-
1
-
-
0030900533
-
Kinetics of folding of the IgG binding domain of peptostreptococcal protein L
-
Scalley M.L., Yi Q., Gu H., McCormack A., Yates J.R. III, and Baker D. Kinetics of folding of the IgG binding domain of peptostreptococcal protein L Biochemistry 36 1997 3373 3382
-
(1997)
Biochemistry
, vol.36
, pp. 3373-3382
-
-
Scalley, M.L.1
Yi, Q.2
Gu, H.3
McCormack, A.4
Yates Iii, J.R.5
Baker, D.6
-
2
-
-
0031565981
-
Contrasting roles for symmetrically disposed β-turns in the folding of a small protein
-
Gu H., Kim D., and Baker D. Contrasting roles for symmetrically disposed β-turns in the folding of a small protein J. Mol. Biol. 274 1997 588 596
-
(1997)
J. Mol. Biol.
, vol.274
, pp. 588-596
-
-
Gu, H.1
Kim, D.2
Baker, D.3
-
3
-
-
0032484161
-
The single helix in protein L is largely disrupted at the rate-limiting step in folding
-
Kim D.E., Yi Q., Gladwin S.T., Goldberg J.M., and Baker D. The single helix in protein L is largely disrupted at the rate-limiting step in folding J. Mol. Biol. 284 1998 807 815
-
(1998)
J. Mol. Biol.
, vol.284
, pp. 807-815
-
-
Kim, D.E.1
Yi, Q.2
Gladwin, S.T.3
Goldberg, J.M.4
Baker, D.5
-
4
-
-
0034685619
-
A breakdown of symmetry in the folding transition state of protein L
-
Kim D.E., Fisher C., and Baker D. A breakdown of symmetry in the folding transition state of protein L J. Mol. Biol. 298 2000 971 984
-
(2000)
J. Mol. Biol.
, vol.298
, pp. 971-984
-
-
Kim, D.E.1
Fisher, C.2
Baker, D.3
-
5
-
-
0037459022
-
Interplay among tertiary contacts, secondary structure formation and side-chain packing in the protein folding mechanism: All-atom representation study of protein L
-
Clementi C., Garcia A.E., and Onuchic J.N. Interplay among tertiary contacts, secondary structure formation and side-chain packing in the protein folding mechanism: all-atom representation study of protein L J. Mol. Biol. 326 2003 933 954
-
(2003)
J. Mol. Biol.
, vol.326
, pp. 933-954
-
-
Clementi, C.1
Garcia, A.E.2
Onuchic, J.N.3
-
6
-
-
0036785556
-
The origins of asymmetry in the folding transition states of protein L and protein G
-
Karanicolas J., and Brooks C.L. III The origins of asymmetry in the folding transition states of protein L and protein G Protein Sci. 11 2002 2351 2361
-
(2002)
Protein Sci.
, vol.11
, pp. 2351-2361
-
-
Karanicolas, J.1
Brooks Iii, C.L.2
-
7
-
-
1842454761
-
Intermediates and the folding of proteins L and G
-
Brown S., and Head-Gordon T. Intermediates and the folding of proteins L and G Protein Sci. 13 2004 958 970
-
(2004)
Protein Sci.
