메뉴 건너뛰기




Volumn 52, Issue 5, 2012, Pages 1079-1085

Combining dyad protonation and active site plasticity in BACE-1 structure-based drug design

Author keywords

[No Author keywords available]

Indexed keywords

MOLECULAR DYNAMICS; NEURODEGENERATIVE DISEASES; PROTONATION; QUANTUM THEORY; VIRTUAL ADDRESSES;

EID: 84861486038     PISSN: 15499596     EISSN: 1549960X     Source Type: Journal    
DOI: 10.1021/ci200366z     Document Type: Article
Times cited : (23)

References (25)
  • 1
    • 77951776829 scopus 로고    scopus 로고
    • Alzheimer's disease: Strategies for disease modification
    • Citron, M. Alzheimer's disease: Strategies for disease modification Nat. Rev. Drug Discov. 2010, 9, 387-398
    • (2010) Nat. Rev. Drug Discov. , vol.9 , pp. 387-398
    • Citron, M.1
  • 2
    • 78449272415 scopus 로고    scopus 로고
    • γ-Secretase and human disease
    • Kelleher, R. J., III; Shen, J. γ-Secretase and human disease Science 2010, 330, 1055-1056
    • (2010) Science , vol.330 , pp. 1055-1056
    • Kelleher III, R.J.1    Shen, J.2
  • 3
    • 77955934713 scopus 로고    scopus 로고
    • Is BACE1 a suitable therapeutic target for the treatment of Alzheimer's disease? Current strategies and future directions
    • Klaver, D. W.; Wilce, M. C.; Cui, H.; Hung, A. C.; Gasperini, R.; Foa, L.; Small, D. H. Is BACE1 a suitable therapeutic target for the treatment of Alzheimer's disease? Current strategies and future directions Biol. Chem. 2010, 391, 849-859
    • (2010) Biol. Chem. , vol.391 , pp. 849-859
    • Klaver, D.W.1    Wilce, M.C.2    Cui, H.3    Hung, A.C.4    Gasperini, R.5    Foa, L.6    Small, D.H.7
  • 4
    • 67651047153 scopus 로고    scopus 로고
    • Progress in the development of nonpeptidomimetic BACE 1 inhibitors for Alzheimer's disease
    • Huang, W. H.; Sheng, R.; Hu, Y. Z. Progress in the development of nonpeptidomimetic BACE 1 inhibitors for Alzheimer's disease Curr. Med. Chem. 2009, 16, 1806-1820
    • (2009) Curr. Med. Chem. , vol.16 , pp. 1806-1820
    • Huang, W.H.1    Sheng, R.2    Hu, Y.Z.3
  • 5
    • 33748308883 scopus 로고    scopus 로고
    • Targeting proteases: Successes, failures and future prospects
    • DOI 10.1038/nrd2092, PII NRD2092
    • Turk, B. Targeting proteases: Successes, failures and future prospects Nat. Rev. Drug Discov. 2006, 5, 785-799 (Pubitemid 44323703)
    • (2006) Nature Reviews Drug Discovery , vol.5 , Issue.9 , pp. 785-799
    • Turk, B.1
  • 7
    • 0347694970 scopus 로고    scopus 로고
    • Determination of the Active Site Protonation State of β-Secretase from Molecular Dynamics Simulation and Docking Experiment: Implications for Structure-Based Inhibitor Design
    • DOI 10.1021/ja0304493
    • Park, H.; Lee, S. Determination of the active site protonation state of β-secretase from molecular dynamics simulation and docking experiment: implications for structure-based inhibitor design J. Am. Chem. Soc. 2003, 125, 16416-16422 (Pubitemid 38020666)
    • (2003) Journal of the American Chemical Society , vol.125 , Issue.52 , pp. 16416-16422
    • Park, H.1    Lee, S.2
  • 8
    • 0034613320 scopus 로고    scopus 로고
    • Structure of the protease domain of memapsin 2 (β-secretase) complexed with inhibitor
    • Hong, L.; Koelsch, G.; Lin, X.; Wu, S.; Terzyan, S.; Ghosh, A. K.; Zhang, X. C.; Tang, J. Structure of the protease domain of memapsin 2 (β-secretase) complexed with inhibitor Science 2000, 290, 150-153
    • (2000) Science , vol.290 , pp. 150-153
    • Hong, L.1    Koelsch, G.2    Lin, X.3    Wu, S.4    Terzyan, S.5    Ghosh, A.K.6    Zhang, X.C.7    Tang, J.8
  • 9
    • 4744338363 scopus 로고    scopus 로고
    • Modeling the protonation states of the catalytic aspartates in β-secretase
