-
1
-
-
0031825554
-
From the globular to the fibrous state: Protein structure and structural conversion in amyloid formation
-
M. Sunde, and C.C.F. Blake From the globular to the fibrous state: protein structure and structural conversion in amyloid formation Quart. Rev. Biophys. 31 1998 1 39
-
(1998)
Quart. Rev. Biophys.
, vol.31
, pp. 1-39
-
-
Sunde, M.1
Blake, C.C.F.2
-
2
-
-
0037551741
-
Protofibrils, pores, fibrils, and neurodegeneration: Separating the responsible protein aggregates from the innocent bystanders
-
B. Caughey, and P.T. Lansbury Protofibrils, pores, fibrils, and neurodegeneration: separating the responsible protein aggregates from the innocent bystanders Annu. Rev. Neurosci. 26 2003 267 298
-
(2003)
Annu. Rev. Neurosci.
, vol.26
, pp. 267-298
-
-
Caughey, B.1
Lansbury, P.T.2
-
3
-
-
2442468092
-
Stimulation of insulin fibrillation by urea-induced intermediates
-
A. Ahmad, I.S. Millett, S. Doniach, V.N. Uversky, and A.L. Fink Stimulation of insulin fibrillation by urea-induced intermediates J. Biol. Chem. 279 2004 14999 15013
-
(2004)
J. Biol. Chem.
, vol.279
, pp. 14999-15013
-
-
Ahmad, A.1
Millett, I.S.2
Doniach, S.3
Uversky, V.N.4
Fink, A.L.5
-
4
-
-
12244249201
-
Self-propagating, molecular-level polymorphism in Alzheimer's β-amyloid fibrils
-
A.T. Petkova, R.D. Leapman, Z.H. Guo, W.M. Yau, M.P. Mattson, and R. Tycko Self-propagating, molecular-level polymorphism in Alzheimer's β-amyloid fibrils Science 307 2005 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
-
5
-
-
1342324027
-
Progress towards a molecular-level structural understanding of amyloid fibrils
-
R. Tycko Progress towards a molecular-level structural understanding of amyloid fibrils Curr. Opin. Struct. Biol. 14 2004 96 103
-
(2004)
Curr. Opin. Struct. Biol.
, vol.14
, pp. 96-103
-
-
Tycko, R.1
-
6
-
-
0036052739
-
Structure
-
R. Wetzel Structure Biochemistry 10 2002 1031 1036
-
(2002)
Biochemistry
, vol.10
, pp. 1031-1036
-
-
Wetzel, R.1
-
7
-
-
0344490335
-
Conducting nanowires built by controlled self-assembly of amyloid fibers and selective metal deposition
-
T. Scheibel, R. Parthasarathy, G. Sawicki, X.-M. Lin, H. Jaeger, and S.L. Lindquist Conducting nanowires built by controlled self-assembly of amyloid fibers and selective metal deposition Proc. Natl Acad. Sci. USA 100 2003 4527 4532
-
(2003)
Proc. Natl Acad. Sci. USA
, vol.100
, pp. 4527-4532
-
-
Scheibel, T.1
Parthasarathy, R.2
Sawicki, G.3
Lin, X.-M.4
Jaeger, H.5
Lindquist, S.L.6
-
8
-
-
0034722985
-
Formation of mixed fibrils demonstrates the generic nature and potential utility of amyloid nanostructures
-
C.E. MacPhee, and C.M. Dobson Formation of mixed fibrils demonstrates the generic nature and potential utility of amyloid nanostructures J. Am. Chem. Soc. 122 2000 12707 12713
-
(2000)
