-
1
-
-
34548101355
-
Topography of the free-energy landscape probed via mechanical unfolding of proteins
-
Kirmizialtin, S., L. Huang, and D. E. Makarov. 2005. Topography of the free-energy landscape probed via mechanical unfolding of proteins. J. Chem. Phys. 122:234915-1-234915-12.
-
(2005)
J. Chem. Phys
, vol.122
-
-
Kirmizialtin, S.1
Huang, L.2
Makarov, D.E.3
-
2
-
-
0033616713
-
Mechanical and chemical unfolding of a single protein: A comparison
-
Carrion-Vazquez, M., A. F. Oberhauser, S. B. Fowler, P. E. Marszalek, S. E. Broedel, J. Clarke, and J. M. Fernandez. 1999. Mechanical and chemical unfolding of a single protein: a comparison. Proc. Natl. Acad. Sci. USA. 96:3694-3699.
-
(1999)
Proc. Natl. Acad. Sci. USA
, vol.96
, pp. 3694-3699
-
-
Carrion-Vazquez, M.1
Oberhauser, A.F.2
Fowler, S.B.3
Marszalek, P.E.4
Broedel, S.E.5
Clarke, J.6
Fernandez, J.M.7
-
3
-
-
0037133197
-
Temperature- and pressure-induced unfolding and refolding of ubiquitin: A static and kinetic Fourier transform infrared spectroscopy study
-
Herberhold, H., and R. Winter. 2002. Temperature- and pressure-induced unfolding and refolding of ubiquitin: a static and kinetic Fourier transform infrared spectroscopy study. Biochemistry. 41:2396-2401.
-
(2002)
Biochemistry
, vol.41
, pp. 2396-2401
-
-
Herberhold, H.1
Winter, R.2
-
4
-
-
0033594989
-
Thermal versus guanidine-induced unfolding of ubiquitin. An analysis in terms of the contributions from charge-charge interactions to protein stability
-
Ibarra-Molero, B., V. V. Loladze, G. I. Makhatadze, and J. M. Sanchez-Ruiz. 1999. Thermal versus guanidine-induced unfolding of ubiquitin. An analysis in terms of the contributions from charge-charge interactions to protein stability. Biochemistry. 38:8138-8149.
-
(1999)
Biochemistry
, vol.38
, pp. 8138-8149
-
-
Ibarra-Molero, B.1
Loladze, V.V.2
Makhatadze, G.I.3
Sanchez-Ruiz, J.M.4
-
5
-
-
1442348207
-
Discerning the structure and energy of multiple transition states in protein folding using ψ-analysis
-
Krantz, B. A., R. S. Dothager, and T. R. Sosnick. 2004. Discerning the structure and energy of multiple transition states in protein folding using ψ-analysis. J. Mol. Biol. 337:463-475.
-
(2004)
J. Mol. Biol
, vol.337
, pp. 463-475
-
-
Krantz, B.A.1
Dothager, R.S.2
Sosnick, T.R.3
-
6
-
-
2942623941
-
Multiple probes reveal a native-like intermediate during low-temperature refolding of ubiquitin
-
Larios, E., J. S. Li, K. Schulten, H. Kihara, and M. Gruebele. 2004. Multiple probes reveal a native-like intermediate during low-temperature refolding of ubiquitin. J. Mol. Biol. 340:115-125.
-
(2004)
J. Mol. Biol
, vol.340
, pp. 115-125
-
-
Larios, E.1
Li, J.S.2
Schulten, K.3
Kihara, H.4
Gruebele, M.5
-
7
-
-
0033613249
-
Atomic force microscopy captures length phenotypes in single proteins
-
Carrion-Vazquez, M., P. E. Marszalek, A. F. Oberhauser, and J. M. Fernandez. 1999. Atomic force microscopy captures length phenotypes in single proteins. Proc. Natl. Acad. Sci. USA. 96:11288-11292.
-
(1999)
Proc. Natl. Acad. Sci. USA
, vol.96
, pp. 11288-11292
-
-
Carrion-Vazquez, M.1
Marszalek, P.E.2
Oberhauser, A.F.3
Fernandez, J.M.4
-
8
-
-
0042508740
-
The mechanical stability of ubiquitin is linkage dependent
-
Carrion-Vazquez, M., H. Li, H. Lu, P. E. Marszalek, A. F. Oberhauser, and J. M. Fernandez. 2003. The mechanical stability of ubiquitin is linkage dependent. Nat. Struct. Biol. 10:738-743.
