-
1
-
-
84869887960
-
Structural features and cytotoxicity of amyloid oligomers: Implications in Alzheimer's disease and other diseases with amyloid deposits
-
- 245
-
Stefani, M. (2012) Structural features and cytotoxicity of amyloid oligomers: Implications in Alzheimer's disease and other diseases with amyloid deposits Prog. Neurobiol. 99, 226-245
-
(2012)
Prog. Neurobiol.
, vol.99
, pp. 226
-
-
Stefani, M.1
-
2
-
-
84858374665
-
The Amyloid State of Proteins in Human Diseases
-
- 1203
-
Eisenberg, D. and Jucker, M. (2012) The Amyloid State of Proteins in Human Diseases Cell 148, 1188-1203
-
(2012)
Cell
, vol.148
, pp. 1188
-
-
Eisenberg, D.1
Jucker, M.2
-
3
-
-
84873809834
-
Single Molecule Characterization of the Interactions between Amyloid-beta Peptides and the Membranes of Hippocampal Cells
-
- 1498
-
Narayan, P., Ganzinger, K. A., McColl, J., Weimann, L., Meehan, S., Qamar, S., Carver, J. A., Wilson, M. R., George-Hyslop, P. S., Dobson, C. M., and Klenerman, D. (2013) Single Molecule Characterization of the Interactions between Amyloid-beta Peptides and the Membranes of Hippocampal Cells J. Am. Chem. Soc. 135, 1491-1498
-
(2013)
J. Am. Chem. Soc.
, vol.135
, pp. 1491
-
-
Narayan, P.1
Ganzinger, K.A.2
McColl, J.3
Weimann, L.4
Meehan, S.5
Qamar, S.6
Carver, J.A.7
Wilson, M.R.8
George-Hyslop, P.S.9
Dobson, C.M.10
Klenerman, D.11
-
4
-
-
77955881152
-
ANS Binding Reveals Common Features of Cytotoxic Amyloid Species
-
- 740
-
Bolognesi, B., Kumita, J. R., Barros, T. P., Esbjorner, E. K., Luheshi, L. M., Crowther, D. C., Wilson, M. R., Dobson, C. M., Favrin, G., and Yerbury, J. J. (2010) ANS Binding Reveals Common Features of Cytotoxic Amyloid Species ACS Chem. Biol. 5, 735-740
-
(2010)
ACS Chem. Biol.
, vol.5
, pp. 735
-
-
Bolognesi, B.1
Kumita, J.R.2
Barros, T.P.3
Esbjorner, E.K.4
Luheshi, L.M.5
Crowther, D.C.6
Wilson, M.R.7
Dobson, C.M.8
Favrin, G.9
Yerbury, J.J.10
-
5
-
-
0242668337
-
Common structure of soluble amyloid oligomers implies common mechanism of pathogenesis
-
- 489
-
Kayed, R., Head, E., Thompson, J. L., McIntire, T. M., Milton, S. C., Cotman, C. W., and Glabe, C. G. (2003) Common structure of soluble amyloid oligomers implies common mechanism of pathogenesis Science 300, 486-489
-
(2003)
Science
, vol.300
, pp. 486
-
-
Kayed, R.1
Head, E.2
Thompson, J.L.3
McIntire, T.M.4
Milton, S.C.5
Cotman, C.W.6
Glabe, C.G.7
-
6
-
-
84863229747
-
Atomic View of a Toxic Amyloid Small Oligomer
-
- 1231
-
Laganowsky, A., Liu, C., Sawaya, M. R., Whitelegge, J. P., Park, J., Zhao, M. L., Pensalfini, A., Soriaga, A. B., Landau, M., Teng, P. K., Cascio, D., Glabe, C., and Eisenberg, D. (2012) Atomic View of a Toxic Amyloid Small Oligomer Science 335, 1228-1231
-
(2012)
Science
, vol.335
, pp. 1228
-
-
Laganowsky, A.1
Liu, C.2
Sawaya, M.R.3
Whitelegge, J.P.4
Park, J.5
Zhao, M.L.6
Pensalfini, A.7
Soriaga, A.B.8
Landau, M.9
Teng, P.K.10
Cascio, D.11
Glabe, C.12
Eisenberg, D.13
-
7
-
-
77949905345
-
Fibrillar Oligomers Nucleate the Oligomerization of Monomeric Amyloid beta but Do Not Seed Fibril Formation
-
- 6079
-
Wu, J. W., Breydo, L., Isas, J. M., Lee, J., Kuznetsov, Y. G., Langen, R., and Glabe, C. (2010) Fibrillar Oligomers Nucleate the Oligomerization of Monomeric Amyloid beta but Do Not Seed Fibril Formation J. Biol. Chem. 285, 6071-6079
-
(2010)
J. Biol. Chem.
, vol.285
, pp. 6071
-
-
Wu, J.W.1
Breydo, L.2
Isas, J.M.3
Lee, J.4
Kuznetsov, Y.G.5
Langen, R.6
Glabe, C.7
-
8
-
-
84871398573
-
Out-of-register β-sheets suggest a pathway to toxic amyloid aggregates
-
Liu C, Z. M., Jiang, L., Cheng, P. N., Park, J., Sawaya, M. R., Pensalfini, A., Gou, D., Berk, A. J., Glabe, C. G., Nowick, J., and Eisenberg, D. (2012) Out-of-register β-sheets suggest a pathway to toxic amyloid aggregates Proc. Natl. Acad. Sci. U.S.A. 109, 20913
-
(2012)
Proc. Natl. Acad. Sci. U.S.A.
