-
1
-
-
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
-
2
-
-
33746377894
-
Protein misfolding, functional amyloid, and human disease
-
Chiti F, Dobson CM (2006) Protein misfolding, functional amyloid, and human disease. Annu Rev Biochem 75: 333-366.
-
(2006)
Annu Rev Biochem
, vol.75
, pp. 333-366
-
-
Chiti, F.1
Dobson, C.M.2
-
3
-
-
0033200063
-
Protein misfolding, evolution and disease
-
Dobson CM (1999) Protein misfolding, evolution and disease. Trends Biochem Sci 24: 329-332.
-
(1999)
Trends Biochem Sci
, vol.24
, pp. 329-332
-
-
Dobson, C.M.1
-
5
-
-
33646127577
-
Molecular chaperones and protein quality control
-
Bukau B, Weissman J, Horwich A (2006) Molecular chaperones and protein quality control. Cell 125: 443-451.
-
(2006)
Cell
, vol.125
, pp. 443-451
-
-
Bukau, B.1
Weissman, J.2
Horwich, A.3
-
6
-
-
34547631623
-
Prevention of amyloid-like aggregation as a driving force of protein evolution
-
Monsellier E, Chiti F (2007) Prevention of amyloid-like aggregation as a driving force of protein evolution. EMBO Rep 8: 737-742.
-
(2007)
EMBO Rep
, vol.8
, pp. 737-742
-
-
Monsellier, E.1
Chiti, F.2
-
7
-
-
0042467550
-
Rationalization of the effects of mutations on peptide and protein aggregation rates
-
Chiti F, Stefani M, Taddei N, Ramponi F, Dobson CM (2003) Rationalization of the effects of mutations on peptide and protein aggregation rates. Nature 424: 805-808.
-
(2003)
Nature
, vol.424
, pp. 805-808
-
-
Chiti, F.1
Stefani, M.2
Taddei, N.3
Ramponi, F.4
Dobson, C.M.5
-
8
-
-
3242785264
-
Prediction of the absolute aggregation rates of amyloidogenic polypeptide chains
-
DuBay KF, Pawar AP, Chiti F, Zurdo J, Dobson CM, et al. (2004) Prediction of the absolute aggregation rates of amyloidogenic polypeptide chains. J Mol Biol 341: 1317-1326.
-
(2004)
J Mol Biol
, vol.341
, pp. 1317-1326
-
-
DuBay, K.F.1
Pawar, A.P.2
Chiti, F.3
Zurdo, J.4
Dobson, C.M.5
-
9
-
-
5044235541
-
Prediction of sequence-dependent and mutational effects on the aggregation of peptides and proteins
-
Fernandez-Escamilla AM, Rousseau F, Schymkowitz J, Serrano L (2004) Prediction of sequence-dependent and mutational effects on the aggregation of peptides and proteins. Nat Biotechnol 22: 1302-1306.
-
(2004)
Nat Biotechnol
, vol.22
, pp. 1302-1306
-
-
Fernandez-Escamilla, A.M.1
Rousseau, F.2
Schymkowitz, J.3
Serrano, L.4
-
10
-
-
3042584515
-
The role of aromaticity, exposed surface, and dipole moment in determining protein aggregation rates
-
Tartaglia GG, Cavalli A, Pellarin R, Caflisch A (2004) The role of aromaticity, exposed surface, and dipole moment in determining protein aggregation rates. Protein Sci 13: 1939-1941.
-
(2004)
Protein Sci
, vol.13
, pp. 1939-1941
-
-
Tartaglia, G.G.1
Cavalli, A.2
Pellarin, R.3
Caflisch, A.4
-
11
-
-
20444403757
-
Prediction of "aggregation-prone" and "aggregation- susceptible" regions in proteins associated with neurodegenerative diseases
-
Pawar AP, DuBay KF, Zurdo J, Chiti F, Vendruscolo M, et al. (2005) Prediction of "aggregation-prone" and "aggregation- susceptible" regions in proteins associated with neurodegenerative diseases. J Mol Biol 350: 379-392.
