-
1
-
-
0347357617
-
Protein Folding and Misfolding
-
Dobson, C. M. Protein Folding and Misfolding. Nature 2003, 426, 884-890.
-
(2003)
Nature
, vol.426
, pp. 884-890
-
-
Dobson, C.M.1
-
2
-
-
34249290108
-
Atomic Structures of Amyloid Cross-Beta Spines Reveal Varied Steric Zippers
-
Sawaya, M. R.; Sambashivan, S.; Nelson, R.; Ivanova, M. I.; Sievers, S. A.; Apostol, M. I.; Thompson, M. J.; Balbirnie, M.; Wiltzius, J. J.; McFarlane, H. T.; et al. Atomic Structures of Amyloid Cross-Beta Spines Reveal Varied Steric Zippers. Nature 2007, 447, 453-457.
-
(2007)
Nature
, vol.447
, pp. 453-457
-
-
Sawaya, M.R.1
Sambashivan, S.2
Nelson, R.3
Ivanova, M.I.4
Sievers, S.A.5
Apostol, M.I.6
Thompson, M.J.7
Balbirnie, M.8
Wiltzius, J.J.9
McFarlane, H.T.10
-
3
-
-
0037077040
-
Toxic Proteins in Neurodegenerative Disease
-
Taylor, J. P.; Hardy, J.; Fischbeck, K. H. Toxic Proteins in Neurodegenerative Disease. Science 2002, 296, 1991-1995.
-
(2002)
Science
, vol.296
, pp. 1991-1995
-
-
Taylor, J.P.1
Hardy, J.2
Fischbeck, K.H.3
-
4
-
-
80052266213
-
The Amyloid Cascade Hypothesis for Alzheimer's Disease: An Appraisal for the Development of Therapeutics
-
Karran, E.; Mercken, M.; De Strooper, B. The Amyloid Cascade Hypothesis for Alzheimer's Disease: An Appraisal for the Development of Therapeutics. Nat. Rev. Drug Discovery 2011, 10, 698-712.
-
(2011)
Nat. Rev. Drug Discovery
, vol.10
, pp. 698-712
-
-
Karran, E.1
Mercken, M.2
De Strooper, B.3
-
5
-
-
0026597063
-
Alzheimer's Disease: The Amyloid Cascade Hypothesis
-
Hardy, J. A.; Higgins, G. A. Alzheimer's Disease: The Amyloid Cascade Hypothesis. Science 1992, 256, 184-185.
-
(1992)
Science
, vol.256
, pp. 184-185
-
-
Hardy, J.A.1
Higgins, G.A.2
-
6
-
-
4043171124
-
Islet Amyloid: A Critical Entity in the Pathogenesis of Type 2 Diabetes
-
Hull, R. L.; Westermark, G. T.; Westermark, P.; Kahn, S. E. Islet Amyloid: A Critical Entity in the Pathogenesis of Type 2 Diabetes. J. Clin. Endocrinol. Metab. 2004, 89, 3629-3643.
-
(2004)
J. Clin. Endocrinol. Metab.
, vol.89
, pp. 3629-3643
-
-
Hull, R.L.1
Westermark, G.T.2
Westermark, P.3
Kahn, S.E.4
-
7
-
-
79953230499
-
The Molecular Basis of Distinct Aggregation Pathways of Islet Amyloid Polypeptide
-
Wei, L.; Jiang, P.; Xu, W.; Li, H.; Zhang, H.; Yan, L.; Chan-Park, M. B.; Liu, X. W.; Tang, K.; Mu, Y.; et al. The Molecular Basis of Distinct Aggregation Pathways of Islet Amyloid Polypeptide. J. Biol. Chem. 2010, 286, 6291-6300.
-
(2010)
J. Biol. Chem.
, vol.286
, pp. 6291-6300
-
-
Wei, L.1
Jiang, P.2
Xu, W.3
Li, H.4
Zhang, H.5
Yan, L.6
Chan-Park, M.B.7
Liu, X.W.8
Tang, K.9
Mu, Y.10
-
8
-
-
43549100675
-
Islet Amyloid in Type 2 Diabetes, and the Toxic Oligomer Hypothesis
-
Haataja, L.; Gurlo, T.; Huang, C. J.; Butler, P. C. Islet Amyloid in Type 2 Diabetes, and the Toxic Oligomer Hypothesis. Endocr. Rev. 2008, 29, 303-316.
-
(2008)
Endocr. Rev.
, vol.29
, pp. 303-316
-
-
Haataja, L.1
Gurlo, T.2
Huang, C.J.3
Butler, P.C.4
-
9
-
-
57049174009
-
Structures of Rat and Human Islet Amyloid Polypeptide IAPP(1-19) in Micelles by NMR Spectroscopy
-
Nanga, R. P.; Brender, J. R.; Xu, J.; Veglia, G.; Ramamoorthy, A. Structures of Rat and Human Islet Amyloid Polypeptide IAPP(1-19) in Micelles by NMR Spectroscopy. Biochemistry 2008, 47, 12689-12697.
