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Volumn 289, Issue 4, 1999, Pages 1041-1054

NMR hydrogen exchange of the OB-fold protein LysN as a function of denaturant: The most conserved elements of structure are the most stable to unfolding

Author keywords

Fold families; Lysyl tRNA synthetase; Protein folding; Structural similarity; Two state folding approximation

Indexed keywords

GUANIDINE; HYDROGEN; MUTANT PROTEIN; NUCLEIC ACID BINDING PROTEIN;

EID: 0032981587     PISSN: 00222836     EISSN: None     Source Type: Journal    
DOI: 10.1006/jmbi.1999.2813     Document Type: Article
Times cited : (27)

References (49)
  • 1
    • 0032058979 scopus 로고    scopus 로고
    • NMR assignments for acid-denatured cold shock protein A
    • Alexandrescu A. T., Rathgeb-Szabo K. NMR assignments for acid-denatured cold shock protein A. J. Biomol. NMR. 11:1998;461-462.
    • (1998) J. Biomol. NMR , vol.11 , pp. 461-462
    • Alexandrescu, A.T.1    Rathgeb-Szabo, K.2
  • 2
    • 0027988297 scopus 로고
    • Backbone dynamics of a highly disordered 131 residue fragment of staphylococcal nuclease
    • Alexandrescu A. T., Shortle D. Backbone dynamics of a highly disordered 131 residue fragment of staphylococcal nuclease. J. Mol. Biol. 242:1994;527-546.
    • (1994) J. Mol. Biol. , vol.242 , pp. 527-546
    • Alexandrescu, A.T.1    Shortle, D.2
  • 3
    • 0242304933 scopus 로고
    • Chemical exchange spectroscopy based on carbon-13 NMR. Applications to enzymology and protein folding
    • Alexandrescu A. T., Loh S. N., Markley J. L. Chemical exchange spectroscopy based on carbon-13 NMR. Applications to enzymology and protein folding. J. Magn. Reson. 87:1990;523-535.
    • (1990) J. Magn. Reson. , vol.87 , pp. 523-535
    • Alexandrescu, A.T.1    Loh, S.N.2    Markley, J.L.3
  • 4
    • 0028274250 scopus 로고
    • Structure and dynamics of a denatured 131-residue fragment of staphylococcal nuclease: A heteronuclear NMR study
    • Alexandrescu A. T., Abeygunawardana C., Shortle D. Structure and dynamics of a denatured 131-residue fragment of staphylococcal nuclease: A heteronuclear NMR study. Biochemistry. 33:1994;1063-1072.
    • (1994) Biochemistry , vol.33 , pp. 1063-1072
    • Alexandrescu, A.T.1    Abeygunawardana, C.2    Shortle, D.3
  • 5
    • 0029044324 scopus 로고
    • NMR structure of a stable "oB-fold" subdomain isolated from staphylococcal nuclease
    • Alexandrescu A. T., Gittis A. G., Abeygunawardana C., Shortle D. NMR structure of a stable "OB-fold" subdomain isolated from staphylococcal nuclease. J. Mol. Biol. 250:1995;134-143.
    • (1995) J. Mol. Biol. , vol.250 , pp. 134-143
    • Alexandrescu, A.T.1    Gittis, A.G.2    Abeygunawardana, C.3    Shortle, D.4
  • 7
    • 0015859467 scopus 로고
    • Principles that govern the folding of protein chains
    • Anfinsen C. B. Principles that govern the folding of protein chains. Science. 181:1973;223-230.
    • (1973) Science , vol.181 , pp. 223-230
    • Anfinsen, C.B.1
  • 10
    • 0029643523 scopus 로고
    • Protein folding intermediates: Native-state hydrogen exchange
    • Bai Y., Sosnick T. R., Mayne L., Englander S. W. Protein folding intermediates: native-state hydrogen exchange. Science. 269:1995;192-197.
    • (1995) Science , vol.269 , pp. 192-197
    • Bai, Y.1    Sosnick, T.R.2    Mayne, L.3    Englander, S.W.4
  • 11
    • 0030022713 scopus 로고    scopus 로고
    • Thermodynamics of denaturation of staphylococcal nuclease mutants: An intermediate state in protein folding
    • Carra J. H., Privalov P. L. Thermodynamics of denaturation of staphylococcal nuclease mutants: an intermediate state in protein folding. FASEB J. 10:1996;67-74.
    • (1996) FASEB J. , vol.10 , pp. 67-74
    • Carra, J.H.1    Privalov, P.L.2
  • 12
    • 0027953952 scopus 로고
    • Three-state thermodynamic analysis of the denaturation of staphylococcal nuclease mutants
