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Volumn 18, Issue 3, 2009, Pages 526-536

The osmolyte trimethylamine-N-oxide stabilizes the Fyn SH3 domain without altering the structure of its folding transition state

Author keywords

value analysis; Folding kinetics; Folding transition state; Osmolyte induced stability; Osmolytes; Protein stability; SH3 domains; Trimethylamine N oxide

Indexed keywords

MUTANT PROTEIN; PROTEIN KINASE FYN; TRIMETHYLAMINE OXIDE;

EID: 61449176137     PISSN: 09618368     EISSN: 1469896X     Source Type: Journal    
DOI: 10.1002/pro.52     Document Type: Article
Times cited : (21)

References (56)
  • 1
    • 0018641198 scopus 로고
    • Counteraction of urea destabilisation of protein structure by methylamine osmoregulatory compounds of elasmobranch fishes
    • Yancey PH, Somero GN (1979) Counteraction of urea destabilisation of protein structure by methylamine osmoregulatory compounds of elasmobranch fishes. Biochem J 183:317-323.
    • (1979) Biochem J , vol.183 , pp. 317-323
    • Yancey, P.H.1    Somero, G.N.2
  • 3
    • 0020345687 scopus 로고
    • Mechanism of stabilization of proteins by glycerol and sucrose
    • Arakawa T, Timasheff SN (1982) Mechanism of stabilization of proteins by glycerol and sucrose. Seikagaku 54: 1255-1259.
    • (1982) Seikagaku , vol.54 , pp. 1255-1259
    • Arakawa, T.1    Timasheff, S.N.2
  • 4
    • 0020790862 scopus 로고
    • Preferential interactions of proteins with solvent components in aqueous amino acid solutions
    • Arakawa T, Timasheff SN (1983) Preferential interactions of proteins with solvent components in aqueous amino acid solutions. Arch Biochem Biophys 224:169-177.
    • (1983) Arch Biochem Biophys , vol.224 , pp. 169-177
    • Arakawa, T.1    Timasheff, S.N.2
  • 5
    • 0021354397 scopus 로고
    • The mechanism of action of Na glutamate, lysine HCl, and piperazine-N,N′-bis(2-ethanesulfonic acid) in the stabilization of tubulin and microtubule formation
    • Arakawa T, Timasheff SN (1984) The mechanism of action of Na glutamate, lysine HCl, and piperazine-N,N′-bis(2-ethanesulfonic acid) in the stabilization of tubulin and microtubule formation. J Biol Chem 259:4979-4986.
    • (1984) J Biol Chem , vol.259 , pp. 4979-4986
    • Arakawa, T.1    Timasheff, S.N.2
  • 6
    • 0022381773 scopus 로고
    • Mechanism of poly(ethylene glycol) interaction with proteins
    • Arakawa T, Timasheff SN (1985) Mechanism of poly(ethylene glycol) interaction with proteins. Biochemistry 24: 6756-6762.
    • (1985) Biochemistry , vol.24 , pp. 6756-6762
    • Arakawa, T.1    Timasheff, S.N.2
  • 7
    • 0022032982 scopus 로고
    • The stabilization of proteins by osmolytes
    • Arakawa T, Timasheff SN (1985) The stabilization of proteins by osmolytes. Biophys J 47:411-414.
    • (1985) Biophys J , vol.47 , pp. 411-414
    • Arakawa, T.1    Timasheff, S.N.2
  • 8
    • 0025189529 scopus 로고
    • Preferential interactions determine protein solubility in three-component solutions: The MgCl2 system
    • Arakawa T, Bhat R, Timasheff SN (1990) Preferential interactions determine protein solubility in three-component solutions: the MgCl2 system.. Biochemistry 29: 1914-1923.
    • (1990) Biochemistry , vol.29 , pp. 1914-1923
    • Arakawa, T.1    Bhat, R.2    Timasheff, S.N.3
  • 9
    • 0027310845 scopus 로고
    • The control of protein stability and association by weak interactions with water: How do solvents affect these processes?
