-
1
-
-
1042263811
-
PGTdb: a database providing growth temperatures of prokaryotes
-
Huang SL, Wu LC, Liang HK, Pan KT, Horng JT, Ko MT. PGTdb: a database providing growth temperatures of prokaryotes. Bioinformatics 2004; 20: 276-278.
-
(2004)
Bioinformatics
, vol.20
, pp. 276-278
-
-
Huang, S.L.1
Wu, L.C.2
Liang, H.K.3
Pan, K.T.4
Horng, J.T.5
Ko, M.T.6
-
3
-
-
6344265180
-
Experiment-guided thermodynamic simulations on reversible two state proteins: implications for protein thermostability
-
Kumar S, Nussinov R. Experiment-guided thermodynamic simulations on reversible two state proteins: implications for protein thermostability. Biophys Chem 2004; 111: 235-246.
-
(2004)
Biophys Chem
, vol.111
, pp. 235-246
-
-
Kumar, S.1
Nussinov, R.2
-
4
-
-
0032715527
-
Important amino acid properties for enhanced thermostability from mesophilic to thermophilic proteins
-
Gromiha MM, Oobatake M, Sarai A. Important amino acid properties for enhanced thermostability from mesophilic to thermophilic proteins. Biophys Chem 1999; 82: 51-67.
-
(1999)
Biophys Chem
, vol.82
, pp. 51-67
-
-
Gromiha, M.M.1
Oobatake, M.2
Sarai, A.3
-
5
-
-
38949093003
-
Palaeotemperature trend for Precambrian life inferred from resurrected proteins
-
Gaucher EA, Govindarajan S, Ganesh OK. Palaeotemperature trend for Precambrian life inferred from resurrected proteins. Nature 2008; 451: 704-707.
-
(2008)
Nature
, vol.451
, pp. 704-707
-
-
Gaucher, E.A.1
Govindarajan, S.2
Ganesh, O.K.3
-
6
-
-
0031614960
-
Proteins from hyperthermophiles: stability and enzymatic catalysis close to the boiling point of water
-
Ladenstein R, Antranikian G. Proteins from hyperthermophiles: stability and enzymatic catalysis close to the boiling point of water. Adv Biochem Eng Biotechnol 1998; 61: 37-85.
-
(1998)
Adv Biochem Eng Biotechnol
, vol.61
, pp. 37-85
-
-
Ladenstein, R.1
Antranikian, G.2
-
7
-
-
0032438190
-
The stability of proteins in extreme environments
-
Jaenicke R, Bohm G. The stability of proteins in extreme environments. Curr Opin Struct Biol 1998; 8: 738-648.
-
(1998)
Curr Opin Struct Biol
, vol.8
, pp. 738-648
-
-
Jaenicke, R.1
Bohm, G.2
-
8
-
-
0034855858
-
How do thermophilic proteins deal with heat?
-
Kumar S, Nussinov R. How do thermophilic proteins deal with heat? Cell Mol Life Sci 2001; 58: 1216-1233.
-
(2001)
Cell Mol Life Sci
, vol.58
, pp. 1216-1233
-
-
Kumar, S.1
Nussinov, R.2
-
9
-
-
0042433116
-
New understandings of thermostable and peizostable enzymes
-
Yano JK, Poulos TL. New understandings of thermostable and peizostable enzymes. Curr Opin Biotechnol 2003; 14: 360-365.
-
(2003)
Curr Opin Biotechnol
, vol.14
, pp. 360-365
-
-
Yano, J.K.1
Poulos, T.L.2
-
10
-
-
77956912541
-
Protein stability and enzyme activity at extreme biological temperatures
-
Feller G. Protein stability and enzyme activity at extreme biological temperatures. J Phys Condens Matter 2010; 22: 323101.
-
(2010)
J Phys Condens Matter
, vol.22
, pp. 323101
-
-
Feller, G.1
-
11
-
-
79952199938
-
Engineering protein stability
-
O'Fágáin C. Engineering protein stability. Methods Mol Biol 2011; 681: 103-136.
-
(2011)
Methods Mol Biol
, vol.681
, pp. 103-136
-
-
O'Fágáin, C.1
-
12
-
-
0034531995
-
Selected mutations in a mesophilic cytochrome c confer the stability of a thermophilic counterpart
-
Hasegawa J, Uchiyama S, Tanimoto Y, Mizutani M, Kobayashi Y, Sambongi Y, Igarashi Y. Selected mutations in a mesophilic cytochrome c confer the stability of a thermophilic counterpart. J Biol Chem 2000; 275: 37824-37828.
