-
1
-
-
48249134448
-
The protein folding problem
-
Dill, K. A., Ozkan, S. B., Shell, M. S., and Weikl, T. R. (2008) The protein folding problem. Annu. Rev. Biophys. 37, 289-316.
-
(2008)
Annu. Rev. Biophys.
, vol.37
, pp. 289-316
-
-
Dill, K.A.1
Ozkan, S.B.2
Shell, M.S.3
Weikl, T.R.4
-
2
-
-
45849102407
-
Mechanisms of protein folding
-
Ivarsson, Y., Travaglini-Allocatelli, C., Brunori, M., and Gianni, S. (2008) Mechanisms of protein folding. Eur. Biophys. J. Biophys. Lett. 37 (6), 721-728.
-
(2008)
Eur. Biophys. J. Biophys. Lett.
, vol.37
, Issue.6
, pp. 721-728
-
-
Ivarsson, Y.1
Travaglini-Allocatelli, C.2
Brunori, M.3
Gianni, S.4
-
3
-
-
0344301982
-
Protein folding: A perspective from theory and experiment
-
DOI 10.1002/(SICI)1521-3773(19980420)37:7<868::AID-ANIE868>3.0. CO;2-H
-
Dobson, C. M., Sali, A., and Karplus, M. (1998) Protein folding: A perspective from theory and experiment. Angew. Chem., Int. Ed. 37 (7), 868-893. (Pubitemid 28228882)
-
(1998)
Angewandte Chemie - International Edition
, vol.37
, Issue.7
, pp. 868-893
-
-
Dobson, C.M.1
Sali, A.2
Karplus, M.3
-
4
-
-
0033080081
-
Is protein folding hierarchic? II. Folding intermediates and transition states
-
Baldwin, R. L., and Rose, G. D. (1999) Is protein folding hierarchic? II. Folding intermediates and transition states. Trends Biochem. Sci. 24 (2), 77-83.
-
(1999)
Trends Biochem. Sci.
, vol.24
, Issue.2
, pp. 77-83
-
-
Baldwin, R.L.1
Rose, G.D.2
-
5
-
-
0032972986
-
Is protein folding hierarchic? I. Local structure and peptide folding
-
Baldwin, R. L., and Rose, G. D. (1999) Is protein folding hierarchic? I. Local structure and peptide folding. Trends Biochem. Sci. 24 (1), 26-33.
-
(1999)
Trends Biochem. Sci.
, vol.24
, Issue.1
, pp. 26-33
-
-
Baldwin, R.L.1
Rose, G.D.2
-
6
-
-
28244437028
-
The Yin and Yang of protein folding
-
Jahn, T. R., and Radford, S. E. (2005) The Yin and Yang of protein folding. FEBS J. 272 (23), 5962-5970.
-
(2005)
FEBS J.
, vol.272
, Issue.23
, pp. 5962-5970
-
-
Jahn, T.R.1
Radford, S.E.2
-
7
-
-
0002006297
-
Are there pathways for protein folding?
-
C, L. (1968) Are there pathways for protein folding? J. Chem. Phys. 65, 44-45.
-
(1968)
J. Chem. Phys.
, vol.65
, pp. 44-45
-
-
-
8
-
-
1842298212
-
From Levinthal to pathways to funnels
-
Dill, K. A., and Chan, H. S. (1997) From Levinthal to pathways to funnels. Nat. Struct. Biol. 4 (1), 10-19.
-
(1997)
Nat. Struct. Biol.
, vol.4
, Issue.1
, pp. 10-19
-
-
Dill, K.A.1
Chan, H.S.2
-
9
-
-
0032993447
-
Polymer principles and protein folding
-
Dill, K. A. (1999) Polymer principles and protein folding. Protein Sci. 8 (6), 1166-1180.
-
(1999)
Protein Sci.
, vol.8
, Issue.6
, pp. 1166-1180
-
-
Dill, K.A.1
-
10
-
-
4644306518
-
An experimentally determined protein folding energy landscape
-
Mello, C. C., and Barrick, D. (2004) An experimentally determined protein folding energy landscape. Proc. Natl. Acad. Sci. U.S.A. 101 (39), 14102-14107.
-
(2004)
Proc. Natl. Acad. Sci. U.S.A.
, vol.101
, Issue.39
, pp. 14102-14107
-
-
Mello, C.C.1
Barrick, D.2
-
11
-
-
0035956901
-
Solvent effects on the energy landscapes and folding kinetics of polyalanine
-
Levy, Y., Jortner, J., and Becker, O. M. (2001) Solvent effects on the energy landscapes and folding kinetics of polyalanine. Proc. Natl. Acad. Sci. U.S.A. 98 (5), 2188-2193.
-
(2001)
Proc. Natl. Acad. Sci. U.S.A.
, vol.98
, Issue.5
, pp. 2188-2193
-
-
Levy, Y.1
Jortner, J.2
Becker, O.M.3
-
12
-
-
34248388108
-
Folding and unfolding of a photoswitchable peptide from picoseconds to microseconds
-
Ihalainen, J., Bredenbeck, J., Pfister, R., Helbing, J., Chi, L., van Stokkum, I., Woolley, G., and Hamm, P. (2007) Folding and unfolding of a photoswitchable peptide from picoseconds to microseconds. Proc. Natl. Acad. Sci. U.S.A. 104 (13), 5383-5388.
