-
1
-
-
0032749078
-
Intrinsically unstructured proteins: Re-assessing the protein structure-function paradigm
-
Wright PE, Dyson HJ (1999) Intrinsically unstructured proteins: re-assessing the protein structure-function paradigm. J Mol Biol 293: 321-331.
-
(1999)
J Mol Biol
, vol.293
, pp. 321-331
-
-
Wright, P.E.1
Dyson, H.J.2
-
2
-
-
0031633365
-
Thousands of proteins likely to have long disordered regions
-
Romero P, Obradovic Z, Kissinger CR, Villafranca JE, Garner E, et al. (1998) Thousands of proteins likely to have long disordered regions. Pac Symp Biocomput. pp 437-448.
-
(1998)
Pac Symp Biocomput
, pp. 437-448
-
-
Romero, P.1
Obradovic, Z.2
Kissinger, C.R.3
Villafranca, J.E.4
Garner, E.5
-
3
-
-
0031616362
-
Protein disorder and the evolution of molecular recognition: Theory, predictions and observations
-
Dunker AK, Garner E, Guilliot S, Romero P, Albrecht K, et al. (1998) Protein disorder and the evolution of molecular recognition: theory, predictions and observations. Pac Symp Biocomput. pp 473-484.
-
(1998)
Pac Symp Biocomput
, pp. 473-484
-
-
Dunker, A.K.1
Garner, E.2
Guilliot, S.3
Romero, P.4
Albrecht, K.5
-
4
-
-
0003380323
-
Predicting disordered regions from amino acid sequence: Common themes despite differing structural characterization
-
Garner E, Cannon P, Romero P, Obradovic Z, Dunker AK (1998) Predicting disordered regions from amino acid sequence: common themes despite differing structural characterization. Genome Inform Ser Workshop Genome Inform 9: 201-213.
-
(1998)
Genome Inform Ser Workshop Genome Inform
, vol.9
, pp. 201-213
-
-
Garner, E.1
Cannon, P.2
Romero, P.3
Obradovic, Z.4
Dunker, A.K.5
-
5
-
-
13644257647
-
Comparing and combining predictors of mostly disordered proteins
-
Oldfield CJ, Cheng Y, Cortese MS, Brown CJ, Uversky VN, et al. (2005) Comparing and combining predictors of mostly disordered proteins. Biochemistry 44: 1989-2000.
-
(2005)
Biochemistry
, vol.44
, pp. 1989-2000
-
-
Oldfield, C.J.1
Cheng, Y.2
Cortese, M.S.3
Brown, C.J.4
Uversky, V.N.5
-
6
-
-
0034669882
-
Why are "natively unfolded" proteins unstructured under physiologic conditions?
-
Uversky VN, Gillespie JR, Fink AL (2000) Why are "natively unfolded" proteins unstructured under physiologic conditions? Proteins 41: 415-427.
-
(2000)
Proteins
, vol.41
, pp. 415-427
-
-
Uversky, V.N.1
Gillespie, J.R.2
Fink, A.L.3
-
7
-
-
0034570889
-
Intrinsic protein disorder in complete genomes
-
Dunker AK, Obradovic Z, Romero P, Garner EC, Brown CJ (2000) Intrinsic protein disorder in complete genomes. Genome Inform Ser Workshop Genome Inform 11: 161-171.
-
(2000)
Genome Inform Ser Workshop Genome Inform
, vol.11
, pp. 161-171
-
-
Dunker, A.K.1
Obradovic, Z.2
Romero, P.3
Garner, E.C.4
Brown, C.J.5
-
8
-
-
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
-
9
-
-
0035022941
-
Intrinsically disordered protein
-
Dunker AK, Lawson JD, Brown CJ, Williams RM, Romero P, et al. (2001) Intrinsically disordered protein. J Mol Graph Model 19: 26-59.
-
(2001)
J Mol Graph Model
, vol.19
, pp. 26-59
-
-
Dunker, A.K.1
Lawson, J.D.2
Brown, C.J.3
Williams, R.M.4
Romero, P.5
-
10
-
-
0036803243
-
Intrinsically unstructured proteins
-
Tompa P (2002) Intrinsically unstructured proteins. Trends Biochem Sci 27: 527-533.
-
(2002)
Trends Biochem Sci
, vol.27
, pp. 527-533
-
-
Tompa, P.1
-
11
-
-
0036408751
-
Intrinsic disorder in cell-signaling and cancer-associated proteins
-
Iakoucheva LM, Brown CJ, Lawson JD, Obradovic Z, Dunker AK (2002) Intrinsic disorder in cell-signaling and cancer-associated proteins. J Mol Biol 323: 573-584.
