-
1
-
-
36448999595
-
Free energy landscape for protein folding kinetics: Intermediates, traps, and multiple pathways in theory and lattice model simulations
-
Abkevich, V.I., Gutin, A.M., and Shakhnovich, E.I. 1994a. Free energy landscape for protein folding kinetics: Intermediates, traps, and multiple pathways in theory and lattice model simulations. J. Chem. Phys. 101: 6052-6062.
-
(1994)
J. Chem. Phys
, vol.101
, pp. 6052-6062
-
-
Abkevich, V.I.1
Gutin, A.M.2
Shakhnovich, E.I.3
-
2
-
-
0028024928
-
Specific nucleus as the transition state for protein folding: Evidence from the lattice model
-
Abkevich, V.I., Gutin, A.M., and Shakhnovich, E.I. 1994b. Specific nucleus as the transition state for protein folding: Evidence from the lattice model. Biochemistry 33: 10026-10036.
-
(1994)
Biochemistry
, vol.33
, pp. 10026-10036
-
-
Abkevich, V.I.1
Gutin, A.M.2
Shakhnovich, E.I.3
-
3
-
-
0038581260
-
Hidden intermediates and Levinthal paradox in the folding of small proteins
-
Bai, Y. 2003. Hidden intermediates and Levinthal paradox in the folding of small proteins. Biochem. Biophys. Res. Commun. 305: 785-788.
-
(2003)
Biochem. Biophys. Res. Commun
, vol.305
, pp. 785-788
-
-
Bai, Y.1
-
4
-
-
0029865938
-
Future directions in folding: The multi-state nature of protein structure
-
Bai, Y. and Englander, S.W. 1996. Future directions in folding: The multi-state nature of protein structure. Proteins 24: 145-151.
-
(1996)
Proteins
, vol.24
, pp. 145-151
-
-
Bai, Y.1
Englander, S.W.2
-
5
-
-
0029643523
-
Protein folding intermediates: Native-state hydrogen exchange
-
Bai, Y., Sosnick, T.R., Mayne, L., and Englander, S.W. 1995. Protein folding intermediates: Native-state hydrogen exchange. Science 269: 192-197.
-
(1995)
Science
, vol.269
, pp. 192-197
-
-
Bai, Y.1
Sosnick, T.R.2
Mayne, L.3
Englander, S.W.4
-
6
-
-
1942473645
-
Critical nucleation size in the folding of small apparently two-state proteins
-
Bai, Y., Zhou, H., and Zhou, Y. 2004. Critical nucleation size in the folding of small apparently two-state proteins. Protein Sci. 13: 1173-1181.
-
(2004)
Protein Sci
, vol.13
, pp. 1173-1181
-
-
Bai, Y.1
Zhou, H.2
Zhou, Y.3
-
7
-
-
33645466189
-
Structural basis for altering the stability of homologous RNAs from a mesophilic and a thermophilic bacterium
-
Baird, N.J., Srividya, N., Krasilnikov, A.S., Mondragon, A., Sosnick, T.R., and Pan, T. 2006. Structural basis for altering the stability of homologous RNAs from a mesophilic and a thermophilic bacterium. RNA 12: 598-606.
-
(2006)
RNA
, vol.12
, pp. 598-606
-
-
Baird, N.J.1
Srividya, N.2
Krasilnikov, A.S.3
Mondragon, A.4
Sosnick, T.R.5
Pan, T.6
-
8
-
-
37149040356
-
Folding of a universal ribozyme: The ribonuclease P RNA
-
Baird, N.J., Fang, X.W., Srividya, N., Pan, T., and Sosnick, T.R. 2007. Folding of a universal ribozyme: The ribonuclease P RNA. Q. Rev. Biophys. 40: 113-161.
-
(2007)
Q. Rev. Biophys
, vol.40
, pp. 113-161
-
-
Baird, N.J.1
Fang, X.W.2
Srividya, N.3
Pan, T.4
Sosnick, T.R.5
-
9
-
-
0033549817
-
Tertiary motifs in RNA structure and folding
-
Batey, R.T., Rambo, R.P., and Doudna, J.A. 1999. Tertiary motifs in RNA structure and folding. Angew. Chem. Int. Ed. Engl. 38: 2326-2343.
-
(1999)
Angew. Chem. Int. Ed. Engl
, vol.38
, pp. 2326-2343
-
-
Batey, R.T.1
Rambo, R.P.2
Doudna, J.A.3
-
10
-
-
28044458515
-
A structural model for unfolded proteins from residual dipolar couplings and small-angle X-ray scattering
-
Bernado, P., Blanchard, L., Timmins, P., Marion, D., Ruigrok, R.W., and Blackledge, M. 2005. A structural model for unfolded proteins from residual dipolar couplings and small-angle X-ray scattering. Proc. Natl. Acad. Sci. 102: 17002-17007.
-
(2005)
Proc. Natl. Acad. Sci
, vol.102
, pp. 17002-17007
-
-
Bernado, P.1
Blanchard, L.2
Timmins, P.3
Marion, D.4
Ruigrok, R.W.5
Blackledge, M.6
-
11
-
-
0024733407
-
Intermediates and barrier crossing in a random energy model with application to protein folding
-
Bryngelson, J.D. and Wolynes, P.G. 1989. Intermediates and barrier crossing in a random energy model with application to protein folding. J. Phys. Chem. 93: 6902-6915.
-
(1989)
J. Phys. Chem
, vol.93
, pp. 6902-6915
-
-
Bryngelson, J.D.1
Wolynes, P.G.2
-
12
-
-
0035066647
-
φ-Values for BPTI folding intermediates and implications for transition state analysis
-
Bulaj, G. and Goldenberg, D.P. 2001. φ-Values for BPTI folding intermediates and implications for transition state analysis. Nat. Struct. Biol. 8: 326-330.
-
(2001)
Nat. Struct. Biol
, vol.8
, pp. 326-330
-
-
Bulaj, G.1
Goldenberg, D.P.2
-
13
-
-
0042508740
-
The mechanical stability of ubiquitin is linkage dependent
-
Carrion-Vazquez, M., Li, H., Lu, H., Marszalek, P.E., Oberhauser, A.F., and Fernandez, J.M. 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
-
14
-
-
0030929889
-
A magnesium ion core at the heart of a ribozyme domain
-
Cate, J.H., Hanna, R.L., and Doudna, J.A. 1997. A magnesium ion core at the heart of a ribozyme domain. Nat. Struct. Biol. 4: 553-558.
-
(1997)
Nat. Struct. Biol
, vol.4
, pp. 553-558
-
-
Cate, J.H.1
Hanna, R.L.2
Doudna, J.A.3
-
15
-
-
0029746061
-
Detection of rare partially folded molecules in equilibrium with the native conformation of RNaseH
-
Chamberlain, A.K., Handel, T.M., and Marqusee, S. 1996. Detection of rare partially folded molecules in equilibrium with the native conformation of RNaseH. Nat. Struct. Biol. 3: 782-787.
-
(1996)
Nat. Struct. Biol
, vol.3
, pp. 782-787
-
-
Chamberlain, A.K.1
Handel, T.M.2
Marqusee, S.3
-
16
-
-
27144451444
-
RNA tertiary interactions mediate native collapse of a bacterial group I ribozyme
-
Chauhan, S., Caliskan, G., Briber, R.M., Perez-Salas, U., Rangan, P., Thirumalai, D., and Woodson, S.A. 2005. RNA tertiary interactions mediate native collapse of a bacterial group I ribozyme. J. Mol. Biol. 353: 1199-1209.