    • Timasheff SN (1993) The control of protein stability and association by weak interactions with water: how do solvents affect these processes? Annu Rev Biophys Biomol Struct 22:67-97.
    • (1993) Annu Rev Biophys Biomol Struct , vol.22 , pp. 67-97
    • Timasheff, S.N.1
  • 10
    • 0028150954 scopus 로고
    • Why do some organisms use a urea-methylamine mixture as osmolyte? Thermodynamic compensation of urea and trimethylamine N-oxide interactions with protein
    • Lin TY, Timasheff SN (1994) Why do some organisms use a urea-methylamine mixture as osmolyte? Thermodynamic compensation of urea and trimethylamine N-oxide interactions with protein. Biochemistry 33:12695-12701.
    • (1994) Biochemistry , vol.33 , pp. 12695-12701
    • Lin, T.Y.1    Timasheff, S.N.2
  • 12
    • 0034745484 scopus 로고    scopus 로고
    • Second virial coefficients as a measure of protein-osmolyte interactions
    • Weatherly GT, Pielak GJ (2001) Second virial coefficients as a measure of protein-osmolyte interactions. Protein Sci 10:12-16.
    • (2001) Protein Sci , vol.10 , pp. 12-16
    • Weatherly, G.T.1    Pielak, G.J.2
  • 13
    • 0038311869 scopus 로고    scopus 로고
    • Protein stability in mixed solvents: A balance of contact interaction and excluded volume
    • Schellman JA (2003) Protein stability in mixed solvents: a balance of contact interaction and excluded volume. Biophys J 85:108-125.
    • (2003) Biophys J , vol.85 , pp. 108-125
    • Schellman, J.A.1
  • 14
    • 0028862864 scopus 로고
    • The peptide backbone plays a dominant role in protein stabilization by naturally occurring osmolytes
    • Liu Y, Bolen DW (1995) The peptide backbone plays a dominant role in protein stabilization by naturally occurring osmolytes. Biochemistry 34:12884-12891.
    • (1995) Biochemistry , vol.34 , pp. 12884-12891
    • Liu, Y.1    Bolen, D.W.2
  • 15
    • 0030762556 scopus 로고    scopus 로고
    • A naturally occurring protective system in urea-rich cells: Mechanism of osmolyte protection of proteins against urea denaturation
    • Wang A, Bolen DW (1997) A naturally occurring protective system in urea-rich cells: mechanism of osmolyte protection of proteins against urea denaturation. Biochemistry 36:9101-9108.
    • (1997) Biochemistry , vol.36 , pp. 9101-9108
    • Wang, A.1    Bolen, D.W.2
  • 16
    • 0032483027 scopus 로고    scopus 로고
    • Osmolyte-driven contraction of a random coil protein
    • Qu Y, Bolen CL, Bolen DW (1998) Osmolyte-driven contraction of a random coil protein. Proc Natl Acad Sci USA 95:9268-9273.
    • (1998) Proc Natl Acad Sci USA , vol.95 , pp. 9268-9273
    • Qu, Y.1    Bolen, C.L.2    Bolen, D.W.3
  • 17
    • 0035958656 scopus 로고    scopus 로고
    • The osmophobic effect: Natural selection of a thermodynamic force in protein folding
    • Bolen DW, Baskakov IV (2001) The osmophobic effect: natural selection of a thermodynamic force in protein folding. J Mol Biol 310:955-963.
    • (2001) J Mol Biol , vol.310 , pp. 955-963
    • Bolen, D.W.1    Baskakov, I.V.2
  • 18
    • 0041743073 scopus 로고    scopus 로고
    • Osmolyte effects on kinetics of FKBP12 C22A folding coupled with prolyl isomerization
    • Russo AT, Rosgen J, Bolen DW (2003) Osmolyte effects on kinetics of FKBP12 C22A folding coupled with prolyl isomerization. J Mol Biol 330:851-866.