J. Am. Chem. Soc.
, vol.122
, pp. 12707-12713
-
-
MacPhee, C.E.1
Dobson, C.M.2
-
9
-
-
0037466613
-
Casting metal nanowires within discrete self-assembled peptide nanotubes
-
M. Reches, and E. Gazit Casting metal nanowires within discrete self-assembled peptide nanotubes Science 300 2003 625 627
-
(2003)
Science
, vol.300
, pp. 625-627
-
-
Reches, M.1
Gazit, E.2
-
10
-
-
0037168655
-
A structural model for Alzheimer's beta-amyloid fibrils based on experimental constraints from solid state NMR
-
A.T. Petkova, Y. Ishii, J.J. Balbach, O.N. Antzutkin, R.D. Leapman, F. Delaglio, and R. Tycko A structural model for Alzheimer's beta-amyloid fibrils based on experimental constraints from solid state NMR Proc. Natl Acad. Sci. USA 99 2002 16742 16747
-
(2002)
Proc. Natl Acad. Sci. USA
, vol.99
, pp. 16742-16747
-
-
Petkova, A.T.1
Ishii, Y.2
Balbach, J.J.3
Antzutkin, O.N.4
Leapman, R.D.5
Delaglio, F.6
Tycko, R.7
-
11
-
-
0037465708
-
Insights into the amyloid folding problem from solid-state NMR
-
R. Tycko Insights into the amyloid folding problem from solid-state NMR Biochemistry 42 2003 3151 3159
-
(2003)
Biochemistry
, vol.42
, pp. 3151-3159
-
-
Tycko, R.1
-
12
-
-
0037168446
-
Supramolecular structural constraints on Alzheimer's beta-amyloid fibrils from electron microscopy and solid-state nuclear magnetic resonance
-
O.N. Antzutkin, R.D. Leapman, J.J. Balbach, and R. Tycko Supramolecular structural constraints on Alzheimer's beta-amyloid fibrils from electron microscopy and solid-state nuclear magnetic resonance Biochemistry 41 2002 15436 15450
-
(2002)
Biochemistry
, vol.41
, pp. 15436-15450
-
-
Antzutkin, O.N.1
Leapman, R.D.2
Balbach, J.J.3
Tycko, R.4
-
13
-
-
0034700129
-
Multiple quantum solid-state NMR indicates a parallel, not antiparallel, organization of β-sheets in Alzheimer's β-amyloid fibrils
-
O.N. Antzutkin, J.J. Balbach, R.D. Leapman, N.W. Rizzo, J. Reed, and R. Tycko Multiple quantum solid-state NMR indicates a parallel, not antiparallel, organization of β-sheets in Alzheimer's β-amyloid fibrils Proc. Natl Acad. Sci. USA 97 2000 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
-
14
-
-
0035997080
-
Supramolecular structure in full-length Alzheimer's beta-amyloid fibrils: Evidence for a parallel beta-sheet organization from solid-state nuclear magnetic resonance
-
J.J.A.T. Balbach, N.A.O. Petkova, O.N. Antzutkin, D.J. Gordon, S.C. Meredith, and R. Tycko Supramolecular structure in full-length Alzheimer's beta-amyloid fibrils: evidence for a parallel beta-sheet organization from solid-state nuclear magnetic resonance Biophys. J. 83 2002 1205 1216
-
(2002)
Biophys. J.
, vol.83
, pp. 1205-1216
-
-
Balbach, J.J.A.T.1
Petkova, N.A.O.2
Antzutkin, O.N.3
Gordon, D.J.4
Meredith, S.C.5
Tycko, R.6
-
15
-
-
0032506114
-
Propagating structure of Alzheimer's β-amyloid (10-35) is parallel β-sheet with residues in exact register
-
T.L. Benzinger, D.M. Gregory, T.S. Burkoth, H. Miller-Auer, D.G. Lynn, R.E. Botto, and S.C. Meredith Propagating structure of Alzheimer's β-amyloid (10-35) is parallel β-sheet with residues in exact register Proc. Natl Acad. Sci. 95 1998 13407 13412
-
(1998)
Proc. Natl Acad. Sci.
, vol.95
, pp. 13407-13412
-
-
Benzinger, T.L.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
-
16
-
-
0032234814
-
Dipolar recoupling NMR of biomolecular self-assemblies: Determining inter- and intrastrand distances in fibrilized Alzheimer's beta-amyloid peptide
-
D.M. Gregory, T.L.S. Benzinger, T.S. Burkoth, H. Miller-Auer, D.G. Lynn, S.C. Meredith, and R.E. Botto Dipolar recoupling NMR of biomolecular self-assemblies: determining inter- and intrastrand distances in fibrilized Alzheimer's beta-amyloid peptide Solid State Nucl. Magn. Reson. 13 1998 149 166
-
(1998)
Solid State Nucl. Magn. Reson.
, vol.13
, pp. 149-166
-
-
Gregory, D.M.1
Benzinger, T.L.S.2
Burkoth, T.S.3
Miller-Auer, H.4
Lynn, D.G.5
Meredith, S.C.6
Botto, R.E.7
-
17
-
-
0028804827
-
Structural model for the beta-amyloid fibril based on interstrand alignment of an antiparallel-sheet comprising a C-terminal peptide
-
P.T. Lansbury, P.R. Costa, J.M. Griffiths, E.J. Simon, M. Auger, and K.J. Halverson Structural model for the beta-amyloid fibril based on interstrand alignment of an antiparallel-sheet comprising a C-terminal peptide Nature Struct. Biol. 2 1995 990 998
-
(1995)
Nature Struct. Biol.
, vol.2
, pp. 990-998
-
-
Lansbury, P.T.1
Costa, P.R.2
Griffiths, J.M.3
Simon, E.J.4
Auger, M.5
Halverson, K.J.6
-
18
-
-
0034649352
-
Amyloid fibril formation by Aβ (16-22), a seven-residue fragment of the Alzheimer's β-amyloid peptide, and structural characterization by solid state NMR
-
J.J. Balbach, Y. Ishii, O.N. Antzutkin, R.D. Leapman, N.W. Rizzo, and F. Dyda Amyloid fibril formation by Aβ (16-22), a seven-residue fragment of the Alzheimer's β-amyloid peptide, and structural characterization by solid state NMR Biochemistry 39 2000 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
-
19
-
-
0344255649
-
Solid state NMR reveals a pH-dependent antiparallel beta-sheet registry in fibrils formed by a beta-amyloid peptide
-
A.T. Petkova, G. Buntkowsky, F. Dyda, R.D. Leapman, W.M. Yau, and R. Tycko Solid state NMR reveals a pH-dependent antiparallel beta-sheet registry in fibrils formed by a beta-amyloid peptide J. Mol. Biol. 335 2004 247 260
-
(2004)