-
(2008)
Biochemistry
, vol.47
, pp. 12689-12697
-
-
Nanga, R.P.1
Brender, J.R.2
Xu, J.3
Veglia, G.4
Ramamoorthy, A.5
-
10
-
-
84873685394
-
Comparative Molecular Dynamics Study of Human Islet Amyloid Polypeptide (IAPP) and Rat IAPP Oligomers
-
Liang, G.; Zhao, J.; Yu, X.; Zheng, J. Comparative Molecular Dynamics Study of Human Islet Amyloid Polypeptide (IAPP) and Rat IAPP Oligomers. Biochemistry 2013, 52, 1089-1100.
-
(2013)
Biochemistry
, vol.52
, pp. 1089-1100
-
-
Liang, G.1
Zhao, J.2
Yu, X.3
Zheng, J.4
-
11
-
-
50449085533
-
Widespread Amyloid Deposition in Transplanted Human Pancreatic Islets
-
Westermark, G. T.; Westermark, P.; Berne, C.; Korsgren, O. Widespread Amyloid Deposition in Transplanted Human Pancreatic Islets. N. Engl. J. Med. 2008, 359, 977-979.
-
(2008)
N. Engl. J. Med.
, vol.359
, pp. 977-979
-
-
Westermark, G.T.1
Westermark, P.2
Berne, C.3
Korsgren, O.4
-
12
-
-
4544365326
-
Formation of Amyloid in Human Pancreatic Islets Transplanted to the Liver and Spleen of Nude Mice
-
Westermark, G. T.; Westermark, P.; Nordin, A.; Tornelius, E.; Andersson, A. Formation of Amyloid in Human Pancreatic Islets Transplanted to the Liver and Spleen of Nude Mice. Ups. J. Med. Sci. 2003, 108, 193-203.
-
(2003)
Ups. J. Med. Sci.
, vol.108
, pp. 193-203
-
-
Westermark, G.T.1
Westermark, P.2
Nordin, A.3
Tornelius, E.4
Andersson, A.5
-
13
-
-
77749297972
-
Islet Amyloid Deposition Limits the Viability of Human Islet Grafts but Not Porcine Islet Grafts
-
Potter, K. J.; Abedini, A.; Marek, P.; Klimek, A. M.; Butterworth, S.; Driscoll, M.; Baker, R.; Nilsson, M. R.; Warnock, G. L.; Oberholzer, J.; et al. Islet Amyloid Deposition Limits the Viability of Human Islet Grafts but Not Porcine Islet Grafts. Proc. Natl. Acad. Sci. U. S. A. 2010, 107, 4305-4310.
-
(2010)
Proc. Natl. Acad. Sci. U. S. A.
, vol.107
, pp. 4305-4310
-
-
Potter, K.J.1
Abedini, A.2
Marek, P.3
Klimek, A.M.4
Butterworth, S.5
Driscoll, M.6
Baker, R.7
Nilsson, M.R.8
Warnock, G.L.9
Oberholzer, J.10
-
14
-
-
84894231232
-
Understanding Amyloid Fibril Nucleation and Aβ Oligomer/Drug Interactions from Computer Simulations
-
Nguyen, P.; Derreumaux, P. Understanding Amyloid Fibril Nucleation and Aβ Oligomer/Drug Interactions from Computer Simulations. Acc. Chem. Res. 2013, 47, 603-611.
-
(2013)
Acc. Chem. Res.
, vol.47
, pp. 603-611
-
-
Nguyen, P.1
Derreumaux, P.2
-
15
-
-
44849087785
-
EGCG Redirects Amyloidogenic Polypeptides into Unstructured, Off-Pathway Oligomers
-
Ehrnhoefer, D. E.; Bieschke, J.; Boeddrich, A.; Herbst, M.; Masino, L.; Lurz, R.; Engemann, S.; Pastore, A.; Wanker, E. E. EGCG Redirects Amyloidogenic Polypeptides into Unstructured, Off-Pathway Oligomers. Nat. Struct. Mol. Biol. 2008, 15, 558-566.
-
(2008)
Nat. Struct. Mol. Biol.
, vol.15
, pp. 558-566
-
-
Ehrnhoefer, D.E.1
Bieschke, J.2
Boeddrich, A.3
Herbst, M.4
Masino, L.5
Lurz, R.6
Engemann, S.7
Pastore, A.8
Wanker, E.E.9
-
16
-
-
80054071097
-
Crocetin Inhibits Beta-Amyloid Fibrillization and Stabilizes Beta-Amyloid Oligomers
-
Ahn, J. H.; Hu, Y.; Hernandez, M.; Kim, J. R. Crocetin Inhibits Beta-Amyloid Fibrillization and Stabilizes Beta-Amyloid Oligomers. Biochem. Biophys. Res. Commun. 2011, 414, 79-83.
-
(2011)
Biochem. Biophys. Res. Commun.
, vol.414
, pp. 79-83
-
-
Ahn, J.H.1
Hu, Y.2
Hernandez, M.3
Kim, J.R.4
-
17
-
-
84864482811
-
Morin Inhibits the Early Stages of Amyloid Beta-Peptide Aggregation by Altering Tertiary and Quaternary Interactions to Produce "Off-Pathway" Structures
-
Lemkul, J. A.; Bevan, D. R. Morin Inhibits the Early Stages of Amyloid Beta-Peptide Aggregation by Altering Tertiary and Quaternary Interactions to Produce "Off-Pathway" Structures. Biochemistry. 2012, 51, 5990-6009.
