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Volumn 78, Issue 1, 2010, Pages 73-82

A simple simulation model can reproduce the thermodynamic folding intermediate of apoflavodoxin

Author keywords

Free energy surface; Monte carlo; Populations; Protein folding; Topologybased models

Indexed keywords

APOFLAVODOXIN; FLAVODOXIN; UNCLASSIFIED DRUG; APOPROTEIN; BACTERIAL PROTEIN;

EID: 77949352394     PISSN: 08873585     EISSN: 10970134     Source Type: Journal    
DOI: 10.1002/prot.22521     Document Type: Article
Times cited : (17)

References (68)
  • 1
    • 33646931471 scopus 로고    scopus 로고
    • Protein folding thermodynamics and dynamics: Where physics, chemistry and biology meet
    • Shakhnovich E. Protein folding thermodynamics and dynamics: where physics, chemistry and biology meet. Chem Rev 2006; 106: 1559-1588.
    • (2006) Chem Rev , vol.106 , pp. 1559-1588
    • Shakhnovich, E.1
  • 3
    • 0031815749 scopus 로고    scopus 로고
    • How do small single-domain proteins fold? Proteins: Structures and molecular properties
    • Jackson SE. How do small single-domain proteins fold? Proteins: structures and molecular properties. Fold Des 1998; 3: R81-R91.
    • (1998) Fold des , vol.3
    • Jackson, S.E.1
  • 6
    • 23944522022 scopus 로고    scopus 로고
    • Downhill protein folding: Evolution meets physics
    • DOI 10.1016/j.crvi.2005.02.007, PII S1631069105000326
    • Gruebele M. Downhill protein folding: evolution meets physics. CR Biol 2005; 328: 701-712. (Pubitemid 41200378)
    • (2005) Comptes Rendus - Biologies , vol.328 , Issue.8 , pp. 701-712
    • Gruebele, M.1
  • 8
    • 0035793715 scopus 로고    scopus 로고
    • Native hydrogen bonds in a molten globule: The apoflavodoxin thermal intermediate
    • DOI 10.1006/jmbi.2001.4436
    • Irún MP, Garcia-Mira MM, Sanchez-Ruiz JM, Sancho J. Native hydrogen bonds in a molten globule: the apoflavodoxin thermal intermediate. J MoI Biol 2001; 306: 877-888. (Pubitemid 33027707)
    • (2001) Journal of Molecular Biology , vol.306 , Issue.4 , pp. 877-888
    • Irun, M.P.1    Garcia-Mira, M.M.2    Sanchez-Ruiz, J.M.3    Sancho, J.4
  • 9
    • 0347357617 scopus 로고    scopus 로고
    • Protein folding and misfolding
    • Dobson CM. Protein folding and misfolding. Nature 2003; 426: 884-890.
    • (2003) Nature , vol.426 , pp. 884-890
    • Dobson, C.M.1
  • 10
    • 33747759335 scopus 로고    scopus 로고
    • The native-state ensemble of proteins provides clues for folding, misfolding and function
    • DOI 10.1016/j.tibs.2006.07.001, PII S0968000406001733
    • Cremades N, Sancho J, Freire E. The native-state ensemble of proteins provides clues for folding, misfolding and function. Trends Biochem Sei 2006; 31: 494-496. (Pubitemid 44279979)
    • (2006) Trends in Biochemical Sciences , vol.31 , Issue.9 , pp. 494-496
    • Cremades, N.1    Sancho, J.2    Freire, E.3
  • 11
    • 33646052947 scopus 로고    scopus 로고
    • Flavodoxins: Sequence, folding, binding, function and beyond
    • Sancho J. Flavodoxins: sequence, folding, binding, function and beyond. Cell. Mol Life Sei 2006; 63: 855-864.