-
(2007)
Proc. Natl. Acad. Sci. U.S.A.
, vol.104
, Issue.13
, pp. 5383-5388
-
-
Ihalainen, J.1
Bredenbeck, J.2
Pfister, R.3
Helbing, J.4
Chi, L.5
Van Stokkum, I.6
Woolley, G.7
Hamm, P.8
-
13
-
-
35548963401
-
Enthalpic and entropic stages in alpha-helical peptide unfolding, from laser T-Jump/UV Raman spectroscopy
-
Balakrishnan, G., Hu, Y., Bender, G., Getahun, Z., DeGrado, W., and Spiro, T. (2007) Enthalpic and entropic stages in alpha-helical peptide unfolding, from laser T-Jump/UV Raman spectroscopy. J. Am. Chem. Soc. 129 (42), 12801-12808.
-
(2007)
J. Am. Chem. Soc.
, vol.129
, Issue.42
, pp. 12801-12808
-
-
Balakrishnan, G.1
Hu, Y.2
Bender, G.3
Getahun, Z.4
DeGrado, W.5
Spiro, T.6
-
14
-
-
11844262057
-
Spectroscopic evidence for backbone desolvation of helical peptides by 2,2,2-trifluoroethanol: An isotope-edited FTIR study
-
DOI 10.1021/bi0481444
-
Starzyk, A., Barber-Armstrong, W., Sridharan, M., and Decatur, S. (2005) Spectroscopic evidence for backbone desolvation of helical peptides by 2,2,2-trifluoroethanol: An isotope-edited FTIR study. Biochemistry 44 (1), 369-376. (Pubitemid 40095739)
-
(2005)
Biochemistry
, vol.44
, Issue.1
, pp. 369-376
-
-
Starzyk, A.1
Barber-Armstrong, W.2
Sridharan, M.3
Decatur, S.M.4
-
15
-
-
6344230036
-
Length dependent helix-coil transition kinetics of nine alanine-based peptides
-
Wang, T., Zhu, Y., Getahun, Z., Du, D., Huang, C., DeGrado, W., and Gai, F. (2004) Length dependent helix-coil transition kinetics of nine alanine-based peptides. J. Phys. Chem. B 108 (39), 15301-15310.
-
(2004)
J. Phys. Chem. B
, vol.108
, Issue.39
, pp. 15301-15310
-
-
Wang, T.1
Zhu, Y.2
Getahun, Z.3
Du, D.4
Huang, C.5
DeGrado, W.6
Gai, F.7
-
16
-
-
0037022567
-
Helix formation via conformation diffusion search
-
Huang, C., Getahun, Z., Zhu, Y., Klemke, J., DeGrado, W., and Gai, F. (2002) Helix formation via conformation diffusion search. Proc. Natl. Acad. Sci. U.S.A. 99 (5), 2788-2793.
-
(2002)
Proc. Natl. Acad. Sci. U.S.A.
, vol.99
, Issue.5
, pp. 2788-2793
-
-
Huang, C.1
Getahun, Z.2
Zhu, Y.3
Klemke, J.4
DeGrado, W.5
Gai, F.6
-
17
-
-
0035955148
-
Temperature-dependent helix-coil transition of an alanine based peptide
-
Huang, C., Klemke, J., Getahun, Z., DeGrado, W., and Gai, F. (2001) Temperature-dependent helix-coil transition of an alanine based peptide. J. Am. Chem. Soc. 123 (38), 9235-9238.
-
(2001)
J. Am. Chem. Soc.
, vol.123
, Issue.38
, pp. 9235-9238
-
-
Huang, C.1
Klemke, J.2
Getahun, Z.3
DeGrado, W.4
Gai, F.5
-
18
-
-
0000137407
-
The helix-coil kinetics of a heteropeptide
-
Thompson, P., Munoz, V., Jas, G., Henry, E., Eaton, W., and Hofrichter, J. (2000) The helix-coil kinetics of a heteropeptide. J. Phys. Chem. B 104 (2), 378-389.
-
(2000)
J. Phys. Chem. B
, vol.104
, Issue.2
, pp. 378-389
-
-
Thompson, P.1
Munoz, V.2
Jas, G.3
Henry, E.4
Eaton, W.5
Hofrichter, J.6
-
19
-
-
0030687509
-
Characterization of alanine-rich peptides, Ac-(AAKAA)(n)-GY-NH2 (n=1-4), using vibrational circular dichroism and Fourier transform infrared. Conformational determination and thermal unfolding
-
Yoder, G., Pancoska, P., and Keiderling, T. (1997) Characterization of alanine-rich peptides, Ac-(AAKAA)(n)-GY-NH2 (n=1-4), using vibrational circular dichroism and Fourier transform infrared. Conformational determination and thermal unfolding. Biochemistry 36 (49), 15123-15133.
-
(1997)
Biochemistry
, vol.36
, Issue.49
, pp. 15123-15133
-
-
Yoder, G.1
Pancoska, P.2
Keiderling, T.3
-
20
-
-
0030789351
-
Laser temperature jump study of the helix reversible arrow coil kinetics of an alanine peptide interpreted with a "kinetic zipper" model
-
Thompson, P., Eaton, W., and Hofrichter, J. (1997) Laser temperature jump study of the helix reversible arrow coil kinetics of an alanine peptide interpreted with a "kinetic zipper" model. Biochemistry 36 (30), 9200-9210.