    • (2003) J Mol Biol , vol.330 , pp. 851-866
    • Russo, A.T.1    Rosgen, J.2    Bolen, D.W.3
  • 19
    • 40549104479 scopus 로고    scopus 로고
    • Osmolyte effect on the stability and folding of a hyperthermophilic protein
    • Mukaiyama A, Koga Y, Takano K, Kanaya S (2008) Osmolyte effect on the stability and folding of a hyperthermophilic protein. Proteins 71:110-118.
    • (2008) Proteins , vol.71 , pp. 110-118
    • Mukaiyama, A.1    Koga, Y.2    Takano, K.3    Kanaya, S.4
  • 20
    • 4644261149 scopus 로고    scopus 로고
    • Osmolytes induce structure in an early intermediate on the folding pathway of barstar
    • Pradeep L, Udgaonkar JB (2004) Osmolytes induce structure in an early intermediate on the folding pathway of barstar. J Biol Chem 279:40303-40313.
    • (2004) J Biol Chem , vol.279 , pp. 40303-40313
    • Pradeep, L.1    Udgaonkar, J.B.2
  • 21
    • 0024358426 scopus 로고
    • Mapping the transition state and pathway of protein folding by protein engineering
    • Matouschek A, Kellis JT, Jr, Serrano L, Fersht AR (1989) Mapping the transition state and pathway of protein folding by protein engineering. Nature 340:122-126.
    • (1989) Nature , vol.340 , pp. 122-126
    • Matouschek, A.1    Kellis Jr, J.T.2    Serrano, L.3    Fersht, A.R.4
  • 22
    • 0032542018 scopus 로고    scopus 로고
    • Mutagenesis of a buried polar interaction in an SH3 domain: Sequence conservation provides the best prediction of stability effects
    • Maxwell KL, Davidson AR (1998) Mutagenesis of a buried polar interaction in an SH3 domain: sequence conservation provides the best prediction of stability effects. Biochemistry 37:16172-16182.
    • (1998) Biochemistry , vol.37 , pp. 16172-16182
    • Maxwell, K.L.1    Davidson, A.R.2
  • 24
    • 0036172116 scopus 로고    scopus 로고
    • Hydrophobic core packing in the SH3 domain folding transition state
    • Northey JG, Di Nardo AA, Davidson AR (2002) Hydrophobic core packing in the SH3 domain folding transition state. Nat Struct Biol 9:126-130.
    • (2002) Nat Struct Biol , vol.9 , pp. 126-130
    • Northey, J.G.1    Di Nardo, A.A.2    Davidson, A.R.3
  • 25
    • 0036296248 scopus 로고    scopus 로고
    • Protein folding kinetics beyond the phi value: Using multiple amino acid substitutions to investigate the structure of the SH3 domain folding transition state
    • Northey JG, Maxwell KL, Davidson AR (2002) Protein folding kinetics beyond the phi value: using multiple amino acid substitutions to investigate the structure of the SH3 domain folding transition state. J Mol Biol 320: 389-402.
    • (2002) J Mol Biol , vol.320 , pp. 389-402
    • Northey, J.G.1    Maxwell, K.L.2    Davidson, A.R.3
  • 27
    • 34748838920 scopus 로고    scopus 로고
    • Protein folding kinetics provides a context-independent assessment of beta-strand propensity in the Fyn SH3 domain
    • Zarrine-Afsar A, Dahesh S, Davidson AR (2007) Protein folding kinetics provides a context-independent assessment of beta-strand propensity in the Fyn SH3 domain. J Mol Biol 373:764-774.
    • (2007) J Mol Biol , vol.373 , pp. 764-774
    • Zarrine-Afsar, A.1    Dahesh, S.2    Davidson, A.R.3
  • 28
    • 13844299144 scopus 로고    scopus 로고
    • The family feud: Do proteins with similar structures fold via the same pathway?
    • Zarrine-Afsar A, Larson SM, Davidson AR (2005) The family feud: do proteins with similar structures fold via the same pathway? Curr Opin Struct Biol 15:42-49.
