-
1
-
-
33746377894
-
Protein misfolding, functional amyloid, and human disease
-
Chiti F, Dobson CM. Protein misfolding, functional amyloid, and human disease. Annu Rev Biochem 2006;75:333-366.
-
(2006)
Annu Rev Biochem
, vol.75
, pp. 333-366
-
-
Chiti, F.1
Dobson, C.M.2
-
2
-
-
0031592945
-
Common core structure of amyloid fibrils by synchrotron X-ray diffraction
-
Sunde M, Serpell LC, Bartlam M, Fraser PE, Pepys MB, Blake CCF. Common core structure of amyloid fibrils by synchrotron X-ray diffraction. J Mol Biol 1997;273:729-739.
-
(1997)
J Mol Biol
, vol.273
, pp. 729-739
-
-
Sunde, M.1
Serpell, L.C.2
Bartlam, M.3
Fraser, P.E.4
Pepys, M.B.5
Blake, C.C.F.6
-
3
-
-
0034718157
-
Alzheimer's amyloid fibrils: structure and assembly
-
Serpell LC. Alzheimer's amyloid fibrils: structure and assembly. Bba-Mol Basis Dis 2000;1502:16-30.
-
(2000)
Bba-Mol Basis Dis
, vol.1502
, pp. 16-30
-
-
Serpell, L.C.1
-
4
-
-
0026453127
-
Fibril formation by primate, rodent, and Dutch-Hemorrhagic analogs of Alzheimer amyloid beta-protein
-
Fraser PE, Nguyen JT, Inouye H, Surewicz WK, Selkoe DJ, Podlisny MB, Kirschner DA. Fibril formation by primate, rodent, and Dutch-Hemorrhagic analogs of Alzheimer amyloid beta-protein. Biochemistry 1992;31:10716-10723.
-
(1992)
Biochemistry
, vol.31
, pp. 10716-10723
-
-
Fraser, P.E.1
Nguyen, J.T.2
Inouye, H.3
Surewicz, W.K.4
Selkoe, D.J.5
Podlisny, M.B.6
Kirschner, D.A.7
-
5
-
-
0030586945
-
Synchrotron X-ray studies suggest that the core of the transthyretin amyloid fibril is a continuous beta-sheet helix
-
Blake C, Serpell L. Synchrotron X-ray studies suggest that the core of the transthyretin amyloid fibril is a continuous beta-sheet helix. Structure 1996;4:989-998.
-
(1996)
Structure
, vol.4
, pp. 989-998
-
-
Blake, C.1
Serpell, L.2
-
6
-
-
0035187228
-
Solution conditions can promote formation of either amyloid protofilaments or mature fibrils from the HypF N-terminal domain
-
Chiti F, Bucciantini M, Capanni C, Taddei N, Dobson CM, Stefani M. Solution conditions can promote formation of either amyloid protofilaments or mature fibrils from the HypF N-terminal domain. Protein Sci 2001;10:2541-2547.
-
(2001)
Protein Sci
, vol.10
, pp. 2541-2547
-
-
Chiti, F.1
Bucciantini, M.2
Capanni, C.3
Taddei, N.4
Dobson, C.M.5
Stefani, M.6
-
7
-
-
0037551741
-
Protofibrils, pores, fibrils, and neurodegeneration: Separating the responsible protein aggregates from the innocent bystanders
-
Caughey B, Lansbury PT. Protofibrils, pores, fibrils, and neurodegeneration: Separating the responsible protein aggregates from the innocent bystanders. Annu Rev Neurosci 2003;26:267-298.
-
(2003)
Annu Rev Neurosci
, vol.26
, pp. 267-298
-
-
Caughey, B.1
Lansbury, P.T.2
-
8
-
-
0031570336
-
Amyloid fibril formation and protein misassembly: A structural quest for insights into amyloid and prion diseases
-
Kelly JW. Amyloid fibril formation and protein misassembly: A structural quest for insights into amyloid and prion diseases. Structure 1997;5:595-600.
-
(1997)
Structure
, vol.5
, pp. 595-600
-
-
Kelly, J.W.1
-
9
-
-
0032006678
-
The alternative conformations of amyloidogenic proteins and their multi-step assembly pathways
-
Kelly JW. The alternative conformations of amyloidogenic proteins and their multi-step assembly pathways. Curr Opin Struct Biol 1998;8:101-106.
-
(1998)
Curr Opin Struct Biol
, vol.8
, pp. 101-106
-
-
Kelly, J.W.1
-
10
-
-
0033977086
-
Amyloid fibrillogenesis: Themes and variations
-
Rochet JC, Lansbury PT. Amyloid fibrillogenesis: Themes and variations. Curr Opin Struct Biol 2000;10:60-68.
-
(2000)
Curr Opin Struct Biol
, vol.10
, pp. 60-68
-
-
Rochet, J.C.1
Lansbury, P.T.2
-
11
-
-
0347949643
-
Sorting out the driving forces for parallel and antiparallel alignment in the A beta peptide fibril structure
-
Hou LM, Zagorski MG. Sorting out the driving forces for parallel and antiparallel alignment in the A beta peptide fibril structure. Biophys J 2004;86:1-2.