, vol.109
, pp. 20913
-
-
Liu, C.Z.M.1
Jiang, L.2
Cheng, P.N.3
Park, J.4
Sawaya, M.R.5
Pensalfini, A.6
Gou, D.7
Berk, A.J.8
Glabe, C.G.9
Nowick, J.10
Eisenberg, D.11
-
9
-
-
0032764016
-
Diabetes mellitus and the risk of dementia - The Rotterdam Study
-
- 1942
-
Ott, A., Stolk, R. P., van Harskamp, F., Pols, H. A. P., Hofman, A., and Breteler, M. M. B. (1999) Diabetes mellitus and the risk of dementia-The Rotterdam Study Neurology 53, 1937-1942
-
(1999)
Neurology
, vol.53
, pp. 1937
-
-
Ott, A.1
Stolk, R.P.2
Van Harskamp, F.3
Pols, H.A.P.4
Hofman, A.5
Breteler, M.M.B.6
-
10
-
-
84861450111
-
Diabetes as a risk factor for dementia and mild cognitive impairment: A meta-analysis of longitudinal studies
-
- 491
-
Cheng, G., Huang, C., Deng, H., and Wang, H. (2012) Diabetes as a risk factor for dementia and mild cognitive impairment: A meta-analysis of longitudinal studies Intern. Med. J. 42, 484-491
-
(2012)
Intern. Med. J.
, vol.42
, pp. 484
-
-
Cheng, G.1
Huang, C.2
Deng, H.3
Wang, H.4
-
11
-
-
0842309993
-
Increased risk of type 2 diabetes in Alzheimer disease
-
- 481
-
Janson, J., Laedtke, T., Parisi, J. E., O'Brien, P., Petersen, R. C., and Butler, P. C. (2004) Increased risk of type 2 diabetes in Alzheimer disease Diabetes 53, 474-481
-
(2004)
Diabetes
, vol.53
, pp. 474
-
-
Janson, J.1
Laedtke, T.2
Parisi, J.E.3
O'Brien, P.4
Petersen, R.C.5
Butler, P.C.6
-
12
-
-
84875441209
-
Amyloid-beta Induces Hepatic Insulin Resistance in Vivo via JAK2
-
- 1166
-
Zhang, Y., Zhou, B., Deng, B., Zhang, F., Wu, J. X., Wang, Y. G., Le, Y. Y., and Zhai, Q. W. (2013) Amyloid-beta Induces Hepatic Insulin Resistance In Vivo via JAK2 Diabetes 62, 1159-1166
-
(2013)
Diabetes
, vol.62
, pp. 1159
-
-
Zhang, Y.1
Zhou, B.2
Deng, B.3
Zhang, F.4
Wu, J.X.5
Wang, Y.G.6
Le, Y.Y.7
Zhai, Q.W.8
-
13
-
-
84875468297
-
Plasma A beta: A Possible Missing Link between Alzheimer Disease and Diabetes
-
- 1006
-
Sato, N. and Morishita, R. (2013) Plasma A beta: A Possible Missing Link Between Alzheimer Disease and Diabetes Diabetes 62, 1005-1006
-
(2013)
Diabetes
, vol.62
, pp. 1005
-
-
Sato, N.1
Morishita, R.2
-
14
-
-
0028303844
-
Pancreatic-islet cell toxicity of amylin associated with type-2 diabetes-mellitus
-
- 760
-
Lorenzo, A., Razzaboni, B., Weir, G. C., and Yankner, B. A. (1994) Pancreatic-islet cell toxicity of amylin associated with type-2 diabetes-mellitus Nature 368, 756-760
-
(1994)
Nature
, vol.368
, pp. 756
-
-
Lorenzo, A.1
Razzaboni, B.2
Weir, G.C.3
Yankner, B.A.4
-
15
-
-
0034632806
-
Islet amyloid and type 2 diabetes mellitus
-
- 419
-
Hoppener, J. W. M., Ahren, B., and Lips, C. J. M. (2000) Islet amyloid and type 2 diabetes mellitus N. Engl. J. Med. 343, 411-419
-
(2000)
N. Engl. J. Med.
, vol.343
, pp. 411
-
-
Hoppener, J.W.M.1
Ahren, B.2
Lips, C.J.M.3
-
16
-
-
2342444028
-
Seeding specificity in amyloid growth induced by heterologous fibrils
-
- 17499
-
O'Nuallain, B., Williams, A. D., Westermark, P., and Wetzel, R. (2004) Seeding specificity in amyloid growth induced by heterologous fibrils J. Biol. Chem. 279, 17490-17499
-
(2004)
J. Biol. Chem.
, vol.279
, pp. 17490
-
-
O'Nuallain, B.1
Williams, A.D.2
Westermark, P.3
Wetzel, R.4
-
17
-
-
77951177586
-
Identification of Hot Regions of the A beta-IAPP Interaction Interface as High-Affinity Binding Sites in both Cross- and Self-Association
-
- 3085
-
Andreetto, E., Yan, L. M., Tatarek-Nossol, M., Velkova, A., Frank, R., and Kapurniotu, A. (2010) Identification of Hot Regions of the A beta-IAPP Interaction Interface as High-Affinity Binding Sites in both Cross- and Self-Association Angew. Chem., Int. Ed. 49, 3081-3085
-
(2010)
Angew. Chem., Int. Ed.
, vol.49
, pp. 3081
-
-
Andreetto, E.1
Yan, L.M.2
Tatarek-Nossol, M.3
Velkova, A.4
Frank, R.5
Kapurniotu, A.6
-
18
-
-
0029661424
-
Analysis of heterogeneous beta A4 peptides in human cerebrospinal fluid and blood by a newly developed sensitive Western blot assay
-
- 22914
-
Ida, N., Hartmann, T., Pantel, J., Schroder, J., Zerfass, R., Forstl, H., Sandbrink, R., Masters, C. L., and Beyreuther, K. (1996) Analysis of heterogeneous beta A4 peptides in human cerebrospinal fluid and blood by a newly developed sensitive Western blot assay J. Biol. Chem. 271, 22908-22914
-
(1996)
J. Biol. Chem.
, vol.271
, pp. 22908
-
-
Ida, N.1
Hartmann, T.2
Pantel, J.3
Schroder, J.4
Zerfass, R.5
Forstl, H.6
Sandbrink, R.7
Masters, C.L.8
Beyreuther, K.9
-
19
-
-
0028844363
-
Permeability of the blood-brain-barrier to amylin
-
- 2001
-
Banks, W. A., Kastin, A. J., Maness, L. M., Huang, W. T., and Jaspan, J. B. (1995) Permeability of the blood-brain-barrier to amylin Life Sci. 57, 1993-2001
-
(1995)
Life Sci.