-
(2005)
J. Mol. Biol
, vol.353
, pp. 1199-1209
-
-
Chauhan, S.1
Caliskan, G.2
Briber, R.M.3
Perez-Salas, U.4
Rangan, P.5
Thirumalai, D.6
Woodson, S.A.7
-
17
-
-
2442522724
-
Short sequences of non-proline residues can adopt the polyproline II helical conformation
-
Chellgren, B.W. and Creamer, T.P. 2004. Short sequences of non-proline residues can adopt the polyproline II helical conformation. Biochemistry 43: 5864-5869.
-
(2004)
Biochemistry
, vol.43
, pp. 5864-5869
-
-
Chellgren, B.W.1
Creamer, T.P.2
-
18
-
-
0042009114
-
The fastest global events in RNA folding: Electrostatic relaxation and tertiary collapse of the Tetrahymena ribozyme
-
Das, R., Kwok, L.W., Millett, I.S., Bai, Y., Mills, T.T., Jacob, J., Maskel, G.S., Seifert, S., Mochrie, S.G., Thiyagarajan, P., et al. 2003. The fastest global events in RNA folding: Electrostatic relaxation and tertiary collapse of the Tetrahymena ribozyme. J. Mol. Biol. 332: 311-319.
-
(2003)
J. Mol. Biol
, vol.332
, pp. 311-319
-
-
Das, R.1
Kwok, L.W.2
Millett, I.S.3
Bai, Y.4
Mills, T.T.5
Jacob, J.6
Maskel, G.S.7
Seifert, S.8
Mochrie, S.G.9
Thiyagarajan, P.10
-
19
-
-
0029053552
-
Folding of a nascent polypeptide chain in vitro: Cooperative formation of structure in a protein module
-
De Prat Gay, G., Ruiz-Sanz, J., Neira, J.L., Itzhaki, L.S., and Fersht, A.R. 1995. Folding of a nascent polypeptide chain in vitro: Cooperative formation of structure in a protein module. Proc. Natl. Acad. Sci. 92: 3683-3686.
-
(1995)
Proc. Natl. Acad. Sci
, vol.92
, pp. 3683-3686
-
-
De Prat Gay, G.1
Ruiz-Sanz, J.2
Neira, J.L.3
Itzhaki, L.S.4
Fersht, A.R.5
-
20
-
-
0030952270
-
The P4-P6 domain directs higher order folding of the Tetrahymena ribozyme core
-
Doherty, E.A. and Doudna, J.A. 1997. The P4-P6 domain directs higher order folding of the Tetrahymena ribozyme core. Biochemistry 36: 3159-3169.
-
(1997)
Biochemistry
, vol.36
, pp. 3159-3169
-
-
Doherty, E.A.1
Doudna, J.A.2
-
21
-
-
0000108661
-
Fast and slow folding in cytochrome c
-
Englander, S.W., Sosnick, T.R., Mayne, L.C., Shtilerman, M., Qi, P.X., and Bai, Y. 1998. Fast and slow folding in cytochrome c. Accts. Chem. Res. 31: 737-744.
-
(1998)
Accts. Chem. Res
, vol.31
, pp. 737-744
-
-
Englander, S.W.1
Sosnick, T.R.2
Mayne, L.C.3
Shtilerman, M.4
Qi, P.X.5
Bai, Y.6
-
22
-
-
0032590020
-
2+-dependent folding of a large ribozyme without kinetic traps
-
2+-dependent folding of a large ribozyme without kinetic traps. Nat. Struct. Biol. 6: 1091-1095.
-
(1999)
Nat. Struct. Biol
, vol.6
, pp. 1091-1095
-
-
Fang, X.1
Pan, T.2
Sosnick, T.R.3
-
23
-
-
0034641612
-
2+-dependent compaction and folding of yeast tRNA(Phe) and the catalytic domain of the B. subtilis RNase P RNA determined by small-angle X-ray scattering
-
2+-dependent compaction and folding of yeast tRNA(Phe) and the catalytic domain of the B. subtilis RNase P RNA determined by small-angle X-ray scattering. Biochemistry 39: 11107-11113.
-
(2000)
Biochemistry
, vol.39
, pp. 11107-11113
-
-
Fang, X.1
Littrell, K.2
Yang, X.3
Henderson, S.J.4
Siefert, S.5
Thiyagarajan, P.6
Pan, T.7
Sosnick, T.R.8
-
24
-
-
0035836722
-
The thermodynamic origin of the stability of a thermophilic ribozyme
-
Fang, X.W., Golden, B.L., Littrell, K., Shelton, V., Thiyagarajan, P., Pan, T., and Sosnick, T.R. 2001. The thermodynamic origin of the stability of a thermophilic ribozyme. Proc. Natl. Acad. Sci. 98: 4355-4360.
-
(2001)
Proc. Natl. Acad. Sci
, vol.98
, pp. 4355-4360
-
-
Fang, X.W.1
Golden, B.L.2
Littrell, K.3
Shelton, V.4
Thiyagarajan, P.5
Pan, T.6
Sosnick, T.R.7
-
25
-
-
0037173087
-
The rate-limiting step in the folding of a large ribozyme without kinetic traps
-
Fang, X.W., Thiyagarajan, P., Sosnick, T.R., and Pan, T. 2002. The rate-limiting step in the folding of a large ribozyme without kinetic traps. Proc. Natl. Acad. Sci. 99: 8518-8523.
-
(2002)
Proc. Natl. Acad. Sci
, vol.99
, pp. 8518-8523
-
-
Fang, X.W.1
Thiyagarajan, P.2
Sosnick, T.R.3
Pan, T.4
-
26
-
-
0242318402
-
Specific nonnative hydrophobic interactions in a hidden folding intermediate: Implications for protein folding
-
Feng, H., Takei, J., Lipsitz, R., Tjandra, N., and Bai, Y. 2003. Specific nonnative hydrophobic interactions in a hidden folding intermediate: Implications for protein folding. Biochemistry 42: 12461-12465.
-
(2003)
Biochemistry
, vol.42
, pp. 12461-12465
-
-
Feng, H.1
Takei, J.2
Lipsitz, R.3
Tjandra, N.4
Bai, Y.5
-
27
-
-
6344291152
-
Detection and structure determination of an equilibrium unfolding intermediate of Rd-apocytochrome b562: Native fold with non-native hydrophobic interactions
-
Feng, H., Vu, N.D., and Bai, Y. 2004a. Detection and structure determination of an equilibrium unfolding intermediate of Rd-apocytochrome b562: Native fold with non-native hydrophobic interactions. J. Mol. Biol. 343: 1477-1485.
-
(2004)
J. Mol. Biol
, vol.343
, pp. 1477-1485
-
-
Feng, H.1
Vu, N.D.2
Bai, Y.3
-
28
-
-
8544268672
-
Structural examination of φ-value analysis in protein folding
-
Feng, H., Vu, N.D., Zhou, Z., and Bai, Y. 2004b. Structural examination of φ-value analysis in protein folding. Biochemistry 43: 14325-14331.
-
(2004)
Biochemistry
, vol.43
, pp. 14325-14331
-
-
Feng, H.1
Vu, N.D.2
Zhou, Z.3
Bai, Y.4
-
29
-
-
0026511656
-
The folding of an enzyme. I. Theory of protein engineering analysis of stability and pathway of protein folding
-
Fersht, A.R., Matouschek, A., and Serrano, L. 1992. The folding of an enzyme. I. Theory of protein engineering analysis of stability and pathway of protein folding. J. Mol. Biol. 224: 771-782.