    • (2006) Cell. Mol Life Sei , vol.63 , pp. 855-864
    • Sancho, J.1
  • 12
    • 0029989460 scopus 로고    scopus 로고
    • Closure of a tyrosine/tryptophan aromatic gate leads to a compact fold in apo flavodoxin
    • DOI 10.1038/nsb0496-329
    • Genzor CG, Perales-Alcón A, Sancho J, Romero A. Closure of a tyrosine/tryptophan aromatic gate leads to a compact fold in apo flavodoxin. Nat Struct Biol 1996; 3: 329-332. (Pubitemid 26112630)
    • (1996) Nature Structural Biology , vol.3 , Issue.4 , pp. 329-332
    • Genzor, C.G.1    Perales-Alcon, A.2    Sancho, J.3    Romero, A.4
  • 13
    • 0035909813 scopus 로고    scopus 로고
    • Apoflavodoxin folding mechanism: An α/β protein with an essentially off-pathway intermediate
    • DOI 10.1021/bi010216t
    • Fernández-Recio J, Genzor CG, Sancho J. Apoflavodoxin folding mechanism: an alpha/beta protein with an essentially off-pathway intermediate. Biochemistry 2001; 40: 15264-115245 (Pubitemid 33151938)
    • (2001) Biochemistry , vol.40 , Issue.50 , pp. 15234-15245
    • Fernandez-Recio, J.1    Genzor, C.G.2    Sancho, J.3
  • 14
    • 7044231161 scopus 로고    scopus 로고
    • Structure of stable protein folding intermediates by equilibrium φ-analysis: The apoflavodoxin thermal intermediate
    • DOI 10.1016/j.jmb.2004.08.081, PII S0022283604010812
    • Campos LA, Bueno M, Lopez-Llano J, Jimenez MA, Sancho J. Structure of stable protein folding intermediates by equilibrium φ analysis: the apoflavodoxin thermal intermediate. J MoI Biol 2004; 344: 39-255. (Pubitemid 39422385)
    • (2004) Journal of Molecular Biology , vol.344 , Issue.1 , pp. 239-255
    • Campos, L.A.1    Bueno, M.2    Lopez-Llano, J.3    Jimenez, M.A.4    Sancho, J.5
  • 15
    • 7044224471 scopus 로고    scopus 로고
    • Do proteins always benefit from a stability increase? Relevant and residual stabilisation in a three-state protein by charge optimisation
    • DOI 10.1016/j.jmb.2004.09.047, PII S0022283604012033
    • Campos LA, Garcia-Mira MM., Godoy-Ruiz R, Sanchez-Ruiz JM, Sancho J. Do proteins always benefit from a stability increase? Relevant and residual stabilisation in a three-state protein by charge optimisation. J MoI Biol. 2004; 44: 223-237. (Pubitemid 39422384)
    • (2004) Journal of Molecular Biology , vol.344 , Issue.1 , pp. 223-237
    • Campos, L.A.1    Garcia-Mira, M.M.2    Godoy-Ruiz, R.3    Sanchez-Ruiz, J.M.4    Sancho, J.5
  • 16
    • 0032566696 scopus 로고    scopus 로고
    • Structural characterization of apoflavodoxin shows that the location of the stable nucleus diffères among proteins with a flavodoxin-like topology
    • Steensma E, van Mierio CPM. Structural characterization of apoflavodoxin shows that the location of the stable nucleus diffères among proteins with a flavodoxin-like topology. J MoI Biol 1998; 282: 653-666.
    • (1998) J MoI Biol , vol.282 , pp. 653-666
    • Steensma, E.1    Van Mierio, C.P.M.2
  • 17
    • 4043074820 scopus 로고    scopus 로고
    • Formation of on- And off-pathway intermediates in the folding kinetics of Azotobacter vinelandii apoflavodoxin
    • Bollen YJM, Sánchez IE, van Mierio CPM.. Formation of on- and off-pathway intermediates in the folding kinetics of Azotobacter vinelandii apoflavodoxin. Biochemistry 2004; 43: 10475-10489.
    • (2004) Biochemistry , vol.43 , pp. 10475-10489
    • Bollen, Y.J.M.1    Sánchez, I.E.2    Van Mierio, C.P.M.3
  • 18
    • 4944267705 scopus 로고    scopus 로고
    • Thermal unfolding of apo and holo desulfovibrio desulfuricans flavodoxin: Cofactor stabilizes folded and intermediate states
    • Muralidhara BK, Wittung-Stafshede P, Thermal unfolding of apo and holo Desulfovibrio desulfuricans flavodoxin: cofactor stabilizes folded and intermediate states. Biochemistry 2004; 43: 12855-12864.