-
(2000)
J Biol Chem
, vol.275
, pp. 37824-37828
-
-
Hasegawa, J.1
Uchiyama, S.2
Tanimoto, Y.3
Mizutani, M.4
Kobayashi, Y.5
Sambongi, Y.6
Igarashi, Y.7
-
13
-
-
0034017055
-
Factors enhancing protein thermostability
-
Kumar S, Tsai CJ, Nussinov R. Factors enhancing protein thermostability. Protein Eng 2000; 13: 179-191.
-
(2000)
Protein Eng
, vol.13
, pp. 179-191
-
-
Kumar, S.1
Tsai, C.J.2
Nussinov, R.3
-
14
-
-
0035960641
-
Thermodynamic differences among homologous thermophilic and mesophilic proteins
-
Kumar S, Tsai CJ, Nussinov R. Thermodynamic differences among homologous thermophilic and mesophilic proteins. Biochemistry 2001; 40: 14152-14165.
-
(2001)
Biochemistry
, vol.40
, pp. 14152-14165
-
-
Kumar, S.1
Tsai, C.J.2
Nussinov, R.3
-
15
-
-
0035876847
-
Important inter-residue contacts for enhancing the thermal stability of thermophilic proteins
-
Gromiha MM. Important inter-residue contacts for enhancing the thermal stability of thermophilic proteins. Biophys Chem 2001; 91: 71-77.
-
(2001)
Biophys Chem
, vol.91
, pp. 71-77
-
-
Gromiha, M.M.1
-
16
-
-
0036425552
-
Role of cation-pi interactions to the stability of thermophilic proteins
-
Gromiha MM, Thomas S, Santhosh C. Role of cation-pi interactions to the stability of thermophilic proteins. Prep Biochem Biotechnol 2002; 32: 355-362.
-
(2002)
Prep Biochem Biotechnol
, vol.32
, pp. 355-362
-
-
Gromiha, M.M.1
Thomas, S.2
Santhosh, C.3
-
17
-
-
8444244797
-
Role of weak interactions in thermal stability of proteins
-
Ibrahim BS, Pattabhi V. Role of weak interactions in thermal stability of proteins. Biochem Biophys Res Commun 2004; 325: 1082-1089.
-
(2004)
Biochem Biophys Res Commun
, vol.325
, pp. 1082-1089
-
-
Ibrahim, B.S.1
Pattabhi, V.2
-
18
-
-
0033603392
-
Electrostatic contributions to the stability of hyperthermophilic proteins
-
Xiao L, Honig B. Electrostatic contributions to the stability of hyperthermophilic proteins. J Mol Biol 1999; 289: 1435-1444.
-
(1999)
J Mol Biol
, vol.289
, pp. 1435-1444
-
-
Xiao, L.1
Honig, B.2
-
19
-
-
4444362321
-
An electrostatic basis for the stability of thermophilic proteins
-
Dominy BN, Minoux H, Brooks CLIII., An electrostatic basis for the stability of thermophilic proteins. Proteins 2004; 57: 128-141.
-
(2004)
Proteins
, vol.57
, pp. 128-141
-
-
Dominy, B.N.1
Minoux, H.2
Brooks III, C.L.3
-
20
-
-
16244421734
-
Importance of mainchain hydrophobic free energy to the stability of thermophilic proteins
-
Saraboji K, Gromiha MM, Ponnuswamy MN. Importance of mainchain hydrophobic free energy to the stability of thermophilic proteins. Int J Biol Macromol 2005; 35: 211-220.
-
(2005)
Int J Biol Macromol
, vol.35
, pp. 211-220
-
-
Saraboji, K.1
Gromiha, M.M.2
Ponnuswamy, M.N.3
-
21
-
-
77951620702
-
Five mutations in N-terminus confer thermostability on mesophilic xylanase
-
Zhang S, Zhang K, Chen X, Chu X, Sun F, Dong Z. Five mutations in N-terminus confer thermostability on mesophilic xylanase. Biochem Biophys Res Commun 2010; 395: 200-206.