    • Carra J. H., Anderson E. A., Privalov P. L. Three-state thermodynamic analysis of the denaturation of staphylococcal nuclease mutants. Biochemistry. 33:1994;10842-10850.
    • (1994) Biochemistry , vol.33 , pp. 10842-10850
    • Carra, J.H.1    Anderson, E.A.2    Privalov, P.L.3
  • 14
    • 0029746061 scopus 로고    scopus 로고
    • Detection of rare partially folded molecules in equilibrium with the native conformation of RNase H
    • Chamberlain A. K., Handel T. M., Marqusee S. Detection of rare partially folded molecules in equilibrium with the native conformation of RNase H. Nature Struct. Biol. 3:1996;782-787.
    • (1996) Nature Struct. Biol. , vol.3 , pp. 782-787
    • Chamberlain, A.K.1    Handel, T.M.2    Marqusee, S.3
  • 17
    • 0032561255 scopus 로고    scopus 로고
    • A structural tree for proteins containing S-like β-sheets
    • Efimov A. V. A structural tree for proteins containing S-like β-sheets. FEBS Letters. 437:1998;246-250.
    • (1998) FEBS Letters , vol.437 , pp. 246-250
    • Efimov, A.V.1
  • 19
    • 0032483047 scopus 로고    scopus 로고
    • Solution NMR structure and backbone dynamics of the major cold-shock protein (CspA) from Escherichia coli. Evidence for conformational dynamics in the single-stranded RNA-binding site
    • Feng W., Tejero R., Zimmerman D. E., Inouye M., Montelione G. T. Solution NMR structure and backbone dynamics of the major cold-shock protein (CspA) from Escherichia coli. Evidence for conformational dynamics in the single-stranded RNA-binding site. Biochemistry. 37:1998;10881-10896.
    • (1998) Biochemistry , vol.37 , pp. 10881-10896
    • Feng, W.1    Tejero, R.2    Zimmerman, D.E.3    Inouye, M.4    Montelione, G.T.5
  • 20
    • 0029157429 scopus 로고
    • Compact intermediate states in protein folding
    • Fink A. L. Compact intermediate states in protein folding. Annu. Rev. Biophys. Biomol. Struct. 24:1995;495-522.
    • (1995) Annu. Rev. Biophys. Biomol. Struct. , vol.24 , pp. 495-522
    • Fink, A.L.1
  • 21
    • 0026320866 scopus 로고
    • The energy landscapes and motions of proteins
    • Frauenfelder H., Sligar S. G., Wolynes P. G. The energy landscapes and motions of proteins. Science. 254:1991;1598-1603.
    • (1991) Science , vol.254 , pp. 1598-1603
    • Frauenfelder, H.1    Sligar, S.G.2    Wolynes, P.G.3
  • 22
    • 0030720480 scopus 로고    scopus 로고
    • A structural census of the current population of protein sequences
    • Gerstein M., Levitt M. A structural census of the current population of protein sequences. Proc. Natl Acad. Sci. USA. 94:1997;11911-11916.
    • (1997) Proc. Natl Acad. Sci. USA , vol.94 , pp. 11911-11916
    • Gerstein, M.1    Levitt, M.2
  • 23
    • 0026755510 scopus 로고
    • Contributions of the polar, uncharged, amino acids to the stability of staphylococcal nuclease: Evidence for mutational effects on the free energy of the denatured state
    • Green S. M., Meeker A. K., Shortle D. Contributions of the polar, uncharged, amino acids to the stability of staphylococcal nuclease: Evidence for mutational effects on the free energy of the denatured state. Biochemistry. 31:1992;5717-5728.
    • (1992) Biochemistry , vol.31 , pp. 5717-5728
    • Green, S.M.1    Meeker, A.K.2    Shortle, D.3
  • 24
    • 0025877987 scopus 로고
    • The crystal structure of staphylococcal nuclease refined at 1.7 Å resolution
    • Hynes T. R., Fox R. O. The crystal structure of staphylococcal nuclease refined at 1.7 Å resolution. Proteins: Struct. Funct. Genet. 10:1991;92-105.
    • (1991) Proteins: Struct. Funct. Genet. , vol.10 , pp. 92-105
    • Hynes, T.R.1    Fox, R.O.2
  • 25
    • 0031552590 scopus 로고    scopus 로고
    • Hydrogen exchange in chymotrypsin inhibitor 2 probed by denaturants and temperature
    • Itzhaki L. S., Neira J. L., Fersht A. R. Hydrogen exchange in chymotrypsin inhibitor 2 probed by denaturants and temperature. J. Mol. Biol. 270:1997;89-98.