, vol.57
, pp. 1993
-
-
Banks, W.A.1
Kastin, A.J.2
Maness, L.M.3
Huang, W.T.4
Jaspan, J.B.5
-
20
-
-
84890121878
-
Amylin deposition in the brain: A second amyloid in Alzheimer's disease?
-
10.1002/ana.23956
-
Jackson, K., Barisone, G. A., Diaz, E., Jin, L. W., DeCarli, C., and Despa, F. (2013) Amylin deposition in the brain: a second amyloid in Alzheimer's disease? Annals of Neurology 10.1002/ana.23956
-
(2013)
Annals of Neurology
-
-
Jackson, K.1
Barisone, G.A.2
Diaz, E.3
Jin, L.W.4
Decarli, C.5
Despa, F.6
-
21
-
-
79959351077
-
Amyloid-beta Annular Protofibrils Evade Fibrillar Fate in Alzheimer Disease Brain
-
- 22130
-
Lasagna-Reeves, C. A., Glabe, C. G., and Kayed, R. (2011) Amyloid-beta Annular Protofibrils Evade Fibrillar Fate in Alzheimer Disease Brain J. Biol. Chem. 286, 22122-22130
-
(2011)
J. Biol. Chem.
, vol.286
, pp. 22122
-
-
Lasagna-Reeves, C.A.1
Glabe, C.G.2
Kayed, R.3
-
22
-
-
77955312210
-
Amyloidogenic Protein Membrane Interactions: Mechanistic Insight from Model Systems
-
- 5654
-
Butterfield, S. M. and Lashuel, H. A. (2010) Amyloidogenic Protein Membrane Interactions: Mechanistic Insight from Model Systems Angew. Chem., Int. Ed. 49, 5628-5654
-
(2010)
Angew. Chem., Int. Ed.
, vol.49
, pp. 5628
-
-
Butterfield, S.M.1
Lashuel, H.A.2
-
23
-
-
84863989280
-
Driving Forces and Structural Determinants of Steric Zipper Peptide Oligomer Formation Elucidated by Atomistic Simulations
-
- 416
-
Matthes, D., Gapsys, V., and de Groot, B. L. (2012) Driving Forces and Structural Determinants of Steric Zipper Peptide Oligomer Formation Elucidated by Atomistic Simulations J. Mol. Biol. 421, 390-416
-
(2012)
J. Mol. Biol.
, vol.421
, pp. 390
-
-
Matthes, D.1
Gapsys, V.2
De Groot, B.L.3
-
24
-
-
79953118623
-
Toward a Molecular Theory of Early and Late Events in Monomer to Amyloid Fibril Formation
-
In (Leone, S. R. Cremer, P. S. Groves, J. T. and Johnson, M. A. Eds.), Vol, pp, Annual Reviews, Palo Alto, CA. - 463
-
Straub, J. E. and Thirumalai, D. (2011) Toward a Molecular Theory of Early and Late Events in Monomer to Amyloid Fibril Formation. In Annual Review of Physical Chemistry (Leone, S. R., Cremer, P. S., Groves, J. T., and Johnson, M. A., Eds.), Vol 62, pp 437-463, Annual Reviews, Palo Alto, CA.
-
(2011)
Annual Review of Physical Chemistry
, vol.62
, pp. 437
-
-
Straub, J.E.1
Thirumalai, D.2
-
25
-
-
80051871883
-
Replica exchange molecular dynamics of the thermodynamics of fibril growth of Alzheimer's A beta(42) peptide
-
065101
-
Han, M. and Hansmann, U. H. E. (2011) Replica exchange molecular dynamics of the thermodynamics of fibril growth of Alzheimer's A beta(42) peptide J. Chem. Phys. 135 065101
-
(2011)
J. Chem. Phys.
, vol.135
-
-
Han, M.1
Hansmann, U.H.E.2
-
26
-
-
67749110404
-
Dynamics of locking of peptides onto growing amyloid fibrils
-
- 11953
-
Reddy, G., Straubb, J. E., and Thirumalai, D. (2009) Dynamics of locking of peptides onto growing amyloid fibrils Proc. Natl. Acad. Sci. U. S. A. 106, 11948-11953
-
(2009)
Proc. Natl. Acad. Sci. U. S. A.
, vol.106
, pp. 11948
-
-
Reddy, G.1
Straubb, J.E.2
Thirumalai, D.3
-
27
-
-
84862977174
-
Template Induced Conformational Change of Amyloid-beta Monomer
-
- 7405
-
Xi, W. H., Li, W. F., and Wang, W. (2012) Template Induced Conformational Change of Amyloid-beta Monomer J. Phys. Chem. B 116, 7398-7405
-
(2012)
J. Phys. Chem. B
, vol.116
, pp. 7398
-
-
Xi, W.H.1
Li, W.F.2
Wang, W.3
-
28
-
-
0033543141
-
Deposition of monomeric, not oligomeric, A beta mediates growth of Alzheimer's disease amyloid plaques in human brain preparations
-
- 10431
-
Tseng, B. P., Esler, W. P., Clish, C. B., Stimson, E. R., Ghilardi, J. R., Vinters, H. V., Mantyh, P. W., Lee, J. P., and Maggio, J. E. (1999) Deposition of monomeric, not oligomeric, A beta mediates growth of Alzheimer's disease amyloid plaques in human brain preparations Biochemistry 38, 10424-10431
-
(1999)
Biochemistry
, vol.38
, pp. 10424
-
-
Tseng, B.P.1
Esler, W.P.2
Clish, C.B.3
Stimson, E.R.4
Ghilardi, J.R.5
Vinters, H.V.6
Mantyh, P.W.7
Lee, J.P.8
Maggio, J.E.9
-
29
-
-
79958821061
-
Synergistic Interactions between Repeats in Tau Protein and A beta Amyloids May Be Responsible for Accelerated Aggregation via Polymorphic States
-
- 5181
-
Miller, Y., Ma, B. Y., and Nussinov, R. (2011) Synergistic Interactions between Repeats in Tau Protein and A beta Amyloids May Be Responsible for Accelerated Aggregation via Polymorphic States Biochemistry 50, 5172-5181
-
(2011)
Biochemistry
, vol.50
, pp. 5172
-
-
Miller, Y.1
Ma, B.Y.2
Nussinov, R.3
-
30
-
-
84860377014
-
Selective Molecular Recognition in Amyloid Growth and Transmission and Cross-Species Barriers
-
- 184
-
Ma, B. Y. and Nussinov, R. (2012) Selective Molecular Recognition in Amyloid Growth and Transmission and Cross-Species Barriers J. Mol. Biol. 421, 172-184
-
(2012)