-
(2010)
Biochem Biophys Res Commun
, vol.395
, pp. 200-206
-
-
Zhang, S.1
Zhang, K.2
Chen, X.3
Chu, X.4
Sun, F.5
Dong, Z.6
-
22
-
-
75149155238
-
Comparative analysis of thermophilic and mesophilic proteins using Protein Energy Networks
-
Vijayabaskar MS, Vishveshwara S. Comparative analysis of thermophilic and mesophilic proteins using Protein Energy Networks. BMC Bioinform 2010; 11(Suppl. 1): S49.
-
(2010)
BMC Bioinform
, vol.11
, Issue.SUPPL. 1
-
-
Vijayabaskar, M.S.1
Vishveshwara, S.2
-
23
-
-
34548730241
-
Different packing of external residues can explain differences in the thermostability of proteins from thermophilic and mesophilic organisms
-
Glyakina AV, Garbuzynskiy SO, Lobanov MY, Galzitskaya OV. Different packing of external residues can explain differences in the thermostability of proteins from thermophilic and mesophilic organisms. Bioinformatics 2007; 23: 2231-2238.
-
(2007)
Bioinformatics
, vol.23
, pp. 2231-2238
-
-
Glyakina, A.V.1
Garbuzynskiy, S.O.2
Lobanov, M.Y.3
Galzitskaya, O.V.4
-
24
-
-
62949116944
-
Subunit interfaces of oligomeric hyperthermophilic enzymes display enhanced compactness
-
Baldasseroni F, Pascarella S. Subunit interfaces of oligomeric hyperthermophilic enzymes display enhanced compactness. Int J Biol Macromol 2009; 44: 353-360.
-
(2009)
Int J Biol Macromol
, vol.44
, pp. 353-360
-
-
Baldasseroni, F.1
Pascarella, S.2
-
25
-
-
80052449370
-
How do thermophilic proteins and proteomes withstand high temperature?
-
Sawle L, Ghosh K. How do thermophilic proteins and proteomes withstand high temperature? Biophys J 2011; 101: 217-227.
-
(2011)
Biophys J
, vol.101
, pp. 217-227
-
-
Sawle, L.1
Ghosh, K.2
-
26
-
-
79959612799
-
Stabilizing salt-bridge enhances protein thermostability by reducing the heat capacity change of unfolding
-
Chan CH, Yu TH, Wong KB. Stabilizing salt-bridge enhances protein thermostability by reducing the heat capacity change of unfolding. PLoS One 2011; 6: e21624.
-
(2011)
PLoS One
, vol.6
-
-
Chan, C.H.1
Yu, T.H.2
Wong, K.B.3
-
27
-
-
80052569506
-
Inhibition of α-synuclein aggregation by small heat shock proteins
-
Bruinsma IB, Bruggink KA, Kinast K, Versleijen AA, Segers-Nolten IM, Subramaniam V, Bea Kuiperij H, Boelens W, de Waal RM, Verbeek MM. Inhibition of α-synuclein aggregation by small heat shock proteins. Proteins 2011; 79: 2956-2967.
-
(2011)
Proteins
, vol.79
, pp. 2956-2967
-
-
Bruinsma, I.B.1
Bruggink, K.A.2
Kinast, K.3
Versleijen, A.A.4
Segers-Nolten, I.M.5
Subramaniam, V.6
Bea Kuiperij, H.7
Boelens, W.8
de Waal, R.M.9
Verbeek, M.M.10
-
28
-
-
80053408422
-
Hsc70 interaction with soluble and fibrillar α-Synuclein
-
Pemberton S, Madiona K, Pieri L, Kabani M, Bousset L, Melki R. Hsc70 interaction with soluble and fibrillar α-Synuclein. J Biol Chem 2011; 286: 34690-34699.
-
(2011)
J Biol Chem
, vol.286
, pp. 34690-34699
-
-
Pemberton, S.1
Madiona, K.2
Pieri, L.3
Kabani, M.4
Bousset, L.5
Melki, R.6
-
29
-
-
79953088876
-
Knitting and snipping: chaperones in β-helix folding
-
Schulz EC, Ficner R. Knitting and snipping: chaperones in β-helix folding. Curr Opin Struct Biol 2011; 21: 232-239.