-
(1992)
J. Mol. Biol
, vol.224
, pp. 771-782
-
-
Fersht, A.R.1
Matouschek, A.2
Serrano, L.3
-
30
-
-
4344704080
-
Reassessing random-coil statistics in unfolded proteins
-
Fitzkee, N.C. and Rose, G.D. 2004. Reassessing random-coil statistics in unfolded proteins. Proc. Natl. Acad. Sci. 101: 12497-12502.
-
(2004)
Proc. Natl. Acad. Sci
, vol.101
, pp. 12497-12502
-
-
Fitzkee, N.C.1
Rose, G.D.2
-
31
-
-
2442683149
-
The folding transition state of the cold shock protein is strongly polarized
-
Garcia-Mira, M.M., Boehringer, D., and Schmid, F.X. 2004. The folding transition state of the cold shock protein is strongly polarized. J. Mol. Biol. 339: 555-569.
-
(2004)
J. Mol. Biol
, vol.339
, pp. 555-569
-
-
Garcia-Mira, M.M.1
Boehringer, D.2
Schmid, F.X.3
-
32
-
-
0000073862
-
Mutational analysis of protein folding and stability
-
ed. T.E. Creighton, pp, W. H. Freeman, New York
-
Goldenberg, D.P. 1992. Mutational analysis of protein folding and stability. In Protein folding (ed. T.E. Creighton), pp. 353-403. W. H. Freeman, New York.
-
(1992)
Protein folding
, pp. 353-403
-
-
Goldenberg, D.P.1
-
33
-
-
0032707954
-
Finding the right fold
-
Goldenberg, D.P. 1999. Finding the right fold. Nat. Struct. Biol. 6: 987-990.
-
(1999)
Nat. Struct. Biol
, vol.6
, pp. 987-990
-
-
Goldenberg, D.P.1
-
34
-
-
0031853167
-
Important role of hydrogen bonds in the structurally polarized transition state for folding of the src SH3 domain
-
Grantcharova, V.P., Riddle, D.S., Santiago, J.V., and Baker, D. 1998. Important role of hydrogen bonds in the structurally polarized transition state for folding of the src SH3 domain. Nat. Struct. Biol. 5: 714-720.
-
(1998)
Nat. Struct. Biol
, vol.5
, pp. 714-720
-
-
Grantcharova, V.P.1
Riddle, D.S.2
Santiago, J.V.3
Baker, D.4
-
35
-
-
0035252683
-
Mechanisms of protein folding
-
Grantcharova, V., Alm, E.J., Baker, D., and Horwich, A.L. 2001. Mechanisms of protein folding. Curr. Opin. Struct. Biol. 11: 70-82.
-
(2001)
Curr. Opin. Struct. Biol
, vol.11
, pp. 70-82
-
-
Grantcharova, V.1
Alm, E.J.2
Baker, D.3
Horwich, A.L.4
-
36
-
-
0031856887
-
Satisfying turns in folding transitions
-
Gruebele, M. and Wolynes, P.G. 1998. Satisfying turns in folding transitions. Nat. Struct. Biol. 5: 662-665.
-
(1998)
Nat. Struct. Biol
, vol.5
, pp. 662-665
-
-
Gruebele, M.1
Wolynes, P.G.2
-
37
-
-
0036828951
-
Evolution of Tetrahymena ribozyme mutants with increased structural stability
-
Guo, F. and Cech, T.R. 2002. Evolution of Tetrahymena ribozyme mutants with increased structural stability. Nat. Struct. Biol. 9: 855-861.
-
(2002)
Nat. Struct. Biol
, vol.9
, pp. 855-861
-
-
Guo, F.1
Cech, T.R.2
-
38
-
-
0029010695
-
Kinetics of protein-folding: Nucleation mechanism, timescales, and pathways
-
Guo, Z.Y. and Thirumalai, D. 1995. Kinetics of protein-folding: Nucleation mechanism, timescales, and pathways. Biopolymers 36: 83-102.
-
(1995)
Biopolymers
, vol.36
, pp. 83-102
-
-
Guo, Z.Y.1
Thirumalai, D.2
-
39
-
-
1842584557
-
Temperature dependence of the free energy landscape of the src-SH3 protein domain
-
Guo, W., Lampoudi, S., and Shea, J.E. 2004. Temperature dependence of the free energy landscape of the src-SH3 protein domain. Proteins 55: 395-406.
-
(2004)
Proteins
, vol.55
, pp. 395-406
-
-
Guo, W.1
Lampoudi, S.2
Shea, J.E.3
-
40
-
-
0028944346
-
Is burst hydrophobic collapse necessary for protein folding?
-
Gutin, A.M., Abkevich, V.I., and Shakhnovich, E.I. 1995. Is burst hydrophobic collapse necessary for protein folding? Biochemistry 34: 3066-3076.
-
(1995)
Biochemistry
, vol.34
, pp. 3066-3076
-
-
Gutin, A.M.1
Abkevich, V.I.2
Shakhnovich, E.I.3
-
41
-
-
0037466322
-
Perturbed folding kinetics of circularly permuted RNAs with altered topology
-
Heilman-Miller, S.L. and Woodson, S.A. 2003. Perturbed folding kinetics of circularly permuted RNAs with altered topology. J. Mol. Biol. 328: 385-394.
-
(2003)
J. Mol. Biol
, vol.328
, pp. 385-394
-
-
Heilman-Miller, S.L.1
Woodson, S.A.2
-
42
-
-
0042510944
-
Contact order revisited: Influence of protein size on the folding rate
-
Ivankov, D.N., Garbuzynskiy, S.O., Alm, E., Plaxco, K.W., Baker, D., and Finkelstein, A.V. 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
Finkelstein, A.V.6
-
43
-
-
0026345750
-
Folding of chymotrypsin inhibitor 2. 1. Evidence for a two-state transition
-
Jackson, S.E. and Fersht, A.R. 1991. Folding of chymotrypsin inhibitor 2. 1. Evidence for a two-state transition. Biochemistry 30: 10428-10435.
-
(1991)
Biochemistry
, vol.30
, pp. 10428-10435
-
-
Jackson, S.E.1
Fersht, A.R.2
-
44
-
-
1842609484
-
Early collapse is not an obligate step in protein folding
-
Jacob, J., Krantz, B., Dothager, R.S., Thiyagarajan, P., and Sosnick, T.R. 2004. Early collapse is not an obligate step in protein folding. J. Mol. Biol. 338: 369-382.
-
(2004)
J. Mol. Biol
, vol.338
, pp. 369-382
-
-
Jacob, J.1
Krantz, B.2
Dothager, R.S.3
Thiyagarajan, P.4
Sosnick, T.R.5
-
45
-
-
33847401358
-
Fully reduced ribonuclease A does not expand at high denaturant concentration or temperature
-
Jacob, J., Dothager, R.S., Thiyagarajan, P., and Sosnick, T.R. 2007. Fully reduced ribonuclease A does not expand at high denaturant concentration or temperature. J. Mol. Biol. 367: 609-615.