-
(2005)
J Mol Biol
, vol.350
, pp. 379-392
-
-
Pawar, A.P.1
DuBay, K.F.2
Zurdo, J.3
Chiti, F.4
Vendruscolo, M.5
-
12
-
-
25844466604
-
Prediction of aggregation rate and aggregation-prone segments in polypeptide sequences
-
Tartaglia GG, Cavalli A, Pellarin R, Caflisch A (2005) Prediction of aggregation rate and aggregation-prone segments in polypeptide sequences. Protein Sci 14: 2723-2734.
-
(2005)
Protein Sci
, vol.14
, pp. 2723-2734
-
-
Tartaglia, G.G.1
Cavalli, A.2
Pellarin, R.3
Caflisch, A.4
-
13
-
-
33644940173
-
Mutagenesis of the central hydrophobic cluster in Abeta42 Alzheimer's peptide. Side-chain properties correlate with aggregation propensities
-
de Groot NS, Aviles FX, Vendrell J, Ventura S (2006) Mutagenesis of the central hydrophobic cluster in Abeta42 Alzheimer's peptide. Side-chain properties correlate with aggregation propensities. FEBS J 273: 658-668.
-
(2006)
FEBS J
, vol.273
, pp. 658-668
-
-
de Groot, N.S.1
Aviles, F.X.2
Vendrell, J.3
Ventura, S.4
-
14
-
-
33947517558
-
AGGRESCAN: A server for the prediction and evaluation of "hot spots" of aggregation in polypeptides
-
Conchillo-Solé O, de Groot NS, Avilés FX, Vendrell J, Daura X, et al. (2007) AGGRESCAN: a server for the prediction and evaluation of "hot spots" of aggregation in polypeptides. BMC Bioinformatics 8: 65.
-
(2007)
BMC Bioinformatics
, vol.8
, pp. 65
-
-
Conchillo-Solé, O.1
de Groot, N.S.2
Avilés, F.X.3
Vendrell, J.4
Daura, X.5
-
15
-
-
3342963982
-
Detecting hidden sequence propensity for amyloid fibril formation
-
Yoon S, Welsh WJ (2004) Detecting hidden sequence propensity for amyloid fibril formation. Protein Sci 13: 2149-2160.
-
(2004)
Protein Sci
, vol.13
, pp. 2149-2160
-
-
Yoon, S.1
Welsh, W.J.2
-
17
-
-
33744973540
-
Interaction-based evaluation of the propensity for amyloid formation with cross-beta structure
-
Saiki M, Konakahara T, Morii H (2006) Interaction-based evaluation of the propensity for amyloid formation with cross-beta structure. Biochem Biophys Res Commun 343: 1262-1271.
-
(2006)
Biochem Biophys Res Commun
, vol.343
, pp. 1262-1271
-
-
Saiki, M.1
Konakahara, T.2
Morii, H.3
-
18
-
-
33645238380
-
The 3D profile method for identifying fibril-forming segments of proteins
-
Thompson MJ, Sievers SA, Karanicolas J, Ivanova MI, Baker D, et al. (2006) The 3D profile method for identifying fibril-forming segments of proteins. Proc Natl Acad Sci U S A 103: 4074-4078.
-
(2006)
Proc Natl Acad Sci U S A
, vol.103
, pp. 4074-4078
-
-
Thompson, M.J.1
Sievers, S.A.2
Karanicolas, J.3
Ivanova, M.I.4
Baker, D.5
-
19
-
-
33845978790
-
Insight into the structure of amyloid fibrils from the analysis of globular proteins
-
Trovato A, Chiti F, Maritan A, Seno F (2006) Insight into the structure of amyloid fibrils from the analysis of globular proteins. PLoS Comput Biol 2: e170.
-
(2006)
PLoS Comput Biol
, vol.2
-
-
Trovato, A.1
Chiti, F.2
Maritan, A.3
Seno, F.4
-
20
-
-
34548756136
-
Identification of amyloid fibril-forming segments based on structure and residue-based statistical potential
-
Zhang Z, Chen H, Lai L (2007) Identification of amyloid fibril-forming segments based on structure and residue-based statistical potential. Bioinformatics 23: 2218-2225.
