-
1
-
-
0347357617
-
Protein folding and misfolding
-
Dobson CM (2003) Protein folding and misfolding. Nature 426:884-890.
-
(2003)
Nature
, vol.426
, pp. 884-890
-
-
Dobson, C.M.1
-
2
-
-
0347987853
-
Folding proteins in fatal ways
-
Selkoe DJ (2003) Folding proteins in fatal ways. Nature 426:900-904.
-
(2003)
Nature
, vol.426
, pp. 900-904
-
-
Selkoe, D.J.1
-
3
-
-
33746377894
-
Protein misfolding, functional amyloid, and human disease
-
DOI 10.1146/annurev.biochem.75.101304.123901
-
Chiti F, Dobson CM (2006) Protein misfolding, functional amyloid and human disease. Annu Rev Biochem 75:333-366. (Pubitemid 44118036)
-
(2006)
Annual Review of Biochemistry
, vol.75
, pp. 333-366
-
-
Chiti, F.1
Dobson, C.M.2
-
4
-
-
27644596641
-
What is the role of protein aggregation in neurodegeneration?
-
DOI 10.1038/nrm1742, PII N1742
-
Ross CA, Poirier MA (2005) What is the role of protein aggregation in nueurodegeneration? Nat Rev Mol Cell Biol 6:891-898. (Pubitemid 41568738)
-
(2005)
Nature Reviews Molecular Cell Biology
, vol.6
, Issue.11
, pp. 891-898
-
-
Ross, C.A.1
Poirier, M.A.2
-
5
-
-
0842324676
-
Role of quality control pathways inhuman diseases involving protein misfolding
-
Welch WJ (2004) Role of quality control pathways inhuman diseases involving protein misfolding. Semin Cell Dev Biol 15:31-38.
-
(2004)
Semin Cell Dev Biol
, vol.15
, pp. 31-38
-
-
Welch, W.J.1
-
6
-
-
33644850056
-
Progressive disruption of cellular protein folding in models of polyglutamine diseases
-
DOI 10.1126/science.1124514
-
Gladalevitz T, Ben-Zvi A, Ho KH, Brignull HR (2006) Progressive disruption of cellular protein folding in models of polyglutamine diseases. Science 311:1471-1474. (Pubitemid 43376703)
-
(2006)
Science
, vol.311
, Issue.5766
, pp. 1471-1474
-
-
Gidalevitz, T.1
Ben-Zvi, A.2
Ho, K.H.3
Brignull, H.R.4
Morimoto, R.I.5
-
7
-
-
28444454101
-
Amyloid fibril formation can proceed from different conformations of a partially unfolded protein
-
DOI 10.1529/biophysj.105.068726
-
Calamai M, Chiti F, Dobson CM (2005) Amyloid fibril formation can proceed from different conformations of a partially unfolded protein. Biophys J 89:4201-4210. (Pubitemid 41725639)
-
(2005)
Biophysical Journal
, vol.89
, Issue.6
, pp. 4201-4210
-
-
Calamai, M.1
Chiti, F.2
Dobson, C.M.3
-
8
-
-
0029115374
-
Kinetics of interaction of partially folded proteins with a hydrophobic dye: Evidence that molten globule character is maximal in early folding intermediates
-
Engelhard M, Evans PA (1995) Kinetics of interaction of partially folded proteins with a hydrophobic dye: evidence that molten globule character is maximal in early folding intermediates. Protein Sci 4:1553-1562.
-
(1995)
Protein Sci
, vol.4
, pp. 1553-1562
-
-
Engelhard, M.1
Evans, P.A.2
-
9
-
-
0034718157
-
Alzheimer's amyloid fibrils: Structure and assembly
-
Serpell LC (2000) Alzheimer's amyloid fibrils: structure and assembly. Biochim Biophys Acta 1502:16-30.