-
(2011)
Curr Opin Struct Biol
, vol.21
, pp. 232-239
-
-
Schulz, E.C.1
Ficner, R.2
-
30
-
-
77649265357
-
Exploring the sequence determinants of amyloid structure using position-specific scoring matrices
-
Maurer-Stroh S, Debulpaep M, Kuemmerer N, Lopez de la Paz M, Martins IC, Reumers J, Morris KL, Copland A, Serpell L, Serrano L, Schymkowitz JW, Rousseau F. Exploring the sequence determinants of amyloid structure using position-specific scoring matrices. Nat Methods 2010; 7: 237-242.
-
(2010)
Nat Methods
, vol.7
, pp. 237-242
-
-
Maurer-Stroh, S.1
Debulpaep, M.2
Kuemmerer, N.3
Lopez de la Paz, M.4
Martins, I.C.5
Reumers, J.6
Morris, K.L.7
Copland, A.8
Serpell, L.9
Serrano, L.10
Schymkowitz, J.W.11
Rousseau, F.12
-
31
-
-
77955466435
-
Identification and impact of aggregation prone regions in proteins and therapeutic mAbs
-
Wang W, Roberts CJ, editors. Hoboken, NJ: Wiley;
-
Kumar S, Wang X, Singh SK. Identification and impact of aggregation prone regions in proteins and therapeutic mAbs. In: Wang W, Roberts CJ, editors. Aggregation of therapeutic proteins. Hoboken, NJ: Wiley; 2010. pp 103-118.
-
(2010)
Aggregation of therapeutic proteins
, pp. 103-118
-
-
Kumar, S.1
Wang, X.2
Singh, S.K.3
-
32
-
-
80054949314
-
Aggregation in protein-based biotherapeutics: computational studies and tools to identify aggregation prone regions
-
Agrawal NJ, Kumar S, Wang X, Helk B, Singh SK, Trout BL. Aggregation in protein-based biotherapeutics: computational studies and tools to identify aggregation prone regions. J Pharm Sci 2011; 100: 5081-5095.
-
(2011)
J Pharm Sci
, vol.100
, pp. 5081-5095
-
-
Agrawal, N.J.1
Kumar, S.2
Wang, X.3
Helk, B.4
Singh, S.K.5
Trout, B.L.6
-
34
-
-
0036166319
-
Kinetic partitioning of protein folding and aggregation
-
Chiti F, Taddei N, Baroni F, Capanni C, Stefani M, Ramponi G, Dobson CM. Kinetic partitioning of protein folding and aggregation. Nat Struct Mol Biol 2002; 9: 137-143.
-
(2002)
Nat Struct Mol Biol
, vol.9
, pp. 137-143
-
-
Chiti, F.1
Taddei, N.2
Baroni, F.3
Capanni, C.4
Stefani, M.5
Ramponi, G.6
Dobson, C.M.7
-
35
-
-
20444440728
-
Structure of the cross-β spine of amyloid-like fibrils
-
Nelson R, Sawaya MR, Balbirnie M, Madsen AO, Riekel C, Grothe R, Eisenberg D. Structure of the cross-β spine of amyloid-like fibrils. Nature 2005; 435: 773-778.
-
(2005)
Nature
, vol.435
, pp. 773-778
-
-
Nelson, R.1
Sawaya, M.R.2
Balbirnie, M.3
Madsen, A.O.4
Riekel, C.5
Grothe, R.6
Eisenberg, D.7
-
36
-
-
44949219079
-
Prediction of aggregation-prone regions in structured proteins
-
Tartaglia GG, Pawar AP, Campioni S, Dobson CM, Chiti F, Vendruscolo M. Prediction of aggregation-prone regions in structured proteins. J Mol Biol 2008; 380: 425-436.
-
(2008)
J Mol Biol
, vol.380
, pp. 425-436
-
-
Tartaglia, G.G.1
Pawar, A.P.2
Campioni, S.3
Dobson, C.M.4
Chiti, F.5
Vendruscolo, M.6
-
37
-
-
34548756136
-
Identification of amyloid fibril-forming segments based on structure and residue-based statistical potential
-
Zhang Z, Chen H, Lai L. Identification of amyloid fibril-forming segments based on structure and residue-based statistical potential. Bioinformatics 2007; 23: 2218-2225.