-
(1997)
Biochemistry
, vol.36
, Issue.30
, pp. 9200-9210
-
-
Thompson, P.1
Eaton, W.2
Hofrichter, J.3
-
21
-
-
70449693698
-
Laser temperature jump studies of the helix-coil transition of an alanine-based peptide
-
Thompson, P., Eaton, A., and Hofrichter, J. (1997) Laser temperature jump studies of the helix-coil transition of an alanine-based peptide. Biophys. J. 72 (2), WP377-WP377.
-
(1997)
Biophys. J.
, vol.72
, Issue.2
-
-
Thompson, P.1
Eaton, A.2
Hofrichter, J.3
-
22
-
-
0031564662
-
Estimating the relative populations of 3(10)-helix and alpha-helix in Ala-rich peptides: A hydrogen exchange and high field NMR study
-
Millhauser, G., Stenland, C., Hanson, P., Bolin, K., and vandeVen, F. (1997) Estimating the relative populations of 3(10)-helix and alpha-helix in Ala-rich peptides: A hydrogen exchange and high field NMR study. J. Mol. Biol. 267 (4), 963-974.
-
(1997)
J. Mol. Biol.
, vol.267
, Issue.4
, pp. 963-974
-
-
Millhauser, G.1
Stenland, C.2
Hanson, P.3
Bolin, K.4
VandeVen, F.5
-
23
-
-
0030046906
-
Fast events in protein folding: Helix melting and formation in a small peptide
-
DOI 10.1021/bi952217p
-
Williams, S., Causgrove, T., Gilmanshin, R., Fang, K., Callender, R., Woodruff, W., and Dyer, R. (1996) Fast events in protein folding: Helix melting and formation in a small peptide. Biochemistry 35 (3), 691-697. (Pubitemid 26034553)
-
(1996)
Biochemistry
, vol.35
, Issue.3
, pp. 691-697
-
-
Williams, S.1
Causgrove, T.P.2
Gilmanshin, R.3
Fang, K.S.4
Callender, R.H.5
Woodruff, W.H.6
Dyer, R.B.7
-
25
-
-
0027435983
-
10-helix in alanine- Based peptides: Evidence for a length-dependent structural transition
-
DOI 10.1021/bi00096a003
-
Fiori, W., Miick, S., and Millhauser, G. (1993) Increasing sequence length favors alpha-helix over 3(10)-helix in alanine-based peptides-evidence for a length-dependent structural transition. Biochemistry 32 (45), 11957-11962. (Pubitemid 23353631)
-
(1993)
Biochemistry
, vol.32
, Issue.45
, pp. 11957-11962
-
-
Fiori, W.R.1
Miick, S.M.2
Millhauser, G.L.3
-
26
-
-
12044251376
-
A neutral, water-soluble, alpha-helical peptide: The effect of ionic strength on helix-coil equilibrium
-
Scholtz, J. M., York, E. J., Stewart, J. M., and Baldwin, R. L. (1991)A neutral, water-soluble, alpha-helical peptide: The effect of ionic strength on helix-coil equilibrium. J. Am. Chem. Soc. 113, 5102-5104.
-
(1991)
J. Am. Chem. Soc.
, vol.113
, pp. 5102-5104
-
-
Scholtz, J.M.1
York, E.J.2
Stewart, J.M.3
Baldwin, R.L.4
-
27
-
-
0024707204
-
Unusually stable helix formation in short alanine-based peptides
-
Marqusee, S., Robbins, V. H., and Baldwin, R. L. (1989) Unusually stable helix formation in short alanine-based peptides. Proc. Natl. Acad. Sci. U.S.A. 86, 5286-5290.
-
(1989)
Proc. Natl. Acad. Sci. U.S.A.
, vol.86
, pp. 5286-5290
-
-
Marqusee, S.1
Robbins, V.H.2
Baldwin, R.L.3
-
28
-
-
33645422964
-
Fast folding dynamics of alpha-helical peptides - Effect of solvent additives and pH
-
Ramajo, A. P., Petty, S. A., and Volk, M. (2006) Fast folding dynamics of alpha-helical peptides - Effect of solvent additives and pH. Chem. Phys. 323 (1), 11-20.
-
(2006)
Chem. Phys.
, vol.323
, Issue.1
, pp. 11-20
-
-
Ramajo, A.P.1
Petty, S.A.2
Volk, M.3
-
29
-
-
0034682537
-
Site-specific conformational determination in thermal unfolding studies of helical peptides using vibrational circular dichroism with isotopic substitution
-
Silva, R. A. G. D., Kubelka, J., Bour, P., Decatur, S. M., and Keiderling, T. A. (2000) Site-specific conformational determination in thermal unfolding studies of helical peptides using vibrational circular dichroism with isotopic substitution. Proc. Natl. Acad. Sci. U.S.A. 97 (15), 8318-8323.
-
(2000)
Proc. Natl. Acad. Sci. U.S.A.