-
(2007)
Bioinformatics
, vol.23
, pp. 2218-2225
-
-
Zhang, Z.1
Chen, H.2
Lai, L.3
-
21
-
-
4143133235
-
A comparative study of the relationship between protein structure and beta-aggregation in globular and intrinsically disordered proteins
-
Linding R, Schymkowitz J, Rousseau F, Diella F, Serrano L (2004) A comparative study of the relationship between protein structure and beta-aggregation in globular and intrinsically disordered proteins. J Mol Biol 342: 345-353.
-
(2004)
J Mol Biol
, vol.342
, pp. 345-353
-
-
Linding, R.1
Schymkowitz, J.2
Rousseau, F.3
Diella, F.4
Serrano, L.5
-
22
-
-
29444444251
-
How evolutionary pressure against protein aggregation shaped chaperone specificity
-
Rousseau F, Serrano L, Schymkowitz JW (2006) How evolutionary pressure against protein aggregation shaped chaperone specificity. J Mol Biol 355: 1037-1047.
-
(2006)
J Mol Biol
, vol.355
, pp. 1037-1047
-
-
Rousseau, F.1
Serrano, L.2
Schymkowitz, J.W.3
-
23
-
-
47649121227
-
Natural selection against protein aggregation on self-interacting and essential proteins in yeast, fly and worm
-
In press
-
Chen A, Dokholyan NV (2008) Natural selection against protein aggregation on self-interacting and essential proteins in yeast, fly and worm. Mol Biol Evol; In press.
-
(2008)
Mol Biol Evol
-
-
Chen, A.1
Dokholyan, N.V.2
-
24
-
-
25844505513
-
Organism complexity anti-correlates with proteomic beta-aggregation propensity
-
Tartaglia GG, Pellarin R, Cavalli A, Caflisch A (2005) Organism complexity anti-correlates with proteomic beta-aggregation propensity. Protein Sci 14: 2735-2740.
-
(2005)
Protein Sci
, vol.14
, pp. 2735-2740
-
-
Tartaglia, G.G.1
Pellarin, R.2
Cavalli, A.3
Caflisch, A.4
-
25
-
-
34249893672
-
Computational analysis of the S. cerevisiae proteome reveals the function and cellular localization of the least and most amyloidogenic proteins
-
Tartaglia GG, Caflisch A (2007) Computational analysis of the S. cerevisiae proteome reveals the function and cellular localization of the least and most amyloidogenic proteins. Proteins 68: 273-278.
-
(2007)
Proteins
, vol.68
, pp. 273-278
-
-
Tartaglia, G.G.1
Caflisch, A.2
-
26
-
-
34547646436
-
The distribution of residues in a polypeptide sequence is a determinant of aggregation optimized by evolution
-
Monsellier E, Ramazzotti M, Polverino de Laureto P, Tartaglia GG, Taddei N, et al. (2007) The distribution of residues in a polypeptide sequence is a determinant of aggregation optimized by evolution. Biophys J 93: 4382-4391.
-
(2007)
Biophys J
, vol.93
, pp. 4382-4391
-
-
Monsellier, E.1
Ramazzotti, M.2
Polverino de Laureto, P.3
Tartaglia, G.G.4
Taddei, N.5
-
27
-
-
0032561132
-
Principles governing amino acid composition of integral membrane proteins: Application to topology prediction
-
Tusnády GE, Simon I (1998) Principles governing amino acid composition of integral membrane proteins: application to topology prediction. J Mol Biol 283: 489-506.
-
(1998)
J Mol Biol
, vol.283
, pp. 489-506
-
-
Tusnády, G.E.1
Simon, I.2
-
28
-
-
34347376906
-
The relationships between the isolelectric point and the length of proteins, taxonomy and ecology of organisms
-
Kiraga J, Mackiewicz P, Mackiewicz D, Kowalczuk M, Biecek P, et al. (2007) The relationships between the isolelectric point and the length of proteins, taxonomy and ecology of organisms. BMC Genomics 8: 163.