-
(2004)
Biophys J
, vol.86
, pp. 1-2
-
-
Hou, L.M.1
Zagorski, M.G.2
-
12
-
-
30744433878
-
Experimental constraints on quaternary structure in Alzheimer's beta-amyloid fibrils
-
Petkova AT, Yau WM, Tycko R. Experimental constraints on quaternary structure in Alzheimer's beta-amyloid fibrils. Biochemistry 2006;45:498-512.
-
(2006)
Biochemistry
, vol.45
, pp. 498-512
-
-
Petkova, A.T.1
Yau, W.M.2
Tycko, R.3
-
13
-
-
20444440728
-
Structure of the cross-beta spine of amyloid-like fibrils
-
Nelson R, Sawaya MR, Balbirnie M, Madsen AO, Riekel C, Grothe R, Eisenberg D. Structure of the cross-beta spine of amyloid-like fibrils. Nature 2005;435:773-778.
-
(2005)
Nature
, vol.435
, pp. 773-778
-
-
Nelson, R.1
Sawaya, M.R.2
Balbirnie, M.3
Madsen, A.O.4
Riekel, C.5
Grothe, R.6
Eisenberg, D.7
-
14
-
-
34249290108
-
Atomic structures of amyloid cross-beta spines reveal varied steric zippers
-
Sawaya MR, Sambashivan S, Nelson R, Ivanova MI, Sievers SA, Apostol MI, Thompson MJ, Balbirnie M, Wiltzius JJW, McFarlane HT, Madsen AO, Riekel C, Eisenberg D. 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.W.9
McFarlane, H.T.10
Madsen, A.O.11
Riekel, C.12
Eisenberg, D.13
-
15
-
-
0345827608
-
Sequence determinants of amyloid fibril formation
-
de la Paz ML, Serrano L. Sequence determinants of amyloid fibril formation. Proc Natl Acad Sci USA 2004;101:87-92.
-
(2004)
Proc Natl Acad Sci USA
, vol.101
, pp. 87-92
-
-
de la Paz, M.L.1
Serrano, L.2
-
16
-
-
0032820644
-
The hydrophobic core sequence modulates the neurotoxic and secondary structure properties of the prion peptide 106-126
-
Jobling MF, Stewart LR, White AR, McLean C, Friedhuber A, Maher F, Beyreuther K, Masters CL, Barrow CJ, Collins SJ, Cappai R. The hydrophobic core sequence modulates the neurotoxic and secondary structure properties of the prion peptide 106-126. J Neurochem 1999;73:1557-1565.
-
(1999)
J Neurochem
, vol.73
, pp. 1557-1565
-
-
Jobling, M.F.1
Stewart, L.R.2
White, A.R.3
McLean, C.4
Friedhuber, A.5
Maher, F.6
Beyreuther, K.7
Masters, C.L.8
Barrow, C.J.9
Collins, S.J.10
Cappai, R.11
-
17
-
-
0033616575
-
Designing conditions for in vitro formation of amyloid protofilaments and fibrils
-
Chiti F, Webster P, Taddei N, Clark A, Stefani M, Ramponi G, Dobson CM. Designing conditions for in vitro formation of amyloid protofilaments and fibrils. Proc Natl Acad Sci USA 1999;96:3590-3594.
-
(1999)
Proc Natl Acad Sci USA
, vol.96
, pp. 3590-3594
-
-
Chiti, F.1
Webster, P.2
Taddei, N.3
Clark, A.4
Stefani, M.5
Ramponi, G.6
Dobson, C.M.7
-
18
-
-
0034700129
-
Multiple quantum solid-state NMR indicates a parallel, not antiparallel, organization of beta-sheets in Alzheimer's beta-amyloid fibrils
-
Antzutkin ON, Balbach JJ, Leapman RD, Rizzo NW, Reed J, Tycko R. Multiple quantum solid-state NMR indicates a parallel, not antiparallel, organization of beta-sheets in Alzheimer's beta-amyloid fibrils. Proc Natl Acad Sci USA 2000;97:13045-13050.
-
(2000)
Proc Natl Acad Sci USA
, vol.97
, pp. 13045-13050
-
-
Antzutkin, O.N.1
Balbach, J.J.2
Leapman, R.D.3
Rizzo, N.W.4
Reed, J.5
Tycko, R.6
-
19
-
-
0034649352
-
Amyloid fibril formation by A beta(16-22), a seven-residue fragment of the Alzheimer's beta-amyloid peptide, and structural characterization by solid state NMR
-
Balbach JJ, Ishii Y, Antzutkin ON, Leapman RD, Rizzo NW, Dyda F, Reed J, Tycko R. Amyloid fibril formation by A beta(16-22), a seven-residue fragment of the Alzheimer's beta-amyloid peptide, and structural characterization by solid state NMR. Biochemistry 2000;39:13748-13759.
-
(2000)
Biochemistry
, vol.39
, pp. 13748-13759
-
-
Balbach, J.J.1
Ishii, Y.2
Antzutkin, O.N.3
Leapman, R.D.4
Rizzo, N.W.5
Dyda, F.6
Reed, J.7
Tycko, R.8
-
20
-
-
0034724375
-
Two-dimensional structure of beta-amyloid(10-35) fibrils
-
Benzinger TLS, Gregory DM, Burkoth TS, Miller-Auer H, Lynn DG, Botto RE, Meredith SC. Two-dimensional structure of beta-amyloid(10-35) fibrils. Biochemistry 2000;39:3491-3499.