-
(2012)
Biochemistry.
, vol.51
, pp. 5990-6009
-
-
Lemkul, J.A.1
Bevan, D.R.2
-
18
-
-
79958204688
-
Inhibition of Aggregation of Amyloid Peptides by Beta-Sheet Breaker Peptides and Their Binding Affinity
-
Viet, M. H.; Ngo, S. T.; Lam, N. S.; Li, M. S. Inhibition of Aggregation of Amyloid Peptides by Beta-Sheet Breaker Peptides and Their Binding Affinity. J. Phys. Chem. B 2011, 115, 7433-7446.
-
(2011)
J. Phys. Chem. B
, vol.115
, pp. 7433-7446
-
-
Viet, M.H.1
Ngo, S.T.2
Lam, N.S.3
Li, M.S.4
-
19
-
-
84888406392
-
Protein Folding and Aggregation into Amyloid: The Interference by Natural Phenolic Compounds
-
Stefani, M.; Rigacci, S. Protein Folding and Aggregation into Amyloid: The Interference by Natural Phenolic Compounds. Int. J. Mol. Sci. 2013, 14, 12411-12457.
-
(2013)
Int. J. Mol. Sci.
, vol.14
, pp. 12411-12457
-
-
Stefani, M.1
Rigacci, S.2
-
20
-
-
33745096194
-
Inhibition of Amyloid Fibril Formation by Polyphenols: Structural Similarity and Aromatic Interactions as a Common Inhibition Mechanism
-
Porat, Y.; Abramowitz, A.; Gazit, E. Inhibition of Amyloid Fibril Formation by Polyphenols: Structural Similarity and Aromatic Interactions as a Common Inhibition Mechanism. Chem. Biol. Drug Des. 2006, 67, 27-37.
-
(2006)
Chem. Biol. Drug Des.
, vol.67
, pp. 27-37
-
-
Porat, Y.1
Abramowitz, A.2
Gazit, E.3
-
21
-
-
84860386735
-
Phenolic Compounds Prevent Amyloid beta-Protein Oligomerization and Synaptic Dysfunction by Site-Specific Binding
-
Ono, K.; Li, L.; Takamura, Y.; Yoshiike, Y.; Zhu, L.; Han, F.; Mao, X.; Ikeda, T.; Takasaki, J. i.; Nishijo, H.; et al. Phenolic Compounds Prevent Amyloid beta-Protein Oligomerization and Synaptic Dysfunction by Site-Specific Binding. J. Biol. Chem. 2012, 287, 14631-14643.
-
(2012)
J. Biol. Chem.
, vol.287
, pp. 14631-14643
-
-
Ono, K.1
Li, L.2
Takamura, Y.3
Yoshiike, Y.4
Zhu, L.5
Han, F.6
Mao, X.7
Ikeda, T.8
Takasaki, J.I.9
Nishijo, H.10
-
22
-
-
84894469764
-
Flavonoids as Therapeutic Compounds Targeting Key Proteins Involved in Alzheimer's Disease
-
Baptista, F. I.; Henriques, A. G.; Silva, A. M.; Wiltfang, J.; da Cruz e Silva, O. A. Flavonoids as Therapeutic Compounds Targeting Key Proteins Involved in Alzheimer's Disease. ACS Chem. Neurosci. 2014, 5, 83-92.
-
(2014)
ACS Chem. Neurosci.
, vol.5
, pp. 83-92
-
-
Baptista, F.I.1
Henriques, A.G.2
Silva, A.M.3
Wiltfang, J.4
Da Cruz E Silva, O.A.5
-
24
-
-
60349096360
-
Inhibiting Islet Amyloid Polypeptide Fibril Formation by the Red Wine Compound Resveratrol
-
Mishra, R.; Sellin, D.; Radovan, D.; Gohlke, A.; Winter, R. Inhibiting Islet Amyloid Polypeptide Fibril Formation by the Red Wine Compound Resveratrol. ChemBioChem 2009, 10, 445-449.
-
(2009)
ChemBioChem
, vol.10
, pp. 445-449
-
-
Mishra, R.1
Sellin, D.2
Radovan, D.3
Gohlke, A.4
Winter, R.5
-
25
-
-
67349252135
-
Fluorescence Microscopy Studies on Islet Amyloid Polypeptide Fibrillation at Heterogeneous and Cellular Membrane Interfaces and Its Inhibition by Resveratrol
-
Radovan, D.; Opitz, N.; Winter, R. Fluorescence Microscopy Studies on Islet Amyloid Polypeptide Fibrillation at Heterogeneous and Cellular Membrane Interfaces and Its Inhibition by Resveratrol. FEBS Lett. 2009, 583, 1439-1445.
-
(2009)
FEBS Lett.