    • (2005) Curr Opin Struct Biol , vol.15 , pp. 42-49
    • Zarrine-Afsar, A.1    Larson, S.M.2    Davidson, A.R.3
  • 29
    • 0031444104 scopus 로고    scopus 로고
    • Folding dynamics of the src SH3 domain
    • Grantcharova VP, Baker D (1997) Folding dynamics of the src SH3 domain. Biochemistry 36:15685-15692.
    • (1997) Biochemistry , vol.36 , pp. 15685-15692
    • Grantcharova, V.P.1    Baker, D.2
  • 30
    • 0032750509 scopus 로고    scopus 로고
    • The folding transition state between SH3 domains is conformationally restricted and evolutionarily conserved
    • Martinez JC, Serrano L (1999) The folding transition state between SH3 domains is conformationally restricted and evolutionarily conserved. Nat Struct Biol 6: 1010-1016.
    • (1999) Nat Struct Biol , vol.6 , pp. 1010-1016
    • Martinez, J.C.1    Serrano, L.2
  • 33
    • 0141750578 scopus 로고    scopus 로고
    • The relationship between conservation, thermodynamic stability, and function in the SH3 domain hydrophobic core
    • Di Nardo AA, Larson SM, Davidson AR (2003) The relationship between conservation, thermodynamic stability, and function in the SH3 domain hydrophobic core. J Mol Biol 333:641-655-
    • (2003) J Mol Biol , vol.333 , pp. 641-655
    • Di Nardo, A.A.1    Larson, S.M.2    Davidson, A.R.3
  • 35
    • 0035970299 scopus 로고    scopus 로고
    • Dramatic stabilization of an SH3 domain by a single substitution: Roles of the folded and unfolded states
    • Mok YK, Elisseeva EL, Davidson AR, Forman-Kay JD (2001) Dramatic stabilization of an SH3 domain by a single substitution: roles of the folded and unfolded states. J Mol Biol 307:913-928.
    • (2001) J Mol Biol , vol.307 , pp. 913-928
    • Mok, Y.K.1    Elisseeva, E.L.2    Davidson, A.R.3    Forman-Kay, J.D.4
  • 36
    • 0031815749 scopus 로고    scopus 로고
    • How do small single-domain proteins fold?
    • Jackson SE (1998) How do small single-domain proteins fold? Fold Des 3:R81-R91.
    • (1998) Fold Des , vol.3
    • Jackson, S.E.1
  • 37
    • 0027171034 scopus 로고
    • Application of physical organic chemistry to engineered mutants of proteins: Hammond postulate behavior in the transition state of protein folding
    • Matouschek A, Fersht AR (1993) Application of physical organic chemistry to engineered mutants of proteins: Hammond postulate behavior in the transition state of protein folding. Proc Natl Acad Sci USA 90: 7814-7818.
    • (1993) Proc Natl Acad Sci USA , vol.90 , pp. 7814-7818
    • Matouschek, A.1    Fersht, A.R.2
  • 38
    • 0037418635 scopus 로고    scopus 로고
    • Hammond behavior versus ground state effects in protein folding: Evidence for narrow free energy barriers and residual structure in unfolded states
    • Sanchez IE, Kiefhaber T (2003) Hammond behavior versus ground state effects in protein folding: evidence for narrow free energy barriers and residual structure in unfolded states. J Mol Biol 327:867-884.
    • (2003) J Mol Biol , vol.327 , pp. 867-884
    • Sanchez, I.E.1    Kiefhaber, T.2
  • 39
    • 0026354152 scopus 로고
    • Protein engineering in analysis of protein folding pathways and stability
    • Matouschek A, Fersht AR (1991) Protein engineering in analysis of protein folding pathways and stability. Methods Enzymol 202:82-112.
    • (1991) Methods Enzymol , vol.202 , pp. 82-112
    • Matouschek, A.1    Fersht, A.R.2
  • 40
    • 0037633978 scopus 로고    scopus 로고
    • Measuring the stability of partly folded proteins using TMAO
    • Mello CC, Barrick D (2003) Measuring the stability of partly folded proteins using TMAO. Protein Sci 12:1522-1529.