-
(2003)
Nat. Struct. Biol
, vol.10
, pp. 738-743
-
-
Carrion-Vazquez, M.1
Li, H.2
Lu, H.3
Marszalek, P.E.4
Oberhauser, A.F.5
Fernandez, J.M.6
-
9
-
-
0034612346
-
Atomic force microscopy reveals the mechanical design of a modular protein
-
Li, H., A. F. Oberhauser, S. B. Fowler, J. Clarke, and J. M. Fernandez. 2000. Atomic force microscopy reveals the mechanical design of a modular protein. Proc. Natl. Acad. Sci. USA. 97:6527-6531.
-
(2000)
Proc. Natl. Acad. Sci. USA
, vol.97
, pp. 6527-6531
-
-
Li, H.1
Oberhauser, A.F.2
Fowler, S.B.3
Clarke, J.4
Fernandez, J.M.5
-
10
-
-
0037194788
-
Reverse engineering of the giant muscle protein titin
-
Li, H., W. A. Linke, A. F. Oberhauser, M. Carrion-Vazquez, J. G. Kerkvliet, H. Lu, P. E. Marszalek, and J. M. Fernandez. 2002. Reverse engineering of the giant muscle protein titin. Nature. 418:998-1002.
-
(2002)
Nature
, vol.418
, pp. 998-1002
-
-
Li, H.1
Linke, W.A.2
Oberhauser, A.F.3
Carrion-Vazquez, M.4
Kerkvliet, J.G.5
Lu, H.6
Marszalek, P.E.7
Fernandez, J.M.8
-
11
-
-
0033523904
-
Mechanical unfolding intermediates in titin molecules
-
Marszalek, P. E., H. Lu, H. Li, M. Carrion-Vazquez, A. F. Oberhauser, K. Schulten, and J. M. Fernandez. 1999. Mechanical unfolding intermediates in titin molecules. Nature. 402:100-103.
-
(1999)
Nature
, vol.402
, pp. 100-103
-
-
Marszalek, P.E.1
Lu, H.2
Li, H.3
Carrion-Vazquez, M.4
Oberhauser, A.F.5
Schulten, K.6
Fernandez, J.M.7
-
12
-
-
0032516205
-
The molecular elasticity of the extracellular matrix protein tenascin
-
Oberhauser, A. F., P. E. Marszalek, H. P. Erickson, and J. M. Fernandez. 1998. The molecular elasticity of the extracellular matrix protein tenascin. Nature. 393:181-185.
-
(1998)
Nature
, vol.393
, pp. 181-185
-
-
Oberhauser, A.F.1
Marszalek, P.E.2
Erickson, H.P.3
Fernandez, J.M.4
-
13
-
-
0031011695
-
Reversible unfolding of individual titin immunoglobulin domains by AFM
-
Rief, M., M. Gautel, F. Oesterhelt, J. M. Fernandez, and H. E. Gaub. 1997. Reversible unfolding of individual titin immunoglobulin domains by AFM. Science. 276:1109-1112.
-
(1997)
Science
, vol.276
, pp. 1109-1112
-
-
Rief, M.1
Gautel, M.2
Oesterhelt, F.3
Fernandez, J.M.4
Gaub, H.E.5
-
14
-
-
0031767965
-
The mechanical stability of immunoglobulin and fibronectin III domains in the muscle protein titin measured by atomic force microscopy
-
Rief, M., M. Gautel, A. Schemmel, and H. E. Gaub. 1998. The mechanical stability of immunoglobulin and fibronectin III domains in the muscle protein titin measured by atomic force microscopy. Biophys. J. 75:3008-3014.
-
(1998)
Biophys. J
, vol.75
, pp. 3008-3014
-
-
Rief, M.1
Gautel, M.2
Schemmel, A.3
Gaub, H.E.4
-
15
-
-
0035895290
-
Stepwise unfolding of titin under force-clamp atomic force microscopy
-
Oberhauser, A. F., P. K. Hansma, M. Carrion-Vazquez, and J. M. Fernandez. 2001. Stepwise unfolding of titin under force-clamp atomic force microscopy. Proc. Natl. Acad. Sci. USA. 98:468-472.