, vol.13
, pp. 958-970
-
-
Brown, S.1
Head-Gordon, T.2
-
8
-
-
51049105080
-
Predicting protein folding pathways at the mesoscopic level based on native interactions between secondary structure elements
-
Yang Q., and Sze S.H. Predicting protein folding pathways at the mesoscopic level based on native interactions between secondary structure elements BMC Bioinformatics 9 2008 320
-
(2008)
BMC Bioinformatics
, vol.9
, pp. 320
-
-
Yang, Q.1
Sze, S.H.2
-
9
-
-
60849110265
-
Studying the unfolding process of protein G and protein L under physical property space
-
Zhao L., Wang J., Dou X., and Cao Z. Studying the unfolding process of protein G and protein L under physical property space BMC Bioinformatics 10 2009 S44
-
(2009)
BMC Bioinformatics
, vol.10
, pp. 44
-
-
Zhao, L.1
Wang, J.2
Dou, X.3
Cao, Z.4
-
10
-
-
4644259872
-
Three-body interactions improve the prediction of rate and mechanism in protein folding models
-
Ejtehadi M.R., Avall S.P., and Plotkin S.S. Three-body interactions improve the prediction of rate and mechanism in protein folding models Proc. Natl Acad. Sci. USA 101 2004 15088 15093
-
(2004)
Proc. Natl Acad. Sci. USA
, vol.101
, pp. 15088-15093
-
-
Ejtehadi, M.R.1
Avall, S.P.2
Plotkin, S.S.3
-
11
-
-
0035850732
-
Roles of native topology and chain-length scaling in protein folding: A simulation study with a Gō-like model
-
Koga N., and Takada S. Roles of native topology and chain-length scaling in protein folding: a simulation study with a Gō-like model J. Mol. Biol. 313 2001 171 180
-
(2001)
J. Mol. Biol.
, vol.313
, pp. 171-180
-
-
Koga, N.1
Takada, S.2
-
12
-
-
0033871567
-
Critical role of β-hairpin formation in protein G folding
-
McCallister E.L., Alm E., and Baker D. Critical role of β-hairpin formation in protein G folding Nat. Struct. Biol. 7 2000 669 673
-
(2000)
Nat. Struct. Biol.
, vol.7
, pp. 669-673
-
-
McCallister, E.L.1
Alm, E.2
Baker, D.3
-
13
-
-
0034964196
-
Computer-based redesign of a protein folding pathway
-
Nauli S., Kuhlman B., and Baker D. Computer-based redesign of a protein folding pathway Nat. Struct. Biol. 8 2001 602 605
-
(2001)
Nat. Struct. Biol.
, vol.8
, pp. 602-605
-
-
Nauli, S.1
Kuhlman, B.2
Baker, D.3
-
14
-
-
0036300662
-
Accurate computer-based design of a new backbone conformation in the second turn of protein L
-
Kuhlman B., O'Neill J.W., Kim D.E., Zhang K.Y., and Baker D. Accurate computer-based design of a new backbone conformation in the second turn of protein L J. Mol. Biol. 315 2002 471 477
-
(2002)
J. Mol. Biol.
, vol.315
, pp. 471-477
-
-
Kuhlman, B.1
O'Neill, J.W.2
Kim, D.E.3
Zhang, K.Y.4
Baker, D.5
-
15
-
-
0032502839
-
Contact order, transition state placement and the refolding rates of single domain proteins
-
Plaxco K.W., Simons K.T., and Baker D. Contact order, transition state placement and the refolding rates of single domain proteins J. Mol. Biol. 277 1998 985 994
-
(1998)
J. Mol. Biol.
, vol.277
, pp. 985-994
-
-
Plaxco, K.W.1
Simons, K.T.2
Baker, D.3
-
16
-
-
0034687123
-
Topology, stability, sequence, and length: Defining the determinants of two-state protein folding kinetics
-
Plaxco K.W., Simons K.T., Ruczinski I., and Baker D. Topology, stability, sequence, and length: defining the determinants of two-state protein folding kinetics Biochemistry 39 2000 11177 11183
-
(2000)
Biochemistry
, vol.39
, pp. 11177-11183
-
-
Plaxco, K.W.1
Simons, K.T.2
Ruczinski, I.3
Baker, D.4
-
17
-
-
48749087319
-
Quantifying the structural requirements of the folding transition state of protein A and other systems
-
Baxa M., Freed K.F., and Sosnick T.R. Quantifying the structural requirements of the folding transition state of protein A and other systems J. Mol. Biol. 381 2008 1362 1381
-
(2008)