-
(2000)
Biochim Biophys Acta
, vol.1502
, pp. 16-30
-
-
Serpell, L.C.1
-
10
-
-
20444440728
-
Structure of the cross-β spine of amyloid-like fibrils
-
DOI 10.1038/nature03680
-
Nelson R, Sawaya MR, Balbirnie M, Madsen AØ, Riekel C, Grothe R, Eisenberg D (2005) Structure of the cross-β spine of amyloid-like fibrils. Nature 435:773-778. (Pubitemid 40839722)
-
(2005)
Nature
, vol.435
, Issue.7043
, 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
-
11
-
-
0037168655
-
A structural model for Alzheimer's β-amyloid fibrils based on experimental constraints from solid state NMR
-
Petkova AT, Ishii Y, Balbach JJ, Antzutkin ON, Leapman RD, Delagio F, Tycko R (2002) A structural model for Alzheimer's β-amyloid fibrils based on experimental constraints from solid state NMR. Proc Natl Acad Sci USA 99:16742.
-
(2002)
Proc Natl Acad Sci USA
, vol.99
, pp. 16742
-
-
Petkova, A.T.1
Ishii, Y.2
Balbach, J.J.3
Antzutkin, O.N.4
Leapman, R.D.5
Delagio, F.6
Tycko, R.7
-
12
-
-
34848929022
-
Structural reorganisation and potential toxicity of oligomeric species formed during the assembly of amyloid fibrils
-
DOI 10.1371/journal.pcbi.0030173
-
Cheon M, Chang I, Mohanty S, Luheshi LM, Dobson CM, Vendruscolo M, Favrin G (2007) Structural reorganization and potential toxicity of oligomeric species formed during the assembly of amyloid fibrils. PLoS Comput Biol 3:1727-1738. (Pubitemid 47502977)
-
(2007)
PLoS Computational Biology
, vol.3
, Issue.9
, 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
-
13
-
-
58149174069
-
Formation and growth of oligomers: A Monte Carol study of an amyloid tau fragment
-
Li D-W, Mohanty S, Irbäck A, Huo S (2008) Formation and growth of oligomers: a Monte Carol study of an amyloid tau fragment. PLoS Comput Biol 4:e1000238.
-
(2008)
PLoS Comput Biol
, vol.4
-
-
Li, D.-W.1
Mohanty, S.2
Irbäck, A.3
Huo, S.4
-
14
-
-
77950219248
-
Elucidation of amyloid beta-protein oligomerization mechanisms: Discrete molecular dynamics study
-
Urbanc B, Betnel M, Cruz L, Bitan G, Teplow DB (2010) Elucidation of amyloid beta-protein oligomerization mechanisms: discrete molecular dynamics study. J Am Chem Soc 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
-
16
-
-
77951290266
-
Phase diagram of α-helical and β-sheet forming peptides
-
Auer S, Kashchiev D (2010) Phase diagram of α-helical and β-sheet forming peptides. Phys Rev Lett 104:168105.
-
(2010)
Phys Rev Lett
, vol.104
, pp. 168105
-
-
Auer, S.1
Kashchiev, D.2
-
17
-
-
33745727173
-
Interpreting the aggregation kinetics of amyloid peptides
-
Pellarin R, Caflisch A (2006) Interpreting the aggregation kinetics of amyloid peptides. J Mol Biol 360:882-892.
-
(2006)
J Mol Biol
, vol.360
, pp. 882-892
-
-
Pellarin, R.1
Caflisch, A.2
-
18
-
-
72949120775
-
Diversity of kinetic pathways in amyloid fibril formation
-
Bellesia G, Shea J-E (2009) Diversity of kinetic pathways in amyloid fibril formation. J Chem Phys 131:111102.
-
(2009)
J Chem Phys
, vol.131
, pp. 111102
-
-
Bellesia, G.1
Shea, J.-E.2
-
19
-
-
79953081933
-
Coarse-grained models for protein aggregation
-
Chun W, Shea J-E (2011) Coarse-grained models for protein aggregation. Curr Opin Strut Biol 21:209-220.