J. Mol. Biol.
, vol.421
, pp. 172
-
-
Ma, B.Y.1
Nussinov, R.2
-
31
-
-
48249130117
-
On the paradigm shift towards multitarget selective drug design
-
- 90
-
Dessalew, N. and Mikre, W. (2008) On the paradigm shift towards multitarget selective drug design Curr. Comput.-Aided Drug Des. 4, 76-90
-
(2008)
Curr. Comput.-Aided Drug Des.
, vol.4
, pp. 76
-
-
Dessalew, N.1
Mikre, W.2
-
32
-
-
54249155522
-
Network pharmacology: The next paradigm in drug discovery
-
- 690
-
Hopkins, A. L. (2008) Network pharmacology: The next paradigm in drug discovery Nat. Chem. Biol. 4, 682-690
-
(2008)
Nat. Chem. Biol.
, vol.4
, pp. 682
-
-
Hopkins, A.L.1
-
33
-
-
84874819187
-
Expanding the Repertoire of Amyloid Polymorphs by Co-polymerization of Related Protein Precursors
-
- 7337
-
Sarell, C. J., Woods, L. A., Su, Y. C., Debelouchina, G. T., Ashcroft, A. E., Griffin, R. G., Stockley, P. G., and Radford, S. E. (2013) Expanding the Repertoire of Amyloid Polymorphs by Co-polymerization of Related Protein Precursors J. Biol. Chem. 288, 7327-7337
-
(2013)
J. Biol. Chem.
, vol.288
, pp. 7327
-
-
Sarell, C.J.1
Woods, L.A.2
Su, Y.C.3
Debelouchina, G.T.4
Ashcroft, A.E.5
Griffin, R.G.6
Stockley, P.G.7
Radford, S.E.8
-
34
-
-
67649807925
-
Conformational Switching within Individual Amyloid Fibrils
-
- 14395
-
Makarava, N., Ostapchenko, V. G., Savtchenko, R., and Baskakov, I. V. (2009) Conformational Switching within Individual Amyloid Fibrils J. Biol. Chem. 284, 14386-14395
-
(2009)
J. Biol. Chem.
, vol.284
, pp. 14386
-
-
Makarava, N.1
Ostapchenko, V.G.2
Savtchenko, R.3
Baskakov, I.V.4
-
35
-
-
0033200063
-
Protein misfolding, evolution and disease
-
- 332
-
Dobson, C. M. (1999) Protein misfolding, evolution and disease Trends Biochem. Sci. 24, 329-332
-
(1999)
Trends Biochem. Sci.
, vol.24
, pp. 329
-
-
Dobson, C.M.1
-
36
-
-
37549063068
-
Role of intermolecular forces in defining material properties of protein nanofibrils
-
- 1903
-
Knowles, T. P., Fitzpatrick, A. W., Meehan, S., Mott, H. R., Vendruscolo, M., Dobson, C. M., and Welland, M. E. (2007) Role of intermolecular forces in defining material properties of protein nanofibrils Science 318, 1900-1903
-
(2007)
Science
, vol.318
, pp. 1900
-
-
Knowles, T.P.1
Fitzpatrick, A.W.2
Meehan, S.3
Mott, H.R.4
Vendruscolo, M.5
Dobson, C.M.6
Welland, M.E.7
-
37
-
-
84873685394
-
Comparative Molecular Dynamics Study of Human Islet Amyloid Polypeptide (IAPP) and Rat IAPP Oligomers
-
- 1100
-
Liang, G. Z., Zhao, J., Yu, X., and Zheng, J. (2013) Comparative Molecular Dynamics Study of Human Islet Amyloid Polypeptide (IAPP) and Rat IAPP Oligomers Biochemistry 52, 1089-1100
-
(2013)
Biochemistry
, vol.52
, pp. 1089
-
-
Liang, G.Z.1
Zhao, J.2
Yu, X.3
Zheng, J.4
-
38
-
-
50049095633
-
Atomic structure of the cross-beta spine of islet amyloid polypeptide (amylin)
-
- 1474
-
Wiltzius, J. J. W., Sievers, S. A., Sawaya, M. R., Cascio, D., Popov, D., Riekel, C., and Eisenberg, D. (2008) Atomic structure of the cross-beta spine of islet amyloid polypeptide (amylin) Protein Sci. 17, 1467-1474
-
(2008)
Protein Sci.