    • (2004) Biochemistry , vol.43 , pp. 12855-12864
    • Muralidhara, B.K.1    Wittung-Stafshede, P.2
  • 20
    • 50349095200 scopus 로고    scopus 로고
    • Molten globule and native state ensemble of Helicobacter pylori flavodoxin. Can crowding, osmolytes or cofactors stabilize the native conformation relative to the molten globule?
    • Cremades N, Sancho J. Molten globule and native state ensemble of Helicobacter pylori flavodoxin. Can crowding, osmolytes or cofactors stabilize the native conformation relative to the molten globule? Biophys J 2008; 95: 1913-1927.
    • (2008) Biophys J , vol.95 , pp. 1913-1927
    • Cremades, N.1    Sancho, J.2
  • 22
    • 17144415198 scopus 로고    scopus 로고
    • Protein topology affects the appearance of intermediates during the folding of proteins with flavodoxin-like fold
    • Bollen YJM., van Miedo CPM. Protein topology affects the appearance of intermediates during the folding of proteins with flavodoxin-like fold. Biophys Chem 2005; 114: 181-189.
    • (2005) Biophys Chem , vol.114 , pp. 181-189
    • Bollen, Y.J.M.1    Van Miedo, C.P.M.2
  • 23
    • 0023449962 scopus 로고
    • Spin glasses and the statistical mechanics of protein, folding
    • Bryngelsou JD, Wolynes PG. Spin glasses and the statistical mechanics of protein, folding. Proc Natl Acad Sei USA 1987; 84: 7524-7528.
    • (1987) Proc Natl Acad Sei USA , vol.84 , pp. 7524-7528
    • Bryngelsou, J.D.1    Wolynes, P.G.2
  • 25
    • 0000019986 scopus 로고
    • Protein folding as a stochastic process
    • Go N. Protein folding as a stochastic process. J Stat Phys 1983; 30: 413-423.
    • (1983) J Stat Phys , vol.30 , pp. 413-423
    • Go, N.1
  • 26
    • 0016696599 scopus 로고
    • Studies on protein folding, unfolding and fluctuations by computer simulation
    • Taketomi H, Ueda Y, Go N. Studies on protein folding, unfolding and fluctuations by computer simulation. Int J Pept Protein Res 1975; 7: 445-459.
    • (1975) Int J Pept Protein Res , vol.7 , pp. 445-459
    • Taketomi, H.1    Ueda, Y.2    Go, N.3
  • 27
    • 0000355428 scopus 로고
    • Respective roles of short- And long-range interactions in protein folding
    • Go N, Taketomi H. Respective roles of short- and long-range interactions in protein folding. Proc Nad Acad Sei USA 1978; 75: 559-563.
    • (1978) Proc Nad Acad Sei USA , vol.75 , pp. 559-563
    • Go, N.1    Taketomi, H.2
  • 29
    • 0031560379 scopus 로고    scopus 로고
    • Microscopic theory of critical folding nuclei and reconfiguration activation barriers in folding proteins
    • Takada S, Wolynes PG. Microscopic theory of critical folding nuclei and reconfiguration activation barriers in folding proteins. J Chem Phys 1997; 107: 9585-9598.
    • (1997) J Chem Phys , vol.107 , pp. 9585-9598
    • Takada, S.1    Wolynes, P.G.2
  • 30
    • 0032539684 scopus 로고    scopus 로고
    • Is the molten globule a third phase of proteins?
    • Pande VS, Rokhsar DS. Is the molten globule a third phase of proteins? Proc Natl Acad Sd USA 1998; 95: 1490-1494.