-
(2007)
BMC Genomics
, vol.8
, pp. 163
-
-
Kiraga, J.1
Mackiewicz, P.2
Mackiewicz, D.3
Kowalczuk, M.4
Biecek, P.5
-
29
-
-
26444496519
-
Designability, aggregation propensity and duplication of disease-associated proteins
-
Wong P, Fritz A, Frishman D (2005) Designability, aggregation propensity and duplication of disease-associated proteins. Protein Eng Des Sel 18: 503-508.
-
(2005)
Protein Eng Des Sel
, vol.18
, pp. 503-508
-
-
Wong, P.1
Fritz, A.2
Frishman, D.3
-
30
-
-
0042510944
-
Contact order revisited: Influence of protein size on the folding rate
-
Ivankov DN, Garbuzynskiy SO, Alm E, Plaxco KW, Baker D, et al. (2003) Contact order revisited: influence of protein size on the folding rate. Protein Sci 12: 2057-2062.
-
(2003)
Protein Sci
, vol.12
, pp. 2057-2062
-
-
Ivankov, D.N.1
Garbuzynskiy, S.O.2
Alm, E.3
Plaxco, K.W.4
Baker, D.5
-
31
-
-
0033613188
-
De novo amyloid proteins from designed combinatorial libraries
-
West MW, Wang W, Patterson J, Mancias JD, Beasley JR, et al. (1999) De novo amyloid proteins from designed combinatorial libraries. Proc Natl Acad Sci U S A 96: 11211-11216.
-
(1999)
Proc Natl Acad Sci U S A
, vol.96
, pp. 11211-11216
-
-
West, M.W.1
Wang, W.2
Patterson, J.3
Mancias, J.D.4
Beasley, J.R.5
-
32
-
-
0141746349
-
The role of protein stability, solubility, and net charge in amyloid fibril formation
-
Schmittschmitt JP, Scholtz JM (2003) The role of protein stability, solubility, and net charge in amyloid fibril formation. Protein Sci 12: 2374-2378.
-
(2003)
Protein Sci
, vol.12
, pp. 2374-2378
-
-
Schmittschmitt, J.P.1
Scholtz, J.M.2
-
33
-
-
34548354465
-
Correlation between the structural stability and aggregation propensity of proteins
-
Idicula-Thomas S, Balaji PV (2007) Correlation between the structural stability and aggregation propensity of proteins. In Silico Biol 7: 0023.
-
(2007)
In Silico Biol
, vol.7
, pp. 0023
-
-
Idicula-Thomas, S.1
Balaji, P.V.2
-
34
-
-
0033521588
-
In vivo newly translated polypeptides are sequestered in a protected folding environment
-
Thulasiraman V, Yang CF, Frydman J (1999) In vivo newly translated polypeptides are sequestered in a protected folding environment. EMBO J 18: 85-95.
-
(1999)
EMBO J
, vol.18
, pp. 85-95
-
-
Thulasiraman, V.1
Yang, C.F.2
Frydman, J.3
-
35
-
-
0033578722
-
Myosin II folding is mediated by a molecular chaperonin
-
Srikakulam R, Winkelmann DA (1999) Myosin II folding is mediated by a molecular chaperonin. J Biol Chem 274: 27265-27273.
-
(1999)
J Biol Chem
, vol.274
, pp. 27265-27273
-
-
Srikakulam, R.1
Winkelmann, D.A.2
-
36
-
-
0034666040
-
Relationship of codon bias to mRNA concentration and protein length in Saccharomyces cerevisiae
-
Coghlan A, Wolfe KH (2000) Relationship of codon bias to mRNA concentration and protein length in Saccharomyces cerevisiae. Yeast 16: 1131-1145.
-
(2000)
Yeast
, vol.16
, pp. 1131-1145
-
-
Coghlan, A.1
Wolfe, K.H.2
-
37
-
-
17744376961
-
Evolution of proteins and gene expression levels are coupled in Drosophila and are independently associated with mRNA abundance, protein length, and number of protein-protein interactions
-
Lemos B, Bettencourt BR, Meiklejohn CD, Hartl DL (2005) Evolution of proteins and gene expression levels are coupled in Drosophila and are independently associated with mRNA abundance, protein length, and number of protein-protein interactions. Mol Biol Evol 22: 1345-1354.