, vol.17
, pp. 1467
-
-
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
-
39
-
-
60849085704
-
Molecular Dynamics Simulations to Investigate the Aggregation Behaviors of the A beta(17-42) Oligomers
-
- 490
-
Zhao, J. H., Liu, H. L., Liu, Y. F., Lin, H. Y., Fang, H. W., Ho, Y., and Tsai, W. B. (2009) Molecular Dynamics Simulations to Investigate the Aggregation Behaviors of the A beta(17-42) Oligomers J. Biomol. Struct. Dyn. 26, 481-490
-
(2009)
J. Biomol. Struct. Dyn.
, vol.26
, pp. 481
-
-
Zhao, J.H.1
Liu, H.L.2
Liu, Y.F.3
Lin, H.Y.4
Fang, H.W.5
Ho, Y.6
Tsai, W.B.7
-
40
-
-
84876492200
-
The Supramolecular Chemistry of β-Sheets
-
- 5492
-
Pin-Nan Cheng, J. D. P. and Nowick, J. S. (2013) The Supramolecular Chemistry of β-Sheets J. Am. Chem. Soc. 135, 5477-5492
-
(2013)
J. Am. Chem. Soc.
, vol.135
, pp. 5477
-
-
Pin-Nan Cheng, J.D.P.1
Nowick, J.S.2
-
41
-
-
34249290108
-
Atomic structures of amyloid cross-beta spines reveal varied steric zippers
-
- 457
-
Sawaya, M. R., Sambashivan, S., Nelson, R., Ivanova, M. I., Sievers, S. A., Apostol, M. I., Thompson, M. J., Balbirnie, M., Wiltzius, J. J. W., McFarlane, H. T., Madsen, A. O., Riekel, C., and Eisenberg, D. (2007) Atomic structures of amyloid cross-beta spines reveal varied steric zippers Nature 447, 453-457
-
(2007)
Nature
, vol.447
, pp. 453
-
-
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
-
42
-
-
30744433878
-
Experimental constraints on quaternary structure in Alzheimer's beta-amyloid fibrils
-
- 512
-
Petkova, A. T., Yau, W. M., and Tycko, R. (2006) Experimental constraints on quaternary structure in Alzheimer's beta-amyloid fibrils Biochemistry 45, 498-512
-
(2006)
Biochemistry
, vol.45
, pp. 498
-
-
Petkova, A.T.1
Yau, W.M.2
Tycko, R.3
-
43
-
-
26844435756
-
Molecular dynamics simulations of Alzheimer's beta-amyloid protofilaments
-
- 821
-
Buchete, N. V., Tycko, R., and Hummer, G. (2005) Molecular dynamics simulations of Alzheimer's beta-amyloid protofilaments J. Mol. Biol. 353, 804-821
-
(2005)
J. Mol. Biol.
, vol.353
, pp. 804
-
-
Buchete, N.V.1
Tycko, R.2
Hummer, G.3
-
44
-
-
84857282935
-
Free Energy Calculations by the Molecular Mechanics Poisson-Boltzmann Surface Area Method
-
- 122
-
Homeyer, N. and Gohlke, H. (2012) Free Energy Calculations by the Molecular Mechanics Poisson-Boltzmann Surface Area Method Mol. Inf. 31, 114-122
-
(2012)
Mol. Inf.
, vol.31
, pp. 114
-
-
Homeyer, N.1
Gohlke, H.2
-
45
-
-
79959763012
-
Molecular Dynamic Simulation of Wild Type and Mutants of the Polymorphic Amyloid NNQNTF Segments of Elk Prion: Structural Stability and Thermodynamic of Association
-
- 590
-
Berhanu, W. M. and Masunov, A. E. (2011) Molecular Dynamic Simulation of Wild Type and Mutants of the Polymorphic Amyloid NNQNTF Segments of Elk Prion: Structural Stability and Thermodynamic of Association Biopolymers 95, 573-590
-
(2011)
Biopolymers
, vol.95
, pp. 573
-
-
Berhanu, W.M.1
Masunov, A.E.2
-
46
-
-
0347602124
-
Converging free energy estimates: MM-PB(GB)SA studies on the protein-protein complex Ras-Raf
-
- 250
-
Gohlke, H. and Case, D. A. (2004) Converging free energy estimates: MM-PB(GB)SA studies on the protein-protein complex Ras-Raf J. Comput. Chem. 25, 238-250
-
(2004)
J. Comput. Chem.
, vol.25
, pp. 238
-
-
Gohlke, H.1
Case, D.A.2
-
47
-
-
84882907930
-
The stability of cylindrin β-barrel amyloid oligomer models - A molecular dynamics study
-
- 1555
-
Workalemahu, M. and Berhanu, U. H. E. H. (2013) The stability of cylindrin β-barrel amyloid oligomer models-a molecular dynamics study Proteins 81, 1542-1555
-
(2013)
Proteins
, vol.81
, pp. 1542
-
-
Workalemahu, M.1
Berhanu, U.H.E.H.2
-
48
-
-
70349658765
-
Thermodynamic Selection of Steric Zipper Patterns in the Amyloid Cross-beta Spine
-
e1000492
-
Park, J., Kahng, B., and Hwang, W. (2009) Thermodynamic Selection of Steric Zipper Patterns in the Amyloid Cross-beta Spine PLoS Comput. Biol. 5 e1000492
-
(2009)
PLoS Comput. Biol.
, vol.5
-
-
Park, J.1
Kahng, B.2
Hwang, W.3
-
49
-
-
84859984432
-
Exploring the inter-molecular interactions in amyloid-beta protofibril with molecular dynamics simulations and molecular mechanics Poisson-Boltzmann surface area free energy calculations
-
145101
-
Liu, F. F., Liu, Z., Bai, S., Dong, X. Y., and Sun, Y. (2012) Exploring the inter-molecular interactions in amyloid-beta protofibril with molecular dynamics simulations and molecular mechanics Poisson-Boltzmann surface area free energy calculations J. Chem. Phys. 136 145101
-
(2012)
J. Chem. Phys.
, vol.136
-
-
Liu, F.F.1
Liu, Z.2
Bai, S.3
Dong, X.Y.4
Sun, Y.5
-
50
-
-
67650079408
-
Probing the Effect of Amino-Terminal Truncation for A beta(1-40) Peptides
-
- 6702
-
Takeda, T. and Klimov, D. K. (2009) Probing the Effect of Amino-Terminal Truncation for A beta(1-40) Peptides J. Phys. Chem. B 113, 6692-6702
-
(2009)
J. Phys. Chem. B
, vol.113
, pp. 6692
-
-
Takeda, T.1
Klimov, D.K.2
-
51
-
-
36148983867
-
Modeling the Alzheimer A beta(17-42) fibril architecture: Tight intermolecular sheet-sheet association and intramolecular hydrated cavities
-
- 3057
-
Zheng, J., Jang, H., Ma, B., Tsai, C. J., and Nussinov, R. (2007) Modeling the Alzheimer A beta(17-42) fibril architecture: Tight intermolecular sheet-sheet association and intramolecular hydrated cavities Biophys. J. 93, 3046-3057
-
(2007)
Biophys. J.