-
(2000)
Biochemistry
, vol.39
, pp. 3491-3499
-
-
Benzinger, T.L.S.1
Gregory, D.M.2
Burkoth, T.S.3
Miller-Auer, H.4
Lynn, D.G.5
Botto, R.E.6
Meredith, S.C.7
-
21
-
-
70349218068
-
Short protein segments can drive a non-fibrillizing protein into the amyloid state
-
Teng PK, Eisenberg D. Short protein segments can drive a non-fibrillizing protein into the amyloid state. Protein Eng Des Select 2009;22:531-536.
-
(2009)
Protein Eng Des Select
, vol.22
, pp. 531-536
-
-
Teng, P.K.1
Eisenberg, D.2
-
22
-
-
36148983867
-
Modeling the Alzheimer A beta(17-42) fibril architecture: Tight intermolecular sheet-sheet association and intramolecular hydrated cavities
-
Zheng J, Jang H, Ma B, Tsai CJ, Nussinov R. Modeling the Alzheimer A beta(17-42) fibril architecture: Tight intermolecular sheet-sheet association and intramolecular hydrated cavities. Biophys J 2007;93:3046-3057.
-
(2007)
Biophys J
, vol.93
, pp. 3046-3057
-
-
Zheng, J.1
Jang, H.2
Ma, B.3
Tsai, C.J.4
Nussinov, R.5
-
23
-
-
70349658765
-
Thermodynamic selection of steric zipper patterns in the amyloid cross-beta spine
-
Park J, Kahng B, Hwang W. Thermodynamic selection of steric zipper patterns in the amyloid cross-beta spine. Plos Comput Biol 2009;5(9).
-
(2009)
Plos Comput Biol
, vol.5
, Issue.9
-
-
Park, J.1
Kahng, B.2
Hwang, W.3
-
24
-
-
37549007231
-
Structure, dynamics, and stability of assemblies of the human prion fragment SNQNNF
-
De Simone A, Pedone C, Vitagliano L. Structure, dynamics, and stability of assemblies of the human prion fragment SNQNNF. Biochem Biophys Res 2008;366:800-806.
-
(2008)
Biochem Biophys Res
, vol.366
, pp. 800-806
-
-
De Simone, A.1
Pedone, C.2
Vitagliano, L.3
-
25
-
-
71749100900
-
Dynamics and stability of amyloid-like steric zipper assemblies with hydrophobic dry interfaces
-
Vitagliano L, Stanzione F, De Simone A, Esposito L. Dynamics and stability of amyloid-like steric zipper assemblies with hydrophobic dry interfaces. Biopolymers 2009;91:1161-1171.
-
(2009)
Biopolymers
, vol.91
, pp. 1161-1171
-
-
Vitagliano, L.1
Stanzione, F.2
De Simone, A.3
Esposito, L.4
-
26
-
-
67249143457
-
Molecular dynamics simulations to investigate the structural stability and aggregation behavior of the GGVVIA oligomers derived from amyloid beta peptide
-
Chang LK, Zhao JH, Liu HL, Liu KT, Chen JT, Tsai WB, Ho Y. Molecular dynamics simulations to investigate the structural stability and aggregation behavior of the GGVVIA oligomers derived from amyloid beta peptide. J Biomol Struct Dyn 2009;26:731-740.
-
(2009)
J Biomol Struct Dyn
, vol.26
, pp. 731-740
-
-
Chang, L.K.1
Zhao, J.H.2
Liu, H.L.3
Liu, K.T.4
Chen, J.T.5
Tsai, W.B.6
Ho, Y.7
-
27
-
-
77952997947
-
Structural stability and aggregation behavior of the VEALYL peptide derived from human insulin: A molecular dynamics simulation study
-
Lin YF, Zhao JH, Liu HL, Liu KT, Chen JT, Tsai WB, Ho Y. Structural stability and aggregation behavior of the VEALYL peptide derived from human insulin: A molecular dynamics simulation study. Biopolymers 2010;94:269-278.
-
(2010)
Biopolymers
, vol.94
, pp. 269-278
-
-
Lin, Y.F.1
Zhao, J.H.2
Liu, H.L.3
Liu, K.T.4
Chen, J.T.5
Tsai, W.B.6
Ho, Y.7
-
28
-
-
34848929022
-
Structural reorganisation and potential toxicity of oligomeric species formed during the assembly of amyloid fibrils
-
Cheon M, Chang I, Mohanty S, Luheshi LM, Dobson CM, Vendruscolo M, Favrin G. Structural reorganisation and potential toxicity of oligomeric species formed during the assembly of amyloid fibrils. Plos Comput Biol 2007;3:1727-1738.
-
(2007)
Plos Comput Biol
, vol.3
, pp. 1727-1738
-
-
Cheon, M.1
Chang, I.2
Mohanty, S.3
Luheshi, L.M.4
Dobson, C.M.5
Vendruscolo, M.6
Favrin, G.7
-
29
-
-
58149174069
-
Formation and growth of oligomers: A Monte Carlo Study of an amyloid Tau fragment
-
Li DW, Mohanty S, Irback A, Huo SH. Formation and growth of oligomers: A Monte Carlo Study of an amyloid Tau fragment. Plos Comput Biol 2008;4(12).