, vol.583
, pp. 1439-1445
-
-
Radovan, D.1
Opitz, N.2
Winter, R.3
-
26
-
-
84878141269
-
Amyloid Aggregation of Lysozyme: The Synergy Study of Red Wine Polyphenols
-
Gazova, Z.; Siposova, K.; Kurin, E.; Mučaji, P.; Nagy, M. Amyloid Aggregation of Lysozyme: The Synergy Study of Red Wine Polyphenols. Proteins 2013, 81, 994-1004.
-
(2013)
Proteins
, vol.81
, pp. 994-1004
-
-
Gazova, Z.1
Siposova, K.2
Kurin, E.3
Mučaji, P.4
Nagy, M.5
-
27
-
-
84899456647
-
Multitarget-Directed Resveratrol Derivatives: Anti-Cholinesterases, Anti-Beta-Amyloid Aggregation and Monoamine Oxidase Inhibition Properties against Alzheimer' s Disease
-
Pan, L.-F.; Wang, X.-B.; Xie, S.-S.; Li, S.-Y.; Kong, L.-Y. Multitarget-Directed Resveratrol Derivatives: Anti-Cholinesterases, Anti-Beta-Amyloid Aggregation and Monoamine Oxidase Inhibition Properties against Alzheimer' s Disease. Med. Chem. Commun. 2014, 5, 609-616.
-
(2014)
Med. Chem. Commun.
, vol.5
, pp. 609-616
-
-
Pan, L.-F.1
Wang, X.-B.2
Xie, S.-S.3
Li, S.-Y.4
Kong, L.-Y.5
-
28
-
-
84870057502
-
The Binding of Resveratrol to Monomer and Fibril Amyloid Beta
-
Ge, J. F.; Qiao, J. P.; Qi, C. C.; Wang, C. W.; Zhou, J. N. The Binding of Resveratrol to Monomer and Fibril Amyloid Beta. Neurochem. Int. 2012, 61, 1192-1201.
-
(2012)
Neurochem. Int.
, vol.61
, pp. 1192-1201
-
-
Ge, J.F.1
Qiao, J.P.2
Qi, C.C.3
Wang, C.W.4
Zhou, J.N.5
-
29
-
-
77954907699
-
Resveratrol Selectively Remodels Soluble Oligomers and Fibrils of Beta-Amyloid into Off- Pathway Conformers
-
Ladiwala, A. R. A.; Lin, J. C.; Bale, S. S.; Marcelino-Cruz, A. M.; Bhattacharya, M.; Dordick, J. S.; Tessier, P. M. Resveratrol Selectively Remodels Soluble Oligomers and Fibrils of Beta-Amyloid into Off- Pathway Conformers. J. Biol. Chem. 2010, 285, 24228-24237.
-
(2010)
J. Biol. Chem.
, vol.285
, pp. 24228-24237
-
-
Ladiwala, A.R.A.1
Lin, J.C.2
Bale, S.S.3
Marcelino-Cruz, A.M.4
Bhattacharya, M.5
Dordick, J.S.6
Tessier, P.M.7
-
30
-
-
36749033116
-
Peptide Conformation and Supramolecular Organization in Amylin Fibrils: Constraints from Solid-State NMR
-
Luca, S.; Yau, W. M.; Leapman, R.; Tycko, R. Peptide Conformation and Supramolecular Organization in Amylin Fibrils: Constraints from Solid-State NMR. Biochemistry 2007, 46, 13505-13522.
-
(2007)
Biochemistry
, vol.46
, pp. 13505-13522
-
-
Luca, S.1
Yau, W.M.2
Leapman, R.3
Tycko, R.4
-
31
-
-
23444454552
-
The Amber Biomolecular Simulation Programs
-
Case, D. A.; Cheatham, T. E., 3rd; Darden, T.; Gohlke, H.; Luo, R.; Merz, K. M., Jr.; Onufriev, A.; Simmerling, C.; Wang, B.; Woods, R. J. The Amber Biomolecular Simulation Programs. J. Comput. Chem. 2005, 26, 1668-1688.
-
(2005)
J. Comput. Chem.
, vol.26
, pp. 1668-1688
-
-
Case, D.A.1
Cheatham, T.E.2
Darden, T.3
Gohlke, H.4
Luo, R.5
Merz Jr.6
, K.M.7
Onufriev, A.8
Simmerling, C.9
Wang, B.10
Woods, R.J.11
-
32
-
-
2942532422
-
Development and Testing of a General Amber Force Field
-
Wang, J.; Wolf, R. M.; Caldwell, J. W.; Kollman, P. A.; Case, D. A. Development and Testing of a General Amber Force Field. J. Comput. Chem. 2004, 25, 1157-1174.
-
(2004)
J. Comput. Chem.
, vol.25
, pp. 1157-1174
-
-
Wang, J.1
Wolf, R.M.2
Caldwell, J.W.3
Kollman, P.A.4
Case, D.A.5
-
33
-
-
3042524904
-
A Well-Behaved Electrostatic Potential Based Method Using Charge Restraints for Deriving Atomic Charges: The RESP Model
-
Bayly, C. I.; Cieplak, P.; Cornell, W.; Kollman, P. A. A Well-Behaved Electrostatic Potential Based Method Using Charge Restraints for Deriving Atomic Charges: The RESP Model. J. Phys. Chem. 1993, 97, 10269-10280.