-
(2005)
Mol Biol Evol
, vol.22
, pp. 1345-1354
-
-
Lemos, B.1
Bettencourt, B.R.2
Meiklejohn, C.D.3
Hartl, D.L.4
-
38
-
-
34447558236
-
ER chaperones in mammalian development and human diseases
-
Ni M, Lee AS (2007) ER chaperones in mammalian development and human diseases. FEBS Lett 581: 3641-3651.
-
(2007)
FEBS Lett
, vol.581
, pp. 3641-3651
-
-
Ni, M.1
Lee, A.S.2
-
39
-
-
1642410141
-
Periplasmic proteins of Escherichia coli are highly resistant to aggregation: Reappraisal for roles of molecular chaperones in periplasm
-
Liu Y, Fu X, Shen J, Zhang H, Hong W, et al. (2004) Periplasmic proteins of Escherichia coli are highly resistant to aggregation: reappraisal for roles of molecular chaperones in periplasm. Biochem Biophys Res Commun 316: 795-801.
-
(2004)
Biochem Biophys Res Commun
, vol.316
, pp. 795-801
-
-
Liu, Y.1
Fu, X.2
Shen, J.3
Zhang, H.4
Hong, W.5
-
40
-
-
1542358787
-
Prediction and functional analysis of native disorder in proteins from the three kingdoms of life
-
Ward JJ, Sodhi JS, McGuffin LJ, Buxton BF, Jones DT (2004) Prediction and functional analysis of native disorder in proteins from the three kingdoms of life. J Mol Biol 337: 635-645.
-
(2004)
J Mol Biol
, vol.337
, pp. 635-645
-
-
Ward, J.J.1
Sodhi, J.S.2
McGuffin, L.J.3
Buxton, B.F.4
Jones, D.T.5
-
41
-
-
0345062171
-
Molecular crowding and viscosity as determinants of translational diffusion of metabolites in subcellular organelles
-
García-Pérez AI, López-Beltrán EA, Klüner P, Luque J, Ballesteros P, et al. (1999) Molecular crowding and viscosity as determinants of translational diffusion of metabolites in subcellular organelles. Arch Biochem Biophys 362: 329-338.
-
(1999)
Arch Biochem Biophys
, vol.362
, pp. 329-338
-
-
García-Pérez, A.I.1
López-Beltrán, E.A.2
Klüner, P.3
Luque, J.4
Ballesteros, P.5
-
42
-
-
36348941948
-
Comparison of intra-organellar chaperone capacity for dealing with stress-induced protein unfolding
-
Hageman J, Vos MJ, van Waarde MA, Kampinga HH (2007) Comparison of intra-organellar chaperone capacity for dealing with stress-induced protein unfolding. J Biol Chem 282: 34334-34345.
-
(2007)
J Biol Chem
, vol.282
, pp. 34334-34345
-
-
Hageman, J.1
Vos, M.J.2
van Waarde, M.A.3
Kampinga, H.H.4
-
43
-
-
3042718947
-
Targeting expression of expanded polyglutamine proteins to the endoplasmic reticulum or mitochondira prevents their aggregation
-
Rousseau E, Dehay B, Ben-Haïem L, Trottier Y, Morange M, et al. (2004) Targeting expression of expanded polyglutamine proteins to the endoplasmic reticulum or mitochondira prevents their aggregation. Proc Natl Acad Sci U S A 101: 9648-9653.
-
(2004)
Proc Natl Acad Sci U S A
, vol.101
, pp. 9648-9653
-
-
Rousseau, E.1
Dehay, B.2
Ben-Haïem, L.3
Trottier, Y.4
Morange, M.5
-
44
-
-
0348129526
-
The ASTRAL Compendium in 2004
-
Chandonia JM, Hon G, Walker NS, Lo Conte L, Koehl P, et al. (2004) The ASTRAL Compendium in 2004. Nucleic Acids Res 32: D189-D192.
