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Volumn 44, Issue 22, 2005, Pages 8117-8125

Structural and dynamic characterization of the acid-unfolded state of hUBF HMG box 1 provides clues for the early events in protein folding

Author keywords

[No Author keywords available]

Indexed keywords

BIOLOGICAL ORGANS; CONFORMATIONS; FUNCTIONS; NUCLEAR MAGNETIC RESONANCE; PH EFFECTS; POLYPEPTIDES; PROTEINS; PROTONS;

EID: 20144365610     PISSN: 00062960     EISSN: None     Source Type: Journal    
DOI: 10.1021/bi0501939     Document Type: Article
Times cited : (21)

References (51)
  • 1
    • 0029961647 scopus 로고    scopus 로고
    • Structural analysis of non-native states of proteins by NMR methods
    • Shortle, D. R. (1996) Structural analysis of non-native states of proteins by NMR methods, Curr. Opin. Struct. Biol. 6, 24-30.
    • (1996) Curr. Opin. Struct. Biol. , vol.6 , pp. 24-30
    • Shortle, D.R.1
  • 2
    • 0031851978 scopus 로고    scopus 로고
    • Equilibrium NMR studies of unfolded and partially folded proteins
    • Dyson, H. J., and Wright, P. E. (1998) Equilibrium NMR studies of unfolded and partially folded proteins. Nat. Struct. Biol. 5, 499-503.
    • (1998) Nat. Struct. Biol. , vol.5 , pp. 499-503
    • Dyson, H.J.1    Wright, P.E.2
  • 3
    • 0034912536 scopus 로고    scopus 로고
    • Nuclear magnetic resonance methods for elucidation of structure and dynamics in disordered states
    • Dyson, H. J., and Wright, P. E. (2001) Nuclear magnetic resonance methods for elucidation of structure and dynamics in disordered states, Methods Enzymol. 339, 258-270.
    • (2001) Methods Enzymol. , vol.339 , pp. 258-270
    • Dyson, H.J.1    Wright, P.E.2
  • 4
    • 4344570150 scopus 로고    scopus 로고
    • NMR studies of protein folding
    • Juneja, J., and Udgaonkar, J. B. (2003) NMR studies of protein folding, Curr. Sci. 84, 157-172.
    • (2003) Curr. Sci. , vol.84 , pp. 157-172
    • Juneja, J.1    Udgaonkar, J.B.2
  • 5
    • 4344707281 scopus 로고    scopus 로고
    • Unfolded proteins and protein folding studied by NMR
    • Dyson, H. J., and Wright, P. E. (2004) Unfolded proteins and protein folding studied by NMR, Chem. Rev. 104, 3607-3622.
    • (2004) Chem. Rev. , vol.104 , pp. 3607-3622
    • Dyson, H.J.1    Wright, P.E.2
  • 6
    • 0027955640 scopus 로고
    • NMR assignment as a basis for structural characterization of denatured states of globular proteins
    • Wuthrich, K. (1994) NMR assignment as a basis for structural characterization of denatured states of globular proteins, Curr. Opin. Struct. Biol. 4, 93-99.
    • (1994) Curr. Opin. Struct. Biol. , vol.4 , pp. 93-99
    • Wuthrich, K.1
  • 7
    • 0028917296 scopus 로고
    • Structures of folding intermediates
    • Ptitsyn, O. B. (1995) Structures of folding intermediates, Curr. Opin. Struct. Biol. 5, 74-78.
    • (1995) Curr. Opin. Struct. Biol. , vol.5 , pp. 74-78
    • Ptitsyn, O.B.1
  • 8
    • 0033951366 scopus 로고    scopus 로고
    • Protein folding mechanisms: New methods and emerging ideas
    • Brockwell, D., Smith, D. A., and Radford, S. E. (2000) Protein folding mechanisms: New methods and emerging ideas, Curr. Opin. Struct. Biol. 10, 16-25.
    • (2000) Curr. Opin. Struct. Biol. , vol.10 , pp. 16-25
    • Brockwell, D.1    Smith, D.A.2    Radford, S.E.3
  • 9
    • 0031932824 scopus 로고    scopus 로고
    • Structural and dynamic characterization of partially folded states of myoglobin and implications for protein folding
    • Eliezer, D., Yao, J., Dyson, H. J., and Wright, P. E. (1998) Structural and dynamic characterization of partially folded states of myoglobin and implications for protein folding, Nat. Struct. Biol. 5, 148-155.
    • (1998) Nat. Struct. Biol. , vol.5 , pp. 148-155
    • Eliezer, D.1    Yao, J.2    Dyson, H.J.3    Wright, P.E.4
  • 10
    • 0034696675 scopus 로고    scopus 로고