-
(2002)
J Mol Biol
, vol.323
, pp. 573-584
-
-
Iakoucheva, L.M.1
Brown, C.J.2
Lawson, J.D.3
Obradovic, Z.4
Dunker, A.K.5
-
12
-
-
13844255387
-
Natively unfolded proteins
-
Fink AL (2005) Natively unfolded proteins. Curr Opin Struct Biol 15: 35-41.
-
(2005)
Curr Opin Struct Biol
, vol.15
, pp. 35-41
-
-
Fink, A.L.1
-
13
-
-
25144472591
-
Showing your ID: Intrinsic disorder as an ID for recognition, regulation and cell signaling
-
Uversky VN, Oldfield CJ, Dunker AK (2005) Showing your ID: intrinsic disorder as an ID for recognition, regulation and cell signaling. J Mol Recognit 18: 343-384.
-
(2005)
J Mol Recognit
, vol.18
, pp. 343-384
-
-
Uversky, V.N.1
Oldfield, C.J.2
Dunker, A.K.3
-
14
-
-
27144464910
-
Flexible nets. the roles of intrinsic disorder in protein interaction networks
-
Dunker AK, Cortese MS, Romero P, Iakoucheva LM, Uversky VN (2005) Flexible nets. the roles of intrinsic disorder in protein interaction networks. FEBS J 272: 5129-5148.
-
(2005)
FEBS J
, vol.272
, pp. 5129-5148
-
-
Dunker, A.K.1
Cortese, M.S.2
Romero, P.3
Iakoucheva, L.M.4
Uversky, V.N.5
-
15
-
-
4143107222
-
Analysis of ordered and disordered protein complexes reveals structural features discriminating between stable and unstable monomers
-
Gunasekaran K, Tsai CJ, Nussinov R (2004) Analysis of ordered and disordered protein complexes reveals structural features discriminating between stable and unstable monomers. J Mol Biol 341: 1327-1341.
-
(2004)
J Mol Biol
, vol.341
, pp. 1327-1341
-
-
Gunasekaran, K.1
Tsai, C.J.2
Nussinov, R.3
-
16
-
-
33846829658
-
Monte carlo study of substrate-induced folding and refolding of lattice proteins
-
Coluzza I, Frenkel D (2007) Monte carlo study of substrate-induced folding and refolding of lattice proteins. Biophys J 92: 1150-1156.
-
(2007)
Biophys J
, vol.92
, pp. 1150-1156
-
-
Coluzza, I.1
Frenkel, D.2
-
17
-
-
40949117264
-
Flexible nets: Disorder and induced fit in the associations of p53 and 14-3-3 with their partners
-
Oldfield CJ, Meng J, Yang JY, Yang MQ, Uversky VN, et al. (2008) Flexible nets: disorder and induced fit in the associations of p53 and 14-3-3 with their partners. BMC Genomics 9(Suppl 1): S1.
-
(2008)
BMC Genomics
, vol.9
, Issue.SUPPL. 1
-
-
Oldfield, C.J.1
Meng, J.2
Yang, J.Y.3
Yang, M.Q.4
Uversky, V.N.5
-
18
-
-
34547943482
-
Molecular principles of the interactions of disordered proteins
-
Mészáros B, Tompa P, Simon I, Dosztányi Z (2007) Molecular principles of the interactions of disordered proteins. J Mol Biol 372: 549-561.
-
(2007)
J Mol Biol
, vol.372
, pp. 549-561
-
-
Mészáros, B.1
Tompa, P.2
Simon, I.3
Dosztányi, Z.4
-
19
-
-
24944546549
-
Coupled folding and binding with alpha-helix-forming molecular recognition elements
-
Oldfield CJ, Cheng Y, Cortese MS, Romero P, Uversky VN, et al. (2005) Coupled folding and binding with alpha-helix-forming molecular recognition elements. Biochemistry 44: 12454-12470.
-
(2005)
Biochemistry
, vol.44
, pp. 12454-12470
-
-
Oldfield, C.J.1
Cheng, Y.2
Cortese, M.S.3
Romero, P.4
Uversky, V.N.5
-
20
-
-
33748456399
-
Analysis of molecular recognition features (morfs)
-
Mohan A, Oldfield CJ, Radivojac P, Vacic V, Cortese MS, et al. (2006) Analysis of molecular recognition features (morfs). J Mol Biol 362: 1043-1059.