    • (1998) Proc Natl Acad Sd USA , vol.95 , pp. 1490-1494
    • Pande, V.S.1    Rokhsar, D.S.2
  • 31
    • 0034685604 scopus 로고    scopus 로고
    • Topological and energetic factors: What, determines the structural details of the transition state ensemble and en-route intermediates for protein folding? An investigation for small globular proteins
    • Clementi C, Nymeyer H, Onuchic JN. Topological and energetic factors: what, determines the structural details of the transition state ensemble and en-route intermediates for protein folding? An investigation for small globular proteins. J MoI Biol 2000; 298: 937-953.
    • (2000) J MoI Biol , vol.298 , pp. 937-953
    • Clementi, C.1    Nymeyer, H.2    Onuchic, J.N.3
  • 32
    • 0034705115 scopus 로고    scopus 로고
    • How native state topology affects the folding of dihydrofolate reductase and. interleukiu-lß
    • dementi C, Jennings PA, Onuchic JN. How native state topology affects the folding of dihydrofolate reductase and. interleukiu-lß. Proc Natl Acad Sei USA 2000; 97: 5871-5876.
    • (2000) Proc Natl Acad Sei USA , vol.97 , pp. 5871-5876
    • Dementi, C.1    Jennings, P.A.2    Onuchic, J.N.3
  • 33
    • 0034319711 scopus 로고    scopus 로고
    • Sequencing of folding events in Gõ-type proteins
    • Hoang TX, Cieplak M. Sequencing of folding events in Gõ-type proteins. J Chem Phys 2000; 113: 8319-8328.
    • (2000) J Chem Phys , vol.113 , pp. 8319-8328
    • Hoang, T.X.1    Cieplak, M.2
  • 34
    • 0035917318 scopus 로고    scopus 로고
    • The folding thermodynamics and kinetics of crambin using an all-atom Monte Carlo simulation
    • Shimada J, Russell EL, Shakhnovich EI. The folding thermodynamics and kinetics of crambin using an all-atom Monte Carlo simulation. J Mol Biol. 2001; 308: 79-95.
    • (2001) J Mol Biol. , vol.308 , pp. 79-95
    • Shimada, J.1    Russell, E.L.2    Shakhnovich, E.I.3
  • 35
    • 0035197324 scopus 로고    scopus 로고
    • Analysis of multiple folding routes of proteins by a coarse-grained dynamics model
    • Erman B. Analysis of multiple folding routes of proteins by a coarse-grained dynamics model. Biophys J 2001; 81: 3534-3544.
    • (2001) Biophys J , vol.81 , pp. 3534-3544
    • Erman, B.1
  • 36
    • 0037113227 scopus 로고    scopus 로고
    • The role of sidechain packing and native contact interactions in folding: Discontinuous molecular dynamics folding simulations of an all-atom go model of fragment B of Staphylococcal protein A
    • Linhananta A, Zhou Y. The role of sidechain packing and native contact interactions in folding: discontinuous molecular dynamics folding simulations of an all-atom Go model of fragment B of Staphylococcal protein A. J Chem Phys 2002; 117: 8983-8995.
    • (2002) J Chem Phys , vol.117 , pp. 8983-8995
    • Linhananta, A.1    Zhou, Y.2
  • 37
    • 0037425974 scopus 로고    scopus 로고
    • Folding transition of model protein, chains characterized by partition function, zeros
    • Wang J, Wang W. Folding transition of model protein, chains characterized by partition function, zeros. J Chem Phys 2003; 118: 2952-2963.
    • (2003) J Chem Phys , vol.118 , pp. 2952-2963
    • Wang, J.1    Wang, W.2
  • 38
    • 0037459022 scopus 로고    scopus 로고
    • Interplay among tertiary contacts, secondary structure formation and side-chain packing in the protein folding mechanism: All-atom representation study of protein L
    • dementi C, Garcia AE, Onuchic JN. 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 2003; 326: 933-954.
    • (2003) J Mol Biol , vol.326 , pp. 933-954
    • Dementi, C.1    Garcia, A.E.2    Onuchic, J.N.3
  • 39
    • 3042677501 scopus 로고    scopus 로고
    • The effects of nonnative interactions on protein folding rates: Theory and simulation
    • dementi C, Plotkin SS. The effects of nonnative interactions on protein folding rates: theory and simulation. Protein Sei 2004; 13: 1750-1766.
