.
    • (2012) Int. J. Mol. Sci. , vol.13 , pp. 4545-4563
    • Liu, J.1    Liu, M.2    Yao, Y.3    Wang, J.4    Li, Y.5    Li, G.6    Wang, Y.7
  • 27
    • 84874430049 scopus 로고    scopus 로고
    • Exploring the proton conductance and drug resistance of BM2 channel through molecular dynamics simulations and free energy calculations at different pH conditions
    • Zhang, Y.; Shen, H.; Zhang, M.; Li, G. Exploring the proton conductance and drug resistance of BM2 channel through molecular dynamics simulations and free energy calculations at different pH conditions. J. Phys. Chem. B 2013, 117, 982-988.
    • (2013) J. Phys. Chem. B , vol.117 , pp. 982-988
    • Zhang, Y.1    Shen, H.2    Zhang, M.3    Li, G.4
  • 28
    • 84863248788 scopus 로고    scopus 로고
    • Computational studies of difference in binding modes of peptide and non-peptide inhibitors to MDM2/MDMX based on molecular dynamics simulations
    • Chen, J.; Zhang, D.; Zhang, Y.; Li, G. Computational studies of difference in binding modes of peptide and non-peptide inhibitors to MDM2/MDMX based on molecular dynamics simulations. Int. J. Mol. Sci. 2012, 13, 2176-2195.
    • (2012) Int. J. Mol. Sci. , vol.13 , pp. 2176-2195
    • Chen, J.1    Zhang, D.2    Zhang, Y.3    Li, G.4
  • 30
    • 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
  • 31
    • 77951841239 scopus 로고    scopus 로고
    • MMPBSA decomposition of the binding energy throughout a molecular dynamics simulation of amyloid-beta (Aβ10-35) aggregation
    • Campanera, J.M.; Pouplana, R. MMPBSA decomposition of the binding energy throughout a molecular dynamics simulation of amyloid-beta (Aβ10-35) aggregation. Molecules 2010, 15, 2730-2748.
    • (2010) Molecules , vol.15 , pp. 2730-2748
    • Campanera, J.M.1    Pouplana, R.2
  • 32
    • 84866893035 scopus 로고    scopus 로고
    • A combination of 3D-QSAR, molecular docking and molecular dynamics simulation studies of benzimidazole-quinolinone derivatives as iNOS inhibitors
    • Zhang, H.; Zan, J.; Yu, G.; Jiang, M.; Liu, P. A combination of 3D-QSAR, molecular docking and molecular dynamics simulation studies of benzimidazole-quinolinone derivatives as iNOS inhibitors. Int. J. Mol. Sci. 2012, 13, 11210-11227.
    • (2012) Int. J. Mol. Sci. , vol.13 , pp. 11210-11227
    • Zhang, H.1    Zan, J.2    Yu, G.3    Jiang, M.4    Liu, P.5
  • 33
    • 84860157502 scopus 로고    scopus 로고
    • Combining Molecular docking and molecular dynamics to predict the binding modes of flavonoid derivatives with the neuraminidase of the 2009 H1N1 influenza a virus
    • Lu, S.-J.; Chong, F.-C. Combining Molecular docking and molecular dynamics to predict the binding modes of flavonoid derivatives with the neuraminidase of the 2009 H1N1 influenza a virus. Int. J. Mol. Sci. 2012, 13, 4496-4507.
    • (2012) Int. J. Mol. Sci. , vol.13 , pp. 4496-4507
    • Lu, S.-J.1    Chong, F.-C.2
  • 35
    • 0000538815 scopus 로고
    • Analytical molecular surface calculation
    • Connolly, M.L. Analytical molecular surface calculation. J. Appl. Cryst. 1983, 16, 548-558.
    • (1983) J. Appl. Cryst , vol.16 , pp. 548-558
    • Connolly, M.L.1
  • 36
    • 0043245780 scopus 로고    scopus 로고
    • Case DA Insights into protein-protein binding by binding free energy calculation and free energy decomposition for the Ras-Raf and Ras-Ral GDS complexes
    • Gohlke, H.; Kiel, C. Case DA Insights into protein-protein binding by binding free energy calculation and free energy decomposition for the Ras-Raf and Ras-Ral GDS complexes. J. Mol. Biol. 2003, 330, 891-913.
    • (2003) J. Mol. Biol. , vol.330 , pp. 891-913
    • Gohlke, H.1    Kiel, C.2
  • 37
    • 84862505648 scopus 로고    scopus 로고
    • A computational study on thiourea analogs as potent MK-2 inhibitors
    • Hao, M.; Ren, H.; Luo, F.; Zhang, S.; Qiu, J.; Ji, M.; Si, H.; Li, G. A computational study on thiourea analogs as potent MK-2 inhibitors. Int. J. Mol. Sci. 2012, 13, 7057-7079.
    • (2012) Int. J. Mol. Sci. , vol.13 , pp. 7057-7079
    • Hao, M.1    Ren, H.2    Luo, F.3    Zhang, S.4    Qiu, J.5    Ji, M.6    Si, H.7    Li, G.8
  • 38
    • 84867336563 scopus 로고    scopus 로고
    • A descriptor of amino acids SVWG and its applications in peptide QSAR
    • Tong, J.; Chen, Y.; Liu, S.; Che, T.; Xu, X. A descriptor of amino acids SVWG and its applications in peptide QSAR. J. Chemom. 2012, 26, 549-555.
    • (2012) J. Chemom. , vol.26 , pp. 549-555
    • Tong, J.1    Chen, Y.2    Liu, S.3    Che, T.4    Xu, X.5
  • 39
    • 54949145376 scopus 로고    scopus 로고
    • Three-dimensional holographic vector of atomic interaction field applied in QSAR of anti-HIV HEPT analogues
    • Tong, J.; Liu, S. Three-dimensional holographic vector of atomic interaction field applied in QSAR of anti-HIV HEPT analogues. Qsar Comb. Sci. 2008, 27, 330-337.
    • (2008) Qsar Comb. Sci. , vol.27 , pp. 330-337
    • Tong, J.1    Liu, S.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.