-
(2007)
Bioinformatics
, vol.23
, pp. 2218-2225
-
-
Zhang, Z.1
Chen, H.2
Lai, L.3
-
38
-
-
33645238380
-
The 3D profile method for identifying fibril-forming segments of proteins
-
Thompson MJ, Sievers SA, Karanicolas J, Ivanova MI, Baker D, Eisenberg D. The 3D profile method for identifying fibril-forming segments of proteins. Proc Natl Acad Sci USA 2006; 103: 4074-4078.
-
(2006)
Proc Natl Acad Sci USA
, vol.103
, pp. 4074-4078
-
-
Thompson, M.J.1
Sievers, S.A.2
Karanicolas, J.3
Ivanova, M.I.4
Baker, D.5
Eisenberg, D.6
-
39
-
-
67650683480
-
Aggregation-prone motifs in human immunoglobulin G
-
Chennamsetty N, Helk B, Voynov V, Kayser V, Trout BL. Aggregation-prone motifs in human immunoglobulin G. J Mol Biol 2009; 391: 404-413.
-
(2009)
J Mol Biol
, vol.391
, pp. 404-413
-
-
Chennamsetty, N.1
Helk, B.2
Voynov, V.3
Kayser, V.4
Trout, B.L.5
-
40
-
-
33748689799
-
Simulations as analytical tools to understand protein aggregation and predict amyloid conformation
-
Ma B, Nussinov R. Simulations as analytical tools to understand protein aggregation and predict amyloid conformation. Curr Opin Chem Biol 2006; 10: 445-452.
-
(2006)
Curr Opin Chem Biol
, vol.10
, pp. 445-452
-
-
Ma, B.1
Nussinov, R.2
-
41
-
-
35748961997
-
Molecular basis of osmolyte effects on protein and metabolites
-
Rösgen J. Molecular basis of osmolyte effects on protein and metabolites. Methods Enzymol 2007; 428: 459-486.
-
(2007)
Methods Enzymol
, vol.428
, pp. 459-486
-
-
Rösgen, J.1
-
42
-
-
33947730947
-
An analysis of the molecular origin of osmolyte-dependent protein stability
-
Rösgen J, Pettitt BM, Bolen DW. An analysis of the molecular origin of osmolyte-dependent protein stability. Protein Sci 2007; 16: 733-743.
-
(2007)
Protein Sci
, vol.16
, pp. 733-743
-
-
Rösgen, J.1
Pettitt, B.M.2
Bolen, D.W.3
-
43
-
-
57049105810
-
Structural thermodynamics of protein preferential solvation: osmolyte solvation of proteins, amino acids, and peptides
-
Auton M, Bolen DW, Rösgen J. Structural thermodynamics of protein preferential solvation: osmolyte solvation of proteins, amino acids, and peptides. Proteins 2008; 73: 802-813.
-
(2008)
Proteins
, vol.73
, pp. 802-813
-
-
Auton, M.1
Bolen, D.W.2
Rösgen, J.3
-
44
-
-
84857783416
-
Computational methods to predict of aggregation in therapeutic proteins. In: Voynov V, Caravella J, editors. Therapeutic proteins: methods & protocols
-
2nd ed. USA: Humana Press, in press.
-
Buck PM, Kumar S, Wang X, Agrawal NJ, Trout BL, Singh SK. Computational methods to predict of aggregation in therapeutic proteins. In: Voynov V, Caravella J, editors. Therapeutic proteins: methods & protocols, 2nd ed. Methods in molecular biology. USA: Humana Press, in press.
-
Methods in molecular biology
-
-
Buck, P.M.1
Kumar, S.2
Wang, X.3
Agrawal, N.J.4
Trout, B.L.5
Singh, S.K.6
-
45
-
-
31944435727
-
The determinants of stability in the human prion protein: insights into folding and misfolding from the analysis of the change in the stabilization energy distribution in different conditions
-
Colacino S, Tiana G, Broglia RA, Colombo G. The determinants of stability in the human prion protein: insights into folding and misfolding from the analysis of the change in the stabilization energy distribution in different conditions. Proteins 2006; 62: 698-707.
-
(2006)
Proteins
, vol.62
, pp. 698-707
-
-
Colacino, S.1
Tiana, G.2
Broglia, R.A.3
Colombo, G.4
-
46
-
-
79954531753
-
Nonnative aggregation of an IgG1 antibody in acidic conditions: part 1. Unfolding, colloidal interactions, and formation of high-molecular-weight aggregates
-
Brummitt RK, Nesta DP, Chang L, Chase SF, Laue TM, Roberts CJ. Nonnative aggregation of an IgG1 antibody in acidic conditions: part 1. Unfolding, colloidal interactions, and formation of high-molecular-weight aggregates. J Pharm Sci 2011; 100: 2087-2103.