J. Mol. Biol.
, vol.381
, pp. 1362-1381
-
-
Baxa, M.1
Freed, K.F.2
Sosnick, T.R.3
-
18
-
-
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. Discerning the structure and energy of multiple transition states in protein folding using ψ-analysis J. Mol. Biol. 337 2004 463 475
-
(2004)
J. Mol. Biol.
, vol.337
, pp. 463-475
-
-
Krantz, B.A.1
Dothager, R.S.2
Sosnick, T.R.3
-
20
-
-
33646935188
-
Characterizing the protein folding transition state using ψ analysis
-
Sosnick T.R., Krantz B.A., Dothager R.S., and Baxa M. Characterizing the protein folding transition state using ψ analysis Chem. Rev. 106 2006 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
-
21
-
-
48249086517
-
Kinetic barriers and the role of topology in protein and RNA folding
-
Sosnick T.R. Kinetic barriers and the role of topology in protein and RNA folding Protein Sci. 17 2008 1308 1318
-
(2008)
Protein Sci.
, vol.17
, pp. 1308-1318
-
-
Sosnick, T.R.1
-
22
-
-
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. Understanding protein hydrogen bond formation with kinetic H/D amide isotope effects Nat. Struct. Biol. 9 2002 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
-
23
-
-
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. D/H amide kinetic isotope effects reveal when hydrogen bonds form during protein folding Nat. Struct. Biol. 7 2000 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
-
24
-
-
0035191642
-
Engineered metal binding sites map the heterogeneous folding landscape of a coiled coil
-
Krantz B.A., and Sosnick T.R. Engineered metal binding sites map the heterogeneous folding landscape of a coiled coil Nat. Struct. Biol. 8 2001 1042 1047
-
(2001)
Nat. Struct. Biol.
, vol.8
, pp. 1042-1047
-
-
Krantz, B.A.1
Sosnick, T.R.2
-
25
-
-
77249098840
-
Protein structure prediction enhanced with evolutionary diversity: SPEED
-
DeBartolo J., Hocky G., Wilde M., Xu J., Freed K.F., and Sosnick T.R. Protein structure prediction enhanced with evolutionary diversity: SPEED Protein Sci. 19 2010 520 534
-
(2010)
Protein Sci.
, vol.19
, pp. 520-534
-
-
Debartolo, J.1
Hocky, G.2
Wilde, M.3
Xu, J.4
Freed, K.F.5
Sosnick, T.R.6
-
26
-
-
62649111500
-
Mimicking the folding pathway to improve homology-free protein structure prediction
-
DeBartolo J., Colubri A., Jha A.K., Fitzgerald J.E., Freed K.F., and Sosnick T.R. Mimicking the folding pathway to improve homology-free protein structure prediction Proc. Natl Acad. Sci. USA 106 2009 3734 3739
-
(2009)
Proc. Natl Acad. Sci. USA
, vol.106
, pp. 3734-3739
-
-
Debartolo, J.1
Colubri, A.2
Jha, A.K.3
Fitzgerald, J.E.4
Freed, K.F.5
Sosnick, T.R.6
-
27
-
-
60149100982
-
ψ-Constrained simulations of protein folding transition states: Implications for calculating φ values
-
Baxa M.C., Freed K.F., and Sosnick T.R. ψ-Constrained simulations of protein folding transition states: implications for calculating φ values J. Mol. Biol. 386 2009 920 928
-
(2009)
J. Mol. Biol.
, vol.386
, pp. 920-928
-
-
Baxa, M.C.1
Freed, K.F.2
Sosnick, T.R.3
-
28
-
-
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. Differences in the folding transition state of ubiquitin indicated by φ and ψ analyses Proc. Natl Acad. Sci. USA 101 2004 17377 17382
-
(2004)
Proc. Natl Acad. Sci. USA
, vol.101
, pp. 17377-17382
-
-
Sosnick, T.R.1
Dothager, R.S.2
Krantz, B.A.3
-
29
-
-
84455200977
-
Modeling large regions in proteins: Applications to loops, termini, and folding
-
Adhikari A.N., Peng J., Wilde M., Xu J., Freed K.F., and Sosnick T.R. Modeling large regions in proteins: applications to loops, termini, and folding Protein Sci. 21 2012 107 121
-
(2012)
Protein Sci.