-
(2007)
J. Mol. Biol
, vol.367
, pp. 609-615
-
-
Jacob, J.1
Dothager, R.S.2
Thiyagarajan, P.3
Sosnick, T.R.4
-
46
-
-
24944542708
-
Statistical coil model of the unfolded state: Resolving the reconciliation problem
-
Jha, A.K., Colubri, A., Freed, K.F., and Sosnick, T.R. 2005a. Statistical coil model of the unfolded state: Resolving the reconciliation problem. Proc. Natl. Acad. Sci. 102: 13099-13104.
-
(2005)
Proc. Natl. Acad. Sci
, vol.102
, pp. 13099-13104
-
-
Jha, A.K.1
Colubri, A.2
Freed, K.F.3
Sosnick, T.R.4
-
47
-
-
22244458915
-
Helix, sheet, and polyproline II frequencies and strong nearest neighbor effects in a restricted coil library
-
Jha, A.K., Colubri, A., Zaman, M.H., Koide, S., Sosnick, T.R., and Freed, K.F. 2005b. Helix, sheet, and polyproline II frequencies and strong nearest neighbor effects in a restricted coil library. Biochemistry 44: 9691-9702.
-
(2005)
Biochemistry
, vol.44
, pp. 9691-9702
-
-
Jha, A.K.1
Colubri, A.2
Zaman, M.H.3
Koide, S.4
Sosnick, T.R.5
Freed, K.F.6
-
48
-
-
33645049047
-
Surprisingly high correlation between early and late stages in non-two-state protein folding
-
Kamagata, K. and Kuwajima, K. 2006. Surprisingly high correlation between early and late stages in non-two-state protein folding. J. Mol. Biol. 357: 1647-1654.
-
(2006)
J. Mol. Biol
, vol.357
, pp. 1647-1654
-
-
Kamagata, K.1
Kuwajima, K.2
-
49
-
-
33845796109
-
The folding pathway of T4 lysozyme: An on-pathway hidden folding intermediate
-
Kato, H., Vu, N.D., Feng, H., Zhou, Z., and Bai, Y. 2007. The folding pathway of T4 lysozyme: An on-pathway hidden folding intermediate. J. Mol. Biol. 365: 881-891.
-
(2007)
J. Mol. Biol
, vol.365
, pp. 881-891
-
-
Kato, H.1
Vu, N.D.2
Feng, H.3
Zhou, Z.4
Bai, Y.5
-
50
-
-
0034685619
-
A breakdown of symmetry in the folding transition state of protein L
-
Kim, D.E., Fisher, C., and Baker, D. 2000. A breakdown of symmetry in the folding transition state of protein L. J. Mol. Biol. 298: 971-984.
-
(2000)
J. Mol. Biol
, vol.298
, pp. 971-984
-
-
Kim, D.E.1
Fisher, C.2
Baker, D.3
-
51
-
-
33846504706
-
A "silent" polymorphism in the MDR1 gene changes substrate specificity
-
Kimchi-Sarfaty, C., Oh, J.M., Kim, I.W., Sauna, Z.E., Calcagno, A.M., Ambudkar, S.V., and Gottesman, M.M. 2007. A "silent" polymorphism in the MDR1 gene changes substrate specificity. Science 315: 525-528.
-
(2007)
Science
, vol.315
, pp. 525-528
-
-
Kimchi-Sarfaty, C.1
Oh, J.M.2
Kim, I.W.3
Sauna, Z.E.4
Calcagno, A.M.5
Ambudkar, S.V.6
Gottesman, M.M.7
-
52
-
-
4344569647
-
The contribution of metal ions to the structural stability of the large ribosomal subunit
-
Klein, D.J., Moore, P.B., and Steitz, T.A. 2004. The contribution of metal ions to the structural stability of the large ribosomal subunit. RNA 10: 1366-1379.
-
(2004)
RNA
, vol.10
, pp. 1366-1379
-
-
Klein, D.J.1
Moore, P.B.2
Steitz, T.A.3
-
53
-
-
0035370662
-
Multiple protein folding nuclei and the transition state ensemble in two-state proteins
-
Klimov, D.K. and Thirumalai, D. 2001. Multiple protein folding nuclei and the transition state ensemble in two-state proteins. Proteins 43: 465-475.
-
(2001)
Proteins
, vol.43
, pp. 465-475
-
-
Klimov, D.K.1
Thirumalai, D.2
-
54
-
-
27144510594
-
Symmetric connectivity of secondary structure elements enhances the diversity of folding pathways
-
Klimov, D.K. and Thirumalai, D. 2005. Symmetric connectivity of secondary structure elements enhances the diversity of folding pathways. J. Mol. Biol. 353: 1171-1186.
-
(2005)
J. Mol. Biol
, vol.353
, pp. 1171-1186
-
-
Klimov, D.K.1
Thirumalai, D.2
-
55
-
-
4344716256
-
Random-coil behavior and the dimensions of chemically unfolded proteins
-
Kohn, J.E., Millett, I.S., Jacob, J., Zagrovic, B., Dillon, T.M., Cingel, N., Dothager, R.S., Seifert, S., Thiyagarajan, P., Sosnick, T.R., et al. 2004. Random-coil behavior and the dimensions of chemically unfolded proteins. Proc. Natl. Acad. Sci. 101: 12491-12496.
-
(2004)
Proc. Natl. Acad. Sci
, vol.101
, pp. 12491-12496
-
-
Kohn, J.E.1
Millett, I.S.2
Jacob, J.3
Zagrovic, B.4
Dillon, T.M.5
Cingel, N.6
Dothager, R.S.7
Seifert, S.8
Thiyagarajan, P.9
Sosnick, T.R.10
-
56
-
-
0035191642
-
Engineered metal binding sites map the heterogeneous folding landscape of a coiled coil
-
Krantz, B.A. and Sosnick, T.R. 2001. Engineered metal binding sites map the heterogeneous folding landscape of a coiled coil. Nat. Struct. Biol. 8: 1042-1047.
-
(2001)
Nat. Struct. Biol
, vol.8
, pp. 1042-1047
-
-
Krantz, B.A.1
Sosnick, T.R.2
-
57
-
-
0033986637
-
D/H amide kinetic isotope effects reveal when hydrogen bonds form during protein folding
-
Krantz, B.A., Moran, L.B., Kentsis, A., and Sosnick, T.R. 2000. D/H amide kinetic isotope effects reveal when hydrogen bonds form during protein folding. Nat. Struct. Biol. 7: 62-71.
-
(2000)
Nat. Struct. Biol
, vol.7
, pp. 62-71
-
-
Krantz, B.A.1
Moran, L.B.2
Kentsis, A.3
Sosnick, T.R.4
-
58
-
-
0036440985
-
Fast and slow intermediate accumulation and the initial barrier mechanism in protein folding
-
Krantz, B.A., Mayne, L., Rumbley, J., Englander, S.W., and Sosnick, T.R. 2002a. Fast and slow intermediate accumulation and the initial barrier mechanism in protein folding. J. Mol. Biol. 324: 359-371.
-
(2002)
J. Mol. Biol
, vol.324
, pp. 359-371
-
-
Krantz, B.A.1
Mayne, L.2
Rumbley, J.3
Englander, S.W.4
Sosnick, T.R.5
-
59
-
-
0036260620
-
Understanding protein hydrogen bond formation with kinetic H/D amide isotope effects
-
Krantz, B.A., Srivastava, A.K., Nauli, S., Baker, D., Sauer, R.T., and Sosnick, T.R. 2002b. Understanding protein hydrogen bond formation with kinetic H/D amide isotope effects. Nat. Struct. Biol. 9: 458-463.