, vol.97
, Issue.15
, pp. 8318-8323
-
-
Silva, R.A.G.D.1
Kubelka, J.2
Bour, P.3
Decatur, S.M.4
Keiderling, T.A.5
-
30
-
-
0032558088
-
Biopolymer conformational distributions from solid-state NMR: Alpha-helix and 3(10)-helix contents of a helical peptide
-
Long, H. W., and Tycko, R. (1998) Biopolymer conformational distributions from solid-state NMR: alpha-helix and 3(10)-helix contents of a helical peptide. J. Am. Chem. Soc. 120 (28), 7039-7048.
-
(1998)
J. Am. Chem. Soc.
, vol.120
, Issue.28
, pp. 7039-7048
-
-
Long, H.W.1
Tycko, R.2
-
31
-
-
34247521430
-
Examination of the folding of a short alanine-based helical peptide with salt bridges using molecular dynamics simulation
-
Wang, W., Lin, T., and Sun, Y. (2007) Examination of the folding of a short alanine-based helical peptide with salt bridges using molecular dynamics simulation. J. Phys. Chem. B 111 (13), 3508-3514.
-
(2007)
J. Phys. Chem. B
, vol.111
, Issue.13
, pp. 3508-3514
-
-
Wang, W.1
Lin, T.2
Sun, Y.3
-
32
-
-
30344484542
-
The solvation interface is a determining factor in peptide conformational preferences
-
Sorin, E., Rhee, Y., Shirts, M., and Pande, V. (2006) The solvation interface is a determining factor in peptide conformational preferences. J. Mol. Biol. 356 (1), 248-256.
-
(2006)
J. Mol. Biol.
, vol.356
, Issue.1
, pp. 248-256
-
-
Sorin, E.1
Rhee, Y.2
Shirts, M.3
Pande, V.4
-
33
-
-
33751261979
-
Modeling of folding and unfolding mechanisms in alanine-based alpha-helical polypeptides
-
Morozov, A., and Lin, S. (2006) Modeling of folding and unfolding mechanisms in alanine-based alpha-helical polypeptides. J. Phys. Chem. B 110 (41), 20555-20561.
-
(2006)
J. Phys. Chem. B
, vol.110
, Issue.41
, pp. 20555-20561
-
-
Morozov, A.1
Lin, S.2
-
34
-
-
20544435097
-
Exploring the helix-coil transition via all-atom equilibrium ensemble simulations
-
DOI 10.1529/biophysj.104.051938
-
Sorin, E., and Pande, V. (2005) Exploring the helix-coil transition via all-atom equilibrium ensemble simulations. Biophys. J. 88 (4), 2472-2493. (Pubitemid 40976118)
-
(2005)
Biophysical Journal
, vol.88
, Issue.4
, pp. 2472-2493
-
-
Sorin, E.J.1
Pande, V.S.2
-
35
-
-
10044247242
-
Equilibrium structure and folding of a helix-forming peptide: Circular dichroism measurements and replica-exchange molecular dynamics simulations
-
DOI 10.1529/biophysj.104.045419
-
Jas, G., and Kuczera, K. (2004) Equilibrium structure and folding of a helix-forming peptide: Circular dichroism measurements and replica-exchange molecular dynamics simulations. Biophys. J. 87 (6), 3786-3798. (Pubitemid 39602886)
-
(2004)
Biophysical Journal
, vol.87
, Issue.6
, pp. 3786-3798
-
-
Jas, G.S.1
Kuczera, K.2
-
36
-
-
3042681600
-
Nature of structural inhomogeneities on folding a helix and their influence on spectral measurements
-
Gnanakaran, S., Hochstrasser, R., and Garcia, A. (2004) Nature of structural inhomogeneities on folding a helix and their influence on spectral measurements. Proc. Natl. Acad. Sci. U.S.A. 101 (25), 9229-9234.
-
(2004)
Proc. Natl. Acad. Sci. U.S.A.
, vol.101
, Issue.25
, pp. 9229-9234
-
-
Gnanakaran, S.1
Hochstrasser, R.2
Garcia, A.3
-
37
-
-
70449692044
-
Nature of structural inhomogeneities during folding of a helix: Manifestation in IR
-
Gnanakaran, S., Hochstrasser, R., and Garcia, A. (2003) Nature of structural inhomogeneities during folding of a helix: Manifestation in IR. Abstr. Paper Am. Chem. Soc. 226, U335-U335.
-
(2003)
Abstr. Paper Am. Chem. Soc.
, vol.226
-
-
Gnanakaran, S.1
Hochstrasser, R.2
Garcia, A.3
-
38
-
-
0242385345
-
Role of Backbone Hydration and Salt-Bridge Formation in Stability of alpha-Helix in Solution
-
Ghosh, T., Garde, S., and Garcia, A. (2003) Role of backbone hydration and salt-bridge formation in stability of alpha-helix in solution. Biophys. J. 85 (5), 3187-3193. (Pubitemid 37345805)
-
(2003)
Biophysical Journal
, vol.85
, Issue.5
, pp. 3187-3193
-
-
Ghosh, T.1
Garde, S.2
Garcia, A.E.3
-
39
-
-
0038245156
-
The role of alpha-, 3(10)-, and pi-helix in helix → coil transitions
-
Armen, R., Alonso, D., and Daggett, V. (2003) The role of alpha-, 3(10)-, and pi-helix in helix → coil transitions. Protein Sci. 12 (6), 1145-1157.