, vol.93
, pp. 3046
-
-
Zheng, J.1
Jang, H.2
Ma, B.3
Tsai, C.J.4
Nussinov, R.5
-
52
-
-
35349013541
-
Role of flexibility and polarity as determinants of the hydration of internal cavities and pockets in proteins
-
- 2804
-
Damjanovic, A., Schlessman, J. L., Fitch, C. A., Garcia, A. E., and Garcia-Moreno, B. (2007) Role of flexibility and polarity as determinants of the hydration of internal cavities and pockets in proteins Biophys. J. 93, 2791-2804
-
(2007)
Biophys. J.
, vol.93
, pp. 2791
-
-
Damjanovic, A.1
Schlessman, J.L.2
Fitch, C.A.3
Garcia, A.E.4
Garcia-Moreno, B.5
-
53
-
-
84861206757
-
Toxic fibrillar oligomers of amyloid-beta have cross-beta structure
-
- 7722
-
Stroud, J. C., Liu, C., Teng, P. K., and Eisenberg, D. (2012) Toxic fibrillar oligomers of amyloid-beta have cross-beta structure Proc. Natl. Acad. Sci. U. S. A. 109, 7717-7722
-
(2012)
Proc. Natl. Acad. Sci. U. S. A.
, vol.109
, pp. 7717
-
-
Stroud, J.C.1
Liu, C.2
Teng, P.K.3
Eisenberg, D.4
-
54
-
-
84872168357
-
Mechanisms for the Insertion of Toxic, Fibril-like beta-Amyloid Oligomers into the Membrane
-
- 833
-
Jang, H., Connelly, L., Arce, F. T., Ramachandran, S., Kagan, B. L., Lal, R., and Nussinov, R. (2013) Mechanisms for the Insertion of Toxic, Fibril-like beta-Amyloid Oligomers into the Membrane J. Chem. Theory Comput. 9, 822-833
-
(2013)
J. Chem. Theory Comput.
, vol.9
, pp. 822
-
-
Jang, H.1
Connelly, L.2
Arce, F.T.3
Ramachandran, S.4
Kagan, B.L.5
Lal, R.6
Nussinov, R.7
-
55
-
-
79960449390
-
Structure and membrane orientation of IAPP in its natively amidated form at physiological pH in a membrane environment
-
- 2342
-
Nanga, R. P. R., Brender, J. R., Vivekanandan, S., and Ramamoorthy, A. (2011) Structure and membrane orientation of IAPP in its natively amidated form at physiological pH in a membrane environment Biochim. Biophys. Acta, Biomembr. 1808, 2337-2342
-
(2011)
Biochim. Biophys. Acta, Biomembr.
, vol.1808
, pp. 2337
-
-
Nanga, R.P.R.1
Brender, J.R.2
Vivekanandan, S.3
Ramamoorthy, A.4
-
56
-
-
84881230154
-
Binding, Conformational Transition and Dimerization of Amyloid-b Peptide on GM1-Containing Ternary Membrane: Insights from Molecular Dynamics Simulation
-
e71308
-
Manna, M. and C, M. (2013) Binding, Conformational Transition and Dimerization of Amyloid-b Peptide on GM1-Containing Ternary Membrane: Insights from Molecular Dynamics Simulation PLoS One 8 e71308
-
(2013)
PLoS One
, vol.8
-
-
Manna, M.1
-
57
-
-
79960065022
-
Structure-based design of non-natural amino-acid inhibitors of amyloid fibril formation
-
- 100
-
Sievers, S. A., Karanicolas, J., Chang, H. W., Zhao, A., Jiang, L., Zirafi, O., Stevens, J. T., Munch, J., Baker, D., and 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
-
-
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
-
58
-
-
84867765453
-
Macrocyclic β-Sheet Peptides That Inhibit the Aggregation of a Tau-Protein-Derived Hexapeptide
-
- 17832
-
Zheng, J., Liu, C., Sawaya, M. R., Vadla, B., Khan, S., Woods, R. J., Eisenberg, D., Goux, W. J., and Nowick, J. S. (2012) Macrocyclic β-Sheet Peptides That Inhibit the Aggregation of a Tau-Protein-Derived Hexapeptide J. Am. Chem. Soc. 134, 17832-17832
-
(2012)
J. Am. Chem. Soc.
, vol.134
, pp. 17832
-
-
Zheng, J.1
Liu, C.2
Sawaya, M.R.3
Vadla, B.4
Khan, S.5
Woods, R.J.6
Eisenberg, D.7
Goux, W.J.8
Nowick, J.S.9
-
59
-
-
70349295278
-
Structure-neurotoxicity relationships of amyloid beta-protein oligomers
-
- 14750
-
Ono, K., Condron, M. M., and Teplow, D. B. (2009) Structure-neurotoxicity relationships of amyloid beta-protein oligomers Proc. Natl. Acad. Sci. U. S. A. 106, 14745-14750
-
(2009)
Proc. Natl. Acad. Sci. U. S. A.