J. Mol. Biol.
, vol.335
, pp. 247-260
-
-
Petkova, A.T.1
Buntkowsky, G.2
Dyda, F.3
Leapman, R.D.4
Yau, W.M.5
Tycko, R.6
-
20
-
-
0038209242
-
Constraints on supramolecular structure in amyloid fibrils from two-dimensional solid-state NMR spectroscopy with uniform isotopic labeling
-
R. Tycko, and Y. Ishii Constraints on supramolecular structure in amyloid fibrils from two-dimensional solid-state NMR spectroscopy with uniform isotopic labeling J. Am. Chem. Soc. 125 2003 6606 6607
-
(2003)
J. Am. Chem. Soc.
, vol.125
, pp. 6606-6607
-
-
Tycko, R.1
Ishii, Y.2
-
21
-
-
0037960361
-
Site-specific identification of non-β-strand conformations in Alzheimer's β-amyloid fibrils by solid-state NMR
-
O.N. Antzutkin, J.J. Balbach, and R. Tycko Site-specific identification of non-β-strand conformations in Alzheimer's β-amyloid fibrils by solid-state NMR Biophys. J. 84 2003 3326 3335
-
(2003)
Biophys. J.
, vol.84
, pp. 3326-3335
-
-
Antzutkin, O.N.1
Balbach, J.J.2
Tycko, R.3
-
22
-
-
0037174998
-
Structural and dynamic features of Alzheimer's Aβ peptide in amyloid fibrils studied by site-directed spin labeling
-
M. Torok, S. Milton, R. Kayed, P. Wu, T. McIntire, C.G. Glabe, and R. Langen Structural and dynamic features of Alzheimer's Aβ peptide in amyloid fibrils studied by site-directed spin labeling J. Biol. Chem. 277 2002 40810 40815
-
(2002)
J. Biol. Chem.
, vol.277
, pp. 40810-40815
-
-
Torok, M.1
Milton, S.2
Kayed, R.3
Wu, P.4
McIntire, T.5
Glabe, C.G.6
Langen, R.7
-
23
-
-
0041343061
-
A general model for amyloid fibril assembly based on morphological studies using atomic force microscopy
-
R. Khurana, C. Ionescu-Zanetti, M. Pope, J. Li, L. Nielson, and M. Ramirez-Alvarado A general model for amyloid fibril assembly based on morphological studies using atomic force microscopy Biophys. J. 85 2003 1135 1144
-
(2003)
Biophys. J.
, vol.85
, pp. 1135-1144
-
-
Khurana, R.1
Ionescu-Zanetti, C.2
Pope, M.3
Li, J.4
Nielson, L.5
Ramirez-Alvarado, M.6
-
24
-
-
0345060507
-
Aβ protofibrils possess a stable core structure resistant to hydrogen exchange
-
I. Kheterpal, H.A. Lashuel, D.M. Hartley, T. Walz, P.T. Lansbury Jr, and R. Wetzel Aβ protofibrils possess a stable core structure resistant to hydrogen exchange Biochemistry 42 2003 14092 14098
-
(2003)
Biochemistry
, vol.42
, pp. 14092-14098
-
-
Kheterpal, I.1
Lashuel, H.A.2
Hartley, D.M.3
Walz, T.4
Lansbury Jr., P.T.5
Wetzel, R.6
-
25
-
-
1542600164
-
Mapping Aβ amyloid fibril secondary structure using scanning proline mutagenesis
-
A.D. Williams, E. Portelius, I. Kheterpal, J.-T. Guo, K.D. Cook, Y. Xu, and R. Wetzel Mapping Aβ amyloid fibril secondary structure using scanning proline mutagenesis J. Mol. Biol. 335 2004 833 842
-
(2004)
J. Mol. Biol.
, vol.335
, pp. 833-842
-
-
Williams, A.D.1
Portelius, E.2
Kheterpal, I.3
Guo, J.-T.4
Cook, K.D.5
Xu, Y.6
Wetzel, R.7
-
26
-
-
5044235541
-
Prediction of sequence-dependent and mutational effects on the aggregation of peptides and proteins
-
A.-M. Fernandez-Escamilla, F. Rousseau, J. Schymkowitz, and L. Serrano Prediction of sequence-dependent and mutational effects on the aggregation of peptides and proteins Nature Biotechnol. 22 2004 1302 1306
-
(2004)
Nature Biotechnol.