, vol.21
, pp. 107-121
-
-
Adhikari, A.N.1
Peng, J.2
Wilde, M.3
Xu, J.4
Freed, K.F.5
Sosnick, T.R.6
-
30
-
-
16344382372
-
Protein folding: The stepwise assembly of foldon units
-
Maity H., Maity M., Krishna M.M., Mayne L., and Englander S.W. Protein folding: the stepwise assembly of foldon units Proc. Natl Acad. Sci. USA 102 2005 4741 4746
-
(2005)
Proc. Natl Acad. Sci. USA
, vol.102
, pp. 4741-4746
-
-
Maity, H.1
Maity, M.2
Krishna, M.M.3
Mayne, L.4
Englander, S.W.5
-
31
-
-
80052470285
-
Automated real-space refinement of protein structures using a realistic backbone move set
-
Haddadian E.J., Gong H., Jha A.K., Yang X., Debartolo J., and Hinshaw J.R. Automated real-space refinement of protein structures using a realistic backbone move set Biophys. J. 101 2011 899 909
-
(2011)
Biophys. J.
, vol.101
, pp. 899-909
-
-
Haddadian, E.J.1
Gong, H.2
Jha, A.K.3
Yang, X.4
Debartolo, J.5
Hinshaw, J.R.6
-
32
-
-
70450106216
-
Improved prediction of protein side-chain conformations with SCWRL4
-
Krivov G.G., Shapovalov M.V., and Dunbrack R.L. Jr Improved prediction of protein side-chain conformations with SCWRL4 Proteins 77 2009 778 795
-
(2009)
Proteins
, vol.77
, pp. 778-795
-
-
Krivov, G.G.1
Shapovalov, M.V.2
Dunbrack, Jr.R.L.3
-
33
-
-
24944542708
-
Statistical coil model of the unfolded state: Resolving the reconciliation problem
-
Jha A.K., Colubri A., Freed K.F., and Sosnick T.R. Statistical coil model of the unfolded state: resolving the reconciliation problem Proc. Natl Acad. Sci. USA 102 2005 13099 13104
-
(2005)
Proc. Natl Acad. Sci. USA
, vol.102
, pp. 13099-13104
-
-
Jha, A.K.1
Colubri, A.2
Freed, K.F.3
Sosnick, T.R.4
-
34
-
-
0032553332
-
Elucidating the folding problem of α-helices: Local motifs, long-range electrostatics, ionic-strength dependence and prediction of NMR parameters
-
Lacroix E., Viguera A.R., and Serrano L. Elucidating the folding problem of α-helices: local motifs, long-range electrostatics, ionic-strength dependence and prediction of NMR parameters J. Mol. Biol. 284 1998 173 191
-
(1998)
J. Mol. Biol.
, vol.284
, pp. 173-191
-
-
Lacroix, E.1
Viguera, A.R.2
Serrano, L.3
-
35
-
-
1942473645
-
Critical nucleation size in the folding of small apparently two-state proteins
-
Bai Y., Zhou H., and Zhou Y. Critical nucleation size in the folding of small apparently two-state proteins Protein Sci. 13 2004 1173 1181
-
(2004)
Protein Sci.
, vol.13
, pp. 1173-1181
-
-
Bai, Y.1
Zhou, H.2
Zhou, Y.3
-
36
-
-
33645294148
-
Conformational entropic barriers in topology-dependent protein folding: Perspectives from a simple native-centric polymer model
-
Wallin S., and Chan H.S. Conformational entropic barriers in topology-dependent protein folding: perspectives from a simple native-centric polymer model J. Phys.: Condens. Matter 18 2006 S307 S328
-
(2006)
J. Phys.: Condens. Matter
, vol.18
-
-
Wallin, S.1
Chan, H.S.2
-
37
-
-
65649148275
-
Desolvation barrier effects are a likely contributor to the remarkable diversity in the folding rates of small proteins
-
Ferguson A., Liu Z., and Chan H.S. Desolvation barrier effects are a likely contributor to the remarkable diversity in the folding rates of small proteins J. Mol. Biol. 389 2009 619 636
-
(2009)