-
(2008)
Plos Comput Biol
, vol.4
, Issue.12
-
-
Li, D.W.1
Mohanty, S.2
Irback, A.3
Huo, S.H.4
-
30
-
-
77950219248
-
Elucidation of amyloid beta-protein oligomerization mechanisms: Discrete molecular dynamics study
-
Urbanc B, Betnel M, Cruz L, Bitan G, Teplow DB. Elucidation of amyloid beta-protein oligomerization mechanisms: Discrete molecular dynamics study. J Am Chem Soc 2010;132:4266-4280.
-
(2010)
J Am Chem Soc
, vol.132
, pp. 4266-4280
-
-
Urbanc, B.1
Betnel, M.2
Cruz, L.3
Bitan, G.4
Teplow, D.B.5
-
31
-
-
28844506608
-
Direct observation of protein folding, aggregation, and a prion-like conformational conversion
-
Ding F, LaRocque JJ, Dokholyan NV. Direct observation of protein folding, aggregation, and a prion-like conformational conversion. J Biol Chem 2005;280:40235-40240.
-
(2005)
J Biol Chem
, vol.280
, pp. 40235-40240
-
-
Ding, F.1
LaRocque, J.J.2
Dokholyan, N.V.3
-
33
-
-
77951290266
-
Phase diagram of alpha-helical and beta-sheet forming peptides
-
Auer S, Kashchiev D. Phase diagram of alpha-helical and beta-sheet forming peptides. Phys Rev Lett 2010;104:168105.
-
(2010)
Phys Rev Lett
, vol.104
, pp. 168105
-
-
Auer, S.1
Kashchiev, D.2
-
34
-
-
33745727173
-
Interpreting the aggregation kinetics of amyloid peptides
-
Pellarin R, Caflisch A. Interpreting the aggregation kinetics of amyloid peptides. J Mol Biol 2006;360:882-892.
-
(2006)
J Mol Biol
, vol.360
, pp. 882-892
-
-
Pellarin, R.1
Caflisch, A.2
-
35
-
-
72949120775
-
Diversity of kinetic pathways in amyloid fibril formation
-
Bellesia G, Shea JE. Diversity of kinetic pathways in amyloid fibril formation. J Chem Phys 2009;131:111102.
-
(2009)
J Chem Phys
, vol.131
, pp. 111102
-
-
Bellesia, G.1
Shea, J.E.2
-
36
-
-
79953081933
-
Coarse-grained models for protein aggregation
-
Wu C, Shea JE. Coarse-grained models for protein aggregation. Curr Opin Struct Biol 2011;21:209-220.
-
(2011)
Curr Opin Struct Biol
, vol.21
, pp. 209-220
-
-
Wu, C.1
Shea, J.E.2
-
37
-
-
55849105547
-
Probing the mechanisms of fibril formation using lattice models
-
Li MS, Klimov DK, Straub JE, Thirumalai D. Probing the mechanisms of fibril formation using lattice models. J Chem Phys 2008;129:175101.
-
(2008)
J Chem Phys
, vol.129
, pp. 175101
-
-
Li, M.S.1
Klimov, D.K.2
Straub, J.E.3
Thirumalai, D.4
-
38
-
-
78349267139
-
Factors governing fibrillogenesis of polypeptide chains revealed by lattice models
-
Li MS, Co NT, Reddy G, Hu CK, Straub JE, Thirumalai D. Factors governing fibrillogenesis of polypeptide chains revealed by lattice models. Phys Rev Lett 2010;105:218101.
-
(2010)
Phys Rev Lett
, vol.105
, pp. 218101
-
-
Li, M.S.1
Co, N.T.2
Reddy, G.3
Hu, C.K.4
Straub, J.E.5
Thirumalai, D.6
-
39
-
-
77957965654
-
Extending the PRIME model for protein aggregation to all 20 amino acids
-
Cheon M, Chang I, Hall CK. Extending the PRIME model for protein aggregation to all 20 amino acids. Proteins Struct Funct Bioinform 2010;78:2950-2960.
-
(2010)
Proteins Struct Funct Bioinform
, vol.78
, pp. 2950-2960
-
-
Cheon, M.1
Chang, I.2
Hall, C.K.3
-
40
-
-
0035882537
-
Assembly of a tetrameric alpha-helical bundle: Computer simulations on an intermediate-resolution protein model
-
Smith AV, Hall CK. Assembly of a tetrameric alpha-helical bundle: Computer simulations on an intermediate-resolution protein model. Proteins Struct Funct Genet 2001;44:376-391.
-
(2001)
Proteins Struct Funct Genet
, vol.44
, pp. 376-391
-
-
Smith, A.V.1
Hall, C.K.2
-
41
-
-
0035823222
-
Protein refolding versus aggregation: Computer simulations on an intermediate-resolution protein model
-
Smith AV, Hall CK. Protein refolding versus aggregation: Computer simulations on an intermediate-resolution protein model. J Mol Biol 2001;312:187-202.
-
(2001)
J Mol Biol
, vol.312
, pp. 187-202
-
-
Smith, A.V.1
Hall, C.K.2
-
42
-
-
9244260521
-
Molecular dynamics simulations of spontaneous fibril formation by random-coil peptides
-
Nguyen HD, Hall CK. Molecular dynamics simulations of spontaneous fibril formation by random-coil peptides. Proc Natl Acad Sci USA 2004;101:16180-16185.