-
(2011)
Curr Opin Strut Biol
, vol.21
, pp. 209-220
-
-
Chun, W.1
Shea, J.-E.2
-
20
-
-
55849105547
-
Probing the mechanisms of fibril formation using lattice models
-
Li MS, Klimov DK, Straub JE, Thirumalai D (2008) Probing the mechanisms of fibril formation using lattice models. J Chem Phys 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
-
21
-
-
78349267139
-
Factors governing fibrillogenesis of polypeptide chains revealed by lattice models
-
Li MS, Co NT, Reddy G, Hu C-K, Straub JE, Thirumalai D (2010) Factors governing fibrillogenesis of polypeptide chains revealed by lattice models. Phys Rev Lett 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
-
22
-
-
9244260521
-
Molecular dynamics simulations of spontaneous fibril formation by random-coil peptides
-
Nguyen HD, Hall CK (2004) Molecular dynamics simulations of spontaneous fibril formation by random-coil peptides. Proc Natl Acad Sci USA 101:16180-16184.
-
(2004)
Proc Natl Acad Sci USA
, vol.101
, pp. 16180-16184
-
-
Nguyen, H.D.1
Hall, C.K.2
-
23
-
-
33744827373
-
Side-chain interactions determine amyloid formation by model polyglutamine peptides in molecular dynamics simulations
-
DOI 10.1529/biophysj.105.079269
-
Marchut AJ, Hall CK (2006) Side-chain interactions determine amyloid formation by model polyglutamine peptides in molecular dynamics simulations. Biophys J 90:4574-4584. (Pubitemid 43830901)
-
(2006)
Biophysical Journal
, vol.90
, Issue.12
, pp. 4574-4584
-
-
Marchut, A.J.1
Hall, C.K.2
-
24
-
-
0042307302
-
Tau filaments from human brain and from in vitro assembly of recombinant protein show cross-β structure
-
DOI 10.1073/pnas.1530287100
-
Berriman J, Serpell LC, Oberg KA, Fink AL, Goedert M, Crowther RA (2003) Tau filaments from human brain and from in vitro assembly by recombinant protein show cross-b structure. Proc Natl Acad Sci USA 100:9034-9038. (Pubitemid 36899218)
-
(2003)
Proceedings of the National Academy of Sciences of the United States of America
, vol.100
, Issue.15
, pp. 9034-9038
-
-
Berriman, J.1
Serpell, L.C.2
Oberg, K.A.3
Fink, A.L.4
Goedert, M.5
Crowther, R.A.6
-
25
-
-
0034625060
-
311) forming β structure
-
DOI 10.1073/pnas.97.10.5129
-
von Bergen M, Friedhoff P, Biernat J, Heberle J, Mandelkow EM, Mandelkow E (2000) Assembly of s protein into Alzheimer paired helical filaments depends on a local sequence motif (306)VQIVYK(311) forming b structure. Proc Natl Acad Sci USA 97:5129-5134. (Pubitemid 30313683)
-
(2000)
Proceedings of the National Academy of Sciences of the United States of America
, vol.97
, Issue.10
, pp. 5129-5134
-
-
Von Bergen, M.1
Friedhoff, P.2
Biernat, J.3
Heberle, J.4
Mandelkow, E.-M.5
Mandelkow, E.6
-
26
-
-
3042602456
-
The formation of straight and twisted filaments from short tau peptides
-
DOI 10.1074/jbc.M402379200
-
Goux WJ, Kopplin L, Nguyen AD, Leak K, Rutkofsky M, Shanmuganandam VD, Sharma D, Inouye H, Kirschner DA (2004) The formation of straight and twisted filaments from short tau peptides. J Biol Chem 279:26868-26875. (Pubitemid 38812520)
-
(2004)
Journal of Biological Chemistry
, vol.279
, Issue.26
, pp. 26868-26875
-
-
Goux, W.J.1
Kopplin, L.2
Nguyen, A.D.3
Leak, K.4
Rutkofsky, M.5
Shanmuganandam, V.D.6
Sharma, D.7
Inouye, H.8
Kirschner, D.A.9
-
27
-
-
33646155955
-
Structure of core domain of fibril-forming PHF/Tau fragments
-
Inouye H, Sharma D, Goux WJ, Kirschner DA (2006) Structure of core domain of fibril-forming PHF/Tau fragments. Biophys J 90:1774-1789.