-
(2004)
Nucleic Acids Res
, vol.32
-
-
Chandonia, J.M.1
Hon, G.2
Walker, N.S.3
Lo Conte, L.4
Koehl, P.5
-
45
-
-
0020475449
-
A simple method for displaying the hydropathic character of a protein
-
Kyte J, Doolittle RF (1982) A simple method for displaying the hydropathic character of a protein. J Mol Biol 157: 105-132.
-
(1982)
J Mol Biol
, vol.157
, pp. 105-132
-
-
Kyte, J.1
Doolittle, R.F.2
-
46
-
-
33748945709
-
Point mutations in protein globular domains: Contributions from function, stability and misfolding
-
Sánchez IE, Tejero J, Gómez-Moreno C, Medina M, Serrano L (2006) Point mutations in protein globular domains: contributions from function, stability and misfolding. J Mol Biol 363: 422-432.
-
(2006)
J Mol Biol
, vol.363
, pp. 422-432
-
-
Sánchez, I.E.1
Tejero, J.2
Gómez-Moreno, C.3
Medina, M.4
Serrano, L.5
-
47
-
-
0036128797
-
Natively unfolded proteins: A point where biology waits for physics
-
Uversky VN (2002) Natively unfolded proteins: a point where biology waits for physics. Protein Sci 11: 739-756.
-
(2002)
Protein Sci
, vol.11
, pp. 739-756
-
-
Uversky, V.N.1
-
48
-
-
0037415751
-
From Alzheimer to Huntington: Why is a structural understanding so difficult?
-
Temussi PA, Masino L, Pastore A (2003) From Alzheimer to Huntington: why is a structural understanding so difficult? EMBO J 22: 355-361.
-
(2003)
EMBO J
, vol.22
, pp. 355-361
-
-
Temussi, P.A.1
Masino, L.2
Pastore, A.3
-
49
-
-
2342569618
-
Conformational constraints for amyloid fibrillation: The importance of being unfolded
-
Uversky VN, Fink AL (2004) Conformational constraints for amyloid fibrillation: the importance of being unfolded. Biochim Biophys Acta 1698: 131-153.
-
(2004)
Biochim Biophys Acta
, vol.1698
, pp. 131-153
-
-
Uversky, V.N.1
Fink, A.L.2
-
50
-
-
19944430267
-
DisProt: A database of protein disorder
-
Vucetic S, Obradovic Z, Vacic V, Radivojac P, Peng K, et al. (2005) DisProt: a database of protein disorder. Bioinformatics 21: 137-140.
-
(2005)
Bioinformatics
, vol.21
, pp. 137-140
-
-
Vucetic, S.1
Obradovic, Z.2
Vacic, V.3
Radivojac, P.4
Peng, K.5
-
51
-
-
0025183708
-
Basic local alignment search tool
-
Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ (1990) Basic local alignment search tool. J Mol Biol 215: 403-410.
-
(1990)
J Mol Biol
, vol.215
, pp. 403-410
-
-
Altschul, S.F.1
Gish, W.2
Miller, W.3
Myers, E.W.4
Lipman, D.J.5
-
52
-
-
0034069495
-
Gene ontology: Tool for the unification of biology. The Gene Ontology Consortium
-
Ashburner M, Ball CA, Blake JA, Botstein D, Butler H, et al. (2000) Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Nat Genet 25: 25-29.
-
(2000)
Nat Genet
, vol.25
, pp. 25-29
-
-
Ashburner, M.1
Ball, C.A.2
Blake, J.A.3
Botstein, D.4
Butler, H.5
-
53
-
-
0034978467
-
Log-nomal distributions across the sciences: Keys and clues
-
Limpert E, Stahel WA, Abbt M (2001) Log-nomal distributions across the sciences: keys and clues. BioScience 51: 341-352.
-
(2001)
BioScience
, vol.51
, pp. 341-352
-
-
Limpert, E.1
Stahel, W.A.2
Abbt, M.3
|