    • DOI 10.1021/jm049817j
    • Rajamani, R.; Reynolds, C. H. Modeling the protonation states of the catalytic aspartates in β-secretase J. Med. Chem. 2004, 47, 5159-5166 (Pubitemid 39314913)
    • (2004) Journal of Medicinal Chemistry , vol.47 , Issue.21 , pp. 5159-5166
    • Rajamani, R.1    Reynolds, C.H.2
  • 10
    • 20144369541 scopus 로고    scopus 로고
    • Virtual screening for β-secretase (BACE1) inhibitors reveals the importance of protonation states at Asp32 and Asp228
    • DOI 10.1021/jm049133b
    • Polgár, T.; Keserü, G. M. Virtual screening for β-secretase (BACE1) inhibitors reveals the importance of protonation states at Asp32 and Asp228 J. Med. Chem. 2005, 48, 3749-3755 (Pubitemid 40776849)
    • (2005) Journal of Medicinal Chemistry , vol.48 , Issue.11 , pp. 3749-3755
    • Polgar, T.1    Keseru, G.M.2
  • 11
    • 26444552906 scopus 로고    scopus 로고
    • Functional plasticity in the substrate binding site of β-secretase
    • DOI 10.1016/j.str.2005.06.015, PII S0969212605002753
    • Gorfe, A. A.; Caflisch, A. Functional plasticity in the substrate binding site of β-secretase Structure 2005, 13, 1487-1498 (Pubitemid 41427588)
    • (2005) Structure , vol.13 , Issue.10 , pp. 1487-1498
    • Gorfe, A.A.1    Caflisch, A.2
  • 12
    • 34548392290 scopus 로고    scopus 로고
    • Ensemble-docking approach on BACE-1: Pharmacophore perception and guidelines for drug design
    • Limongelli, V.; Marinelli, L.; Cosconati, S.; Braun, H. A.; Schmidt, B.; Novellino, E. Ensemble-docking approach on BACE-1: Pharmacophore perception and guidelines for drug design ChemMedChem 2007, 2, 667-678
    • (2007) ChemMedChem , vol.2 , pp. 667-678
    • Limongelli, V.1    Marinelli, L.2    Cosconati, S.3    Braun, H.A.4    Schmidt, B.5    Novellino, E.6
  • 13
    • 77951992987 scopus 로고    scopus 로고
    • Ensemble docking into multiple crystallographically derived protein structures: An evaluation based on the statistical analysis of enrichments
    • Craig, I. R.; Essex, J. W.; Spiegel, K. Ensemble docking into multiple crystallographically derived protein structures: an evaluation based on the statistical analysis of enrichments J. Chem. Inf. Model. 2010, 50, 511-524
    • (2010) J. Chem. Inf. Model. , vol.50 , pp. 511-524
    • Craig, I.R.1    Essex, J.W.2    Spiegel, K.3
  • 14
    • 33746924045 scopus 로고    scopus 로고
    • Ensemble docking into flexible active sites. Critical evaluation of FlexE against JNK-3 and β-secretase
    • DOI 10.1021/ci050412x
    • Polgár, T.; Keserü, G. M. Ensemble docking into flexible active sites. Critical evaluation of FlexE against JNK-3 and β-secretase J. Chem. Inf. Model. 2006, 46, 1795-1805 (Pubitemid 44185704)
    • (2006) Journal of Chemical Information and Modeling , vol.46 , Issue.4 , pp. 1795-1805
    • Polgar, T.1    Keseru, G.M.2
  • 15
    • 34548448617 scopus 로고    scopus 로고
    • Structure-guided design of β-secretase (BACE-1) inhibitors
    • DOI 10.1517/17460441.2.8.1129
    • McGaughey, G. B.; Holloway, M. K. Structure-guided design of β-secretase (BACE-1) inhibitors Expert Opin. Drug Dis. 2007, 2, 1129-1138 (Pubitemid 47354335)
    • (2007) Expert Opinion on Drug Discovery , vol.2 , Issue.8 , pp. 1129-1138
    • McGaughey, G.B.1    Holloway, M.K.2
  • 16
    • 62249167406 scopus 로고    scopus 로고
    • Boom in the development of non-peptidic β-secretase (BACE1) inhibitors for the treatment of Alzheimer's disease
    • Silvestri, R. Boom in the development of non-peptidic β-secretase (BACE1) inhibitors for the treatment of Alzheimer's disease Med. Res. Rev. 2009, 29, 295-338
    • (2009) Med. Res. Rev. , vol.29 , pp. 295-338
    • Silvestri, R.1
  • 17
    • 0037203973 scopus 로고    scopus 로고