-
(2002)
Nat. Struct. Biol
, vol.9
, pp. 458-463
-
-
Krantz, B.A.1
Srivastava, A.K.2
Nauli, S.3
Baker, D.4
Sauer, R.T.5
Sosnick, T.R.6
-
60
-
-
1442348207
-
Discerning the structure and energy of multiple transition states in protein folding using ψ-analysis
-
Krantz, B.A., Dothager, R.S., and Sosnick, T.R. 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
-
61
-
-
12844284527
-
The N-terminal to C-terminal motif in protein folding and function
-
Krishna, M.M. and Englander, S.W. 2005. The N-terminal to C-terminal motif in protein folding and function. Proc. Natl. Acad. Sci. 102: 1053-1058.
-
(2005)
Proc. Natl. Acad. Sci
, vol.102
, pp. 1053-1058
-
-
Krishna, M.M.1
Englander, S.W.2
-
62
-
-
33847306593
-
A unified mechanism for protein folding: Predetermined pathways with optional errors
-
Krishna, M.M. and Englander, S.W. 2007. A unified mechanism for protein folding: Predetermined pathways with optional errors. Protein Sci. 16: 449-464.
-
(2007)
Protein Sci
, vol.16
, pp. 449-464
-
-
Krishna, M.M.1
Englander, S.W.2
-
63
-
-
33745137861
-
Order of steps in the cytochrome C folding pathway: Evidence for a sequential stabilization mechanism
-
Krishna, M.M., Maity, H., Rumbley, J.N., Lin, Y., and Englander, S.W. 2006. Order of steps in the cytochrome C folding pathway: Evidence for a sequential stabilization mechanism. J. Mol. Biol. 359: 1410-1419.
-
(2006)
J. Mol. Biol
, vol.359
, pp. 1410-1419
-
-
Krishna, M.M.1
Maity, H.2
Rumbley, J.N.3
Lin, Y.4
Englander, S.W.5
-
64
-
-
34548406580
-
Branching in the sequential folding pathway of cytochrome c
-
Krishna, M.M., Maity, H., Rumbley, J.N., and Englander, S.W. 2007. Branching in the sequential folding pathway of cytochrome c. Protein Sci. 16: 1946-1956.
-
(2007)
Protein Sci
, vol.16
, pp. 1946-1956
-
-
Krishna, M.M.1
Maity, H.2
Rumbley, J.N.3
Englander, S.W.4
-
65
-
-
27344452885
-
Single-molecule Forster resonance energy transfer study of protein dynamics under denaturing conditions
-
Kuzmenkina, E.V., Heyes, C.D., and Nienhaus, G.U. 2005. Single-molecule Forster resonance energy transfer study of protein dynamics under denaturing conditions. Proc. Natl. Acad. Sci. 102: 15471-15476.
-
(2005)
Proc. Natl. Acad. Sci
, vol.102
, pp. 15471-15476
-
-
Kuzmenkina, E.V.1
Heyes, C.D.2
Nienhaus, G.U.3
-
66
-
-
34250688767
-
Thermodynamics and kinetics for base-pair opening in the P1 duplex of the Tetrahymena group I ribozyme
-
Lee, J.H. and Pardi, A. 2007. Thermodynamics and kinetics for base-pair opening in the P1 duplex of the Tetrahymena group I ribozyme. Nucleic Acids Res. 35: 2965-2974.
-
(2007)
Nucleic Acids Res
, vol.35
, pp. 2965-2974
-
-
Lee, J.H.1
Pardi, A.2
-
67
-
-
33846916730
-
Malleability of protein folding pathways: A simple reason for complex behaviour
-
Lindberg, M.O. and Oliveberg, M. 2007. Malleability of protein folding pathways: A simple reason for complex behaviour. Curr. Opin. Struct. Biol. 17: 21-29.
-
(2007)
Curr. Opin. Struct. Biol
, vol.17
, pp. 21-29
-
-
Lindberg, M.O.1
Oliveberg, M.2
-
68
-
-
0036829967
-
Complete change of the protein folding transition state upon circular permutation
-
Lindberg, M., Tangrot, J., and Oliveberg, M. 2002. Complete change of the protein folding transition state upon circular permutation. Nat. Struct. Biol. 9: 818-822.
-
(2002)
Nat. Struct. Biol
, vol.9
, pp. 818-822
-
-
Lindberg, M.1
Tangrot, J.2
Oliveberg, M.3
-
69
-
-
0035957720
-
Reversible unfolding of single RNA molecules by mechanical force
-
Liphardt, J., Onoa, B., Smith, S.B., Tinoco, I.J., and Bustamante, C. 2001. Reversible unfolding of single RNA molecules by mechanical force. Science 292: 733-737.
-
(2001)
Science
, vol.292
, pp. 733-737
-
-
Liphardt, J.1
Onoa, B.2
Smith, S.B.3
Tinoco, I.J.4
Bustamante, C.5
-
70
-
-
0347284262
-
Rapid collapse precedes the fast two-state folding of the cold shock protein
-
Magg, C. and Schmid, F.X. 2004. Rapid collapse precedes the fast two-state folding of the cold shock protein. J. Mol. Biol. 335: 1309-1323.
-
(2004)
J. Mol. Biol
, vol.335
, pp. 1309-1323
-
-
Magg, C.1
Schmid, F.X.2
-
71
-
-
16344382372
-
Protein folding: The stepwise assembly of foldon units
-
Maity, H., Maity, M., Krishna, M.M., Mayne, L., and Englander, S.W. 2005. Protein folding: The stepwise assembly of foldon units. Proc. Natl. Acad. Sci. 102: 4741-4746.
-
(2005)
Proc. Natl. Acad. Sci
, vol.102
, pp. 4741-4746
-
-
Maity, H.1
Maity, M.2
Krishna, M.M.3
Mayne, L.4
Englander, S.W.5
-
72
-
-
0023517017
-
Effects of point mutations on the folding of globular proteins
-
Matthews, C.R. 1987. Effects of point mutations on the folding of globular proteins. Methods Enzymol. 154: 498-511.
-
(1987)
Methods Enzymol
, vol.154
, pp. 498-511
-
-
Matthews, C.R.1
-
73
-
-
33747623305
-
End-to-end distance distributions and intrachain diffusion constants in unfolded polypeptide chains indicate intramolecular hydrogen bond formation
-
Moglich, A., Joder, K., and Kiefhaber, T. 2006. End-to-end distance distributions and intrachain diffusion constants in unfolded polypeptide chains indicate intramolecular hydrogen bond formation. Proc. Natl. Acad. Sci. 103: 12394-12399.
-
(2006)
Proc. Natl. Acad. Sci
, vol.103
, pp. 12394-12399
-
-
Moglich, A.1
Joder, K.2
Kiefhaber, T.3
-
74
-
-
3242789489
-
Structural characterization of unfolded states of apomyoglobin using residual dipolar couplings
-
Mohana-Borges, R., Goto, N.K., Kroon, G.J., Dyson, H.J., and Wright, P.E. 2004. Structural characterization of unfolded states of apomyoglobin using residual dipolar couplings. J. Mol. Biol. 340: 1131-1142.