-
(2004)
Proc Natl Acad Sci USA
, vol.101
, pp. 16180-16185
-
-
Nguyen, H.D.1
Hall, C.K.2
-
43
-
-
7244253280
-
Solvent effects on the conformational transition of a model polyalanine peptide
-
Nguyen HD, Marchut AJ, Hall CK. Solvent effects on the conformational transition of a model polyalanine peptide. Protein Sci 2004;13:2909-2924.
-
(2004)
Protein Sci
, vol.13
, pp. 2909-2924
-
-
Nguyen, H.D.1
Marchut, A.J.2
Hall, C.K.3
-
44
-
-
33744827373
-
Side-chain interactions determine amyloid formation by model polyglutamine peptides in molecular dynamics simulations
-
Marchut AJ, Hall CK. Side-chain interactions determine amyloid formation by model polyglutamine peptides in molecular dynamics simulations. Biophys J 2006;90:4574-4584.
-
(2006)
Biophys J
, vol.90
, pp. 4574-4584
-
-
Marchut, A.J.1
Hall, C.K.2
-
45
-
-
33747032067
-
Spontaneous formation of annular structures observed in molecular dynamics simulations of polyglutamine peptides
-
Marchut AJ, Hall CK. Spontaneous formation of annular structures observed in molecular dynamics simulations of polyglutamine peptides. Comput Biol Chem 2006;30:215-218.
-
(2006)
Comput Biol Chem
, vol.30
, pp. 215-218
-
-
Marchut, A.J.1
Hall, C.K.2
-
46
-
-
0141480850
-
Mechanism for the alpha-helix to beta-hairpin transition
-
Ding F, Borreguero JM, Buldyrey SV, Stanley HE, Dokholyan NV. Mechanism for the alpha-helix to beta-hairpin transition. Proteins Struct Funct Genet 2003;53:220-228.
-
(2003)
Proteins Struct Funct Genet
, vol.53
, pp. 220-228
-
-
Ding, F.1
Borreguero, J.M.2
Buldyrey, S.V.3
Stanley, H.E.4
Dokholyan, N.V.5
-
47
-
-
10644242867
-
Molecular dynamics simulation of amyloid beta dimer formation
-
Urbanc B, Cruz L, Ding F, Sammond D, Khare S, Buldyrev SV, Stanley HE, Dokholyan NV. Molecular dynamics simulation of amyloid beta dimer formation. Biophys J 2004;87:2310-2321.
-
(2004)
Biophys J
, vol.87
, pp. 2310-2321
-
-
Urbanc, B.1
Cruz, L.2
Ding, F.3
Sammond, D.4
Khare, S.5
Buldyrev, S.V.6
Stanley, H.E.7
Dokholyan, N.V.8
-
48
-
-
10644278760
-
In silico study of amyloid beta-protein folding and oligomerization
-
Urbanc B, Cruz L, Yun S, Buldyrev SV, Bitan G, Teplow DB, Stanley HE. In silico study of amyloid beta-protein folding and oligomerization. Proc Natl Acad Sci USA 2004;101:17345-17350.
-
(2004)
Proc Natl Acad Sci USA
, vol.101
, pp. 17345-17350
-
-
Urbanc, B.1
Cruz, L.2
Yun, S.3
Buldyrev, S.V.4
Bitan, G.5
Teplow, D.B.6
Stanley, H.E.7
-
49
-
-
11244291006
-
Folding Trp-cage to NMR resolution native structure using a coarse-grained protein model
-
Ding F, Buldyrev SV, Dokholyan NV. Folding Trp-cage to NMR resolution native structure using a coarse-grained protein model. Biophys J 2005;88:147-155.
-
(2005)
Biophys J
, vol.88
, pp. 147-155
-
-
Ding, F.1
Buldyrev, S.V.2
Dokholyan, N.V.3
-
50
-
-
33749601705
-
Ab initio discrete molecular dynamics approach to protein folding and aggregation
-
Urbanc B, Borreguero JM, Cruz L, Stanley HE. Ab initio discrete molecular dynamics approach to protein folding and aggregation. Amyloid Prions and Other Protein Aggregates Pt B, Methods of Enzymology 2006;412:314-338.
-
(2006)
Amyloid Prions and Other Protein Aggregates Pt B, Methods of Enzymology
, vol.412
, pp. 314-338
-
-
Urbanc, B.1
Borreguero, J.M.2
Cruz, L.3
Stanley, H.E.4
-
51
-
-
79952264417
-
Effects of the arctic (E-22->G) mutation on amyloid beta-protein folding: Discrete molecular dynamics study
-
Lam AR, Teplow DB, Stanley HE, Urbanc B. Effects of the arctic (E-22->G) mutation on amyloid beta-protein folding: Discrete molecular dynamics study. J Am Chem Soc 2011;133:2789-2789.
-
(2011)
J Am Chem Soc
, vol.133
, pp. 2789-2789
-
-
Lam, A.R.1
Teplow, D.B.2
Stanley, H.E.3
Urbanc, B.4
-
52
-
-
81255184472
-
Spontaneous formation of twisted A beta(16-22) fibrils in large-scale molecular-dynamics simulations
-
Cheon M, Chang I, Hall CK. Spontaneous formation of twisted A beta(16-22) fibrils in large-scale molecular-dynamics simulations. Biophys J 2011;101:2493-2501.