, vol.22
, pp. 1302-1306
-
-
Fernandez-Escamilla, A.-M.1
Rousseau, F.2
Schymkowitz, J.3
Serrano, L.4
-
27
-
-
0033849965
-
Studies on the in vitro assembly of Aβ 1-40: Implications for the search for Aβ fibril formation inhibitors
-
C.S. Goldsbury, S. Wirtz, S.A. Muller, S. Sunderji, P. Wicki, U. Aebi, and P. Frey Studies on the in vitro assembly of Aβ 1-40: implications for the search for Aβ fibril formation inhibitors J. Struct. Biol. 130 2000 217 231
-
(2000)
J. Struct. Biol.
, vol.130
, pp. 217-231
-
-
Goldsbury, C.S.1
Wirtz, S.2
Muller, S.A.3
Sunderji, S.4
Wicki, P.5
Aebi, U.6
Frey, P.7
-
28
-
-
0035133048
-
Simulation study of the structure and dynamics of the Alzheimer's amyloid peptide congener in solution
-
F. Massi, J.W. Peng, J.P. Lee, and J.E. Straub Simulation study of the structure and dynamics of the Alzheimer's amyloid peptide congener in solution Biophys. J. 80 2001 31 44
-
(2001)
Biophys. J.
, vol.80
, pp. 31-44
-
-
Massi, F.1
Peng, J.W.2
Lee, J.P.3
Straub, J.E.4
-
29
-
-
0036280438
-
Long time dynamic simulations: Exploring the folding pathways of an Alzheimer's amyloid Aβ-peptide
-
J.E. Straub, J. Guevara, S.H. Huo, and J.P. Lee Long time dynamic simulations: exploring the folding pathways of an Alzheimer's amyloid Aβ-peptide Accts Chem. Res. 35 2002 473 481
-
(2002)
Accts Chem. Res.
, vol.35
, pp. 473-481
-
-
Straub, J.E.1
Guevara, J.2
Huo, S.H.3
Lee, J.P.4
-
30
-
-
0037195098
-
Stabilities and conformations of Alzheimer's β-amyloid peptide oligomers (Aβ (16-22), Aβ (16-35) and Aβ (10-35)): Sequence effects
-
B.Y. Ma, and R. Nussinov Stabilities and conformations of Alzheimer's β-amyloid peptide oligomers (Aβ (16-22), Aβ (16-35) and Aβ (10-35)): sequence effects Proc. Natl Acad. Sci. USA 99 2002 14126 14131
-
(2002)
Proc. Natl Acad. Sci. USA
, vol.99
, pp. 14126-14131
-
-
Ma, B.Y.1
Nussinov, R.2
-
31
-
-
0037337271
-
Dissecting the assembly of Aβ (16-22) amyloid peptides into antiparallel β sheets
-
D.K. Klimov, and D. Thirumalai Dissecting the assembly of Aβ (16-22) amyloid peptides into antiparallel β sheets Structure 11 2003 295 307
-
(2003)
Structure
, vol.11
, pp. 295-307
-
-
Klimov, D.K.1
Thirumalai, D.2
-
32
-
-
4444346811
-
Kinetic control of dimer structure formation in amyloid fibrillogenesis
-
W. Hwang, S. Zhang, R.D. Kamm, and M. Karplus Kinetic control of dimer structure formation in amyloid fibrillogenesis Proc. Natl Acad. Sci. USA 101 2004 12916 12921
-
(2004)
Proc. Natl Acad. Sci. USA
, vol.101
, pp. 12916-12921
-
-
Hwang, W.1
Zhang, S.2
Kamm, R.D.3
Karplus, M.4
-
34
-
-
10644242867
-
Molecular dynamics simulation of amyloid β dimer formation
-
B. Urbanc, L. Cruz, F. Ding, D. Sammond, S. Khare, and S.V. Buldyrev Molecular dynamics simulation of amyloid β dimer formation Biophys. J. 87 2004 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
-
35
-
-
11844255790
-
10-35- protein: Assessing the propensity for peptide dimerization
-
10-35-protein: assessing the propensity for peptide dimerization J. Mol. Biol. 345 2005 1141 1156
-
(2005)
J. Mol. Biol.
, vol.345
, pp. 1141-1156
-
-
Tarus, B.1
Straub, J.E.2
Thirumalai, D.3
-
37
-
-
17244372981
-
Conformational transition of amyloid β-peptide
-
Y. Xu, J. Shen, X. Luo, W. Zhu, K. Chen, J. Ma, and H. Jiang Conformational transition of amyloid β-peptide Proc. Natl Acad. Sci. USA 102 2005 5403 5407
-
(2005)
Proc. Natl Acad. Sci. USA
, vol.102
, pp. 5403-5407
-
-
Xu, Y.1
Shen, J.2
Luo, X.3
Zhu, W.4
Chen, K.5
Ma, J.6
Jiang, H.7
-
38
-
-
0032539573
-
Amyloid fibrils may be assembled from beta-helical protofibrils
-
N.D. Lazo, and D.T. Downing Amyloid fibrils may be assembled from beta-helical protofibrils Biochemistry 3 1998 1731 1735
-
(1998)
Biochemistry
, vol.3
, pp. 1731-1735
-
-
Lazo, N.D.1
Downing, D.T.2
-
39
-
-
0031766850
-
Molecular simulation of the primary and secondary structures of the Aβ(1-42)-peptide of Alzheimer's disease
-
P.P. Mager Molecular simulation of the primary and secondary structures of the Aβ(1-42)-peptide of Alzheimer's disease Med. Res. Rev. 18 1998 403 430
-
(1998)
Med. Res. Rev.