    • (2004) Protein Sei , vol.13 , pp. 1750-1766
    • Dementi, C.1    Plotkin, S.S.2
  • 40
    • 33645019703 scopus 로고    scopus 로고
    • Folding with downhill behavior and low cooperativity of proteins
    • Zuo G, Wang J, Wang W. Folding with downhill behavior and low cooperativity of proteins. Proteins 2006; 63: 165-173.
    • (2006) Proteins , vol.63 , pp. 165-173
    • Zuo, G.1    Wang, J.2    Wang, W.3
  • 41
    • 34247890044 scopus 로고    scopus 로고
    • Influence of the chain stiffness on the thermodynamics of a Gõ-type model for protein folding
    • Prieto L, Rey A. Influence of the chain stiffness on the thermodynamics of a Gõ-type model for protein folding. J Chem Phys 2007; 126: 165103-1-8.
    • (2007) J Chem Phys , vol.126 , pp. 1651031-1651038
    • Prieto, L.1    Rey, A.2
  • 42
    • 36049028001 scopus 로고    scopus 로고
    • Influence of the native topology on the folding barrier for small proteins
    • Prieto L, Rey A. Influence of the native topology on the folding barrier for small proteins. J Chem Phys 2007;127:175101-1-11.
    • (2007) J Chem Phys , vol.127 , pp. 1751011-17510111
    • Prieto, L.1    Rey, A.2
  • 43
    • 55949109149 scopus 로고    scopus 로고
    • Selection of optimal variants of Gõ-like models of proteins through studies of stretching
    • Sulkowska JI, Cieplak M. Selection of optimal variants of Gõ-like models of proteins through studies of stretching. Biophys J 2008; 95: 3174-3191.
    • (2008) Biophys J , vol.95 , pp. 3174-3191
    • Sulkowska, J.I.1    Cieplak, M.2
  • 45
    • 13844299144 scopus 로고    scopus 로고
    • The family feud: Do proteins with similar structures fold via the same pathway?
    • Zarrin-Afsar A, Larson SM, Davidson AR. The family feud: do proteins with similar structures fold via the same pathway? Curr Opin Struct Biol 2005; 15: 42-49.
    • (2005) Curr Opin Struct Biol , vol.15 , pp. 42-49
    • Zarrin-Afsar, A.1    Larson, S.M.2    Davidson, A.R.3
  • 46
    • 34247861746 scopus 로고    scopus 로고
    • Thermodynamics of Gõ-type models for protein folding
    • Prieto L, de Sancho D, Rey A. Thermodynamics of Gõ-type models for protein folding. J Chem Phys 2005;123:1.54903-l-8.
    • (2005) J Chem Phys , vol.123 , pp. 1549031-1549038
    • Prieto, L.1    De Sancho, D.2    Rey, A.3
  • 47
    • 52649084160 scopus 로고    scopus 로고
    • Simulations of the protein folding process using topology-based models depend on the experimental structure
    • Prieto L, Rey A. Simulations of the protein folding process using topology-based models depend on the experimental structure. J Chem Phys 2008: 129: 115101-1-7.
    • (2008) J Chem Phys , vol.129 , pp. 1151011-1151017
    • Prieto, L.1    Rey, A.2
  • 48
    • 63449085891 scopus 로고    scopus 로고
    • Topology-based models and NMR structures in protein folding simulations
    • Rey-Stolie MF, Enciso M, Rey A. Topology-based models and NMR structures in protein folding simulations. J Comput Chem 2009;30:1212-1219.
    • (2009) J Comput Chem , vol.30 , pp. 1212-1219
    • Rey-Stolie, M.F.1    Enciso, M.2    Rey, A.3
  • 50
    • 0028268952 scopus 로고
    • Molecular dynamic simulations of oxidized and reduced Clostridium beijrinckii flavodoxin
    • Leenders R, van Gunsteren WF, Berendsen HJC, Visser AJWG. Molecular dynamic simulations of oxidized and reduced Clostridium beijrinckii flavodoxin. Biophys J 1994; 66: 634-645.