-
(2011)
Biophys J
, vol.101
, pp. 2493-2501
-
-
Cheon, M.1
Chang, I.2
Hall, C.K.3
-
53
-
-
84857360124
-
Fibrillization propensity for short designed hexapeptides predicted by computer simulation
-
Wagoner VA, Cheon M, Chang I, Hall CK. Fibrillization propensity for short designed hexapeptides predicted by computer simulation. J Mol Biol 2012;416:598-609.
-
(2012)
J Mol Biol
, vol.416
, pp. 598-609
-
-
Wagoner, V.A.1
Cheon, M.2
Chang, I.3
Hall, C.K.4
-
54
-
-
0035882559
-
Alpha-helix formation: Discontinuous molecular dynamics on an intermediate-resolution protein model
-
Smith AV, Hall CK. Alpha-helix formation: Discontinuous molecular dynamics on an intermediate-resolution protein model. Proteins Struct Funct Genet 2001;44:344-360.
-
(2001)
Proteins Struct Funct Genet
, vol.44
, pp. 344-360
-
-
Smith, A.V.1
Hall, C.K.2
-
56
-
-
0031161658
-
Molecular dynamics for polymeric fluids using discontinuous potentials
-
Smith SW, Hall CK, Freeman BD. Molecular dynamics for polymeric fluids using discontinuous potentials. J Comput Phys 1997;134:16-30.
-
(1997)
J Comput Phys
, vol.134
, pp. 16-30
-
-
Smith, S.W.1
Hall, C.K.2
Freeman, B.D.3
-
57
-
-
0000439253
-
Molecular-dynamics study of a polymer-chain in solution
-
Rapaport DC. Molecular-dynamics study of a polymer-chain in solution. J Chem Phys 1979;71:3299-3303.
-
(1979)
J Chem Phys
, vol.71
, pp. 3299-3303
-
-
Rapaport, D.C.1
-
58
-
-
36149044755
-
Molecular-dynamics simulation of polymer-chains with excluded volume
-
Rapaport DC. Molecular-dynamics simulation of polymer-chains with excluded volume. J Phys Math Gen 1978;11:L213-L217.
-
(1978)
J Phys Math Gen
, vol.11
-
-
Rapaport, D.C.1
-
59
-
-
84946639640
-
Molecular-dynamics of rigid and non-rigid necklaces of hard disks
-
Bellemans A, Orban J, Vanbelle D. Molecular-dynamics of rigid and non-rigid necklaces of hard disks. Mol Phys 1980;39:781-782.
-
(1980)
Mol Phys
, vol.39
, pp. 781-782
-
-
Bellemans, A.1
Orban, J.2
Vanbelle, D.3
-
60
-
-
36749107785
-
Molecular-dynamics simulations at constant pressure and-or temperature
-
Andersen HC. Molecular-dynamics simulations at constant pressure and-or temperature. J Chem Phys 1980;72:2384-2393.
-
(1980)
J Chem Phys
, vol.72
, pp. 2384-2393
-
-
Andersen, H.C.1
-
61
-
-
80054752317
-
Molecular basis for amyloid-beta polymorphism
-
Colletier JP, Laganowsky A, Landau M, Zhao M, Soriaga AB, Goldschmidt L, Flot D, Cascio D, Sawaya MR, Eisenberg D. Molecular basis for amyloid-beta polymorphism. Proc Natl Acad Sci USA 2011;108:16938-16943.
-
(2011)
Proc Natl Acad Sci USA
, vol.108
, pp. 16938-16943
-
-
Colletier, J.P.1
Laganowsky, A.2
Landau, M.3
Zhao, M.4
Soriaga, A.B.5
Goldschmidt, L.6
Flot, D.7
Cascio, D.8
Sawaya, M.R.9
Eisenberg, D.10
-
62
-
-
79958770752
-
Computer simulation study of amyloid fibril formation by palindromic sequences in prion peptides
-
Wagoner VA, Cheon M, Chang I, Hall CK. Computer simulation study of amyloid fibril formation by palindromic sequences in prion peptides. Proteins 2011;79:2132-2145.
-
(2011)
Proteins
, vol.79
, pp. 2132-2145
-
-
Wagoner, V.A.1
Cheon, M.2
Chang, I.3
Hall, C.K.4
-
63
-
-
77955032523
-
Mechanistic investigation of the inhibition of A beta 42 assembly and neurotoxicity by A beta 42 C-terminal fragments
-
Li HY, Monien BH, Lomakin A, Zemel R, Fradinger EA, Tan MA, Spring SM, Urbanc B, Xie CW, Benedek GB, Bitan G. Mechanistic investigation of the inhibition of A beta 42 assembly and neurotoxicity by A beta 42 C-terminal fragments. Biochemistry 2010;49:6358-6364.