    • (1997) J. Mol. Biol. , vol.270 , pp. 89-98
    • Itzhaki, L.S.1    Neira, J.L.2    Fersht, A.R.3
  • 26
    • 0028008617 scopus 로고
    • Staphylococcal nuclease folding intermediate characterized by hydrogen exchange and NMR spectroscopy
    • Jacobs M. D., Fox R. O. Staphylococcal nuclease folding intermediate characterized by hydrogen exchange and NMR spectroscopy. Proc. Natl Acad. Sci. USA. 91:1994;449-453.
    • (1994) Proc. Natl Acad. Sci. USA , vol.91 , pp. 449-453
    • Jacobs, M.D.1    Fox, R.O.2
  • 27
    • 0026009213 scopus 로고
    • Stable submolecular folding units in a non-compact form of cytochrome c
    • Jeng M-F., Englander S. W. Stable submolecular folding units in a non-compact form of cytochrome c. J. Mol. Biol. 221:1991;1045-1061.
    • (1991) J. Mol. Biol. , vol.221 , pp. 1045-1061
    • Jeng, M.-F.1    Englander, S.W.2
  • 28
    • 23444436172 scopus 로고
    • Protein design by binary patterning of polar and nonpolar amino acids
    • Kamtekar S., Schiffer J. M., Xiong H., Babik J. M., Hecht M. H. Protein design by binary patterning of polar and nonpolar amino acids. Science. 262:1993;1680-1685.
    • (1993) Science , vol.262 , pp. 1680-1685
    • Kamtekar, S.1    Schiffer, J.M.2    Xiong, H.3    Babik, J.M.4    Hecht, M.H.5
  • 29
    • 0006925492 scopus 로고
    • Pure absorption gradient enhanced heteronuclear single quantum correlation spectroscopy with improved sensitivity
    • Kay L. E., Keifer P., Saarinen T. Pure absorption gradient enhanced heteronuclear single quantum correlation spectroscopy with improved sensitivity. J. Am. Chem. Soc. 114:1992;10663-10665.
    • (1992) J. Am. Chem. Soc. , vol.114 , pp. 10663-10665
    • Kay, L.E.1    Keifer, P.2    Saarinen, T.3
  • 30
    • 0026244229 scopus 로고
    • MOLSCRIPT-a program to produce both detailed and schematic plots of protein structure
    • Kraulis P. J. MOLSCRIPT-a program to produce both detailed and schematic plots of protein structure. J. Appl. Crystallog. 24:1991;946-950.
    • (1991) J. Appl. Crystallog. , vol.24 , pp. 946-950
    • Kraulis, P.J.1
  • 31
    • 0020475449 scopus 로고
    • A simple method for displaying the hydropathic character of a protein
    • Kyte J., Doolittle R. F. A simple method for displaying the hydropathic character of a protein. J. Mol. Biol. 157:1982;105-132.
    • (1982) J. Mol. Biol. , vol.157 , pp. 105-132
    • Kyte, J.1    Doolittle, R.F.2
  • 32
    • 0029837242 scopus 로고    scopus 로고
    • Analysis of the ligand-binding domain of human retinoic acid receptor alpha by site-directed mutagenesis
    • Lamour F. P., Lardelli P., Apfel C. M. Analysis of the ligand-binding domain of human retinoic acid receptor alpha by site-directed mutagenesis. Mol. Cell. Biol. 10:1996;5386-5392.
    • (1996) Mol. Cell. Biol. , vol.10 , pp. 5386-5392
    • Lamour, F.P.1    Lardelli, P.2    Apfel, C.M.3
  • 33
    • 0027479161 scopus 로고
    • OB(oligonucleotide/oligosaccharide binding)-fold: Common structural and functional solution for non-homologous sequences
    • Murzin A. G. OB(oligonucleotide/oligosaccharide binding)-fold: common structural and functional solution for non-homologous sequences. EMBO J. 12:1993;861-867.
    • (1993) EMBO J. , vol.12 , pp. 861-867
    • Murzin, A.G.1
  • 34
    • 0028961335 scopus 로고
    • SCOP: A structural classification of proteins database for the investigation of sequences and structures
    • Murzin A. G., Brenner S. E., Hubbard T., Chothia C. SCOP: a structural classification of proteins database for the investigation of sequences and structures. J. Mol. Biol. 247:1995;536-540.
    • (1995) J. Mol. Biol. , vol.247 , pp. 536-540
    • Murzin, A.G.1    Brenner, S.E.2    Hubbard, T.3    Chothia, C.4
  • 35
    • 0029643954 scopus 로고
    • The crystal structure of the lysyl-tRNA synthetase (LysU) from Escherichia coli