    • (1994) Biophys J , vol.66 , pp. 634-645
    • Leenders, R.1    Van Gunsteren, W.F.2    Berendsen, H.J.C.3    Ajwg, V.4
  • 51
    • 37649016316 scopus 로고    scopus 로고
    • Molecular crowding enhances native structure and stability of ct/ß protein flavodoxin
    • Stagg L, Zhang SQ, Cheung MS, Wittung-Stafshede P. Molecular crowding enhances native structure and stability of ct/ß protein flavodoxin. Proc Natl Acad Sei USA 2007; 104: 18976-18981.
    • (2007) Proc Natl Acad Sei USA , vol.104 , pp. 18976-18981
    • Stagg, L.1    Zhang, S.Q.2    Cheung, M.S.3    Wittung-Stafshede, P.4
  • 53
    • 0031578972 scopus 로고    scopus 로고
    • Parallel tempering algorithm for conformational studies of biological molecules
    • Hansmann UHE. Parallel tempering algorithm for conformational studies of biological molecules. Chem Phys Lett 1997; 281: 140-150.
    • (1997) Chem Phys Lett , vol.281 , pp. 140-150
    • Hansmann, U.H.E.1
  • 54
    • 0001616080 scopus 로고    scopus 로고
    • Replica-exchange molecular dynamics method for protein folding
    • Sugita Y, Okamoto Y. Replica-exchange molecular dynamics method for protein folding. Chem Phys Lett 1999; 314: 141-151.
    • (1999) Chem Phys Lett , vol.314 , pp. 141-151
    • Sugita, Y.1    Okamoto, Y.2
  • 55
    • 4243819810 scopus 로고
    • New Monte Carlo technique for studying phase transitions
    • Ferrenberg AM, Swendsen RH. New Monte Carlo technique for studying phase transitions. Phys Rev Lett 1988; 61: 2635-2638.
    • (1988) Phys Rev Lett , vol.61 , pp. 2635-2638
    • Ferrenberg, A.M.1    Swendsen, R.H.2
  • 56
    • 33646987405 scopus 로고
    • Optimized Monte Carlo data analysis
    • Ferrenberg AM, Swendsen RH. Optimized Monte Carlo data analysis. Phys Rev Lett 1989; 63: 1195-1198.
    • (1989) Phys Rev Lett , vol.63 , pp. 1195-1198
    • Ferrenberg, A.M.1    Swendsen, R.H.2
  • 57
    • 84986519238 scopus 로고
    • The weighted histogram analysis method for free-energy calculations on biomolecules I, the method
    • Kumar S, Rosenberg JM, Bouzida D, Swendsen RH, Kollman PA. The weighted histogram analysis method for free-energy calculations on biomolecules I, The method. J Comput Chem 1.992; 13: 1011-1021.
    • (1992) J Comput Chem , vol.13 , pp. 1011-1021
    • Kumar, S.1    Rosenberg, J.M.2    Bouzida, D.3    Swendsen, R.H.4    Kollman, P.A.5
  • 58
    • 33947398571 scopus 로고    scopus 로고
    • Use of the weighted histogram analysis method for the analysis of simulated and parallel tempering simulations
    • Chodera JD, Swope WC, Pitera JW, Seok C, Dill KA. Use of the weighted histogram analysis method for the analysis of simulated and parallel tempering simulations. J Chem Theory Comput 2007; 3: 26-41.
    • (2007) J Chem Theory Comput , vol.3 , pp. 26-41
    • Chodera, J.D.1    Swope, W.C.2    Pitera, J.W.3    Seok, C.4    Dill, K.A.5
  • 59
    • 0026511656 scopus 로고
    • The folding of an enzime. I. Theory of protein engineering analysis of stability and pathway of protein folding
    • Fersht AR, Matouschek A, Serrano L. The folding of an enzime. I. Theory of protein engineering analysis of stability and pathway of protein folding. J Mol Biol 1992; 224: 771-782.