, vol.18
, pp. 403-430
-
-
Mager, P.P.1
-
40
-
-
0033617220
-
A molecular model of Alzheimer amyloid beta-peptide fibril formation
-
L.O. Tjernberg, D.J.E. Callaway, A. Tjernberg, S. Hahne, C. Lilliehook, and L. Terenius A molecular model of Alzheimer amyloid beta-peptide fibril formation J. Biol. Chem. 274 1999 12619 12625
-
(1999)
J. Biol. Chem.
, vol.274
, pp. 12619-12625
-
-
Tjernberg, L.O.1
Callaway, D.J.E.2
Tjernberg, A.3
Hahne, S.4
Lilliehook, C.5
Terenius, L.6
-
41
-
-
0037103821
-
Assembling amyloid fibrils from designed structures containing a significant amyloid beta-peptide fragment
-
L.O. Tjernberg, A. Tjernberg, N. Bark, Y. Shi, B.P. Ruzsicska, and Z.M. Bu Assembling amyloid fibrils from designed structures containing a significant amyloid beta-peptide fragment Biochem. J. 366 2002 343 351
-
(2002)
Biochem. J.
, vol.366
, pp. 343-351
-
-
Tjernberg, L.O.1
Tjernberg, A.2
Bark, N.3
Shi, Y.4
Ruzsicska, B.P.5
Bu, Z.M.6
-
42
-
-
0033040551
-
An atomic model for the pleated β-sheet structure of Aβ amyloid protofilaments
-
L. Li, T.A. Darden, L. Bartolotti, D. Kominos, and L.G. Pedersen An atomic model for the pleated β-sheet structure of Aβ amyloid protofilaments Biophys. J. 76 1999 2871 2878
-
(1999)
Biophys. J.
, vol.76
, pp. 2871-2878
-
-
Li, L.1
Darden, T.A.2
Bartolotti, L.3
Kominos, D.4
Pedersen, L.G.5
-
43
-
-
0032729982
-
Computationally derived structural models of the beta-amyloid found in Alzheimer's disease plaques and the interaction with possible aggregation inhibitors
-
A.R. George, and D.R. Howlett Computationally derived structural models of the beta-amyloid found in Alzheimer's disease plaques and the interaction with possible aggregation inhibitors Biopolymers 50 1999 733 741
-
(1999)
Biopolymers
, vol.50
, pp. 733-741
-
-
George, A.R.1
Howlett, D.R.2
-
45
-
-
0035797795
-
Structural features of the Aβ amyloid fibril elucidated by limited proteolysis
-
I. Kheterpal, A. Williams, C. Murphy, B. Bledsoe, and R. Wetzel Structural features of the Aβ amyloid fibril elucidated by limited proteolysis Biochemistry 40 2001 11757 11767
-
(2001)
Biochemistry
, vol.40
, pp. 11757-11767
-
-
Kheterpal, I.1
Williams, A.2
Murphy, C.3
Bledsoe, B.4
Wetzel, R.5
-
46
-
-
0037372212
-
Enhanced correction methods for hydrogen exchange-mass spectrometric studies of amyloid fibrils
-
I. Kheterpal, R. Wetzel, and K.D. Cook Enhanced correction methods for hydrogen exchange-mass spectrometric studies of amyloid fibrils Protein Sci. 12 2003 635 643
-
(2003)
Protein Sci.
, vol.12
, pp. 635-643
-
-
Kheterpal, I.1
Wetzel, R.2
Cook, K.D.3
-
47
-
-
0000020246
-
A five-site model for liquid water and the reproduction of the density anomaly by rigid, nonpolarizable potential functions
-
M.W. Mahoney, and W.L. Jorgensen A five-site model for liquid water and the reproduction of the density anomaly by rigid, nonpolarizable potential functions J. Chem. Phys. 112 2000 8910 8922
-
(2000)
J. Chem. Phys.
, vol.112
, pp. 8910-8922
-
-
Mahoney, M.W.1
Jorgensen, W.L.2
-
49
-
-
0033003335
-
Protein backbone angle restraints from searching a database for chemical shift and sequence homology
-
G. Cornilescu, F. Delaglio, and A. Bax Protein backbone angle restraints from searching a database for chemical shift and sequence homology J. Biomol. NMR 13 1999 289 302
-
(1999)
J. Biomol. NMR
, vol.13
, pp. 289-302
-
-
Cornilescu, G.1
Delaglio, F.2
Bax, A.3
-
50
-
-
0031962158
-
Structural analysis of Alzheimer's β(1-40) amyloid: Protofilament assembly of tubular fibrils
-
S.B. Malinchik, H. Inouye, K.E. Szumowski, and D.A. Kirschner Structural analysis of Alzheimer's β(1-40) amyloid: protofilament assembly of tubular fibrils Biophys. J. 74 1998 537 545
-
(1998)
Biophys. J.