-
(1993)
J. Phys. Chem.
, vol.97
, pp. 10269-10280
-
-
Bayly, C.I.1
Cieplak, P.2
Cornell, W.3
Kollman, P.A.4
-
34
-
-
84986516411
-
Application of the Multimolecule and Multiconformational Resp Methodology to Biopolymers: Charge Derivation for DNA, RNA, and Proteins
-
Cieplak, P.; Cornell, W. D.; Bayly, C.; Kollman, P. A. Application of the Multimolecule and Multiconformational Resp Methodology to Biopolymers: Charge Derivation for DNA, RNA, and Proteins. J. Comput. Chem. 1995, 16, 1357-1377.
-
(1995)
J. Comput. Chem.
, vol.16
, pp. 1357-1377
-
-
Cieplak, P.1
Cornell, W.D.2
Bayly, C.3
Kollman, P.A.4
-
35
-
-
70450206724
-
-
Gaussian, Inc.: Wallingford, CT
-
Frisch, M. J.; Trucks, G. W.; Schlegel, H. B.; Scuseria, G. E.; Robb, M. A.; Cheeseman, J. R.; Scalmani, G.; Barone, V.; Mennucci, B.; Petersson, G. A. et al. Gaussian 09; Gaussian, Inc.: Wallingford, CT, 2009.
-
(2009)
Gaussian 09
-
-
Frisch, M.J.1
Trucks, G.W.2
Schlegel, H.B.3
Scuseria, G.E.4
Robb, M.A.5
Cheeseman, J.R.6
Scalmani, G.7
Barone, V.8
Mennucci, B.9
Petersson, G.A.10
-
36
-
-
33748518255
-
Comparison of Multiple Amber Force Fields and Development of Improved Protein Backbone Parameters
-
Hornak, V.; Abel, R.; Okur, A.; Strockbine, B.; Roitberg, A.; Simmerling, C. Comparison of Multiple Amber Force Fields and Development of Improved Protein Backbone Parameters. Proteins 2006, 65, 712-725.
-
(2006)
Proteins
, vol.65
, pp. 712-725
-
-
Hornak, V.1
Abel, R.2
Okur, A.3
Strockbine, B.4
Roitberg, A.5
Simmerling, C.6
-
37
-
-
0004016501
-
Comparison of Simple Potential Functions for Simulating Liquid Water
-
Jorgensen, W. L.; Chandrasekhar, J.; Madura, J. D.; Impey, R. W.; Klein, M. L. Comparison of Simple Potential Functions for Simulating Liquid Water. J. Phys. Chem. 1983, 79, 926-935.
-
(1983)
J. Phys. Chem.
, vol.79
, pp. 926-935
-
-
Jorgensen, W.L.1
Chandrasekhar, J.2
Madura, J.D.3
Impey, R.W.4
Klein, M.L.5
-
38
-
-
79953859698
-
Resveratrol Inhibits the Formation of Multiple-Layered Beta-Sheet Oligomers of the Human Islet Amyloid Polypeptide Segment 22-27
-
Jiang, P.; Li, W.; Shea, J.-E.; Mu, Y. Resveratrol Inhibits the Formation of Multiple-Layered Beta-Sheet Oligomers of the Human Islet Amyloid Polypeptide Segment 22-27. Biophys. J. 2011, 100, 1550-1558.
-
(2011)
Biophys. J.
, vol.100
, pp. 1550-1558
-
-
Jiang, P.1
Li, W.2
Shea, J.-E.3
Mu, Y.4
-
39
-
-
33646940952
-
Numerical Integration of the Cartesian Equations of Motion of a System with Constraints: Molecular Dynamics of N-Alkanes
-
Ryckaert, J.-P.; Ciccotti, G.; Berendsen, H. J. C. Numerical Integration of the Cartesian Equations 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, H.J.C.3
-
40
-
-
33645961739
-
A Smooth Particle Mesh Ewald Method
-
Essmann, U.; Perera, L.; Berkowitz, M. L.; Darden, T.; Lee, H.; Pedersen, L. G. A Smooth Particle Mesh Ewald Method. J. Phys. Chem. 1995, 103, 8577-8593.
-
(1995)
J. Phys. Chem.
, vol.103
, pp. 8577-8593
-
-
Essmann, U.1
Perera, L.2
Berkowitz, M.L.3
Darden, T.4
Lee, H.5
Pedersen, L.G.6
-
41
-
-
79952588669
-
Assessing the Performance of the MM/PBSA and MM/GBSA Methods. 1. The Accuracy of Binding Free Energy Calculations Based on Molecular Dynamics Simulations
-
Hou, T.; Wang, J.; Li, Y.; Wang, W. Assessing the Performance of the MM/PBSA and MM/GBSA Methods. 1. The Accuracy of Binding Free Energy Calculations Based on Molecular Dynamics Simulations. J. Chem. Inf. Model. 2011, 51, 69-82.