-
(2006)
J Mol Biol
, vol.362
, pp. 1043-1059
-
-
Mohan, A.1
Oldfield, C.J.2
Radivojac, P.3
Vacic, V.4
Cortese, M.S.5
-
21
-
-
36749037699
-
Mining alpha-helix-forming molecular recognition features with cross species sequence alignments
-
Cheng Y, Oldfield CJ, Meng J, Romero P, Uversky VN, et al. (2007) Mining alpha-helix-forming molecular recognition features with cross species sequence alignments. Biochemistry 46: 13468-13477.
-
(2007)
Biochemistry
, vol.46
, pp. 13468-13477
-
-
Cheng, Y.1
Oldfield, C.J.2
Meng, J.3
Romero, P.4
Uversky, V.N.5
-
22
-
-
34250815165
-
Characterization of molecular recognition features, MoRFs, and their binding partners
-
Vacic V, Oldfield CJ, Mohan A, Radivojac P, Cortese MS, et al. (2007) Characterization of molecular recognition features, MoRFs, and their binding partners. J Proteome Res 6: 2351-2366.
-
(2007)
J Proteome Res
, vol.6
, pp. 2351-2366
-
-
Vacic, V.1
Oldfield, C.J.2
Mohan, A.3
Radivojac, P.4
Cortese, M.S.5
-
23
-
-
34249695447
-
Local structural disorder imparts plasticity on linear motifs
-
Fuxreiter M, Tompa P, Simon I (2007) Local structural disorder imparts plasticity on linear motifs. Bioinformatics 23: 950-956.
-
(2007)
Bioinformatics
, vol.23
, pp. 950-956
-
-
Fuxreiter, M.1
Tompa, P.2
Simon, I.3
-
24
-
-
0027191901
-
A new substitution matrix for protein sequence searches based on contact frequencies in protein structures
-
Miyazawa S, Jernigan RL (1993) A new substitution matrix for protein sequence searches based on contact frequencies in protein structures. Protein Eng 6: 267-278.
-
(1993)
Protein Eng
, vol.6
, pp. 267-278
-
-
Miyazawa, S.1
Jernigan, R.L.2
-
25
-
-
0033005899
-
Pair potentials for protein folding: Choice of reference states and sensitivity of predicted native states to variations in the interaction schemes
-
Betancourt MR, Thirumalai D (1999) Pair potentials for protein folding: choice of reference states and sensitivity of predicted native states to variations in the interaction schemes. Protein Sci 8: 361-369.
-
(1999)
Protein Sci
, vol.8
, pp. 361-369
-
-
Betancourt, M.R.1
Thirumalai, D.2
-
26
-
-
0027234766
-
Engineering of stable and fast-folding sequences of model proteins
-
Shakhnovich EI, Gutin AM (1993) Engineering of stable and fast-folding sequences of model proteins. Proc Natl Acad Sci U S A 90: 7195-7199.
-
(1993)
Proc Natl Acad Sci U S A
, vol.90
, pp. 7195-7199
-
-
Shakhnovich, E.I.1
Gutin, A.M.2
-
29
-
-
0024602854
-
Heat capacity and conformation of proteins in the denatured state
-
Privalov PL, Tiktopulo EI, Venyaminov SY, Griko YV, Makhatadze GI, et al. (1989) Heat capacity and conformation of proteins in the denatured state. J Mol Biol 205: 737-750.
-
(1989)
J Mol Biol
, vol.205
, pp. 737-750
-
-
Privalov, P.L.1
Tiktopulo, E.I.2
Venyaminov, S.Y.3
Griko, Y.V.4
Makhatadze, G.I.5
-
30
-
-
33750478659
-
Folding kinetics of a lattice protein via a forward flux sampling approach
-
Borrero EE, Escobedo FA (2006) Folding kinetics of a lattice protein via a forward flux sampling approach. J Chem Phys 125: 164904.
-
(2006)
J Chem Phys
, vol.125
, pp. 164904
-
-
Borrero, E.E.1
Escobedo, F.A.2
-
31
-
-
14844361744
-
Comparative analysis of the cytotoxicity of homopolymeric amino acids
-
Oma Y, Kino Y, Sasagawa N, Ishiura S (2005) Comparative analysis of the cytotoxicity of homopolymeric amino acids. Biochim Biophys Acta 1748: 174-179.