    • Native and non-native structure and dynamics in the pH 4 intermediate of apomyoglobin
    • Eliezer, D., Chung, J., Dyson, H. I., and Wright, P. E. (2000) Native and non-native structure and dynamics in the pH 4 intermediate of apomyoglobin, Biochemistry 39, 2894-2901.
    • (2000) Biochemistry , vol.39 , pp. 2894-2901
    • Eliezer, D.1    Chung, J.2    Dyson, H.I.3    Wright, P.E.4
  • 11
    • 0033582680 scopus 로고    scopus 로고
    • Probing residual structure and backbone dynamics on the milli- to picosecond timescale in a urea-denatured fibronection type III domain
    • Meekhof, A. E., and Freund, S. M. V. (1999) Probing residual structure and backbone dynamics on the milli- to picosecond timescale in a urea-denatured fibronection type III domain, J. Mol. Biol. 286, 579-592.
    • (1999) J. Mol. Biol. , vol.286 , pp. 579-592
    • Meekhof, A.E.1    Freund, S.M.V.2
  • 12
    • 0028787226 scopus 로고
    • Structural and dynamic characterization of the urea denatured state of the immunoglobulin binding domain of streptococcal protein G by multidimensional heteronuclear NMR spectroscopy
    • Frank, M. K., Clore, G. M., and Gronenborn, A. M. (1995) Structural and dynamic characterization of the urea denatured state of the immunoglobulin binding domain of streptococcal protein G by multidimensional heteronuclear NMR spectroscopy, Protein Sci. 4, 2605-2615.
    • (1995) Protein Sci. , vol.4 , pp. 2605-2615
    • Frank, M.K.1    Clore, G.M.2    Gronenborn, A.M.3
  • 13
    • 0035119625 scopus 로고    scopus 로고
    • Chemical shifts in denatured proteins: Resonance assignments for denatured ubiquitin and comparisons with other denatured proteins
    • Peti, W., Smith, L. J., Redfield, C., and Schwalbe, H. (2001) Chemical shifts in denatured proteins: Resonance assignments for denatured ubiquitin and comparisons with other denatured proteins, J. Biomol. NMR 19, 153-165.
    • (2001) J. Biomol. NMR , vol.19 , pp. 153-165
    • Peti, W.1    Smith, L.J.2    Redfield, C.3    Schwalbe, H.4
  • 15
    • 0034885557 scopus 로고    scopus 로고
    • Backbone dynamics of the natively unfolded pro-peptide of subtilisin by heteronuclear NMR relaxation studies
    • Buevich, A. V., Shinde, U. P., Inouye, M., and Baum, J. (2001) Backbone dynamics of the natively unfolded pro-peptide of subtilisin by heteronuclear NMR relaxation studies, J. Biomol. NMR 20, 233-249.
    • (2001) J. Biomol. NMR , vol.20 , pp. 233-249
    • Buevich, A.V.1    Shinde, U.P.2    Inouye, M.3    Baum, J.4
  • 16
    • 0029036496 scopus 로고
    • Structural characterization of folded and unfolded states of an SH3 domain in equilibrium in aqueous buffer
    • Zhang, O., and Forman-Kay, J. D. (1995) Structural characterization of folded and unfolded states of an SH3 domain in equilibrium in aqueous buffer, Biochemistry 34, 6784-6794.
    • (1995) Biochemistry , vol.34 , pp. 6784-6794
    • Zhang, O.1    Forman-Kay, J.D.2
  • 17
    • 0028951040 scopus 로고
    • Comparison of the backbone dynamics of a folded and an unfolded SH3 domain existing in solution in aqueous buffer
    • Farrow, N. A., Zhang, O., Forman-Kay, J. D., and Kay, L. E. (1995) Comparison of the backbone dynamics of a folded and an unfolded SH3 domain existing in solution in aqueous buffer, Biochemistry 34, 868-878.
    • (1995) Biochemistry , vol.34 , pp. 868-878
    • Farrow, N.A.1    Zhang, O.2    Forman-Kay, J.D.3    Kay, L.E.4
  • 18
    • 0025280048 scopus 로고
    • Nucleolar transcription factor hUBF contains a DNA-binding motif with homology to HMG proteins
    • Jantzen, H. M., Admon, A., Bell, S. P., and Tjian, R. (1990) Nucleolar transcription factor hUBF contains a DNA-binding motif with homology to HMG proteins, Nature 344, 830-836.
    • (1990) Nature , vol.344 , pp. 830-836
    • Jantzen, H.M.1    Admon, A.2    Bell, S.P.3    Tjian, R.4
  • 19
    • 0026754764 scopus 로고