-
(2011)
J Pharm Sci
, vol.100
, pp. 2087-2103
-
-
Brummitt, R.K.1
Nesta, D.P.2
Chang, L.3
Chase, S.F.4
Laue, T.M.5
Roberts, C.J.6
-
47
-
-
51649099535
-
Water-soluble tripeptide Abeta (9-11) forms amyloid-like fibrils and exhibits neurotoxicity
-
Naskar J, Drew MG, Deb I, Das S, Banerjee A. Water-soluble tripeptide Abeta (9-11) forms amyloid-like fibrils and exhibits neurotoxicity. Org Lett 2008; 10: 2625-2628.
-
(2008)
Org Lett
, vol.10
, pp. 2625-2628
-
-
Naskar, J.1
Drew, M.G.2
Deb, I.3
Das, S.4
Banerjee, A.5
-
48
-
-
0037044732
-
Charge attraction and beta propensity are necessary for amyloid fibril formation from tetrapeptides
-
Tjernberg L, Hosia W, Bark N, Thyberg J, Johansson J. Charge attraction and beta propensity are necessary for amyloid fibril formation from tetrapeptides. J Biol Chem 2002; 277: 43243-43246.
-
(2002)
J Biol Chem
, vol.277
, pp. 43243-43246
-
-
Tjernberg, L.1
Hosia, W.2
Bark, N.3
Thyberg, J.4
Johansson, J.5
-
49
-
-
33749031257
-
Extremolytes: natural compounds from extremophiles for versatile applications
-
Lentzen G, Schwarz T. Extremolytes: natural compounds from extremophiles for versatile applications. Appl Microbiol Biotechnol 2006; 72: 623-634.
-
(2006)
Appl Microbiol Biotechnol
, vol.72
, pp. 623-634
-
-
Lentzen, G.1
Schwarz, T.2
-
50
-
-
5044235541
-
Prediction of sequence-dependent and mutational effects on the aggregation of peptides and proteins
-
Fernandez-Escamilla A-M, Rousseau F, Schymkowitz J, Serrano L. Prediction of sequence-dependent and mutational effects on the aggregation of peptides and proteins. Nat Biotechnol 2004; 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
-
51
-
-
25844466604
-
Prediction of aggregation rate and aggregation-prone segments in polypeptide sequences
-
Tartaglia GG, Cavalli A, Pellarin R, Caflisch A. Prediction of aggregation rate and aggregation-prone segments in polypeptide sequences. Protein Sci 2005; 14: 2723-2734.
-
(2005)
Protein Sci
, vol.14
, pp. 2723-2734
-
-
Tartaglia, G.G.1
Cavalli, A.2
Pellarin, R.3
Caflisch, A.4
-
52
-
-
77955467854
-
Potential aggregation-prone regions in complementarity-determining regions of antibodies and their contribution towards antigen recognition: a computational analysis
-
Wang X, Singh SK, Kumar S. Potential aggregation-prone regions in complementarity-determining regions of antibodies and their contribution towards antigen recognition: a computational analysis. Pharm Res 2010; 27: 1512-1529.
-
(2010)
Pharm Res
, vol.27
, pp. 1512-1529
-
-
Wang, X.1
Singh, S.K.2
Kumar, S.3
-
53
-
-
0032101291
-
Dissecting alpha-helices: position-specific analysis of alpha-helices in globular proteins
-
Kumar S, Bansal M. Dissecting alpha-helices: position-specific analysis of alpha-helices in globular proteins. Proteins 1998; 31: 460-476.
-
(1998)
Proteins
, vol.31
, pp. 460-476
-
-
Kumar, S.1
Bansal, M.2
-
54
-
-
0015217634
-
The solubility of amino acids and two glycine peptides in aqueous ethanol and dioxane solutions. Establishment of a hydrophobicity scale
-
Nozaki Y, Tanford C. The solubility of amino acids and two glycine peptides in aqueous ethanol and dioxane solutions. Establishment of a hydrophobicity scale. J Biol Chem 1971; 246: 2211-2217.