-
(2003)
Protein Sci.
, vol.12
, Issue.6
, pp. 1145-1157
-
-
Armen, R.1
Alonso, D.2
Daggett, V.3
-
40
-
-
0035122551
-
Influence of lysine content and pH on the stability of alanine-based copolypeptides
-
Vila, J., Ripoll, D., and Scheraga,H. (2001) Influence of lysine content and pH on the stability of alanine-based copolypeptides. Biopolymers 58 (3), 235-246. (Pubitemid 32142429)
-
(2001)
Biopolymers
, vol.58
, Issue.3
, pp. 235-246
-
-
Vila, J.A.1
Ripoll, D.R.2
Scheraga, H.A.3
-
41
-
-
0030970740
-
Curious structure in "canonical" alanine based peptides
-
Shirley, W., and Brooks, C. (1997) Curious structure in "canonical" alanine based peptides. Proteins: Struct., Funct., Genet. 28 (1), 59-71.
-
(1997)
Proteins: Struct., Funct., Genet.
, vol.28
, Issue.1
, pp. 59-71
-
-
Shirley, W.1
Brooks, C.2
-
42
-
-
2942754061
-
Fs-21 peptides can form both single helix and helix-turn-helix
-
Zhang, W., Lei, H. X., Chowdhury, S., and Duan, Y. (2004) Fs-21 peptides can form both single helix and helix-turn-helix. J. Phys. Chem. B 108 (22), 7479-7489.
-
(2004)
J. Phys. Chem. B
, vol.108
, Issue.22
, pp. 7479-7489
-
-
Zhang, W.1
Lei, H.X.2
Chowdhury, S.3
Duan, Y.4
-
43
-
-
3142754280
-
UV Raman demonstrates that alpha-helical polyalanine peptides melt to polyproline II conformations
-
Asher, S., Mikhonin, A., and Bykov, S. (2004) UV Raman demonstrates that alpha-helical polyalanine peptides melt to polyproline II conformations. J. Am. Chem. Soc. 126 (27), 8433-8440.
-
(2004)
J. Am. Chem. Soc.
, vol.126
, Issue.27
, pp. 8433-8440
-
-
Asher, S.1
Mikhonin, A.2
Bykov, S.3
-
44
-
-
1842500993
-
Unfolded State of Polyalanine Is a Segmented Polyproline II Helix
-
DOI 10.1002/prot.20051
-
Kentsis, A., Mezei, M., Gindin, T., and Osman, R. (2004) Unfolded state of polyalanine is a segmented polyproline II helix. Proteins: Struct., Funct., Bioinf. 55 (3), 493-501. (Pubitemid 38620074)
-
(2004)
Proteins: Structure, Function and Genetics
, vol.55
, Issue.3
, pp. 493-501
-
-
Kentsis, A.1
Mezei, M.2
Gindin, T.3
Osman, R.4
-
45
-
-
1842500992
-
Polyproline II Helix Is the Preferred Conformation for Unfolded Polyalanine in Water
-
DOI 10.1002/prot.20050
-
Mezei, M., Fleming, P., Srinivasan, R., and Rose, G. (2004) Polyproline II helix is the preferred conformation for unfolded polyalanine in water. Proteins: Struct., Funct., Genet. 55 (3), 502-507. (Pubitemid 38620075)
-
(2004)
Proteins: Structure, Function and Genetics
, vol.55
, Issue.3
, pp. 502-507
-
-
Mezei, M.1
Fleming, P.J.2
Srinivasan, R.3
Rose, G.D.4
-
46
-
-
0036784642
-
A simple model for polyproline II structure in unfolded states of alanine-based peptides
-
DOI 10.1110/ps.0217402
-
Pappu, R., and Rose, G. (2002) A simple model for polyproline II structure in unfolded states of alanine-based peptides. Protein Sci. 11 (10), 2437-2455. (Pubitemid 35050669)
-
(2002)
Protein Science
, vol.11
, Issue.10
, pp. 2437-2455
-
-
Pappu, R.V.1
Rose, G.D.2
-
47
-
-
0037047134
-
Polyproline II structure in a sequence of seven alanine residues
-
Shi, Z., Olson, C., Rose, G., Baldwin, R., and Kallenbach, N. (2002) Polyproline II structure in a sequence of seven alanine residues. Proc. Natl. Acad. Sci. U.S.A. 99 (14), 9190-9195.
-
(2002)
Proc. Natl. Acad. Sci. U.S.A.
, vol.99
, Issue.14
, pp. 9190-9195
-
-
Shi, Z.1
Olson, C.2
Rose, G.3
Baldwin, R.4
Kallenbach, N.5
-
48
-
-
33746615772
-
Direct UV Raman monitoring of 3(10)-helix and pi-bulge premelting during alpha-helix unfolding
-
Mikhonin, A. V., and Asher, S. A. (2006) Direct UV Raman monitoring of 3(10)-helix and pi-bulge premelting during alpha-helix unfolding. J. Am. Chem. Soc. 128 (42), 13789-13795.