, vol.74
, pp. 537-545
-
-
Malinchik, S.B.1
Inouye, H.2
Szumowski, K.E.3
Kirschner, D.A.4
-
52
-
-
1242340413
-
β-Helix is a likely core structure of yeast prion Sup35 amyloid fiber
-
A. Kishimoto, K. Hasegawa, H. Suzuki, H. Taguchi, K. Namba, and M. Yoshida β-Helix is a likely core structure of yeast prion Sup35 amyloid fiber Biochem. Biophys. Res. Commun. 315 2004 739 745
-
(2004)
Biochem. Biophys. Res. Commun.
, vol.315
, pp. 739-745
-
-
Kishimoto, A.1
Hasegawa, K.2
Suzuki, H.3
Taguchi, H.4
Namba, K.5
Yoshida, M.6
-
53
-
-
0037197254
-
Novel computer program for fast exact calculation of accessible and molecular surface areas and average surface curvature
-
O.V. Tsodikov, M.T. Record, and Y.V. Sergeev Novel computer program for fast exact calculation of accessible and molecular surface areas and average surface curvature J. Comput. Chem. 23 2002 600 609
-
(2002)
J. Comput. Chem.
, vol.23
, pp. 600-609
-
-
Tsodikov, O.V.1
Record, M.T.2
Sergeev, Y.V.3
-
54
-
-
0038309560
-
Analysis of accessible surface of residues in proteins
-
L. Lins, A. Thomas, and R. Brasseur Analysis of accessible surface of residues in proteins Protein Sci. 12 2003 1406 1417
-
(2003)
Protein Sci.
, vol.12
, pp. 1406-1417
-
-
Lins, L.1
Thomas, A.2
Brasseur, R.3
-
55
-
-
0033954256
-
The Protein Data Bank
-
H.M. Berman, J. Westbrook, Z. Feng, G. Gilliland, T.N. Bhat, and H. Weissig The Protein Data Bank Nucl. Acids Res. 28 2000 235 242
-
(2000)
Nucl. Acids Res.
, vol.28
, pp. 235-242
-
-
Berman, H.M.1
Westbrook, J.2
Feng, Z.3
Gilliland, G.4
Bhat, T.N.5
Weissig, H.6
-
56
-
-
0000095892
-
A united-residue force field for off-lattice protein-structure simulations. I. Functional forms and parameters of long-range side-chain interaction potentials from protein crystal data
-
A. Liwo, S. Oldziej, M.R. Pincus, R.J. Wawak, S. Rackovsky, and H.A. Scheraga A united-residue force field for off-lattice protein-structure simulations. I. Functional forms and parameters of long-range side-chain interaction potentials from protein crystal data J. Comput. Chem. 18 1997 849 873
-
(1997)
J. Comput. Chem.
, vol.18
, pp. 849-873
-
-
Liwo, A.1
Oldziej, S.2
Pincus, M.R.3
Wawak, R.J.4
Rackovsky, S.5
Scheraga, H.A.6
-
57
-
-
1842454935
-
Orientational potentials extracted from protein structures improve native fold recognition
-
N.-V. Buchete, J.E. Straub, and D. Thirumalai Orientational potentials extracted from protein structures improve native fold recognition Protein Sci. 13 2004 862 874
-
(2004)
Protein Sci.
, vol.13
, pp. 862-874
-
-
Buchete, N.-V.1
Straub, J.E.2
Thirumalai, D.3
-
58
-
-
0017429069
-
Areas, volumes, packing, and protein-structure
-
F.M. Richards Areas, volumes, packing, and protein-structure Annu. Rev. Biophys. Biol. 6 1977 151 176
-
(1977)
Annu. Rev. Biophys. Biol.
, vol.6
, pp. 151-176
-
-
Richards, F.M.1
-
59
-
-
0036700020
-
Quantifying the accessible surface area of protein residues in their local environment
-
U. Samanta, R.P. Bahadur, and P. Chakrabarti Quantifying the accessible surface area of protein residues in their local environment Protein Eng. 15 2002 659 667
-
(2002)
Protein Eng.