-
(2004)
J. Mol. Biol
, vol.340
, pp. 1131-1142
-
-
Mohana-Borges, R.1
Goto, N.K.2
Kroon, G.J.3
Dyson, H.J.4
Wright, P.E.5
-
75
-
-
33750004434
-
Identification of a collapsed intermediate with non-native long-range interactions on the folding pathway of a pair of Fyn SH3 domain mutants by NMR relaxation dispersion spectroscopy
-
Neudecker, P., Zarrine-Afsar, A., Choy, W.Y., Muhandiram, D.R., Davidson, A.R., and Kay, L.E. 2006. Identification of a collapsed intermediate with non-native long-range interactions on the folding pathway of a pair of Fyn SH3 domain mutants by NMR relaxation dispersion spectroscopy. J. Mol. Biol. 363: 958-976.
-
(2006)
J. Mol. Biol
, vol.363
, pp. 958-976
-
-
Neudecker, P.1
Zarrine-Afsar, A.2
Choy, W.Y.3
Muhandiram, D.R.4
Davidson, A.R.5
Kay, L.E.6
-
76
-
-
33751411136
-
Folding of S6 structures with divergent amino acid composition: Pathway flexibility within partly overlapping foldons
-
Olofsson, M., Hansson, S., Hedberg, L., Logan, D.T., and Oliveberg, M. 2007. Folding of S6 structures with divergent amino acid composition: Pathway flexibility within partly overlapping foldons. J. Mol. Biol. 365: 237-248.
-
(2007)
J. Mol. Biol
, vol.365
, pp. 237-248
-
-
Olofsson, M.1
Hansson, S.2
Hedberg, L.3
Logan, D.T.4
Oliveberg, M.5
-
77
-
-
0242417558
-
Identifying kinetic barriers to mechanical unfolding of the T. thermophila ribozyme
-
Onoa, B., Dumont, S., Liphardt, J., Smith, S.B., Tinoco Jr., I., and Bustamante, C. 2003. Identifying kinetic barriers to mechanical unfolding of the T. thermophila ribozyme. Science 299: 1892-1895.
-
(2003)
Science
, vol.299
, pp. 1892-1895
-
-
Onoa, B.1
Dumont, S.2
Liphardt, J.3
Smith, S.B.4
Tinoco Jr., I.5
Bustamante, C.6
-
78
-
-
24044551638
-
Transition state contact orders correlate with protein folding rates
-
Paci, E., Lindorff-Larsen, K., Dobson, C.M., Karplus, M., and Vendruscolo, M. 2005. Transition state contact orders correlate with protein folding rates. J. Mol. Biol. 352: 495-500.
-
(2005)
J. Mol. Biol
, vol.352
, pp. 495-500
-
-
Paci, E.1
Lindorff-Larsen, K.2
Dobson, C.M.3
Karplus, M.4
Vendruscolo, M.5
-
79
-
-
0030669671
-
Intermediates and kinetic traps in the folding of a large ribozyme revealed by circular dichroism and UV absorbance spectroscopies and catalytic activity
-
Pan, T. and Sosnick, T.R. 1997. Intermediates and kinetic traps in the folding of a large ribozyme revealed by circular dichroism and UV absorbance spectroscopies and catalytic activity. Nat. Struct. Biol. 4: 931-938.
-
(1997)
Nat. Struct. Biol
, vol.4
, pp. 931-938
-
-
Pan, T.1
Sosnick, T.R.2
-
81
-
-
0031576334
-
Folding of RNA involves parallel pathways
-
Pan, J., Thirumalai, D., and Woodson, S.A. 1997. Folding of RNA involves parallel pathways. J. Mol. Biol. 273: 7-13.
-
(1997)
J. Mol. Biol
, vol.273
, pp. 7-13
-
-
Pan, J.1
Thirumalai, D.2
Woodson, S.A.3
-
82
-
-
0033578330
-
Folding of a large ribozyme during transcription and the effect of the elongation factor NusA
-
Pan, T., Artsimovitch, I., Fang, X., Landick, R., and Sosnick, T.R. 1999a. Folding of a large ribozyme during transcription and the effect of the elongation factor NusA. Proc. Natl. Acad. Sci. 96: 9545-9550.
-
(1999)
Proc. Natl. Acad. Sci
, vol.96
, pp. 9545-9550
-
-
Pan, T.1
Artsimovitch, I.2
Fang, X.3
Landick, R.4
Sosnick, T.R.5
-
83
-
-
0033605081
-
Pathway modulation, circular permutation and rapid RNA folding under kinetic control
-
Pan, T., Fang, X., and Sosnick, T.R. 1999b. Pathway modulation, circular permutation and rapid RNA folding under kinetic control. J. Mol. Biol. 286: 721-731.
-
(1999)
J. Mol. Biol
, vol.286
, pp. 721-731
-
-
Pan, T.1
Fang, X.2
Sosnick, T.R.3
-
84
-
-
33746828217
-
Small proteins fold through transition states with native-like topologies
-
Pandit, A.D., Jha, A., Freed, K.F., and Sosnick, T.R. 2006. Small proteins fold through transition states with native-like topologies. J. Mol. Biol. 361: 755-770.
-
(2006)
J. Mol. Biol
, vol.361
, pp. 755-770
-
-
Pandit, A.D.1
Jha, A.2
Freed, K.F.3
Sosnick, T.R.4
-
85
-
-
0032502839
-
Contact order, transition state placement and the refolding rates of single domain proteins
-
Plaxco, K.W., Simons, K.T., and Baker, D. 1998. Contact order, transition state placement and the refolding rates of single domain proteins. J. Mol. Biol. 277: 985-994.
-
(1998)
J. Mol. Biol
, vol.277
, pp. 985-994
-
-
Plaxco, K.W.1
Simons, K.T.2
Baker, D.3
-
86
-
-
0032978994
-
Chain collapse can occur concomitantly with the rate-limiting step in protein folding
-
Plaxco, K.W., Millett, I.S., Segel, D.J., Doniach, S., and Baker, D. 1999. Chain collapse can occur concomitantly with the rate-limiting step in protein folding. Nat. Struct. Biol. 6: 554-556.
-
(1999)
Nat. Struct. Biol
, vol.6
, pp. 554-556
-
-
Plaxco, K.W.1
Millett, I.S.2
Segel, D.J.3
Doniach, S.4
Baker, D.5
-
87
-
-
0031697733
-
The burst phase in ribonuclease A folding and solvent dependence of the unfolded state
-
Qi, P.X., Sosnick, T.R., and Englander, S.W. 1998. The burst phase in ribonuclease A folding and solvent dependence of the unfolded state. Nat. Struct. Biol. 5: 882-884.
-
(1998)
Nat. Struct. Biol
, vol.5
, pp. 882-884
-
-
Qi, P.X.1
Sosnick, T.R.2
Englander, S.W.3
-
88
-
-
34547151184
-
The helix-turn-helix motif as an ultrafast independently folding domain: The pathway of folding of Engrailed homeo domain
-
Religa, T.L., Johnson, C.M., Vu, D.M., Brewer, S.H., Dyer, R.B., and Fersht, A.R. 2007. The helix-turn-helix motif as an ultrafast independently folding domain: The pathway of folding of Engrailed homeo domain. Proc. Natl. Acad. Sci. 104: 9272-9277.
-
(2007)
Proc. Natl. Acad. Sci
, vol.104
, pp. 9272-9277
-
-
Religa, T.L.1
Johnson, C.M.2
Vu, D.M.3
Brewer, S.H.4
Dyer, R.B.5
Fersht, A.R.6
-
89
-
-
0032734515
-
Experiment and theory highlight role of native state topology in SH3 folding
-
Riddle, D.S., Grantcharova, V.P., Santiago, J.V., Alm, E., Ruczinski, I.I., and Baker, D. 1999. Experiment and theory highlight role of native state topology in SH3 folding. Nat. Struct. Biol. 6: 1016-1024.