J. Mol. Biol.
, vol.389
, pp. 619-636
-
-
Ferguson, A.1
Liu, Z.2
Chan, H.S.3
-
38
-
-
24044551638
-
Transition state contact orders correlate with protein folding rates
-
Paci E., Lindorff-Larsen K., Dobson C.M., Karplus M., and Vendruscolo M. Transition state contact orders correlate with protein folding rates J. Mol. Biol. 352 2005 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
-
39
-
-
0033613165
-
A simple model for calculating the kinetics of protein folding from three-dimensional structures
-
Munoz V., and Eaton W.A. A simple model for calculating the kinetics of protein folding from three-dimensional structures Proc. Natl Acad. Sci. USA 96 1999 11311 11316
-
(1999)
Proc. Natl Acad. Sci. USA
, vol.96
, pp. 11311-11316
-
-
Munoz, V.1
Eaton, W.A.2
-
40
-
-
0033515615
-
Exploring structures in protein folding funnels with free energy functionals: The transition state ensemble
-
Shoemaker B.A., Wang J., and Wolynes P.G. Exploring structures in protein folding funnels with free energy functionals: the transition state ensemble J. Mol. Biol. 287 1999 675 694
-
(1999)
J. Mol. Biol.
, vol.287
, pp. 675-694
-
-
Shoemaker, B.A.1
Wang, J.2
Wolynes, P.G.3
-
41
-
-
0033613255
-
Prediction of protein-folding mechanisms from free-energy landscapes derived from native structures
-
Alm E., and Baker D. Prediction of protein-folding mechanisms from free-energy landscapes derived from native structures Proc. Natl Acad. Sci. USA 96 1999 11305 11310
-
(1999)
Proc. Natl Acad. Sci. USA
, vol.96
, pp. 11305-11310
-
-
Alm, E.1
Baker, D.2
-
42
-
-
0033613131
-
A theoretical search for folding/unfolding nuclei in three-dimensional protein structures
-
Galzitskaya O.V., and Finkelstein A.V. A theoretical search for folding/unfolding nuclei in three-dimensional protein structures Proc. Natl Acad. Sci. USA 96 1999 11299 11304
-
(1999)
Proc. Natl Acad. Sci. USA
, vol.96
, pp. 11299-11304
-
-
Galzitskaya, O.V.1
Finkelstein, A.V.2
-
43
-
-
0032742688
-
Go-ing for the prediction of protein folding mechanisms
-
Takada S. Go-ing for the prediction of protein folding mechanisms Proc. Natl Acad. Sci. USA 96 1999 11698 11700
-
(1999)
Proc. Natl Acad. Sci. USA
, vol.96
, pp. 11698-11700
-
-
Takada, S.1
-
44
-
-
0035066647
-
φ-Values for BPTI folding intermediates and implications for transition state analysis
-
Bulaj G., and Goldenberg D.P. φ-Values for BPTI folding intermediates and implications for transition state analysis Nat. Struct. Biol. 8 2001 326 330
-
(2001)
Nat. Struct. Biol.