, vol.15
, pp. 659-667
-
-
Samanta, U.1
Bahadur, R.P.2
Chakrabarti, P.3
-
61
-
-
0142123115
-
Biomolecular hydration: From water dynamics to hydrodynamics
-
B. Halle, and M. Davidovic Biomolecular hydration: from water dynamics to hydrodynamics Proc. Natl Acad. Sci. USA 100 2003 12135 12140
-
(2003)
Proc. Natl Acad. Sci. USA
, vol.100
, pp. 12135-12140
-
-
Halle, B.1
Davidovic, M.2
-
62
-
-
0037176280
-
Dynamics and fluidity of amyloid fibrils: A model of fibrous protein aggregates
-
A.S. Lakdawala, D.M. Morgan, D.C. Liotta, D.G. Lynn, and J.P. Snyder Dynamics and fluidity of amyloid fibrils: a model of fibrous protein aggregates J. Am. Chem. Soc. 124 2002 15150 15151
-
(2002)
J. Am. Chem. Soc.
, vol.124
, pp. 15150-15151
-
-
Lakdawala, A.S.1
Morgan, D.M.2
Liotta, D.C.3
Lynn, D.G.4
Snyder, J.P.5
-
63
-
-
0035829539
-
Water conduction through the hydrophobic channel of a carbon nanotube
-
G. Hummer, J.C. Rasaiah, and J.P. Noworyta Water conduction through the hydrophobic channel of a carbon nanotube Nature 414 2001 188 190
-
(2001)
Nature
, vol.414
, pp. 188-190
-
-
Hummer, G.1
Rasaiah, J.C.2
Noworyta, J.P.3
-
64
-
-
0037397705
-
Emerging ideas on the molecular basis of protein and peptide aggregation
-
D. Thirumalai, D.K. Klimov, and R.I. Dima Emerging ideas on the molecular basis of protein and peptide aggregation Curr. Opin. Struct. Biol. 13 2003 146 159
-
(2003)
Curr. Opin. Struct. Biol.
, vol.13
, pp. 146-159
-
-
Thirumalai, D.1
Klimov, D.K.2
Dima, R.I.3
-
65
-
-
7244253098
-
Proteins associated with diseases show enhanced sequence correlation between charged residues
-
R.I. Dima, and D. Thirumalai Proteins associated with diseases show enhanced sequence correlation between charged residues Bioinformatics 20 2004 2345 2354
-
(2004)
Bioinformatics
, vol.20
, pp. 2345-2354
-
-
Dima, R.I.1
Thirumalai, D.2
-
66
-
-
0034730203
-
Designed protein tetramer zipped together with a hydrophobic Alzheimer homology: A structural clue to amyloid assembly
-
D.E. Otzen, O. Kristensen, and M. Oliveberg Designed protein tetramer zipped together with a hydrophobic Alzheimer homology: a structural clue to amyloid assembly Proc. Natl Acad. Sci. USA 97 2000 9907 9912
-
(2000)
Proc. Natl Acad. Sci. USA
, vol.97
, pp. 9907-9912
-
-
Otzen, D.E.1
Kristensen, O.2
Oliveberg, M.3
-
67
-
-
0037022563
-
Natural β-sheet proteins use negative design to avoid edge-to-edge aggregation
-
J.S. Richardson, and D.C. Richardson Natural β-sheet proteins use negative design to avoid edge-to-edge aggregation Proc. Natl Acad. Sci. USA 99 2002 2754 2759
-
(2002)
Proc. Natl Acad. Sci. USA
, vol.99
, pp. 2754-2759
-
-
Richardson, J.S.1
Richardson, D.C.2
-
68
-
-
0029008481
-
The biophysics of sickle-cell hydroxyurea therapy
-
W.A. Eaton, and J. Hofrichter The biophysics of sickle-cell hydroxyurea therapy Science 268 1995 1142 1143
-
(1995)
Science
, vol.268
, pp. 1142-1143
-
-
Eaton, W.A.1
Hofrichter, J.2
-
70
-
-
0037117499
-
Aggregation of proteins with expanded glutamine and alanine repeats of the glutamine-rich and asparagine-rich domains of Sup35 and of the amyloid beta-peptide of amyloid plaques
-
M.F. Perutz, B.J. Pope, D. Owen, E.E. Wanker, and E. Scherzinger Aggregation of proteins with expanded glutamine and alanine repeats of the glutamine-rich and asparagine-rich domains of Sup35 and of the amyloid beta-peptide of amyloid plaques Proc. Natl Acad. Sci. USA 99 2002 5596 5600
-
(2002)
Proc. Natl Acad. Sci. USA
, vol.99
, pp. 5596-5600
-
-
Perutz, M.F.1
Pope, B.J.2
Owen, D.3
Wanker, E.E.4
Scherzinger, E.5
-
71
-
-
4744359865
-
Insights into amyloid structural formation and assembly through computational approaches
-
D. Zanuy, K. Gunasekaran, B.Y. Ma, H.H. Tsai, C.J. Tsai, and R. Nussinov Insights into amyloid structural formation and assembly through computational approaches Amyloid: J. Protein Fold. Disord. 11 2004 143 161
-
(2004)
Amyloid: J. Protein Fold. Disord.