-
(2001)
Proc. Natl. Acad. Sci. USA
, vol.98
, pp. 468-472
-
-
Oberhauser, A.F.1
Hansma, P.K.2
Carrion-Vazquez, M.3
Fernandez, J.M.4
-
16
-
-
1542513548
-
Force-clamp spectroscopy monitors the folding trajectory of a single protein
-
Fernandez, J. M., and H. Li. 2004. Force-clamp spectroscopy monitors the folding trajectory of a single protein. Science. 303:1674-1678.
-
(2004)
Science
, vol.303
, pp. 1674-1678
-
-
Fernandez, J.M.1
Li, H.2
-
17
-
-
2442448427
-
The unfolding kinetics of ubiquitin captured with single-molecule force-clamp techniques
-
Schlierf, M., H. Li, and J. M. Fernandez. 2004. The unfolding kinetics of ubiquitin captured with single-molecule force-clamp techniques. Proc. Natl. Acad. Sci. USA. 101:7299-7304.
-
(2004)
Proc. Natl. Acad. Sci. USA
, vol.101
, pp. 7299-7304
-
-
Schlierf, M.1
Li, H.2
Fernandez, J.M.3
-
18
-
-
0037569632
-
Unfolding of titin domains studied by molecular dynamics simulations
-
Gao, M., H. Lu, and K. Schulten. 2002. Unfolding of titin domains studied by molecular dynamics simulations. J. Muscle Res. Cell Motil. 23:513-521.
-
(2002)
J. Muscle Res. Cell Motil
, vol.23
, pp. 513-521
-
-
Gao, M.1
Lu, H.2
Schulten, K.3
-
19
-
-
1642444204
-
Ubiquitin-like protein domains show high resistance to mechanical unfolding similar to that of the I27 domain in titin: Evidence from simulations
-
Li, P., and D. E. Makarov. 2003. Ubiquitin-like protein domains show high resistance to mechanical unfolding similar to that of the I27 domain in titin: evidence from simulations. J. Phys. Chem. B. 108:745-749.
-
(2003)
J. Phys. Chem. B
, vol.108
, pp. 745-749
-
-
Li, P.1
Makarov, D.E.2
-
20
-
-
4544284283
-
Simulation of the mechanical unfolding of ubiquitin: Probing different unfolding reaction coordinates by changing the pulling geometry
-
Li, P., and D. E. Makarov. 2004. Simulation of the mechanical unfolding of ubiquitin: probing different unfolding reaction coordinates by changing the pulling geometry. J. Chem. Phys. 121:4826-4832.
-
(2004)
J. Chem. Phys
, vol.121
, pp. 4826-4832
-
-
Li, P.1
Makarov, D.E.2
-
21
-
-
0033151955
-
Steered molecular dynamics simulations of force-induced protein domain unfolding
-
Lu, H., and K. Schulten. 1999. Steered molecular dynamics simulations of force-induced protein domain unfolding. Proteins. 35:453-463.
-
(1999)
Proteins
, vol.35
, pp. 453-463
-
-
Lu, H.1
Schulten, K.2
-
22
-
-
0035366858
-
Kinetic Monte Carlo simulation of titin unfolding
-
Makarov, D. E., P. K. Hansma, and H. Metiu. 2001. Kinetic Monte Carlo simulation of titin unfolding. J. Chem. Phys. 114:9663-9673.
-
(2001)
J. Chem. Phys
, vol.114
, pp. 9663-9673
-
-
Makarov, D.E.1
Hansma, P.K.2
Metiu, H.3
-
24
-
-
23244441268
-
Mechanically unfolding the small, topologically simple protein L
-
Brockwell, D. J., G. S. Beddard, E. Paci, D. K. West, P. D. Olmsted, D. A. Smith, and S. E. Radford. 2005. Mechanically unfolding the small, topologically simple protein L. Biophys. J. 89:506-519.
-
(2005)
Biophys. J
, vol.89
, pp. 506-519
-
-
Brockwell, D.J.1
Beddard, G.S.2
Paci, E.3
West, D.K.4
Olmsted, P.D.5
Smith, D.A.6
Radford, S.E.7
-
25
-
-
0042508741
-
Pulling geometry defines the mechanical resistance of a β-sheet protein
-
Brockwell, D. J., E. Paci, R. C. Zinober, G. S. Beddard, P. D. Olmsted, D. A. Smith, R. N. Perham, and S. E. Radford. 2003. Pulling geometry defines the mechanical resistance of a β-sheet protein. Nat. Struct. Biol. 10:731-737.