-
(2006)
J. Am. Chem. Soc.
, vol.128
, Issue.42
, pp. 13789-13795
-
-
Mikhonin, A.V.1
Asher, S.A.2
-
49
-
-
34147143434
-
UV Raman spatially resolved melting dynamics of isotopically labeled polyalanyl peptide: Slow alpha-helix melting follows 3(10)-helices and pi-bulges premelting
-
Mikhonin, A., Asher, S., Bykov, S., and Murza, A. (2007) UV Raman spatially resolved melting dynamics of isotopically labeled polyalanyl peptide: Slow alpha-helix melting follows 3(10)-helices and pi-bulges premelting. J. Phys. Chem. B 111 (12), 3280-3292.
-
(2007)
J. Phys. Chem. B
, vol.111
, Issue.12
, pp. 3280-3292
-
-
Mikhonin, A.1
Asher, S.2
Bykov, S.3
Murza, A.4
-
50
-
-
0031029477
-
Charge density-dependent strength of hydration and biological structure
-
Collins, K. D. (1997) Charge density-dependent strength of hydration and biological structure. Biophys. J. 72 (1), 65-76.
-
(1997)
Biophys. J.
, vol.72
, Issue.1
, pp. 65-76
-
-
Collins, K.D.1
-
51
-
-
4344565219
-
Ions from the Hofmeister series and osmolytes: Effects on proteins in solution and in the crystallization process
-
Collins, K. D. (2004) Ions from the Hofmeister series and osmolytes: Effects on proteins in solution and in the crystallization process. Methods 34 (3), 300-311.
-
(2004)
Methods
, vol.34
, Issue.3
, pp. 300-311
-
-
Collins, K.D.1
-
52
-
-
34249706387
-
Ions in water: Characterizing the forces that control chemical processes and biological structure
-
Collins, K. D., Neilson, G. W., and Enderby, J. E. (2007) Ions in water: Characterizing the forces that control chemical processes and biological structure. Biophys. Chem. 128 (2-3), 95-104.
-
(2007)
Biophys. Chem.
, vol.128
, Issue.2-3
, pp. 95-104
-
-
Collins, K.D.1
Neilson, G.W.2
Enderby, J.E.3
-
53
-
-
30344434960
-
Steady-state and transient ultraviolet resonance Raman spectrometer for the 193-270 nm spectral region
-
Bykov, S., Lednev, I., Ianoul, A., Mikhonin, A., Munro, C., and Asher, S. A. (2005) Steady-state and transient ultraviolet resonance Raman spectrometer for the 193-270 nm spectral region. Appl. Spectrosc. 59 (12), 1541-1552.
-
(2005)
Appl. Spectrosc.
, vol.59
, Issue.12
, pp. 1541-1552
-
-
Bykov, S.1
Lednev, I.2
Ianoul, A.3
Mikhonin, A.4
Munro, C.5
Asher, S.A.6
-
54
-
-
4444221565
-
UCSF Chimera - A visualization system for exploratory research and analysis
-
Pettersen, E. F., Goddard, T. D., Huang, C. C., Couch, G. S., Greenblatt, D. M., Meng, E. C., and Ferrin, T. E. (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
Meng, E.C.6
Ferrin, T.E.7
-
55
-
-
0026592274
-
Theoretical CD studies of polypeptide helices: Examination of important electronic and geometric factors
-
Manning, M. C., and Woody, R. W. (1991) Theoretical CD studies of polypeptide helices: Examination of important electronic and geometric factors. Biopolymers 31, 569-586.
-
(1991)
Biopolymers
, vol.31
, pp. 569-586
-
-
Manning, M.C.1
Woody, R.W.2
-
56
-
-
3142754280
-
UV Raman demonstrates that alpha-helical polyalanine peptides melt to polyproline II conformations
-
Asher, S. A., Mikhonin, A. V., and Bykov, S. (2004) UV Raman demonstrates that alpha-helical polyalanine peptides melt to polyproline II conformations. J. Am. Chem. Soc. 126 (27), 8433-8440.
-
(2004)
J. Am. Chem. Soc.
, vol.126
, Issue.27
, pp. 8433-8440
-
-
Asher, S.A.1
Mikhonin, A.V.2
Bykov, S.3
-
57
-
-
0033536452
-
Alpha-helix peptide folding and unfolding activation barriers: A nanosecond UV resonance Raman study
-
Lednev, I., Karnoup, A., Sparrow, M., and Asher, S. (1999) alpha-helix peptide folding and unfolding activation barriers: A nanosecond UV resonance Raman study. J. Am. Chem. Soc. 121 (35), 8074-8086.
-
(1999)
J. Am. Chem. Soc.
, vol.121
, Issue.35
, pp. 8074-8086
-
-
Lednev, I.1
Karnoup, A.2
Sparrow, M.3
Asher, S.4
-
58
-
-
0000598749
-
UVRR spectroscopy of the peptide bond. 1. Amide S, a nonhelical structure marker, is a CαH bending mode
-
Wang, Y., Purrello, R., jordan, T., and Spiro, T. G. (1991) UVRR spectroscopy of the peptide bond. 1. Amide S, a nonhelical structure marker, is a CαH bending mode. J. Am. Chem. Soc. 113, 6359-6368.