, vol.8
, pp. 326-330
-
-
Bulaj, G.1
Goldenberg, D.P.2
-
45
-
-
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. 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 2006 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
-
46
-
-
8544268672
-
Structural examination of φ-value analysis in protein folding
-
Feng H., Vu N.D., Zhou Z., and Bai Y. Structural examination of φ-value analysis in protein folding Biochemistry 43 2004 14325 14331
-
(2004)
Biochemistry
, vol.43
, pp. 14325-14331
-
-
Feng, H.1
Vu, N.D.2
Zhou, Z.3
Bai, Y.4
-
47
-
-
84859444101
-
A residue in helical conformation in the native state adopts a β-strand conformation in the folding transition state despite its high and canonical φ-value
-
Zarrine-Afsar A., Dahesh S., and Davidson A.R. A residue in helical conformation in the native state adopts a β-strand conformation in the folding transition state despite its high and canonical φ-value Proteins 80 2012 1343 1349
-
(2012)
Proteins
, vol.80
, pp. 1343-1349
-
-
Zarrine-Afsar, A.1
Dahesh, S.2
Davidson, A.R.3
-
48
-
-
2542619154
-
Dramatic acceleration of protein folding by stabilization of a nonnative backbone conformation
-
Di Nardo A.A., Korzhnev D.M., Stogios P.J., Zarrine-Afsar A., Kay L.E., and Davidson A.R. Dramatic acceleration of protein folding by stabilization of a nonnative backbone conformation Proc. Natl Acad. Sci. USA 101 2004 7954 7959
-
(2004)
Proc. Natl Acad. Sci. USA
, vol.101
, pp. 7954-7959
-
-
Di Nardo, A.A.1
Korzhnev, D.M.2
Stogios, P.J.3
Zarrine-Afsar, A.4
Kay, L.E.5
Davidson, A.R.6
-
49
-
-
33746828217
-
Small proteins fold through transition states with native-like topologies
-
Pandit A.D., Jha A., Freed K.F., and Sosnick T.R. Small proteins fold through transition states with native-like topologies J. Mol. Biol. 361 2006 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
-
50
-
-
0032708771
-
Mutational analysis of acylphosphatase suggests the importance of topology and contact order in protein folding
-
Chiti F., Taddei N., White P.M., Bucciantini M., Magherini F., Stefani M., and Dobson C.M. Mutational analysis of acylphosphatase suggests the importance of topology and contact order in protein folding Nat. Struct. Biol. 6 1999 1005 1009
-
(1999)
Nat. Struct. Biol.
, vol.6
, pp. 1005-1009
-
-
Chiti, F.1
Taddei, N.2
White, P.M.3
Bucciantini, M.4
Magherini, F.5
Stefani, M.6
Dobson, C.M.7
-
51
-
-
0034647415
-
Stabilisation of α-helices by site-directed mutagenesis reveals the importance of secondary structure in the transition state for acylphosphatase folding
-
Taddei N., Chiti F., Fiaschi T., Bucciantini M., Capanni C., and Stefani M. Stabilisation of α-helices by site-directed mutagenesis reveals the importance of secondary structure in the transition state for acylphosphatase folding J. Mol. Biol. 300 2000 633 647
-
(2000)
J. Mol. Biol.
, vol.300
, pp. 633-647
-
-
Taddei, N.1
Chiti, F.2
Fiaschi, T.3
Bucciantini, M.4
Capanni, C.5
Stefani, M.6
-
52
-
-
2442683149
-
The folding transition state of the cold shock protein is strongly polarized
-
Garcia-Mira M.M., Boehringer D., and Schmid F.X. The folding transition state of the cold shock protein is strongly polarized J. Mol. Biol. 339 2004 555 569
-
(2004)
J. Mol. Biol.
, vol.339
, pp. 555-569
-
-
Garcia-Mira, M.M.1
Boehringer, D.2
Schmid, F.X.3
-
53
-
-
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. Important role of hydrogen bonds in the structurally polarized transition state for folding of the src SH3 domain Nat. Struct. Biol. 5 1998 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
-
54
-
-
0023517017
-
Effects of point mutations on the folding of globular proteins
-
Matthews C.R. Effects of point mutations on the folding of globular proteins Methods Enzymol. 154 1987 498 511
-
(1987)
Methods Enzymol.