-
(2006)
Biophys J
, vol.90
, pp. 1774-1789
-
-
Inouye, H.1
Sharma, D.2
Goux, W.J.3
Kirschner, D.A.4
-
28
-
-
79960065022
-
Structure-based design of non-natural amino-acid inhibitors of amyloid fibril formation
-
Sievers SA, Karanicolas J, Chang HW, Zhao A, Jiang L, Zirafi O, Stevens JT, Munch J, Baker D, Eisenberg D. (2011) Structure-based design of non-natural amino-acid inhibitors of amyloid fibril formation. Nature 475:96-100.
-
(2011)
Nature
, vol.475
, pp. 96-100
-
-
Sievers, S.A.1
Karanicolas, J.2
Chang, H.W.3
Zhao, A.4
Jiang, L.5
Zirafi, O.6
Stevens, J.T.7
Munch, J.8
Baker, D.9
Eisenberg, D.10
-
29
-
-
34249290108
-
Atomic structures of amyloid cross-β spines reveal varied steric zippers
-
DOI 10.1038/nature05695, PII NATURE05695
-
Sawaya MR, Sambashivan S, Nelson R, Ivanova MI, Sievers SA, Apostol MI, Thompson MJ, Balbirnie M, Wiltzius JJ, McFarlane HT, Madsen AØ, Riekel C, Eisenberg D (2007) Atomic structures of amyloid cross-βspines reveal varied steric zippers. Nature 447:453-457. (Pubitemid 46816731)
-
(2007)
Nature
, vol.447
, Issue.7143
, 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
-
30
-
-
2342444028
-
Seeding Specificity in Amyloid Growth Induced by Heterologous Fibrils
-
DOI 10.1074/jbc.M311300200
-
O'Nuallain B, Williams AD, Westermark P, Wetzel R (2004) Seeding specificity in amyloid growth induced by heterologous fibrils. J Biol Chem 279:17490-17499. (Pubitemid 38560512)
-
(2004)
Journal of Biological Chemistry
, vol.279
, Issue.17
, pp. 17490-17499
-
-
O'Nuallain, B.1
Williams, A.D.2
Westermark, P.3
Wetzel, R.4
-
31
-
-
77955273305
-
Aβ(1-40) forms five distinct amyloid structures whose β-sheet contents and fibril stabilities are correlated
-
Kodali R, Williams AD, Chemuru S, Wetzel R (2010) Aβ(1-40) forms five distinct amyloid structures whose β-sheet contents and fibril stabilities are correlated. J Mol Biol 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
-
32
-
-
12244249201
-
Self-propagating, molecular-level polymorphism in Alzheimer's β-amyloid fibrils
-
DOI 10.1126/science.1105850
-
Petkova AT, Leapman RD, Guo Z, Yau WM, Mattson MP, Tycko R (2005) Self-propagating, molecular-level polymorphism in Alzheimer's β-amyloid fibrils. Science 307:262-265. (Pubitemid 40116242)
-
(2005)
Science
, vol.307
, Issue.5707
, pp. 262-265
-
-
Petkova, A.T.1
Leapman, R.D.2
Guo, Z.3
Yau, W.-M.4
Mattson, M.P.5
Tycko, R.6
-
33
-
-
77957965654
-
Extending the PRIME model for protein aggregation to all twenty amino acids
-
Cheon M, Chang I, Hall CK (2010) Extending the PRIME model for protein aggregation to all twenty amino acids. Proteins 78:2950-2960.
-
(2010)
Proteins
, vol.78
, pp. 2950-2960
-
-
Cheon, M.1
Chang, I.2
Hall, C.K.3
-
34
-
-
81255184472
-
Spontaneous formation of twisted Aβ16-22 fibrils in large scale molecular dynamics simulations
-
Cheon M, Chang I, Hall CK (2011) Spontaneous formation of twisted Aβ16-22 fibrils in large scale molecular dynamics simulations. Biophys J 101:2493-2501.