    • (1992) J Mol Biol , vol.224 , pp. 771-782
    • Fersht, A.R.1    Matouschek, A.2    Serrano, L.3
  • 60
    • 0035252350 scopus 로고    scopus 로고
    • Three key residues form a critical contact network in a protein folding transition state
    • Vendruscolo M, Paci E, Dobson CM, Karplus M. Three key residues form a critical contact network in a protein folding transition state. Nature 2001; 409: 641-645.
    • (2001) Nature , vol.409 , pp. 641-645
    • Vendruscolo, M.1    Paci, E.2    Dobson, C.M.3    Karplus, M.4
  • 61
    • 0842332830 scopus 로고    scopus 로고
    • Commitment and nucleation in the protein G transition state
    • Hubner IA, Shimada J, Shakhnovich EI. Commitment and nucleation in the protein G transition state. J MoI Biol 2004; 336: 745-761.
    • (2004) J MoI Biol , vol.336 , pp. 745-761
    • Hubner, I.A.1    Shimada, J.2    Shakhnovich, E.I.3
  • 62
    • 34547726188 scopus 로고    scopus 로고
    • Transition states for protein folding using molecular dynamics and experimental restraints
    • Allen LR, Paci E. Transition states for protein folding using molecular dynamics and experimental restraints. J Phys Condens Matter 2007; 19: 285211-1-15.
    • (2007) J Phys Condens Matter , vol.19 , pp. 2852111-28521115
    • Allen, L.R.1    Paci, E.2
  • 63
    • 0037459035 scopus 로고    scopus 로고
    • Solvation effects and driving forces for protein thermodynamic and kinetic cooperativity: How adequate is nativecentric topological modeling?
    • Kaya H, Chan HS. Solvation effects and driving forces for protein thermodynamic and kinetic cooperativity: how adequate is nativecentric topological modeling? J MoI Biol 2003; 326: 911-931.
    • (2003) J MoI Biol , vol.326 , pp. 911-931
    • Kaya, H.1    Chan, H.S.2
  • 64
    • 27744500841 scopus 로고    scopus 로고
    • Solvation and. desolvation effects in protein folding: Native flexibility, kinetic cooperativity and enthalpic barriers under isostability conditions
    • Liu Z, Chan HS. Solvation and. desolvation effects in protein folding: native flexibility, kinetic cooperativity and enthalpic barriers under isostability conditions. Phys Biol 2005; 2 : S75-S85.
    • (2005) Phys Biol , vol.2
    • Liu, Z.1    Chan, H.S.2
  • 65
    • 33646155113 scopus 로고    scopus 로고
    • Structural transitions of confined model proteins: Molecular dynamics simulation and experimental validation
    • Lu D, Liu Z, Wu J. Structural transitions of confined model proteins: molecular dynamics simulation and experimental validation. Biophys J 2006; 90: 3224-3238.
    • (2006) Biophys J , vol.90 , pp. 3224-3238
    • Lu, D.1    Liu, Z.2    Wu, J.3
  • 66
    • 34547617731 scopus 로고    scopus 로고
    • Characterization of protein-folding pathways by reduced-space modeling
    • Kmiecik S, Kolinski A. Characterization of protein-folding pathways by reduced-space modeling. Proc Natl Acad Sci USA 2007; 104: 12330-12335.
    • (2007) Proc Natl Acad Sci USA , vol.104 , pp. 12330-12335
    • Kmiecik, S.1    Kolinski, A.2
  • 67
    • 23244433815 scopus 로고    scopus 로고
    • Equilibrium and kinetic folding pathways of a TIM barrel with a funneled energy landscape
    • Finke JM, Onuchic JN. Equilibrium and kinetic folding pathways of a TIM barrel with a funneled energy landscape. Biophys J 2005; 89: 488-505.
    • (2005) Biophys J , vol.89 , pp. 488-505
    • Finke, J.M.1    Onuchic, J.N.2
  • 68
    • 34848856649 scopus 로고    scopus 로고
    • Folding and unfolding of 7TIM monomers and dimers
    • Patel B, Finke JM. Folding and unfolding of 7TIM monomers and dimers. Biophys J 2007; 93: 2457-2471.
    • (2007) Biophys J , vol.93 , pp. 2457-2471
    • Patel, B.1    Finke, J.M.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.