, vol.106
, pp. 14745
-
-
Ono, K.1
Condron, M.M.2
Teplow, D.B.3
-
60
-
-
28444442999
-
3D structure of Alzheimer's amyloid-beta(1-42) fibrils
-
- 17347
-
Luhrs, T., Ritter, C., Adrian, M., Riek-Loher, D., Bohrmann, B., Doeli, H., Schubert, D., and Riek, R. (2005) 3D structure of Alzheimer's amyloid-beta(1-42) fibrils Proc. Natl. Acad. Sci. U. S. A. 102, 17342-17347
-
(2005)
Proc. Natl. Acad. Sci. U. S. A.
, vol.102
, pp. 17342
-
-
Luhrs, T.1
Ritter, C.2
Adrian, M.3
Riek-Loher, D.4
Bohrmann, B.5
Doeli, H.6
Schubert, D.7
Riek, R.8
-
61
-
-
84881494867
-
Interactions between Aβ and Mutated Tau Lead to Polymorphism and Induce Aggregation of Aβ-Mutated Tau Oligomeric Complexes
-
e73303
-
Raz, Y. and Y, M. (2013) Interactions between Aβ and Mutated Tau Lead to Polymorphism and Induce Aggregation of Aβ-Mutated Tau Oligomeric Complexes PLoS ONE 8 e73303
-
(2013)
PLoS ONE
, vol.8
-
-
Raz, Y.1
-
62
-
-
80054752317
-
Molecular basis for amyloid-beta polymorphism
-
- 16943
-
Colletier, J. P., Laganowsky, A., Landau, M., Zhao, M. L., Soriaga, A. B., Goldschmidt, L., Flot, D., Cascio, D., Sawaya, M. R., and Eisenberg, D. (2011) Molecular basis for amyloid-beta polymorphism Proc. Natl. Acad. Sci. U. S. A. 108, 16938-16943
-
(2011)
Proc. Natl. Acad. Sci. U. S. A.
, vol.108
, pp. 16938
-
-
Colletier, J.P.1
Laganowsky, A.2
Landau, M.3
Zhao, M.L.4
Soriaga, A.B.5
Goldschmidt, L.6
Flot, D.7
Cascio, D.8
Sawaya, M.R.9
Eisenberg, D.10
-
63
-
-
68949122827
-
Probing Energetics of A beta Fibril Elongation by Molecular Dynamics Simulations
-
- 4437
-
Takeda, T. and Klimov, D. K. (2009) Probing Energetics of A beta Fibril Elongation by Molecular Dynamics Simulations Biophys. J. 96, 4428-4437
-
(2009)
Biophys. J.
, vol.96
, pp. 4428
-
-
Takeda, T.1
Klimov, D.K.2
-
64
-
-
84864187173
-
Structure and Dynamics of Amyloid-b Segmental Polymorphisms
-
e41479
-
Berhanu, W. M. and Hansmann, U. H. E. (2012) Structure and Dynamics of Amyloid-b Segmental Polymorphisms PLoS ONE 7 e41479
-
(2012)
PLoS ONE
, vol.7
-
-
Berhanu, W.M.1
Hansmann, U.H.E.2
-
65
-
-
84856723314
-
Effect of Sequence Variation on the Mechanical Response of Amyloid Fibrils Probed by Steered Molecular Dynamics Simulation
-
- 596
-
Ndlovu, H., Ashcroft, A. E., Radford, S. E., and Harris, S. A. (2012) Effect of Sequence Variation on the Mechanical Response of Amyloid Fibrils Probed by Steered Molecular Dynamics Simulation Biophys. J. 102, 587-596
-
(2012)
Biophys. J.
, vol.102
, pp. 587
-
-
Ndlovu, H.1
Ashcroft, A.E.2
Radford, S.E.3
Harris, S.A.4
-
66
-
-
33748518255
-
Comparison of multiple amber force fields and development of improved protein backbone parameters
-
- 725
-
Hornak, V., Abel, R., Okur, A., Strockbine, B., Roitberg, A., and Simmerling, C. (2006) Comparison of multiple amber force fields and development of improved protein backbone parameters Proteins 65, 712-725
-
(2006)
Proteins
, vol.65
, pp. 712
-
-
Hornak, V.1
Abel, R.2
Okur, A.3
Strockbine, B.4
Roitberg, A.5
Simmerling, C.6
-
67
-
-
84865760948
-
Beta-Barrel Mobility Underlies Closure of the Voltage-Dependent Anion Channel
-
- 1549
-
Zachariae, U., Schneider, R., Briones, R., Gattin, Z., Demers, J. P., Giller, K., Maier, E., Zweckstetter, M., Griesinger, C., Becker, S., Benz, R., de Groot, B. L., and Lange, A. (2012) beta-Barrel Mobility Underlies Closure of the Voltage-Dependent Anion Channel Structure 20, 1540-1549
-
(2012)
Structure
, vol.20
, pp. 1540
-
-
Zachariae, U.1
Schneider, R.2
Briones, R.3
Gattin, Z.4
Demers, J.P.5
Giller, K.6
Maier, E.7
Zweckstetter, M.8
Griesinger, C.9
Becker, S.10
Benz, R.11
De Groot, B.L.12
Lange, A.13
-
68
-
-
80052503022
-
Computational Electrophysiology: The Molecular Dynamics of Ion Channel Permeation and Selectivity in Atomistic Detail
-
- 817
-
Kutzner, C., Grubmuller, H., de Groot, B. L., and Zachariae, U. (2011) Computational Electrophysiology: The Molecular Dynamics of Ion Channel Permeation and Selectivity in Atomistic Detail Biophys. J. 101, 809-817
-
(2011)
Biophys. J.