, vol.11
, pp. 143-161
-
-
Zanuy, D.1
Gunasekaran, K.2
Ma, B.Y.3
Tsai, H.H.4
Tsai, C.J.5
Nussinov, R.6
-
72
-
-
0042415783
-
NAMD2: Greater scalability for parallel molecular dynamics
-
L. Kale, R. Skeel, M. Bhandarkar, R. Brunner, G. A, N. Krawetz, and J. Phillips NAMD2: greater scalability for parallel molecular dynamics J. Comput. Phys. 151 1999 283 312
-
(1999)
J. Comput. Phys.
, vol.151
, pp. 283-312
-
-
Kale, L.1
Skeel, R.2
Bhandarkar, M.3
Brunner, R.4
Krawetz, N.5
Phillips, J.6
-
73
-
-
0041784950
-
All-atom empirical potential for molecular modeling and dynamics studies of proteins
-
A.D. MacKerell, D. Bashford, M. Bellott, R.L. Dunbrack, J.D. Evanseck, and M.J. Field All-atom empirical potential for molecular modeling and dynamics studies of proteins J. Phys. Chem. B 102 1998 3586 3616
-
(1998)
J. Phys. Chem. B
, vol.102
, pp. 3586-3616
-
-
MacKerell, A.D.1
Bashford, D.2
Bellott, M.3
Dunbrack, R.L.4
Evanseck, J.D.5
Field, M.J.6
-
74
-
-
0029011701
-
A 2nd generation force-field for the simulation of proteins, nucleic-acids, and organic-molecules
-
W.D. Cornell, P. Cieplak, C.I. Bayly, I.R. Gould, K.M. Merz, and D.M. Ferguson A 2nd generation force-field for the simulation of proteins, nucleic-acids, and organic-molecules J. Am. Chem. Soc. 117 1995 5179 5197
-
(1995)
J. Am. Chem. Soc.
, vol.117
, pp. 5179-5197
-
-
Cornell, W.D.1
Cieplak, P.2
Bayly, C.I.3
Gould, I.R.4
Merz, K.M.5
Ferguson, D.M.6
-
75
-
-
0037022662
-
Alpha-helical stabilization by side chain shielding of backbone hydrogen bonds
-
A.E. García, and K.Y. Sanbonmatsu Alpha-helical stabilization by side chain shielding of backbone hydrogen bonds Proc. Natl Acad. Sci. USA 99 2002 2782 2787
-
(2002)
Proc. Natl Acad. Sci. USA
, vol.99
, pp. 2782-2787
-
-
García, A.E.1
Sanbonmatsu, K.Y.2
-
76
-
-
0004016501
-
Comparison of simple potential functions for simulating liquid water
-
W.L. Jorgensen, J. Chandrasekhar, J.D. Madura, R.W. Impey, and M.L. Klein Comparison of simple potential functions for simulating liquid water J. Chem. Phys. 79 1983 926 935
-
(1983)
J. Chem. Phys.
, vol.79
, pp. 926-935
-
-
Jorgensen, W.L.1
Chandrasekhar, J.2
Madura, J.D.3
Impey, R.W.4
Klein, M.L.5
-
77
-
-
36449003554
-
Constant-pressure molecular-dynamics algorithms
-
G.J. Martyna, D.J. Tobias, and M.L. Klein Constant-pressure molecular-dynamics algorithms J. Chem. Phys. 101 1994 4177 4189
-
(1994)
J. Chem. Phys.
, vol.101
, pp. 4177-4189
-
-
Martyna, G.J.1
Tobias, D.J.2
Klein, M.L.3
-
78
-
-
36449007836
-
Constant-pressure molecular-dynamics simulation-the Langevin piston method
-
S.E. Feller, Y.H. Zhang, R.W. Pastor, and B.R. Brooks Constant-pressure molecular-dynamics simulation-the Langevin piston method J. Chem. Phys. 103 1995 4613 4621
-
(1995)
J. Chem. Phys.
, vol.103
, pp. 4613-4621
-
-
Feller, S.E.1
Zhang, Y.H.2
Pastor, R.W.3
Brooks, B.R.4
-
79
-
-
33846823909
-
Particle Mesh Ewald-an N log(N) method for Ewald sums in large systems
-
T. Darden, D. York, and L. Pedersen Particle Mesh Ewald-an N log(N) method for Ewald sums in large systems J. Chem. Phys. 98 1993 10089 10092
-
(1993)
J. Chem. Phys.
, vol.98
, pp. 10089-10092
-
-
Darden, T.1
York, D.2
Pedersen, L.3
-
80
-
-
0042511005
-
A graph-theory algorithm for rapid protein side-chain prediction
-
A.A. Canutescu, A.A. Shelenkov, and R.L. Dunbrack A graph-theory algorithm for rapid protein side-chain prediction Protein Sci. 12 2003 2001 2014
-
(2003)
Protein Sci.
, vol.12
, pp. 2001-2014
-
-
Canutescu, A.A.1
Shelenkov, A.A.2
Dunbrack, R.L.3
-
82
-
-
0030815133
-
Raster3D: Photorealistic molecular graphics
-
E.A. Merritt, and D.J. Bacon Raster3D: photorealistic molecular graphics Methods Enzymol. 277 1997 505 524
-
(1997)
Methods Enzymol.
, vol.277
, pp. 505-524
-
-
Merritt, E.A.1
Bacon, D.J.2
|