-
(2003)
Nat. Struct. Biol
, vol.10
, pp. 731-737
-
-
Brockwell, D.J.1
Paci, E.2
Zinober, R.C.3
Beddard, G.S.4
Olmsted, P.D.5
Smith, D.A.6
Perham, R.N.7
Radford, S.E.8
-
26
-
-
20544465799
-
Mechanical unfolding of TNfn3: The unfolding pathway of a fnIII domain probed by protein engineering, AFM, and MD simulation
-
Ng, S. P., R. W. S. Rounsevell, A. Steward, C. D. Geierhaas, P. M. Williams, E. Paci, and J. Clarke. 2005. Mechanical unfolding of TNfn3: the unfolding pathway of a fnIII domain probed by protein engineering, AFM, and MD simulation. J. Mol. Biol. 350:776-789.
-
(2005)
J. Mol. Biol
, vol.350
, pp. 776-789
-
-
Ng, S.P.1
Rounsevell, R.W.S.2
Steward, A.3
Geierhaas, C.D.4
Williams, P.M.5
Paci, E.6
Clarke, J.7
-
27
-
-
33646142064
-
Mechanical resistance of proteins explained using simple molecular models
-
West, D. K., D. J. Brockwell, P. D. Olmsted, S. E. Radford, and E. Paci. 2006. Mechanical resistance of proteins explained using simple molecular models. Biophys. J. 90:287-297.
-
(2006)
Biophys. J
, vol.90
, pp. 287-297
-
-
West, D.K.1
Brockwell, D.J.2
Olmsted, P.D.3
Radford, S.E.4
Paci, E.5
-
28
-
-
34547853938
-
Mechanical unfolding revisited through a simple but realistic model
-
West, D. K., P. D. Olmsted, and E. Paci. 2006. Mechanical unfolding revisited through a simple but realistic model. J. Chem. Phys. 124:154909.
-
(2006)
J. Chem. Phys
, vol.124
, pp. 154909
-
-
West, D.K.1
Olmsted, P.D.2
Paci, E.3
-
30
-
-
0035917318
-
The folding thermodynamics and kinetics of crambin using an all-atom Monte Carlo simulation
-
Shimada, J., E. L. Kussell, and E. I. Shakhnovich. 2001. The folding thermodynamics and kinetics of crambin using an all-atom Monte Carlo simulation. J. Mol. Biol. 308:79-95.
-
(2001)
J. Mol. Biol
, vol.308
, pp. 79-95
-
-
Shimada, J.1
Kussell, E.L.2
Shakhnovich, E.I.3
-
31
-
-
0037143694
-
The ensemble folding kinetics of protein G from an all-atom Monte Carlo simulation
-
Shimada, J., and E. I. Shakhnovich. 2002. The ensemble folding kinetics of protein G from an all-atom Monte Carlo simulation. Proc. Natl. Acad. Sci. USA. 99:11175-11180.
-
(2002)
Proc. Natl. Acad. Sci. USA
, vol.99
, pp. 11175-11180
-
-
Shimada, J.1
Shakhnovich, E.I.2
-
32
-
-
0023644679
-
Structure of ubiquitin refined at 1.8 Å resolution
-
Vijay-Kumar, S., C. E. Bugg, and W. J. Cook. 1987. Structure of ubiquitin refined at 1.8 Å resolution. J. Mol. Biol. 194:531-544.
-
(1987)
J. Mol. Biol
, vol.194
, pp. 531-544
-
-
Vijay-Kumar, S.1
Bugg, C.E.2
Cook, W.J.3
-
33
-
-
0019569599
-
Noninteracting local-structure model of folding and unfolding transition in globular proteins. I. Formulation
-
Gō, N., and H. Abe. 1981. Noninteracting local-structure model of folding and unfolding transition in globular proteins. I. Formulation. Biopolymers. 20:991-1011.
-
(1981)
Biopolymers
, vol.20
, pp. 991-1011
-
-
Gō, N.1
Abe, H.2
-
34
-
-
0028447768
-
Elucidating the folding problem of helical peptides using empirical parameters
-
Muñoz, V., and L. Serrano. 1994. Elucidating the folding problem of helical peptides using empirical parameters. Nat. Struct. Biol. 1:399-409.
-
(1994)
Nat. Struct. Biol
, vol.1
, pp. 399-409
-
-
Muñoz, V.1
Serrano, L.2
|