-
(2005)
Biochim Biophys Acta
, vol.1748
, pp. 174-179
-
-
Oma, Y.1
Kino, Y.2
Sasagawa, N.3
Ishiura, S.4
-
32
-
-
33748210163
-
Prefibrillar amyloid aggregates could be generic toxins in higher organisms
-
Baglioni S, Casamenti F, Bucciantini M, Luheshi LM, Taddei N, et al. (2006) Prefibrillar amyloid aggregates could be generic toxins in higher organisms. J Neurosci 26: 8160-8167.
-
(2006)
J Neurosci
, vol.26
, pp. 8160-8167
-
-
Baglioni, S.1
Casamenti, F.2
Bucciantini, M.3
Luheshi, L.M.4
Taddei, N.5
-
33
-
-
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, et al. (2007) Structural reorganisation and potential toxicity of oligomeric species formed during the assembly of amyloid fibrils. PLoS Comput Biol 3: e173. doi:10.1371/ journal.pcbi.0030173.
-
(2007)
PLoS Comput Biol
, vol.3
-
-
Cheon, M.1
Chang, I.2
Mohanty, S.3
Luheshi, L.M.4
Dobson, C.M.5
-
34
-
-
34547631623
-
Prevention of amyloidlike aggregation as a driving force of protein evolution
-
Monsellier E, Chiti F (2007) Prevention of amyloidlike 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
-
35
-
-
0037022563
-
Natural b-sheet proteins use negative design to avoid edge-to-edge aggregation
-
Richardson JS, Richardson DC (2002) Natural b-sheet proteins use negative design to avoid edge-to-edge aggregation. Proc Natl Acad Sci U S A 99: 2754-2759.
-
(2002)
Proc Natl Acad Sci U S A
, vol.99
, pp. 2754-2759
-
-
Richardson, J.S.1
Richardson, D.C.2
-
36
-
-
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
-
37
-
-
0032033222
-
Self-assembly and steric stabilization at heterogeneous, biological surfaces using adsorbing block copolymers
-
Elbert DL, Hubbell JA (1998) Self-assembly and steric stabilization at heterogeneous, biological surfaces using adsorbing block copolymers. Chem Biol 5: 177-183.
-
(1998)
Chem Biol
, vol.5
, pp. 177-183
-
-
Elbert, D.L.1
Hubbell, J.A.2
-
38
-
-
0035937592
-
Block copolymer micelles for drug delivery: Design, characterization and biological significance
-
Kataoka K, Harada A, Nagasaki Y (2001) Block copolymer micelles for drug delivery: design, characterization and biological significance. Adv Drug Deliv Rev 47: 113-131.
-
(2001)
Adv Drug Deliv Rev
, vol.47
, pp. 113-131
-
-
Kataoka, K.1
Harada, A.2
Nagasaki, Y.3
-
40
-
-
33644899039
-
Simulated tempering: A new monte carlo scheme
-
Marinari E, Parisi G (1992) Simulated tempering: A new monte carlo scheme. Europhys Lett 19: 451-458.
-
(1992)
Europhys Lett
, vol.19
, pp. 451-458
-
-
Marinari, E.1
Parisi, G.2
-
41
-
-
84950437936
-
Annealing Markov Chain Monte Carlo with applications to ancestral inference
-
Geyer CJ, Thompson EA (1995) Annealing Markov Chain Monte Carlo with applications to ancestral inference. J Am Stat Assoc 90: 909-920.
-
(1995)
J Am Stat Assoc
, vol.90
, pp. 909-920
-
-
Geyer, C.J.1
Thompson, E.A.2
-
42
-
-
11144230021
-
Speed-up of Monte Carlo simulations by sampling of rejected states
-
Frenkel D (2004) Speed-up of Monte Carlo simulations by sampling of rejected states. Proc Natl Acad Sci U S A 101: 17571-17575.
-
(2004)
Proc Natl Acad Sci U S A
, vol.101
, pp. 17571-17575
-
-
Frenkel, D.1
-
43
-
-
4444221565
-
UCSF chimera - a visualization system for exploratory research and analysis
-
Pettersen EF, Goddard TD, Huang CC, Couch GS, Greenblatt DM, et al. (2004) UCSF chimera - a visualization system for exploratory research and analysis. J Comput Chem 25: 1605-1612.
-
(2004)
J Comput Chem
, vol.25
, pp. 1605-1612
-
-
Pettersen, E.F.1
Goddard, T.D.2
Huang, C.C.3
Couch, G.S.4
Greenblatt, D.M.5
|