    • Multiple domains of the RNA polymerase I activator hUBF interact with the TATA-binding protein complex hSL-1 to mediate transcription
    • Jantzen, H. M., Chow, A. M., King, D. S., and Tjian, R. (1992) Multiple domains of the RNA polymerase I activator hUBF interact with the TATA-binding protein complex hSL-1 to mediate transcription, Genes Dev. 6, 1950-1963.
    • (1992) Genes Dev. , vol.6 , pp. 1950-1963
    • Jantzen, H.M.1    Chow, A.M.2    King, D.S.3    Tjian, R.4
  • 21
    • 0037197695 scopus 로고    scopus 로고
    • Solution structure of the first HMG box domain in human upstream binding factor
    • Xu, Y., Yang, W., Wu, J., and Shi, Y. (2002) Solution structure of the first HMG box domain in human upstream binding factor, Biochemistry 41, 5415-5420.
    • (2002) Biochemistry , vol.41 , pp. 5415-5420
    • Xu, Y.1    Yang, W.2    Wu, J.3    Shi, Y.4
  • 23
    • 0037194343 scopus 로고    scopus 로고
    • Cloning, expression, secondary structure characterization of HMG box 1 of hUBF from E. coli and its binding to DNA
    • Yang, W., Zeng, W., Zhou, D., and Shi, Y. (2002) Cloning, expression, secondary structure characterization of HMG box 1 of hUBF from E. coli and its binding to DNA, Biochim. Biophys. Acta 1598, 147-155.
    • (2002) Biochim. Biophys. Acta , vol.1598 , pp. 147-155
    • Yang, W.1    Zeng, W.2    Zhou, D.3    Shi, Y.4
  • 25
    • 0033794319 scopus 로고    scopus 로고
    • Random coil chemical shifts in acidic 8 M urea: Implementation of random coil chemical shift data in NMRView
    • Schwarzinger, S., Kroon, G. J. A., Foss, T. R., Wright, P. E., and Dyson, H. J. (2000) Random coil chemical shifts in acidic 8 M urea: Implementation of random coil chemical shift data in NMRView, J. Biomol. NMR 18, 43-48.
    • (2000) J. Biomol. NMR , vol.18 , pp. 43-48
    • Schwarzinger, S.1    Kroon, G.J.A.2    Foss, T.R.3    Wright, P.E.4    Dyson, H.J.5
  • 27
    • 0029181728 scopus 로고
    • 15N random coil NMR chemical shifts of the common amino acids: I. Investigations of nearest neighbor effects
    • 15N random coil NMR chemical shifts of the common amino acids: I. Investigations of nearest neighbor effects, J. Biomol. NMR 5, 67-81.
    • (1995) J. Biomol. NMR , vol.5 , pp. 67-81
    • Wishart, D.S.1    Bigam, C.G.2    Holm, A.3    Hodges, R.S.4    Sykes, B.D.5
  • 28
    • 0035957221 scopus 로고    scopus 로고
    • NMR structural and dynamic characterization of the acid-unfolded state of apomyoglobin provides insights into the early events in protein folding
    • Yao, J., Chung, J., Eliezer, D., Wright, P. E., and Dyson, H. J. (2001) NMR structural and dynamic characterization of the acid-unfolded state of apomyoglobin provides insights into the early events in protein folding, Biochemistry 40, 3561-3571.
    • (2001) Biochemistry , vol.40 , pp. 3561-3571
    • Yao, J.1    Chung, J.2    Eliezer, D.3    Wright, P.E.4    Dyson, H.J.5
  • 30
    • 0026410969 scopus 로고
    • Relationship between nuclear magnetic resonance chemical shift and protein secondary structure
    • Wishart, D. S., Sykes, B. D., and Richards, F. M. (1991) Relationship between nuclear magnetic resonance chemical shift and protein secondary structure, J. Mol. Biol. 222, 311-333.
    • (1991) J. Mol. Biol. , vol.222 , pp. 311-333
    • Wishart, D.S.1    Sykes, B.D.2    Richards, F.M.3
  • 31
    • 0026597879 scopus 로고
    • The chemical shift index: A fast and simple method for the assignment of proetein secondary structure through NMR spectroscopy
    • Wishart, D. S., Sykes, B. D., and Richards, F. M. (1992) The chemical shift index: A fast and simple method for the assignment of proetein secondary structure through NMR spectroscopy, Biochemistry 31, 1647-1651.
    • (1992) Biochemistry , vol.31 , pp. 1647-1651
    • Wishart, D.S.1    Sykes, B.D.2    Richards, F.M.3
  • 32
    • 0028673594 scopus 로고
    • Chemical shifts as a tool for structure determination