-
(2011)
Biophys J
, vol.101
, pp. 2493-2501
-
-
Cheon, M.1
Chang, I.2
Hall, C.K.3
-
35
-
-
0035882537
-
α-helix formation: Discontinuous molecular dynamics on an intermediate resolution model
-
Smith AV, Hall CK (2001) α-helix formation: discontinuous molecular dynamics on an intermediate resolution model. Proteins 44:376-391.
-
(2001)
Proteins
, vol.44
, pp. 376-391
-
-
Smith, A.V.1
Hall, C.K.2
-
36
-
-
7244253280
-
Solvent effects on the conformational transition of a model polyalanine peptide
-
DOI 10.1110/ps.04701304
-
Nguyen HD, Marchut AJ, Hall CK (2004) Solvent effects on the conformational transition of a model polyalanine peptide. Pro Sci 13:2909-2924. (Pubitemid 39431254)
-
(2004)
Protein Science
, vol.13
, Issue.11
, pp. 2909-2924
-
-
Nguyen, H.D.1
Marchut, A.J.2
Hall, C.K.3
-
37
-
-
33751248251
-
16-22: From the dimer to the 32-mer
-
DOI 10.1529/biophysj.106.088542
-
Röhrig UF, Laio A, Tantalo N, Parrinello M, Petronzio R (2006) Stability and structure of oligomers of the Alzheimer peptide Aβ16-22 from the dimer to the 32-mer. Biophys J 91:3217-3229. (Pubitemid 44788256)
-
(2006)
Biophysical Journal
, vol.91
, Issue.9
, pp. 3217-3229
-
-
Rohrig, U.F.1
Laio, A.2
Tantalo, N.3
Parrinello, M.4
Petronzio, R.5
-
38
-
-
34548627237
-
Molecular dynamics simulations on the oligomer-formation process of the GNNQQNY peptide from yeast prion protein Sup35
-
DOI 10.1529/biophysj.106.100537
-
Zhang Z, Chen H, Bai H, Lai L (2007) Molecular dynamics simulations on the oligomer-formation process of the GNNQQNY peptide from yeast prion protein Sup35. Biophys J 93:1484-1492. (Pubitemid 47403294)
-
(2007)
Biophysical Journal
, vol.93
, Issue.5
, pp. 1484-1492
-
-
Zhang, Z.1
Chen, H.2
Bai, H.3
Lai, L.4
-
39
-
-
68849107584
-
Thermodynamic description of polymorphism in Q- and N-rich peptide aggregates revealed by atomistic simulation
-
Berryman JT, Radford SE, Harris SA (2009) Thermodynamic description of polymorphism in Q- and N-rich peptide aggregates revealed by atomistic simulation. Biophys J 97:1-11.
-
(2009)
Biophys J
, vol.97
, pp. 1-11
-
-
Berryman, J.T.1
Radford, S.E.2
Harris, S.A.3
-
40
-
-
36849126204
-
Studies in molecular dynamics. I. General method
-
Alder BJ, Wainwright TE (1959) Studies in molecular dynamics. I. General method. J Chem Phys 31:459-466.
-
(1959)
J Chem Phys
, vol.31
, pp. 459-466
-
-
Alder, B.J.1
Wainwright, T.E.2
-
41
-
-
79958770752
-
Computer simulation study of amyloid fibril formation by palindromic sequences in prion peptides
-
Wagoner VA, CheonM, Chang I, Hall CK (2011) Computer simulation study of amyloid fibril formation by palindromic sequences in prion peptides. Proteins 79:2132-2145.
-
(2011)
Proteins
, vol.79
, pp. 2132-2145
-
-
Wagoner, V.A.1
Cheon, M.2
Chang, I.3
Hall, C.K.4
-
42
-
-
84857360124
-
Fibrillization propensity for short designed hexapeptides predicted by computer simulation
-
Wagoner VA, Cheon M, Chang I, Hall CK (2012) Fibrillization propensity for short designed hexapeptides predicted by computer simulation. J Molec Biol 416:598-609.
-
(2012)
J Molec Biol
, vol.416
, pp. 598-609
-
-
Wagoner, V.A.1
Cheon, M.2
Chang, I.3
Hall, C.K.4
|