    • Onesti S., Miller A. D., Brick P. The crystal structure of the lysyl-tRNA synthetase (LysU) from Escherichia coli. Structure. 3:1995;163-176.
    • (1995) Structure , vol.3 , pp. 163-176
    • Onesti, S.1    Miller, A.D.2    Brick, P.3
  • 36
    • 0028593509 scopus 로고
    • Protein superfamilies and domain superfolds
    • Orengo C. A., Jones D. T., Thornton J. M. Protein superfamilies and domain superfolds. Nature. 372:1994;631-634.
    • (1994) Nature , vol.372 , pp. 631-634
    • Orengo, C.A.1    Jones, D.T.2    Thornton, J.M.3
  • 37
    • 0022555885 scopus 로고
    • Determination and analysis of urea and guanidine hydrochloride denaturation curves
    • Pace C. N. Determination and analysis of urea and guanidine hydrochloride denaturation curves. Methods Enzymol. 131:1986;266-280.
    • (1986) Methods Enzymol. , vol.131 , pp. 266-280
    • Pace, C.N.1
  • 38
    • 0032502839 scopus 로고    scopus 로고
    • Contact order, transition state placement and the refolding rates of single domain proteins
    • Plaxco K. W., Simons K. T., 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
  • 40
    • 0023697408 scopus 로고
    • Unfolding free energy changes determined by the linear extrapolation method. 1. Unfolding of phenylmethanesulfonyl α-chymotrypsin using different denaturants
    • Santoro M. M., Bolen D. W. Unfolding free energy changes determined by the linear extrapolation method. 1. Unfolding of phenylmethanesulfonyl α-chymotrypsin using different denaturants. Biochemistry. 27:1988;8063-8068.
    • (1988) Biochemistry , vol.27 , pp. 8063-8068
    • Santoro, M.M.1    Bolen, D.W.2
  • 41
    • 0028306109 scopus 로고
    • Crystal structure of CspA, the major cold shock protein of Escherichia coli
    • Schindelin H., Jiang W., Inouye M., Heinemann U. Crystal structure of CspA, the major cold shock protein of Escherichia coli. Proc. Natl Acad. Sci. USA. 91:1994;5119-5123.
    • (1994) Proc. Natl Acad. Sci. USA , vol.91 , pp. 5119-5123
    • Schindelin, H.1    Jiang, W.2    Inouye, M.3    Heinemann, U.4
  • 43
    • 0028936999 scopus 로고
    • Staphylococcal nuclease: A showcase of m-value effects
    • Shortle D. Staphylococcal nuclease: a showcase of m-value effects. Advan. Protein Chem. 46:1995;217-247.
    • (1995) Advan. Protein Chem. , vol.46 , pp. 217-247
    • Shortle, D.1
  • 45
    • 0014364651 scopus 로고
    • Protein denaturation
    • Tanford C. Protein denaturation. Advan. Protein Chem. 23:1968;121-282.
    • (1968) Advan. Protein Chem. , vol.23 , pp. 121-282
    • Tanford, C.1
  • 47
    • 0031010618 scopus 로고    scopus 로고
    • Kinetic evidence for folding and unfolding intermediates in staphylococcal nuclease
    • Walkenhorst W. F., Green S. M., Roder H. Kinetic evidence for folding and unfolding intermediates in staphylococcal nuclease. Biochemistry. 36:1997;5795-5805.
    • (1997) Biochemistry , vol.36 , pp. 5795-5805
    • Walkenhorst, W.F.1    Green, S.M.2    Roder, H.3
  • 48
    • 0029786948 scopus 로고    scopus 로고
    • A dynamic bundle of four adjacent hydrophobic segments in the denatured state of staphylococcal nuclease
    • Wang Y., Shortle D. A dynamic bundle of four adjacent hydrophobic segments in the denatured state of staphylococcal nuclease. Protein Sci. 5:1996;1898-1906.
    • (1996) Protein Sci. , vol.5 , pp. 1898-1906
    • Wang, Y.1    Shortle, D.2
  • 49
    • 0030631570 scopus 로고    scopus 로고
    • Characterization of the free energy spectrum of peptostreptococcal protein L
    • Yi Q., Scalley M. L., Simons K. T., Gladwin S., Baker D. Characterization of the free energy spectrum of peptostreptococcal protein L. Fold. Des. 2:1997;271-280.
    • (1997) Fold. Des. , vol.2 , pp. 271-280
    • Yi, Q.1    Scalley, M.L.2    Simons, K.T.3    Gladwin, S.4    Baker, D.5


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