    • (2003) Protein Sci , vol.12 , pp. 1522-1529
    • Mello, C.C.1    Barrick, D.2
  • 41
    • 0032514771 scopus 로고    scopus 로고
    • Trifluoroethanol promotes helix formation by destabilizing backbone exposure: Desolvation rather than native hydrogen bonding defines the kinetic pathway of dimeric coiled coil folding
    • Kentsis A, Sosnick TR (1998) Trifluoroethanol promotes helix formation by destabilizing backbone exposure: desolvation rather than native hydrogen bonding defines the kinetic pathway of dimeric coiled coil folding. Biochemistry 37:14613-14622.
    • (1998) Biochemistry , vol.37 , pp. 14613-14622
    • Kentsis, A.1    Sosnick, T.R.2
  • 42
    • 0039594455 scopus 로고    scopus 로고
    • Protein folding transition states: Elicitation of Hammond effects by 2,2,2-trifluoroethanol
    • Yiu CP, Mateu MG, Fersht AR (2000) Protein folding transition states: elicitation of Hammond effects by 2,2,2-trifluoroethanol. Chembiochem 1:49-55.
    • (2000) Chembiochem , vol.1 , pp. 49-55
    • Yiu, C.P.1    Mateu, M.G.2    Fersht, A.R.3
  • 43
    • 0032879754 scopus 로고    scopus 로고
    • Does trifluoroethanol affect folding pathways and can it be used as a probe of structure in transition states?
    • Main ER, Jackson SE (1999) Does trifluoroethanol affect folding pathways and can it be used as a probe of structure in transition states? Nat Struct Biol 6:831-835.
    • (1999) Nat Struct Biol , vol.6 , pp. 831-835
    • Main, E.R.1    Jackson, S.E.2
  • 44
    • 0033988167 scopus 로고    scopus 로고
    • Evidence concerning rate-limiting steps in protein folding from the effects of trifluoroethanol
    • Hamada D, Chiti F, Guijarro JI, Kataoka M, Taddei N, Dobson CM (2000) Evidence concerning rate-limiting steps in protein folding from the effects of trifluoroethanol. Nat Struct Biol 7:58-61.
    • (2000) Nat Struct Biol , vol.7 , pp. 58-61
    • Hamada, D.1    Chiti, F.2    Guijarro, J.I.3    Kataoka, M.4    Taddei, N.5    Dobson, C.M.6
  • 45
    • 0028820703 scopus 로고
    • Denaturant m values and heat capacity changes: Relation to changes in accessible surface areas of protein unfolding
    • Myers JK, Pace CN, Scholtz JM (1995) Denaturant m values and heat capacity changes: relation to changes in accessible surface areas of protein unfolding. Protein Sci 4: 2138-2148.
    • (1995) Protein Sci , vol.4 , pp. 2138-2148
    • Myers, J.K.1    Pace, C.N.2    Scholtz, J.M.3
  • 46
    • 23244459863 scopus 로고    scopus 로고
    • Osmolyte trimethylamine-N-oxide does not affect the strength of hydrophobic interactions: Origin of osmolyte compatibility
    • Athawale MV, Dordick JS, Garde S (2005) Osmolyte trimethylamine-N-oxide does not affect the strength of hydrophobic interactions: origin of osmolyte compatibility. Biophys J 89:858-866.
    • (2005) Biophys J , vol.89 , pp. 858-866
    • Athawale, M.V.1    Dordick, J.S.2    Garde, S.3
  • 47
    • 30544449467 scopus 로고    scopus 로고
    • Interactions of trimethylamine N-oxide and water with cyclo-alanylglycine
    • Hovagimyan KG, Gerig JT (2005) Interactions of trimethylamine N-oxide and water with cyclo-alanylglycine. J Phys Chem B 109:24142-24151.
    • (2005) J Phys Chem B , vol.109 , pp. 24142-24151
    • Hovagimyan, K.G.1    Gerig, J.T.2
  • 48
    • 33846521172 scopus 로고    scopus 로고
    • Mixed osmolytes: The degree to which one osmolyte affects the protein stabilizing ability of another
    • Holthauzen LM, Bolen DW (2007) Mixed osmolytes: the degree to which one osmolyte affects the protein stabilizing ability of another. Protein Sci 16:293-298.