-
(1971)
J Biol Chem
, vol.246
, pp. 2211-2217
-
-
Nozaki, Y.1
Tanford, C.2
-
55
-
-
0016708277
-
Amino acid properties and side-chain orientation in proteins: a cross correlation approach
-
Jones DD. Amino acid properties and side-chain orientation in proteins: a cross correlation approach. J Theor Biol 1975; 50: 167-183.
-
(1975)
J Theor Biol
, vol.50
, pp. 167-183
-
-
Jones, D.D.1
-
56
-
-
0018077908
-
Hydrophobic character of amino acid residues in globular proteins
-
Manavalan P, Ponnuswamy PK. Hydrophobic character of amino acid residues in globular proteins. Nature 1978; 275: 673-674.
-
(1978)
Nature
, vol.275
, pp. 673-674
-
-
Manavalan, P.1
Ponnuswamy, P.K.2
-
57
-
-
0017588168
-
A study of the preferred environment of amino acid residues in globular proteins
-
Manavalan P, Ponnuswamy PK. A study of the preferred environment of amino acid residues in globular proteins. Arch Biochem Biophys 1977; 184: 476-487.
-
(1977)
Arch Biochem Biophys
, vol.184
, pp. 476-487
-
-
Manavalan, P.1
Ponnuswamy, P.K.2
-
58
-
-
0037072946
-
Effect of amino acid on forming residue-residue contacts in proteins
-
Jiang Z, Zhang L, Chen J, Xia A, Zhao D. Effect of amino acid on forming residue-residue contacts in proteins. Polymer 2002; 43: 6037-6047.
-
(2002)
Polymer
, vol.43
, pp. 6037-6047
-
-
Jiang, Z.1
Zhang, L.2
Chen, J.3
Xia, A.4
Zhao, D.5
-
59
-
-
1842464687
-
Inter-residue interactions in protein folding and stability
-
Gromiha MM, Selvaraj S. Inter-residue interactions in protein folding and stability. Prog Biophys Mol Biol 2004; 86: 235-277.
-
(2004)
Prog Biophys Mol Biol
, vol.86
, pp. 235-277
-
-
Gromiha, M.M.1
Selvaraj, S.2
-
60
-
-
0033521194
-
First principles prediction of protein folding rates
-
Debe DA, Goddard WA. First principles prediction of protein folding rates. J Mol Biol 1999; 294: 619-625.
-
(1999)
J Mol Biol
, vol.294
, pp. 619-625
-
-
Debe, D.A.1
Goddard, W.A.2
-
61
-
-
0035967862
-
Comparison between long-range interactions and contact order in determining the folding rates of two-state proteins: application of long-range order to folding rate prediction
-
Gromiha MM, Selvaraj S. Comparison between long-range interactions and contact order in determining the folding rates of two-state proteins: application of long-range order to folding rate prediction. J Mol Biol 2001; 310: 27-32.
-
(2001)
J Mol Biol
, vol.310
, pp. 27-32
-
-
Gromiha, M.M.1
Selvaraj, S.2
-
62
-
-
37749052245
-
Prediction of protein stability upon point mutations
-
Gromiha MM. Prediction of protein stability upon point mutations. Biochem Soc Trans 2007; 35: 1569-1573.
-
(2007)
Biochem Soc Trans
, vol.35
, pp. 1569-1573
-
-
Gromiha, M.M.1
-
63
-
-
77958510302
-
Influence of long-range contacts and surrounding residues on the transition state structures of proteins
-
Gromiha MM. Influence of long-range contacts and surrounding residues on the transition state structures of proteins. Anal Biochem 2011; 408: 32-36.
-
(2011)
Anal Biochem
, vol.408
, pp. 32-36
-
-
Gromiha, M.M.1
-
64
-
-
0020997912
-
Dictionary of protein secondary structure: pattern recognition of hydrogen-bonded and geometrical features
-
Kabsch W, Sander C. Dictionary of protein secondary structure: pattern recognition of hydrogen-bonded and geometrical features. Biopolymers 1983; 22: 2577-2637.