-
(2011)
J. Chem. Inf. Model.
, vol.51
, pp. 69-82
-
-
Hou, T.1
Wang, J.2
Li, Y.3
Wang, W.4
-
42
-
-
79951996670
-
Assessing the Performance of the Molecular Mechanics/Poisson Boltzmann Surface Area and Molecular Mechanics/Generalized Born Surface Area Methods. II. The Accuracy of Ranking Poses Generated from Docking
-
Hou, T.; Wang, J.; Li, Y.; Wang, W. Assessing the Performance of the Molecular Mechanics/Poisson Boltzmann Surface Area and Molecular Mechanics/Generalized Born Surface Area Methods. II. The Accuracy of Ranking Poses Generated from Docking. J. Comput. Chem. 2011, 32, 866-877.
-
(2011)
J. Comput. Chem.
, vol.32
, pp. 866-877
-
-
Hou, T.1
Wang, J.2
Li, Y.3
Wang, W.4
-
43
-
-
84880541805
-
Assessing the Performance of MM/PBSA and MM/GBSA Methods. 3. The Impact of Force Fields and Ligand Charge Models
-
Xu, L.; Sun, H.; Li, Y.; Wang, J.; Hou, T. Assessing the Performance of MM/PBSA and MM/GBSA Methods. 3. The Impact of Force Fields and Ligand Charge Models. J. Phys. Chem. B 2013, 117, 8408-8421.
-
(2013)
J. Phys. Chem. B
, vol.117
, pp. 8408-8421
-
-
Xu, L.1
Sun, H.2
Li, Y.3
Wang, J.4
Hou, T.5
-
44
-
-
76249105085
-
Molecular Basis of the Interaction for an Essential Subunit PA-PB1 in Influenza Virus RNA Polymerase: Insights from Molecular Dynamics Simulation and Free Energy Calculation
-
Liu, H.; Yao, X. Molecular Basis of the Interaction for an Essential Subunit PA-PB1 in Influenza Virus RNA Polymerase: Insights from Molecular Dynamics Simulation and Free Energy Calculation. Mol. Pharmaceutics 2010, 7, 75-85.
-
(2010)
Mol. Pharmaceutics
, vol.7
, pp. 75-85
-
-
Liu, H.1
Yao, X.2
-
45
-
-
0032560959
-
Continuum Solvent Studies of the Stability of DNA, RNA, and Phosphoramidate-DNA Helices
-
Srinivasan, J.; Cheatham, T. E.; Cieplak, P.; Kollman, P. A.; Case, D. A. Continuum Solvent Studies of the Stability of DNA, RNA, and Phosphoramidate-DNA Helices. J. Am. Chem. Soc. 1998, 120, 9401-9409.
-
(1998)
J. Am. Chem. Soc.
, vol.120
, pp. 9401-9409
-
-
Srinivasan, J.1
Cheatham, T.E.2
Cieplak, P.3
Kollman, P.A.4
Case, D.A.5
-
46
-
-
32844457567
-
Accurate Calculation of Hydration Free Energies Using Macroscopic Solvent Models
-
Sitkoff, D.; Sharp, K. A.; Honig, B. Accurate Calculation of Hydration Free Energies Using Macroscopic Solvent Models. J. Phys. Chem. 1994, 98, 1978-1988.
-
(1994)
J. Phys. Chem.
, vol.98
, pp. 1978-1988
-
-
Sitkoff, D.1
Sharp, K.A.2
Honig, B.3
-
47
-
-
84879083130
-
Explicit Ligand Hydration Shells Improve the Correlation between MM-PB/GBSA Binding Energies and Experimental Activities
-
Maffucci, I.; Contini, A. Explicit Ligand Hydration Shells Improve the Correlation between MM-PB/GBSA Binding Energies and Experimental Activities. J. Chem. Theory Comput. 2013, 9, 2706-2717.
-
(2013)
J. Chem. Theory Comput.
, vol.9
, pp. 2706-2717
-
-
Maffucci, I.1
Contini, A.2
-
48
-
-
77954338696
-
Diarylaniline Derivatives as a Distinct Class of HIV-1 Non-Nucleoside Reverse Transcriptase Inhibitors
-
Qin, B.; Jiang, X.; Lu, H.; Tian, X.; Barbault, F.; Huang, L.; Qian, K.; Chen, C. H.; Huang, R.; Jiang, S.; Lee, K. H.; Xie, L. Diarylaniline Derivatives as a Distinct Class of HIV-1 Non-Nucleoside Reverse Transcriptase Inhibitors. J. Med. Chem. 2010, 53, 4906-4916.
-
(2010)
J. Med. Chem.
, vol.53
, pp. 4906-4916
-
-
Qin, B.1
Jiang, X.2
Lu, H.3
Tian, X.4
Barbault, F.5
Huang, L.6
Qian, K.7
Chen, C.H.8
Huang, R.9
Jiang, S.10
Lee, K.H.11
Xie, L.12
-
49
-
-
84880528379
-
Molecular Modeling of P38α Mitogen-Activated Protein Kinase Inhibitors through 3D-QSAR and Molecular Dynamics Simulations
-
Chang, H. W.; Chung, F. S.; Yang, C. N. Molecular Modeling of P38α Mitogen-Activated Protein Kinase Inhibitors through 3D-QSAR and Molecular Dynamics Simulations. J. Chem. Inf. Model. 2013, 53, 1775-1786.