, vol.154
, pp. 498-511
-
-
Matthews, C.R.1
-
55
-
-
79960584453
-
Aggregation of γ-crystallins associated with human cataracts via domain swapping at the C-terminal β-strands
-
Das P., King J.A., and Zhou R. Aggregation of γ-crystallins associated with human cataracts via domain swapping at the C-terminal β-strands Proc. Natl Acad. Sci. USA 108 2011 10514 10519
-
(2011)
Proc. Natl Acad. Sci. USA
, vol.108
, pp. 10514-10519
-
-
Das, P.1
King, J.A.2
Zhou, R.3
-
56
-
-
0035909921
-
The free energy landscape for β hairpin folding in explicit water
-
Zhou R., Berne B.J., and Germain R. The free energy landscape for β hairpin folding in explicit water Proc. Natl Acad. Sci. USA 98 2001 14931 14936
-
(2001)
Proc. Natl Acad. Sci. USA
, vol.98
, pp. 14931-14936
-
-
Zhou, R.1
Berne, B.J.2
Germain, R.3
-
57
-
-
40049090139
-
Scalable molecular dynamics with NAMD on the IBM Blue Gene/L system
-
Kumar S., Huang C., Zheng G., Bohm E., Bhatele A., and Phillips J.C. Scalable molecular dynamics with NAMD on the IBM Blue Gene/L system IBM J. Res. Dev. 52 2008 177 188
-
(2008)
IBM J. Res. Dev.
, vol.52
, pp. 177-188
-
-
Kumar, S.1
Huang, C.2
Zheng, G.3
Bohm, E.4
Bhatele, A.5
Phillips, J.C.6
-
58
-
-
67650500988
-
CHARMM: The biomolecular simulation program
-
Brooks B.R., Brooks C.L. III, Mackerell A.D. Jr, Nilsson L., Petrella R.J., and Roux B. CHARMM: the biomolecular simulation program J. Comput. Chem. 30 2009 1545 1614
-
(2009)
J. Comput. Chem.
, vol.30
, pp. 1545-1614
-
-
Brooks, B.R.1
Brooks Iii, C.L.2
MacKerell, Jr.A.D.3
Nilsson, L.4
Petrella, R.J.5
Roux, B.6
-
59
-
-
0004016501
-
Comparison of simple potential functions for simulating liquid water
-
Jorgensen W.L., Chandrasekhar J., Madura J.D., Impey R.W., and Klein M.L. Comparison of simple potential functions for simulating liquid water J. Comput. Chem. 79 1983 926 935
-
(1983)
J. Comput. Chem.
, vol.79
, pp. 926-935
-
-
Jorgensen, W.L.1
Chandrasekhar, J.2
Madura, J.D.3
Impey, R.W.4
Klein, M.L.5
-
60
-
-
0000843443
-
A position dependent friction model for solution reactions in the high friction regime: Proton transfer in triosephosphate isomerase (TIM)
-
Neria E., and Karplus M. A position dependent friction model for solution reactions in the high friction regime: proton transfer in triosephosphate isomerase (TIM) J. Chem. Phys. 105 1996 10812 10818
-
(1996)
J. Chem. Phys.
, vol.105
, pp. 10812-10818
-
-
Neria, E.1
Karplus, M.2
-
61
-
-
33646940952
-
Numerical integration of the cartesian equations of motion of a system with constraints: Molecular dynamics of n-alkanes
-
Ryckaert J.P., Ciccotti G., and Berendsen H.J.C. Numerical integration of the cartesian equations of motion of a system with constraints: molecular dynamics of n-alkanes J. Comput. Phys. 23 1977 327 341
-
(1977)
J. Comput. Phys.
, vol.23
, pp. 327-341
-
-
Ryckaert, J.P.1
Ciccotti, G.2
Berendsen, H.J.C.3
-
62
-
-
34547651105
-
Searching for multiple folding pathways of a nearly symmetrical protein: Temperature dependent φ-value analysis of the B domain of protein A
-
Sato S., and Fersht A.R. Searching for multiple folding pathways of a nearly symmetrical protein: temperature dependent φ-value analysis of the B domain of protein A J. Mol. Biol. 372 2007 254 267
-
(2007)
J. Mol. Biol.
, vol.372
, pp. 254-267
-
-
Sato, S.1
Fersht, A.R.2
|