-
(2010)
Biochemistry
, vol.49
, pp. 6358-6364
-
-
Li, H.Y.1
Monien, B.H.2
Lomakin, A.3
Zemel, R.4
Fradinger, E.A.5
Tan, M.A.6
Spring, S.M.7
Urbanc, B.8
Xie, C.W.9
Benedek, G.B.10
Bitan, G.11
-
64
-
-
0027258525
-
The carboxy terminus of the beta-amyloid protein is critical for the seeding of amyloid formation-Implications for the pathogenesis of Alzheimers-Disease
-
Jarrett JT, Berger EP, Lansbury PT. The carboxy terminus of the beta-amyloid protein is critical for the seeding of amyloid formation-Implications for the pathogenesis of Alzheimers-Disease. Biochemistry 1993;32:4693-4697.
-
(1993)
Biochemistry
, vol.32
, pp. 4693-4697
-
-
Jarrett, J.T.1
Berger, E.P.2
Lansbury, P.T.3
-
65
-
-
9044229145
-
On the nucleation and growth of amyloid beta-protein fibrils: Detection of nuclei and quantitation of rate constants
-
Lomakin A, Chung DS, Benedek GB, Kirschner DA, Teplow DB. On the nucleation and growth of amyloid beta-protein fibrils: Detection of nuclei and quantitation of rate constants. Proc Natl Acad Sci USA 1996;93:1125-1129.
-
(1996)
Proc Natl Acad Sci USA
, vol.93
, pp. 1125-1129
-
-
Lomakin, A.1
Chung, D.S.2
Benedek, G.B.3
Kirschner, D.A.4
Teplow, D.B.5
-
67
-
-
22844438853
-
Quasielastic light scattering for protein assembly studies
-
Lomakin A, Teplow DB, Benedek GB. Quasielastic light scattering for protein assembly studies. Methods Mol Biol 2005;299:155-174.
-
(2005)
Methods Mol Biol
, vol.299
, pp. 155-174
-
-
Lomakin, A.1
Teplow, D.B.2
Benedek, G.B.3
-
68
-
-
84872113583
-
C-terminal turn stability determines assembly differences between A beta 40 and A beta 42
-
Roychaudhuri R, Yang MF, Deshpande A, Cole GM, Frautschy S, Lomakin A, Benedek GB, Teplow DB. C-terminal turn stability determines assembly differences between A beta 40 and A beta 42. J Mol Biol 2013;425:292-308.
-
(2013)
J Mol Biol
, vol.425
, pp. 292-308
-
-
Roychaudhuri, R.1
Yang, M.F.2
Deshpande, A.3
Cole, G.M.4
Frautschy, S.5
Lomakin, A.6
Benedek, G.B.7
Teplow, D.B.8
-
69
-
-
12244249201
-
Self-propagating, molecular-level polymorphism in Alzheimer's beta-amyloid fibrils
-
Petkova AT, Leapman RD, Guo ZH, Yau WM, Mattson MP, Tycko R. Self-propagating, molecular-level polymorphism in Alzheimer's beta-amyloid fibrils. Science 2005;307:262-265.
-
(2005)
Science
, vol.307
, pp. 262-265
-
-
Petkova, A.T.1
Leapman, R.D.2
Guo, Z.H.3
Yau, W.M.4
Mattson, M.P.5
Tycko, R.6
-
70
-
-
77955273305
-
A beta(1-40) forms five distinct amyloid structures whose beta-sheet contents and fibril stabilities are correlated
-
Kodali R, Williams AD, Chemuru S, Wetzel R. A beta(1-40) forms five distinct amyloid structures whose beta-sheet contents and fibril stabilities are correlated. J Mol Biol 2010;401:503-517.
-
(2010)
J Mol Biol
, vol.401
, pp. 503-517
-
-
Kodali, R.1
Williams, A.D.2
Chemuru, S.3
Wetzel, R.4
-
71
-
-
0037422540
-
Amyloid beta-protein (Abeta) assembly: Abeta 40 and Abeta 42 oligomerize through distinct pathways
-
Bitan G, Kirkitadze MD, Lomakin A, Vollers SS, Benedek GB, Teplow DB. Amyloid beta-protein (Abeta) assembly: Abeta 40 and Abeta 42 oligomerize through distinct pathways. Proc Natl Acad Sci USA 2003;100:330-335.
-
(2003)
Proc Natl Acad Sci USA
, vol.100
, pp. 330-335
-
-
Bitan, G.1
Kirkitadze, M.D.2
Lomakin, A.3
Vollers, S.S.4
Benedek, G.B.5
Teplow, D.B.6
-
72
-
-
0028322017
-
An increased percentage of long amyloid beta protein secreted by familial amyloid beta protein precursor (beta APP717) mutants
-
Suzuki N, Cheung TT, Cai XD, Odaka A, Otvos L, Eckman C, Golde TE, Younkin SG. An increased percentage of long amyloid beta protein secreted by familial amyloid beta protein precursor (beta APP717) mutants. Science 1994;264:1336-1340.