-
(1999)
Nat. Struct. Biol
, vol.6
, pp. 1016-1024
-
-
Riddle, D.S.1
Grantcharova, V.P.2
Santiago, J.V.3
Alm, E.4
Ruczinski, I.I.5
Baker, D.6
-
90
-
-
0037039464
-
Exploring the folding landscape of a structured RNA
-
Russell, R., Zhuang, X., Babcock, H.P., Millett, I.S., Doniach, S., Chu, S., and Herschlag, D. 2002. Exploring the folding landscape of a structured RNA. Proc. Natl. Acad. Sci. 99: 155-160.
-
(2002)
Proc. Natl. Acad. Sci
, vol.99
, pp. 155-160
-
-
Russell, R.1
Zhuang, X.2
Babcock, H.P.3
Millett, I.S.4
Doniach, S.5
Chu, S.6
Herschlag, D.7
-
91
-
-
2342449128
-
Testing protein-folding simulations by experiment: B domain of protein A
-
Sato, S., Religa, T.L., Daggett, V., and Fersht, A.R. 2004. Testing protein-folding simulations by experiment: B domain of protein A. Proc. Natl. Acad. Sci. 101: 6952-6956.
-
(2004)
Proc. Natl. Acad. Sci
, vol.101
, pp. 6952-6956
-
-
Sato, S.1
Religa, T.L.2
Daggett, V.3
Fersht, A.R.4
-
92
-
-
0035957280
-
Altering the intermediate in the equilibrium folding of unmodified yeast tRNA(Phe) with monovalent and divalent cations
-
Shelton, V.M., Sosnick, T.R., and Pan, T. 2001. Altering the intermediate in the equilibrium folding of unmodified yeast tRNA(Phe) with monovalent and divalent cations. Biochemistry 40: 3629-3638.
-
(2001)
Biochemistry
, vol.40
, pp. 3629-3638
-
-
Shelton, V.M.1
Sosnick, T.R.2
Pan, T.3
-
93
-
-
17844377028
-
Scanning malleable transition state ensembles: Comparing theory and experiment for folding protein U1A
-
Shen, T., Hofmann, C.P., Oliveberg, M., and Wolynes, P.G. 2005. Scanning malleable transition state ensembles: Comparing theory and experiment for folding protein U1A. Biochemistry 44: 6433-6439.
-
(2005)
Biochemistry
, vol.44
, pp. 6433-6439
-
-
Shen, T.1
Hofmann, C.P.2
Oliveberg, M.3
Wolynes, P.G.4
-
94
-
-
0036400325
-
Is polyproline II a major backbone conformation in unfolded proteins?
-
Shi, Z., Woody, R.W., and Kallenbach, N.R. 2002. Is polyproline II a major backbone conformation in unfolded proteins? Adv. Protein Chem. 62: 163-240.
-
(2002)
Adv. Protein Chem
, vol.62
, pp. 163-240
-
-
Shi, Z.1
Woody, R.W.2
Kallenbach, N.R.3
-
95
-
-
0035919635
-
Persistence of native-like topology in a denatured protein in 8 M urea
-
Shortle, D. and Ackerman, M.S. 2001. Persistence of native-like topology in a denatured protein in 8 M urea. Science 293: 487-489.
-
(2001)
Science
, vol.293
, pp. 487-489
-
-
Shortle, D.1
Ackerman, M.S.2
-
96
-
-
26244466045
-
Dependence of the size of the initially collapsed form during the refolding of barstar on denaturant concentration: Evidence for a continuous transition
-
Sinha, K.K. and Udgaonkar, J.B. 2005. Dependence of the size of the initially collapsed form during the refolding of barstar on denaturant concentration: Evidence for a continuous transition. J. Mol. Biol. 353: 704-718.
-
(2005)
J. Mol. Biol
, vol.353
, pp. 704-718
-
-
Sinha, K.K.1
Udgaonkar, J.B.2
-
97
-
-
0038508653
-
RNA folding: Models and perspectives
-
Sosnick, T.R. and Pan, T. 2003. RNA folding: Models and perspectives. Curr. Opin. Struct. Biol. 13: 309-316.
-
(2003)
Curr. Opin. Struct. Biol
, vol.13
, pp. 309-316
-
-
Sosnick, T.R.1
Pan, T.2
-
98
-
-
4444363049
-
Reduced contact order and RNA folding rates
-
Sosnick, T.R. and Pan, T. 2004. Reduced contact order and RNA folding rates. J. Mol. Biol. 342: 1359-1365.
-
(2004)
J. Mol. Biol
, vol.342
, pp. 1359-1365
-
-
Sosnick, T.R.1
Pan, T.2
-
99
-
-
0028402689
-
The barriers in protein folding
-
Sosnick, T.R., Mayne, L., Hiller, R., and Englander, S.W. 1994. The barriers in protein folding. Nat. Struct. Biol. 1: 149-156.
-
(1994)
Nat. Struct. Biol
, vol.1
, pp. 149-156
-
-
Sosnick, T.R.1
Mayne, L.2
Hiller, R.3
Englander, S.W.4
-
100
-
-
0002338515
-
The barriers in protein folding
-
ed. W.F. DeGrado, pp, International Business Communications, Philadelphia, PA
-
Sosnick, T.R., Mayne, L., Hiller, R., and Englander, S.W. 1995. The barriers in protein folding. In Peptide and protein folding workshop. (ed. W.F. DeGrado), pp. 52-80. International Business Communications, Philadelphia, PA.
-
(1995)
Peptide and protein folding workshop
, pp. 52-80
-
-
Sosnick, T.R.1
Mayne, L.2
Hiller, R.3
Englander, S.W.4
-
101
-
-
0029940033
-
Molecular collapse: The rate-limiting step in two-state cytochrome c folding
-
Sosnick, T.R., Mayne, L., and Englander, S.W. 1996. Molecular collapse: The rate-limiting step in two-state cytochrome c folding. Proteins 24: 413-426.
-
(1996)
Proteins
, vol.24
, pp. 413-426
-
-
Sosnick, T.R.1
Mayne, L.2
Englander, S.W.3
-
102
-
-
0030844583
-
Ultrafast signals in protein folding and the polypeptide contracted state
-
Sosnick, T.R., Shtilerman, M.D., Mayne, L., and Englander, S.W. 1997. Ultrafast signals in protein folding and the polypeptide contracted state. Proc. Natl. Acad. Sci. 94: 8545-8550.
-
(1997)
Proc. Natl. Acad. Sci
, vol.94
, pp. 8545-8550
-
-
Sosnick, T.R.1
Shtilerman, M.D.2
Mayne, L.3
Englander, S.W.4
-
103
-
-
10644261303
-
Differences in the folding transition state of ubiquitin indicated by φ and ψ analyses
-
Sosnick, T.R., Dothager, R.S., and Krantz, B.A. 2004. Differences in the folding transition state of ubiquitin indicated by φ and ψ analyses. Proc. Natl. Acad. Sci. 101: 17377-17382.