, vol.101
, pp. 809
-
-
Kutzner, C.1
Grubmuller, H.2
De Groot, B.L.3
Zachariae, U.4
-
69
-
-
84875592758
-
GROMACS 4.5: A high-throughput and highly parallel open source molecular simulation toolkit
-
- 854
-
Pronk, S., Páll, S., Schulz, R., Larsson, P., Bjelkmar, P., Apostolov, R., Shirts, M. R., Smith, J. C., Kasson, P M., van der Spoel, D., Hess, B., and Lindahl, E. (2013) GROMACS 4.5: a high-throughput and highly parallel open source molecular simulation toolkit Bioinformatics 29, 845-854
-
(2013)
Bioinformatics
, vol.29
, pp. 845
-
-
Pronk, S.1
Páll, S.2
Schulz, R.3
Larsson, P.4
Bjelkmar, P.5
Apostolov, R.6
Shirts, M.R.7
Smith, J.C.8
Kasson, P.M.9
Van Der Spoel, D.10
Hess, B.11
Lindahl, E.12
-
70
-
-
33846823909
-
Particle mesh ewald - An n. Log(n) method for ewald sums in large systems
-
- 10092
-
Darden, T., York, D., and Pedersen, L. (1993) Particle mesh ewald-an n. log(n) method for ewald sums in large systems J. Chem. Phys. 98, 10089-10092
-
(1993)
J. Chem. Phys.
, vol.98
, pp. 10089
-
-
Darden, T.1
York, D.2
Pedersen, L.3
-
71
-
-
33645961739
-
A smooth particle mesh ewald method
-
- 8593
-
Essmann, U., Perera, L., Berkowitz, M. L., Darden, T., Lee, H., and Pedersen, L. G. (1995) A smooth particle mesh ewald method J. Chem. Phys. 103, 8577-8593
-
(1995)
J. Chem. Phys.
, vol.103
, pp. 8577
-
-
Essmann, U.1
Perera, L.2
Berkowitz, M.L.3
Darden, T.4
Lee, H.5
Pedersen, L.G.6
-
72
-
-
38749123962
-
P-LINCS: A parallel linear constraint solver for molecular simulation
-
- 122
-
Hess, B. (2008) P-LINCS: A parallel linear constraint solver for molecular simulation J. Chem. Theory Comput. 4, 116-122
-
(2008)
J. Chem. Theory Comput.
, vol.4
, pp. 116
-
-
Hess, B.1
-
73
-
-
84986440341
-
Settle - An analytical version of the shake and rattle algorithm for rigid water models
-
- 962
-
Miyamoto, S. and Kollman, P. A. (1992) Settle-an analytical version of the shake and rattle algorithm for rigid water models J. Comput. Chem. 13, 952-962
-
(1992)
J. Comput. Chem.
, vol.13
, pp. 952
-
-
Miyamoto, S.1
Kollman, P.A.2
-
74
-
-
33846086933
-
Canonical sampling through velocity rescaling
-
014101
-
Bussi, G., Donadio, D., and Parrinello, M. (2007) Canonical sampling through velocity rescaling J. Chem. Phys. 126 014101
-
(2007)
J. Chem. Phys.
, vol.126
-
-
Bussi, G.1
Donadio, D.2
Parrinello, M.3
-
75
-
-
60749136514
-
Isothermal-isobaric molecular dynamics using stochastic velocity rescaling
-
074101
-
Bussi, G., Zykova-Timan, T., and Parrinello, M. (2009) Isothermal-isobaric molecular dynamics using stochastic velocity rescaling J. Chem. Phys. 130 074101
-
(2009)
J. Chem. Phys.
, vol.130
-
-
Bussi, G.1
Zykova-Timan, T.2
Parrinello, M.3
-
76
-
-
0019707626
-
Polymorphic transitions in single-crystals - A new molecular-dynamics method
-
- 7190
-
Parrinello, M. and Rahman, A. (1981) Polymorphic transitions in single-crystals-a new molecular-dynamics method J. Appl. Phys. 52, 7182-7190
-
(1981)
J. Appl. Phys.
, vol.52
, pp. 7182
-
-
Parrinello, M.1
Rahman, A.2
-
77
-
-
33646088595
-
Probing the pressure-temperature stability of amyloid fibrils provides new insights into their molecular properties
-
- 460
-
Meersman, F. and Dobson, C. M. (2006) Probing the pressure-temperature stability of amyloid fibrils provides new insights into their molecular properties Biochim. Biophys. Acta 1764, 452-460
-
(2006)
Biochim. Biophys. Acta
, vol.1764
, pp. 452
-
-
Meersman, F.1
Dobson, C.M.2
-
78
-
-
84861333269
-
Controlling the aggregation and rate of release in order to improve insulin formulation: Molecular dynamics study of full-length insulin amyloid oligomer models
-
- 1142
-
Berhanu, W. M. and Masunov, A. E. (2012) Controlling the aggregation and rate of release in order to improve insulin formulation: molecular dynamics study of full-length insulin amyloid oligomer models J. Mol. Model. 18, 1129-1142
-
(2012)
J. Mol. Model.
, vol.18
, pp. 1129
-
-
Berhanu, W.M.1
Masunov, A.E.2
-
79
-
-
84861332104
-
Unique example of amyloid aggregates stabilized by main chain H-bond instead of the steric zipper: Molecular dynamics study of the amyloidogenic segment of amylin wild-type and mutants
-
- 903
-
Berhanu, W. M. and Masunov, A. E. (2012) Unique example of amyloid aggregates stabilized by main chain H-bond instead of the steric zipper: Molecular dynamics study of the amyloidogenic segment of amylin wild-type and mutants J. Mol. Model. 18, 891-903
-
(2012)
J. Mol. Model.
, vol.18
, pp. 891
-
-
Berhanu, W.M.1
Masunov, A.E.2
-
81
-
-
84866167816
-
MMPBSA.Py: An Efficient Program for End-State Free Energy Calculations
-
Miller, B. R., McGee, T. D., Swails, J. M., Homeyer, N., Gohlke, H., and Roitberg, A. E. (2012) MMPBSA.py: An Efficient Program for End-State Free Energy Calculations J. Chem. Theory Comput. 8, 3314-3321
-
(2012)
J. Chem. Theory Comput.
, vol.8
, pp. 3314-3321
-
-
Miller, B.R.1
McGee, T.D.2
Swails, J.M.3
Homeyer, N.4
Gohlke, H.5
Roitberg, A.E.6
|