-
(1983)
Biopolymers
, vol.22
, pp. 2577-2637
-
-
Kabsch, W.1
Sander, C.2
-
65
-
-
0029011701
-
A second generation force field for the simulation of proteins, nucleic acids, and organic molecules
-
Cornell WD, Cieplak P, Bayly CI, Gould IR, Merz KM, Ferguson DM, Spellmeyer DC, Fox T, Caldwell JW, Kollman PA. A second generation force field for the simulation of proteins, nucleic acids, and organic molecules. J Am Chem Soc 1995; 117: 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
Spellmeyer, D.C.7
Fox, T.8
Caldwell, J.W.9
Kollman, P.A.10
-
66
-
-
0033532946
-
Free-energy maps of base-amino acid interactions for DNA-protein recognition
-
Pichierri F, Aida M, Gromiha MM, Sarai A. Free-energy maps of base-amino acid interactions for DNA-protein recognition. J Am Chem Soc 1999; 121: 6152-6157.
-
(1999)
J Am Chem Soc
, vol.121
, pp. 6152-6157
-
-
Pichierri, F.1
Aida, M.2
Gromiha, M.M.3
Sarai, A.4
-
67
-
-
72949113228
-
Energy based approach for understanding the recognition mechanism in protein-protein complexes
-
Gromiha MM, Yokota K, Fukui K. Energy based approach for understanding the recognition mechanism in protein-protein complexes. Mol Biosyst 2009; 12: 1779-1786.
-
(2009)
Mol Biosyst
, vol.12
, pp. 1779-1786
-
-
Gromiha, M.M.1
Yokota, K.2
Fukui, K.3
-
68
-
-
0035957696
-
Amyloid fibril formation by a helical cytochrome
-
Pertinhez TA, Bouchard M, Tomlinson EJ, Wain R, Ferguson SJ, Dobson CM, Smith LJ. Amyloid fibril formation by a helical cytochrome. FEBS Lett 2001; 495: 184-186.
-
(2001)
FEBS Lett
, vol.495
, pp. 184-186
-
-
Pertinhez, T.A.1
Bouchard, M.2
Tomlinson, E.J.3
Wain, R.4
Ferguson, S.J.5
Dobson, C.M.6
Smith, L.J.7
-
69
-
-
3342902033
-
Modulation of S6 fibrillation by unfolding rates and gatekeeper residues
-
Pedersen JS, Christensen G, Otzen DE. Modulation of S6 fibrillation by unfolding rates and gatekeeper residues. J Mol Biol 2004; 341: 575-588.
-
(2004)
J Mol Biol
, vol.341
, pp. 575-588
-
-
Pedersen, J.S.1
Christensen, G.2
Otzen, D.E.3
-
70
-
-
2542445427
-
ConSurf: identification of functional regions in proteins by surface-mapping of phylogenetic information
-
Glaser F, Pupko T, Paz I, Bell RE, Bechor-Shental D, Martz E, Ben-Tal N. ConSurf: identification of functional regions in proteins by surface-mapping of phylogenetic information. Bioinformatics 2003; 19: 163-164.
-
(2003)
Bioinformatics
, vol.19
, pp. 163-164
-
-
Glaser, F.1
Pupko, T.2
Paz, I.3
Bell, R.E.4
Bechor-Shental, D.5
Martz, E.6
Ben-Tal, N.7
-
73
-
-
79955604636
-
Temperature dependent molecular adaptations, microbial proteins
-
Flickinger MC, Editor., New York: John Wiley & Sons, Inc
-
Kumar S, Singh SK, Gromiha MM. Temperature dependent molecular adaptations, microbial proteins. In: Flickinger MC, Editor. Encyclopedia of Industrial Biotechnology, Bioprocess, Bioseparation, and Cell Technology, New York: John Wiley & Sons, Inc.; Vol. 7; 2010. pp 4647-4761.
-
(2010)
Encyclopedia of Industrial Biotechnology, Bioprocess, Bioseparation, and Cell Technology
, vol.7
, pp. 4647-4761
-
-
Kumar, S.1
Singh, S.K.2
Gromiha, M.M.3
-
74
-
-
0039116206
-
Structural differences between mesophilic, moderately thermophilic and extremely thermophilic protein subunits: results of a comprehensive survey
-
Szilágyi A, Závodszky P. Structural differences between mesophilic, moderately thermophilic and extremely thermophilic protein subunits: results of a comprehensive survey. Structure 2000; 8: 493-504.
-
(2000)
Structure
, vol.8
, pp. 493-504
-
-
Szilágyi, A.1
Závodszky, P.2
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