    • (2007) Protein Sci , vol.16 , pp. 293-298
    • Holthauzen, L.M.1    Bolen, D.W.2
  • 49
    • 34547534081 scopus 로고    scopus 로고
    • The influence of urea and trimethylamine-N-oxide on hydrophobic interactions
    • Paul. S, Patey GN (2007) The influence of urea and trimethylamine-N-oxide on hydrophobic interactions. J Phys Chem B 111:7932-7933.
    • (2007) J Phys Chem B , vol.111 , pp. 7932-7933
    • Paul, S.1    Patey, G.N.2
  • 50
    • 0842304735 scopus 로고    scopus 로고
    • Additive transfer free energies of the peptide backbone unit that are independent of the model compound and the choice of concentration scale
    • Auton M, Bolen DW (2004) Additive transfer free energies of the peptide backbone unit that are independent of the model compound and the choice of concentration scale. Biochemistry 43:1329-1342.
    • (2004) Biochemistry , vol.43 , pp. 1329-1342
    • Auton, M.1    Bolen, D.W.2
  • 51
    • 27244437952 scopus 로고    scopus 로고
    • Predicting the energetics of osmolyte-induced protein folding/unfolding
    • Auton M, Bolen DW (2005) Predicting the energetics of osmolyte-induced protein folding/unfolding. Proc Natl Acad Sci USA 102:15065-15068.
    • (2005) Proc Natl Acad Sci USA , vol.102 , pp. 15065-15068
    • Auton, M.1    Bolen, D.W.2
  • 52
    • 33645296824 scopus 로고    scopus 로고
    • Osmolyte-induced protein folding free energy changes
    • Wu P, Bolen DW (2006) Osmolyte-induced protein folding free energy changes. Proteins 63:290-296.
    • (2006) Proteins , vol.63 , pp. 290-296
    • Wu, P.1    Bolen, D.W.2
  • 53
    • 15744404427 scopus 로고    scopus 로고
    • Counteracting osmolyte trimethylamine N-oxide destabilizes proteins at pH below its pKa. Measurements of thermodynamic parameters of proteins in the presence and absence of trimethylamine N-oxide
    • Singh R, Haque I, Ahmad F (2005) Counteracting osmolyte trimethylamine N-oxide destabilizes proteins at pH below its pKa. Measurements of thermodynamic parameters of proteins in the presence and absence of trimethylamine N-oxide. J Biol Chem 280:11035-11042.
    • (2005) J Biol Chem , vol.280 , pp. 11035-11042
    • Singh, R.1    Haque, I.2    Ahmad, F.3
  • 54
    • 0028871804 scopus 로고
    • How to measure and predict the molar absorption coefficient of a protein
    • Pace CN, Vajdos F, Fee L, Grimsley G, Gray T (1995) How to measure and predict the molar absorption coefficient of a protein. Protein Sci 4:2411-2423.
    • (1995) Protein Sci , vol.4 , pp. 2411-2423
    • Pace, C.N.1    Vajdos, F.2    Fee, L.3    Grimsley, G.4    Gray, T.5
  • 55
    • 3343013823 scopus 로고    scopus 로고
    • The analysis of protein folding kinetic data produced in protein engineering experiments
    • Zarrine-Afsar A, Davidson AR (2004) The analysis of protein folding kinetic data produced in protein engineering experiments. Methods 34:41-50.
    • (2004) Methods , vol.34 , pp. 41-50
    • Zarrine-Afsar, A.1    Davidson, A.R.2
  • 56
    • 0031808274 scopus 로고    scopus 로고
    • Baseline length and automated fitting of denaturation data
    • Allen DL, Pielak GJ (1998) Baseline length and automated fitting of denaturation data. Protein Sci 7: 1262-1263.
    • (1998) Protein Sci , vol.7 , pp. 1262-1263
    • Allen, D.L.1    Pielak, G.J.2


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