-
(1994)
Science
, vol.264
, pp. 1336-1340
-
-
Suzuki, N.1
Cheung, T.T.2
Cai, X.D.3
Odaka, A.4
Otvos, L.5
Eckman, C.6
Golde, T.E.7
Younkin, S.G.8
-
73
-
-
16044373524
-
Secreted amyloid beta-protein similar to that in the senile plaques of Alzheimer's disease is increased in vivo by the presenilin 1 and 2 and APP mutations linked to familial Alzheimer's disease
-
Scheuner D, Eckman C, Jensen M, Song X, Citron M, Suzuki N, Bird TD, Hardy J, Hutton M, Kukull W, Larson E, Levy-Lahad E, Viitanen M, Peskind E, Poorkaj P, Schellenberg G, Tanzi R, Wasco W, Lannfelt L, Selkoe D, Younkin S. Secreted amyloid beta-protein similar to that in the senile plaques of Alzheimer's disease is increased in vivo by the presenilin 1 and 2 and APP mutations linked to familial Alzheimer's disease. Nat Med 1996;2:864-870.
-
(1996)
Nat Med
, vol.2
, pp. 864-870
-
-
Scheuner, D.1
Eckman, C.2
Jensen, M.3
Song, X.4
Citron, M.5
Suzuki, N.6
Bird, T.D.7
Hardy, J.8
Hutton, M.9
Kukull, W.10
Larson, E.11
Levy-Lahad, E.12
Viitanen, M.13
Peskind, E.14
Poorkaj, P.15
Schellenberg, G.16
Tanzi, R.17
Wasco, W.18
Lannfelt, L.19
Selkoe, D.20
Younkin, S.21
more..
-
74
-
-
0034718027
-
Biochemical detection of A beta isoforms: Implications for pathogenesis, diagnosis, and treatment of Alzheimer's disease
-
Golde TE, Eckman CB, Younkin SG. Biochemical detection of A beta isoforms: Implications for pathogenesis, diagnosis, and treatment of Alzheimer's disease. Bba-Mol Basis Dis 2000;1502:172-187.
-
(2000)
Bba-Mol Basis Dis
, vol.1502
, pp. 172-187
-
-
Golde, T.E.1
Eckman, C.B.2
Younkin, S.G.3
-
75
-
-
0035829592
-
A subset of NSAIDs lower amyloidogenic Abeta42 independently of cyclooxygenase activity
-
Weggen S, Eriksen JL, Das P, Sagi SA, Wang R, Pietrzik CU, Findlay KA, Smith TE, Murphy MP, Bulter T, Kang DE, Marquez-Sterling N, Golde TE, Koo EH. A subset of NSAIDs lower amyloidogenic Abeta42 independently of cyclooxygenase activity. Nature 2001;414:212-216.
-
(2001)
Nature
, vol.414
, pp. 212-216
-
-
Weggen, S.1
Eriksen, J.L.2
Das, P.3
Sagi, S.A.4
Wang, R.5
Pietrzik, C.U.6
Findlay, K.A.7
Smith, T.E.8
Murphy, M.P.9
Bulter, T.10
Kang, D.E.11
Marquez-Sterling, N.12
Golde, T.E.13
Koo, E.H.14
-
76
-
-
67849106670
-
Amyloid-β protein oligomerization and the importance of tetramers and dodecamers in the aetiology of Alzheimer's disease
-
Bernstein SL, Dupuis NF, Lazo ND, Wyttenbach T, Condron MM, Bitan G, Teplow DB, Shea JE, Ruotolo BT, Robinson CV, Bowers MT. Amyloid-β protein oligomerization and the importance of tetramers and dodecamers in the aetiology of Alzheimer's disease. Nat Chem 2009;1:326-331.
-
(2009)
Nat Chem
, vol.1
, pp. 326-331
-
-
Bernstein, S.L.1
Dupuis, N.F.2
Lazo, N.D.3
Wyttenbach, T.4
Condron, M.M.5
Bitan, G.6
Teplow, D.B.7
Shea, J.E.8
Ruotolo, B.T.9
Robinson, C.V.10
Bowers, M.T.11
-
78
-
-
59649110455
-
A beta(1-40) fibril polymorphism implies diverse interaction patterns in amyloid fibrils
-
Meinhardt J, Sachse C, Hortschansky P, Grigorieff N, Fandrich M. A beta(1-40) fibril polymorphism implies diverse interaction patterns in amyloid fibrils. J Mol Biol 2009;386:869-877.
-
(2009)
J Mol Biol
, vol.386
, pp. 869-877
-
-
Meinhardt, J.1
Sachse, C.2
Hortschansky, P.3
Grigorieff, N.4
Fandrich, M.5
-
79
-
-
33846036362
-
Monomer adds to preformed structured oligomers of Abeta-peptides by a two-stage dock-lock mechanism
-
Nguyen PH, Li MS, Stock G, Straub JE, Thirumalai D. Monomer adds to preformed structured oligomers of Abeta-peptides by a two-stage dock-lock mechanism. Proc Natl Acad Sci USA 2007;104:111-116.
-
(2007)
Proc Natl Acad Sci USA
, vol.104
, pp. 111-116
-
-
Nguyen, P.H.1
Li, M.S.2
Stock, G.3
Straub, J.E.4
Thirumalai, D.5
-
80
-
-
67749110404
-
Dynamics of locking of peptides onto growing amyloid fibrils
-
Reddy G, Straubb JE, Thirumalai D. Dynamics of locking of peptides onto growing amyloid fibrils. Proc Natl Acad Sci USA 2009;106:11948-11953.
-
(2009)
Proc Natl Acad Sci USA
, vol.106
, pp. 11948-11953
-
-
Reddy, G.1
Straubb, J.E.2
Thirumalai, D.3
|