-
(1991)
J. Am. Chem. Soc.
, vol.113
, pp. 6359-6368
-
-
Wang, Y.1
Purrello, R.2
Jordan, T.3
Spiro, T.G.4
-
59
-
-
0035965724
-
Dihedral psi angle dependence of the amide III vibration: A uniquely sensitive UV resonance Raman secondary structural probe
-
Asher, S. A., Ianoul, A., Mix, G., Boyden, M. N., Karnoup, A., Diem, M., and Schweitzer-Stenner, R. (2001) Dihedral psi angle dependence of the amide III vibration: A uniquely sensitive UV resonance Raman secondary structural probe. J. Am. Chem. Soc. 123 (47), 11775-11781.
-
(2001)
J. Am. Chem. Soc.
, vol.123
, Issue.47
, pp. 11775-11781
-
-
Asher, S.A.1
Ianoul, A.2
Mix, G.3
Boyden, M.N.4
Karnoup, A.5
Diem, M.6
Schweitzer-Stenner, R.7
-
60
-
-
32544446167
-
Peptide secondary structure folding reaction coordinate: Correlation between UV Raman amide III frequency, Psi Ramachandran angle, and hydrogen bonding
-
Mikhonin, A. V., Bykov, S. V., Myshakina, N. S., and Asher, S. A. (2006) Peptide secondary structure folding reaction coordinate: Correlation between UV Raman amide III frequency, Psi Ramachandran angle, and hydrogen bonding. J. Phys. Chem. B 110 (4), 1928-1943.
-
(2006)
J. Phys. Chem. B
, vol.110
, Issue.4
, pp. 1928-1943
-
-
Mikhonin, A.V.1
Bykov, S.V.2
Myshakina, N.S.3
Asher, S.A.4
-
61
-
-
53049088731
-
UV resonance Raman investigation of electronic transitions in alpha-helical and polyproline II-like conformations
-
Sharma, B., Bykov, S. V., and Asher, S. A. (2008) UV resonance Raman investigation of electronic transitions in alpha-helical and polyproline II-like conformations. J. Phys. Chem. B 112 (37), 11762-11769.
-
(2008)
J. Phys. Chem. B
, vol.112
, Issue.37
, pp. 11762-11769
-
-
Sharma, B.1
Bykov, S.V.2
Asher, S.A.3
-
62
-
-
34547413456
-
UV resonance raman measurements of poly-L-lysine's conformational energy landscapes: Dependence on perchlorate concentration and temperature
-
Ma, L., Ahmed, Z., Mikhonin, A. V., and Asher, S. A. (2007) UV resonance raman measurements of poly-L-lysine's conformational energy landscapes: Dependence on perchlorate concentration and temperature. J. Phys. Chem. B 111 (26), 7675-7680.
-
(2007)
J. Phys. Chem. B
, vol.111
, Issue.26
, pp. 7675-7680
-
-
Ma, L.1
Ahmed, Z.2
Mikhonin, A.V.3
Asher, S.A.4
-
63
-
-
0024613305
-
Influence of protein conformation on its adaptability under chaotropic conditions
-
Damodaran, S. (1988) Influence of protein conformation on its adaptability under chaotropic conditions. Int. J. Biol. Macromol., 11.
-
(1988)
Int. J. Biol. Macromol.
, pp. 11
-
-
Damodaran, S.1
-
64
-
-
34547413456
-
UV resonance raman measurements of poly-L-lysine's conformational energy landscapes: Dependence on perchlorate concentration and temperature
-
Ma, L., Ahmed, Z., Mikhonin, A., and Asher, S. (2007) UV resonance raman measurements of poly-L-lysine's conformational energy landscapes: Dependence on perchlorate concentration and temperature. J. Phys. Chem. B 111 (26), 7675-7680.
-
(2007)
J. Phys. Chem. B
, vol.111
, Issue.26
, pp. 7675-7680
-
-
Ma, L.1
Ahmed, Z.2
Mikhonin, A.3
Asher, S.4
-
65
-
-
0014381393
-
-
Academic Press, New York
-
Ramachandran, G. N., and Sasisekharan, V. (1968) Conformation of Polypeptides and Proteins , Vol.23, pp 283-437, Academic Press, New York.
-
(1968)
Conformation of Polypeptides and Proteins
, vol.23
, pp. 283-437
-
-
Ramachandran, G.N.1
Sasisekharan, V.2
-
66
-
-
0024413264
-
Water-inserted alpha-helical segments implicate reverse turns as folding intermediates
-
Sundarlingam, M., and Sekharudu, Y. C. (1989) Water-inserted alpha-helical segments implicate reverse turns as folding intermediates. Science 244, 1333-1337.
-
(1989)
Science
, vol.244
, pp. 1333-1337
-
-
Sundarlingam, M.1
Sekharudu, Y.C.2
-
67
-
-
0028921182
-
Views of helical peptides - A proposal for the position of 3(10)-helix along the thermodynamic folding pathway
-
Millhauser, G. L. (1995) Views of helical peptides - A proposal for the position of 3(10)-helix along the thermodynamic folding pathway. Biochemistry 34 (32), 10318-10318
-
(1995)
Biochemistry
, vol.34
, Issue.32
, pp. 10318-10318
-
-
Millhauser, G.L.1
-
68
-
-
33847201903
-
Exploring the energy landscape of protein folding using replica-exchange and conventional molecular dynamics simulations
-
Beck, D. A. C., White, G. W. N., and Daggett, V. (2007) Exploring the energy landscape of protein folding using replica-exchange and conventional molecular dynamics simulations. J. Struct. Biol. 157 (3), 514-523.