    • Designing non-peptide peptidomimetics in the 21st century: Inhibitors targeting conformational ensembles
    • DOI 10.1021/jm010425b
    • Bursavich, M. G.; Rich, D. H. Designing non-peptide peptidomimetics in the 21st century:Inhibitors targeting conformational ensembles J. Med. Chem. 2002, 45, 541-558 (Pubitemid 34145701)
    • (2002) Journal of Medicinal Chemistry , vol.45 , Issue.3 , pp. 541-558
    • Bursavich, M.G.1    Rich, D.H.2
  • 18
    • 33751504561 scopus 로고    scopus 로고
    • Assigning the protonation states of the key aspartates in β-secretase using QM/MM X-ray structure refinement
    • Yu, N.; Hayik, S. A.; Wang, B.; Liao, N.; Reynolds, C. H.; Merz, K. M. Assigning the protonation states of the key aspartates in β-secretase using QM/MM X-ray structure refinement J. Chem. Theory Comput. 2006, 2, 1057-1069
    • (2006) J. Chem. Theory Comput. , vol.2 , pp. 1057-1069
    • Yu, N.1    Hayik, S.A.2    Wang, B.3    Liao, N.4    Reynolds, C.H.5    Merz, K.M.6
  • 19
    • 77951228927 scopus 로고    scopus 로고
    • On the orientation of the catalytic dyad in aspartic proteases
    • Friedman, R.; Caflisch, A. On the orientation of the catalytic dyad in aspartic proteases Proteins 2010, 78, 1575-1582
    • (2010) Proteins , vol.78 , pp. 1575-1582
    • Friedman, R.1    Caflisch, A.2
  • 21
    • 8844263008 scopus 로고    scopus 로고
    • Docking and scoring in virtual screening for drug discovery: Methods and applications
    • DOI 10.1038/nrd1549
    • Kitchen, D. B.; Decornez, H.; Furr, J. R.; Bajorath, J. Docking and scoring in virtual screening for drug discovery: Methods and applications Nat. Rev. Drug Discov. 2004, 3, 935-949 (Pubitemid 39529931)
    • (2004) Nature Reviews Drug Discovery , vol.3 , Issue.11 , pp. 935-949
    • Kitchen, D.B.1    Decornez, H.2    Furr, J.R.3    Bajorath, J.4
  • 22
    • 34247272948 scopus 로고    scopus 로고
    • Evaluating virtual screening methods: Good and bad metrics for the "early recognition" problem
    • DOI 10.1021/ci600426e
    • Truchon, J. F.; Bayly, C. I. Evaluating virtual screening methods:Good and bad metrics for the early recognition problem J. Chem. Inf. Model. 2007, 47, 488-508 (Pubitemid 46615951)
    • (2007) Journal of Chemical Information and Modeling , vol.47 , Issue.2 , pp. 488-508
    • Truchon, J.-F.1    Bayly, C.I.2
  • 23
    • 79956201474 scopus 로고    scopus 로고
    • Systematic exploitation of multiple receptor conformations for virtual ligand screening
    • Bottegoni, G.; Rocchia, W.; Rueda, M.; Abagyan, R.; Cavalli, A. Systematic exploitation of multiple receptor conformations for virtual ligand screening PLoS ONE 2011, 6, e18845
    • (2011) PLoS ONE , vol.6 , pp. 18845
    • Bottegoni, G.1    Rocchia, W.2    Rueda, M.3    Abagyan, R.4    Cavalli, A.5
  • 24
    • 37849034064 scopus 로고    scopus 로고
    • Atomic property fields: Generalized 3D pharmacophoric potential for automated ligand superposition, pharmacophore elucidation and 3D QSAR
    • Totrov, M. Atomic property fields: Generalized 3D pharmacophoric potential for automated ligand superposition, pharmacophore elucidation and 3D QSAR Chem. Biol. Drug. Des. 2008, 71, 15-27
    • (2008) Chem. Biol. Drug. Des. , vol.71 , pp. 15-27
    • Totrov, M.1
  • 25
    • 75749093371 scopus 로고    scopus 로고
    • Recipes for the selection of experimental protein conformations for virtual screening
    • Rueda, M.; Bottegoni, G.; Abagyan, R. Recipes for the selection of experimental protein conformations for virtual screening J. Chem. Inf. Model. 2010, 50, 186-193
    • (2010) J. Chem. Inf. Model. , vol.50 , pp. 186-193
    • Rueda, M.1    Bottegoni, G.2    Abagyan, R.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.