-
(2004)
Proc. Natl. Acad. Sci
, vol.101
, pp. 17377-17382
-
-
Sosnick, T.R.1
Dothager, R.S.2
Krantz, B.A.3
-
104
-
-
33646935188
-
Characterizing the protein folding transition state using ψ analysis
-
Sosnick, T.R., Krantz, B.A., Dothager, R.S., and Baxa, M. 2006. Characterizing the protein folding transition state using ψ analysis. Chem. Rev. 106: 1862-1876.
-
(2006)
Chem. Rev
, vol.106
, pp. 1862-1876
-
-
Sosnick, T.R.1
Krantz, B.A.2
Dothager, R.S.3
Baxa, M.4
-
105
-
-
33745728321
-
Ion-mediated nucleic acid helix-helix interactions
-
Tan, Z.J. and Chen, S.J. 2006. Ion-mediated nucleic acid helix-helix interactions. Biophys. J. 91: 518-536.
-
(2006)
Biophys. J
, vol.91
, pp. 518-536
-
-
Tan, Z.J.1
Chen, S.J.2
-
106
-
-
0001103473
-
Kinetics of folding of proteins and RNA
-
Thirumalai, D. and Woodson, S.A. 1996. Kinetics of folding of proteins and RNA. Acc. Chem. Res. 29: 433-439.
-
(1996)
Acc. Chem. Res
, vol.29
, pp. 433-439
-
-
Thirumalai, D.1
Woodson, S.A.2
-
107
-
-
16344371778
-
RNA and protein folding: Common themes and variations
-
Thirumalai, D. and Hyeon, C. 2005. RNA and protein folding: Common themes and variations. Biochemistry 44: 4957-4970.
-
(2005)
Biochemistry
, vol.44
, pp. 4957-4970
-
-
Thirumalai, D.1
Hyeon, C.2
-
108
-
-
0034743153
-
Early events in RNA folding
-
Thirumalai, D., Lee, N., Woodson, S.A., and Klimov, D. 2001. Early events in RNA folding. Annu. Rev. Phys. Chem. 52: 751-762.
-
(2001)
Annu. Rev. Phys. Chem
, vol.52
, pp. 751-762
-
-
Thirumalai, D.1
Lee, N.2
Woodson, S.A.3
Klimov, D.4
-
111
-
-
0032549735
-
Kinetic intermediates trapped by native interactions in RNA folding
-
Treiber, D.K., Rook, M.S., Zarrinkar, P.P., and Williamson, J.R. 1998. Kinetic intermediates trapped by native interactions in RNA folding. Science 279: 1943-1946.
-
(1998)
Science
, vol.279
, pp. 1943-1946
-
-
Treiber, D.K.1
Rook, M.S.2
Zarrinkar, P.P.3
Williamson, J.R.4
-
112
-
-
17644366135
-
Comparison of the global structure and dynamics of native and unmodified tRNAval
-
Vermeulen, A., McCallum, S.A., and Pardi, A. 2005. Comparison of the global structure and dynamics of native and unmodified tRNAval. Biochemistry 44: 6024-6033.
-
(2005)
Biochemistry
, vol.44
, pp. 6024-6033
-
-
Vermeulen, A.1
McCallum, S.A.2
Pardi, A.3
-
113
-
-
36549060184
-
A kinetic intermediate that regulates proper folding of a group II intron RNA
-
Waldsich, C. and Pyle, A.M. 2008. A kinetic intermediate that regulates proper folding of a group II intron RNA. J. Mol. Biol. 375: 572-580.
-
(2008)
J. Mol. Biol
, vol.375
, pp. 572-580
-
-
Waldsich, C.1
Pyle, A.M.2
-
114
-
-
33645294148
-
Conformational entropic barriers in topology-dependent protein folding: Perspectives from a simple native-centric polymer model
-
Wallin, S. and Chan, H.S. 2006. Conformational entropic barriers in topology-dependent protein folding: Perspectives from a simple native-centric polymer model. J. Phys. Condens. Matter 18: S307-S328.
-
(2006)
J. Phys. Condens. Matter
, vol.18
-
-
Wallin, S.1
Chan, H.S.2
-
115
-
-
40849106253
-
Small-angle X-ray scattering of reduced ribonuclease A: Effects of solution conditions and comparisons with a computational model of unfolded proteins
-
Wang, Y., Trewhella, J., and Goldenberg, D.P. 2008. Small-angle X-ray scattering of reduced ribonuclease A: Effects of solution conditions and comparisons with a computational model of unfolded proteins. J. Mol. Biol. 377: 1576-1592.
-
(2008)
J. Mol. Biol
, vol.377
, pp. 1576-1592
-
-
Wang, Y.1
Trewhella, J.2
Goldenberg, D.P.3
-
116
-
-
15944382675
-
The speed of RNA transcription and metabolite binding kinetics operate an FMN riboswitch
-
Wickiser, J.K., Winkler, W.C., Breaker, R.R., and Crothers, D.M. 2005. The speed of RNA transcription and metabolite binding kinetics operate an FMN riboswitch. Mol. Cell 18: 49-60.
-
(2005)
Mol. Cell
, vol.18
, pp. 49-60
-
-
Wickiser, J.K.1
Winkler, W.C.2
Breaker, R.R.3
Crothers, D.M.4
-
117
-
-
18844439956
-
Mechanistic insights on the folding of a large ribozyme during transcription
-
Wong, T., Sosnick, T.R., and Pan, T. 2005. Mechanistic insights on the folding of a large ribozyme during transcription. Biochemistry 44: 7535-7542.
-
(2005)
Biochemistry
, vol.44
, pp. 7535-7542
-
-
Wong, T.1
Sosnick, T.R.2
Pan, T.3
-
118
-
-
36749064979
-
Folding of noncoding RNAs during transcription facilitated by pausing-induced nonnative structures
-
Wong, T., Sosnick, T.R., and Pan, T. 2007. Folding of noncoding RNAs during transcription facilitated by pausing-induced nonnative structures. Proc. Natl. Acad. Sci. 104: 17995-18000.
-
(2007)
Proc. Natl. Acad. Sci
, vol.104
, pp. 17995-18000
-
-
Wong, T.1
Sosnick, T.R.2
Pan, T.3
-
119
-
-
0036864241
-
Folding mechanisms of group I ribozymes: Role of stability and contact order
-
Woodson, S.A. 2002. Folding mechanisms of group I ribozymes: Role of stability and contact order. Biochem. Soc. Trans. 30: 1166-1169.
-
(2002)
Biochem. Soc. Trans
, vol.30
, pp. 1166-1169
-
-
Woodson, S.A.1
-
120
-
-
0037379184
-
Structural and kinetic characterization of the simplified SH3 domain FP1
-
Yi, Q., Rajagopal, P., Klevit, R.E., and Baker, D. 2003. Structural and kinetic characterization of the simplified SH3 domain FP1. Protein Sci. 12: 776-783.
-
(2003)
Protein Sci
, vol.12
, pp. 776-783
-
-
Yi, Q.1
Rajagopal, P.2
Klevit, R.E.3
Baker, D.4
-
121
-
-
0029874598
-
The kinetic folding pathway of the Tetrahymena ribozyme reveals possible similarities between RNA and protein folding [see comments]
-
Zarrinkar, P.P. and Williamson, J.R. 1996. The kinetic folding pathway of the Tetrahymena ribozyme reveals possible similarities between RNA and protein folding [see comments]. Nat. Struct. Biol. 3: 432-438.
-
(1996)
Nat. Struct. Biol
, vol.3
, pp. 432-438
-
-
Zarrinkar, P.P.1
Williamson, J.R.2
|