-
(2007)
J. Struct. Biol.
, vol.157
, Issue.3
, pp. 514-523
-
-
Beck, D.A.C.1
White, G.W.N.2
Daggett, V.3
-
69
-
-
33748518255
-
Comparison of multiple amber force fields and development of improved protein backbone parameters
-
DOI 10.1002/prot.21123
-
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: Struct., Funct., Bioinf. 65 (3), 712-725. (Pubitemid 44583220)
-
(2006)
Proteins: Structure, Function and Genetics
, vol.65
, Issue.3
, pp. 712-725
-
-
Hornak, V.1
Abel, R.2
Okur, A.3
Strockbine, B.4
Roitberg, A.5
Simmerling, C.6
-
70
-
-
0025195499
-
Mechanism of acid-induced folding of proteins
-
Goto, Y., Takahashi, N., and Fink, A. L. (1990) Mechanism of acid-induced folding of proteins. Biochemistry 29, 3480-3488.
-
(1990)
Biochemistry
, vol.29
, pp. 3480-3488
-
-
Goto, Y.1
Takahashi, N.2
Fink, A.L.3
-
71
-
-
36849080923
-
Molecular dynamics simulations of hydrophobic associations in aqueous salt solutions indicate a connection between water hydrogen bonding and the Hofmeister effect
-
Thomas, A. S., and Elcock, A. H. (2007) Molecular dynamics simulations of hydrophobic associations in aqueous salt solutions indicate a connection between water hydrogen bonding and the Hofmeister effect. J. Am. Chem. Soc. 129 (48), 14887-14898.
-
(2007)
J. Am. Chem. Soc.
, vol.129
, Issue.48
, pp. 14887-14898
-
-
Thomas, A.S.1
Elcock, A.H.2
-
72
-
-
0022147096
-
The Hofemister effect and the behavior of water at interfaces
-
Collins, K. D., and Washabaugh, M. W. (1985) The Hofemister effect and the behavior of water at interfaces. Q. Rev. Biophys. 18, 323-422.
-
(1985)
Q. Rev. Biophys.
, vol.18
, pp. 323-422
-
-
Collins, K.D.1
Washabaugh, M.W.2
-
73
-
-
0034700155
-
Physical reasons for the unusual alpha-helix stabilization afforded by charged or neutral polar residues in alanine-rich peptides
-
Vila, J. A., Ripoll, D. R., and Scheraga, H. A. (2000) Physical reasons for the unusual alpha-helix stabilization afforded by charged or neutral polar residues in alanine-rich peptides. Proc. Natl. Acad. Sci. U.S.A. 97, 13075-13079.
-
(2000)
Proc. Natl. Acad. Sci. U.S.A.
, vol.97
, pp. 13075-13079
-
-
Vila, J.A.1
Ripoll, D.R.2
Scheraga, H.A.3
-
74
-
-
0037022662
-
Alpha-helical stabilization by side chain shielding of backbone hydrogen bonds
-
Garcia, A. E., and Sanbonmatsu, K. Y. (2002) alpha-helical stabilization by side chain shielding of backbone hydrogen bonds. Proc. Natl. Acad. Sci. U.S.A. 99, 2782-2787.
-
(2002)
Proc. Natl. Acad. Sci. U.S.A.
, vol.99
, pp. 2782-2787
-
-
Garcia, A.E.1
Sanbonmatsu, K.Y.2
-
75
-
-
33745792576
-
Tuning the cooperativity of the helix-coil transition by aqueous reverse michelles
-
Mukherjee, S., Chowdhury, P., and Gai, F. (2006) Tuning the cooperativity of the helix-coil transition by aqueous reverse michelles. J. Phys. Chem. B 110, 11615-11619.
-
(2006)
J. Phys. Chem. B
, vol.110
, pp. 11615-11619
-
-
Mukherjee, S.1
Chowdhury, P.2
Gai, F.3
-
77
-
-
0021978310
-
The role of the alpha-helix dipole in protein fuction and structure
-
Hol, W. G. J. (1985) The role of the alpha-helix dipole in protein fuction and structure. Prog. Biophys. Mol. Biol 45, 149-195.
-
(1985)
Prog. Biophys. Mol. Biol
, vol.45
, pp. 149-195
-
-
Hol, W.G.J.1
-
78
-
-
0017881332
-
The alpha-helix dipole and the properties of proteins
-
Hol, W. G. J., Duijnen, P. T. v., and Berendsen, H. J. C. (1978) The alpha-helix dipole and the properties of proteins. Nature 273, 443-446.
-
(1978)
Nature
, vol.273
, pp. 443-446
-
-
Hol, W.G.J.1
Duijnen, P.T.V.2
Berendsen, H.J.C.3
-
79
-
-
0023122030
-
Tests of the helix dipole model for stabilization of alpha-helices
-
Shoemaker, K. R., Kim, P. S., York, E. J., Stewart, J. M., and Baldwin, R. L. (1987) Tests of the helix dipole model for stabilization of alpha-helices. Nature 326, 573-1567
-
(1987)
Nature
, vol.326
, pp. 573-1567
-
-
Shoemaker, K.R.1
Kim, P.S.2
York, E.J.3
Stewart, J.M.4
Baldwin, R.L.5
|