-
(2013)
J. Chem. Inf. Model.
, vol.53
, pp. 1775-1786
-
-
Chang, H.W.1
Chung, F.S.2
Yang, C.N.3
-
50
-
-
33846036362
-
Monomer Adds to Preformed Structured Oligomers of Abeta-Peptides by a Two-Stage Dock-Lock Mechanism
-
Nguyen, P. H.; Li, M. S.; Stock, G.; Straub, J. E.; Thirumalai, D. Monomer Adds to Preformed Structured Oligomers of Abeta-Peptides by a Two-Stage Dock-Lock Mechanism. Proc. Natl. Acad. Sci. U. S. A. 2007, 104, 111-116.
-
(2007)
Proc. Natl. Acad. Sci. U. S. A.
, vol.104
, pp. 111-116
-
-
Nguyen, P.H.1
Li, M.S.2
Stock, G.3
Straub, J.E.4
Thirumalai, D.5
-
51
-
-
10844230140
-
Replica Exchange Molecular Dynamics Simulations of Amyloid Peptide Aggregation
-
Cecchini, M.; Rao, F.; Seeber, M.; Caflisch, A. Replica Exchange Molecular Dynamics Simulations of Amyloid Peptide Aggregation. J. Chem. Phys. 2004, 121, 10748-10756.
-
(2004)
J. Chem. Phys.
, vol.121
, pp. 10748-10756
-
-
Cecchini, M.1
Rao, F.2
Seeber, M.3
Caflisch, A.4
-
52
-
-
0027441950
-
Essential Dynamics of Proteins
-
Amadei, A.; Linssen, A. B. M.; Berendsen, H. J. C. Essential Dynamics of Proteins. Proteins 1993, 17, 412-425.
-
(1993)
Proteins
, vol.17
, pp. 412-425
-
-
Amadei, A.1
Linssen, A.B.M.2
Berendsen, H.J.C.3
-
53
-
-
10844292652
-
Energy Landscape of a Small Peptide Revealed by Dihedral Angle Principal Component Analysis
-
Mu, Y.; Nguyen, P. H.; Stock, G. Energy Landscape of a Small Peptide Revealed by Dihedral Angle Principal Component Analysis. Proteins 2005, 58, 45-52.
-
(2005)
Proteins
, vol.58
, pp. 45-52
-
-
Mu, Y.1
Nguyen, P.H.2
Stock, G.3
-
54
-
-
84904012407
-
Principal Component Analysis of Molecular Dynamics: On the Use of Cartesian vs. Internal Coordinates
-
Sittel, F.; Jain, A.; Stock, G. Principal Component Analysis of Molecular Dynamics: On the Use of Cartesian vs. Internal Coordinates. J. Chem. Phys. 2014, 141, 014111.
-
(2014)
J. Chem. Phys.
, vol.141
, pp. 014111
-
-
Sittel, F.1
Jain, A.2
Stock, G.3
-
55
-
-
34547297406
-
Dihedral Angle Principal Component Analysis of Molecular Dynamics Simulations
-
Altis, A.; Nguyen, P. H.; Hegger, R.; Stock, G. Dihedral Angle Principal Component Analysis of Molecular Dynamics Simulations. J. Chem. Phys. 2007, 126, 244111.
-
(2007)
J. Chem. Phys.
, vol.126
, pp. 244111
-
-
Altis, A.1
Nguyen, P.H.2
Hegger, R.3
Stock, G.4
-
56
-
-
73349102827
-
Free-Energy Landscape of RNA Hairpins Constructed via Dihedral Angle Principal Component Analysis
-
Riccardi, L.; Nguyen, P. H.; Stock, G. Free-Energy Landscape of RNA Hairpins Constructed via Dihedral Angle Principal Component Analysis. J. Phys. Chem. B 2009, 113, 16660-16668.
-
(2009)
J. Phys. Chem. B
, vol.113
, pp. 16660-16668
-
-
Riccardi, L.1
Nguyen, P.H.2
Stock, G.3
-
57
-
-
0020997912
-
Dictionary of Protein Secondary Structure: Pattern Recognition of Hydrogen-Bonded and Geometrical Features
-
Kabsch, W.; Sander, C. Dictionary of Protein Secondary Structure: Pattern Recognition of Hydrogen-Bonded and Geometrical Features. Biopolymers 1983, 22, 2577-2637.
-
(1983)
Biopolymers
, vol.22
, pp. 2577-2637
-
-
Kabsch, W.1
Sander, C.2
-
58
-
-
84862498093
-
The Effect of Curcumin on the Stability of Aβ Dimers
-
Zhao, L. N.; Chiu, S.-W.; Benoit, J.; Chew, L. Y.; Mu, Y. The Effect of Curcumin on the Stability of Aβ Dimers. J. Phys. Chem. B 2012, 116, 7428-7435.
-
(2012)
J. Phys. Chem. B
, vol.116
, pp. 7428-7435
-
-
Zhao, L.N.1
Chiu, S.-W.2
Benoit, J.3
Chew, L.Y.4
Mu, Y.5
-
59
-
-
84899690875
-
Exploring the Influence of EGCG on the Beta-Sheet-Rich Oligomers of Human Islet Amyloid Polypeptide (hIAPP1-37) and Identifying Its Possible Binding Sites from Molecular Dynamics Simulation
-
Wang, Q.; Guo, J.; Jiao, P.; Liu, H.; Yao, X. Exploring the Influence of EGCG on the Beta-Sheet-Rich Oligomers of Human Islet Amyloid Polypeptide (hIAPP1-37) and Identifying Its Possible Binding Sites from Molecular Dynamics Simulation. PLoS One 2014, 9, e94796.
-
(2014)
PLoS One
, vol.9
, pp. e94796
-
-
Wang, Q.1
Guo, J.2
Jiao, P.3
Liu, H.4
Yao, X.5
-
60
-
-
84892689215
-
Atomic and Dynamic Insights into the Beneficial Effect of the 1,4-Naphthoquinon-2-yl-l-Tryptophan Inhibitor on Alzheimer's Aβ1-42 Dimer in Terms of Aggregation and Toxicity
-
Zhang, T.; Xu, W.; Mu, Y.; Derreumaux, P. Atomic and Dynamic Insights into the Beneficial Effect of the 1,4-Naphthoquinon-2-yl-l-Tryptophan Inhibitor on Alzheimer's Aβ1-42 Dimer in Terms of Aggregation and Toxicity. ACS Chem. Neurosci. 2014, 5, 148-159.
-
(2014)
ACS Chem. Neurosci.
, vol.5
, pp. 148-159
-
-
Zhang, T.1
Xu, W.2
Mu, Y.3
Derreumaux, P.4
-
61
-
-
79952796718
-
Aromatic Small Molecules Remodel Toxic Soluble Oligomers of Amyloid Beta through Three Independent Pathways
-
Ladiwala, A. R. A.; Dordick, J. S.; Tessier, P. M. Aromatic Small Molecules Remodel Toxic Soluble Oligomers of Amyloid Beta through Three Independent Pathways. J. Biol. Chem. 2010, 286, 3209-3218.
-
(2010)
J. Biol. Chem.
, vol.286
, pp. 3209-3218
-
-
Ladiwala, A.R.A.1
Dordick, J.S.2
Tessier, P.M.3
-
62
-
-
84866425464
-
The Polyphenol EGCG Inhibits Amyloid Formation Less Efficiently at Phospholipid Interfaces Than in Bulk Solution
-
Engel, M. F. M.; vandenAkker, C. C.; Schleeger, M.; Velikov, K. P.; Koenderink, G. H.; Bonn, M. The Polyphenol EGCG Inhibits Amyloid Formation Less Efficiently at Phospholipid Interfaces Than in Bulk Solution. J. Am. Chem. Soc. 2012, 134, 14781-14788.
-
(2012)
J. Am. Chem. Soc.
, vol.134
, pp. 14781-14788
-
-
Engel, M.F.M.1
VandenAkker, C.C.2
Schleeger, M.3
Velikov, K.P.4
Koenderink, G.H.5
Bonn, M.6
-
63
-
-
60349096360
-
Inhibiting Islet Amyloid Polypeptide Fibril Formation by the Red Wine Compound Resveratrol
-
Mishra, R.; Sellin, D.; Radovan, D.; Gohlke, A.; Winter, R. Inhibiting Islet Amyloid Polypeptide Fibril Formation by the Red Wine Compound Resveratrol. ChemBioChem 2009, 10, 445-449.
-
(2009)
ChemBioChem
, vol.10
, pp. 445-449
-
-
Mishra, R.1
Sellin, D.2
Radovan, D.3
Gohlke, A.4
Winter, R.5
-
64
-
-
67349252135
-
Fluorescence Microscopy Studies on Islet Amyloid Polypeptide Fibrillation at Heterogeneous and Cellular Membrane Interfaces and Its Inhibition by Resveratrol
-
Radovan, D.; Opitz, N.; Winter, R. Fluorescence Microscopy Studies on Islet Amyloid Polypeptide Fibrillation at Heterogeneous and Cellular Membrane Interfaces and Its Inhibition by Resveratrol. FEBS Lett. 2009, 583, 1439-1445.
-
(2009)
FEBS Lett.
, vol.583
, pp. 1439-1445
-
-
Radovan, D.1
Opitz, N.2
Winter, R.3
-
65
-
-
50049095633
-
Atomic Structure of the Cross-Beta Spine of Islet Amyloid Polypeptide (Amylin)
-
Wiltzius, J. J. W.; Sievers, S. A.; Sawaya, M. R.; Cascio, D.; Popov, D.; Riekel, C.; Eisenberg, D. Atomic Structure of the Cross-Beta Spine of Islet Amyloid Polypeptide (Amylin). Protein Sci. 2008, 17, 1467-1474.
-
(2008)
Protein Sci.
, vol.17
, pp. 1467-1474
-
-
Wiltzius, J.J.W.1
Sievers, S.A.2
Sawaya, M.R.3
Cascio, D.4
Popov, D.5
Riekel, C.6
Eisenberg, D.7
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