    • Wishart, D. S., and Sykes, B. D. (1994) Chemical shifts as a tool for structure determination, Methods Enzymol. 239, 363-392.
    • (1994) Methods Enzymol. , vol.239 , pp. 363-392
    • Wishart, D.S.1    Sykes, B.D.2
  • 33
    • 0347610773 scopus 로고
    • 13C nuclear magnetic resonance chemical shifts
    • 13C nuclear magnetic resonance chemical shifts, J. Am. Chem. Soc. 113, 5490-5492.
    • (1991) J. Am. Chem. Soc. , vol.113 , pp. 5490-5492
    • Spera, S.1    Bax, A.2
  • 34
    • 0031451750 scopus 로고    scopus 로고
    • Chemical shift dispersion and secondary structure prediction in unfolded and partly folded proteins
    • Yao, J., Dyson, H. J., and Wright, P. E. (1997) Chemical shift dispersion and secondary structure prediction in unfolded and partly folded proteins, FEBS Lett. 419, 285-289.
    • (1997) FEBS Lett. , vol.419 , pp. 285-289
    • Yao, J.1    Dyson, H.J.2    Wright, P.E.3
  • 35
    • 0003919736 scopus 로고
    • 1H distances in proteins
    • John Wiley and Sons, New York
    • 1H distances in proteins, in NMR of Proteins and Nucleic Acids, pp 117-129, John Wiley and Sons, New York.
    • (1986) NMR of Proteins and Nucleic Acids , pp. 117-129
    • Wuthrich, K.1
  • 36
    • 0027165688 scopus 로고
    • Peptide models of protein folding initiation sites: Secondary structure formation by peptides corresponding to G- and H-helices of myoglobin
    • Waltho, J. P., Feher, V. A., Merutka, G., Dyson, H. J., and Wright, P. E. (1993) Peptide models of protein folding initiation sites: Secondary structure formation by peptides corresponding to G- and H-helices of myoglobin, Biochemistry 32, 6337-6347.
    • (1993) Biochemistry , vol.32 , pp. 6337-6347
    • Waltho, J.P.1    Feher, V.A.2    Merutka, G.3    Dyson, H.J.4    Wright, P.E.5
  • 37
    • 0030596513 scopus 로고    scopus 로고
    • 13C NMR assignment and characterization of residual structures
    • 13C NMR assignment and characterization of residual structures, J. Mol. Biol. 259, 805-818.
    • (1996) J. Mol. Biol. , vol.259 , pp. 805-818
    • Wong, K.B.1    Freund, S.M.V.2    Fersht, A.R.3
  • 39
    • 0025904730 scopus 로고
    • Defining solution conformations of small linear peptides
    • Dyson, H. J., and Wright, P. E. (1991) Defining solution conformations of small linear peptides, Annu. Rev. Biophys. Biophys. Chem. 20, 519-538.
    • (1991) Annu. Rev. Biophys. Biophys. Chem. , vol.20 , pp. 519-538
    • Dyson, H.J.1    Wright, P.E.2
  • 40
    • 0028274250 scopus 로고
    • Structure and dynamics of a denatured 131-residue fragment of staphylococcal nuclease: A heteronuclear NMR study
    • Alexandrescu, A. T., Abeygunawardana, C., and Shortle, D. (1994) Structure and dynamics of a denatured 131-residue fragment of staphylococcal nuclease: A heteronuclear NMR study, Biochemistry 33, 1063-1072.
    • (1994) Biochemistry , vol.33 , pp. 1063-1072
    • Alexandrescu, A.T.1    Abeygunawardana, C.2    Shortle, D.3
  • 41
    • 0029978353 scopus 로고    scopus 로고
    • Analysis of main chain torsion angles in proteins: Prediction of NMR coupling constants for native and random coil conformations
    • Smith, L. J., Bolin, K. A., Schwalbe, H., MacArthur, M. W., Thornton, J. M., and Dobson, C. M. (1996) Analysis of main chain torsion angles in proteins: Prediction of NMR coupling constants for native and random coil conformations, J. Mol. Biol. 255, 494-506.
    • (1996) J. Mol. Biol. , vol.255 , pp. 494-506
    • Smith, L.J.1    Bolin, K.A.2    Schwalbe, H.3    MacArthur, M.W.4    Thornton, J.M.5    Dobson, C.M.6
  • 42
    • 0030858227 scopus 로고    scopus 로고
    • Extracting information from the temperature gradients of peptide NH chemical shifts. 1. The importance of conformational averaging
    • Andersen, N. H., Neidigh, J. W., Harris, S. M., Lee, G. M., Liu, Z., and Tong, H. (1997) Extracting information from the temperature gradients of peptide NH chemical shifts. 1. The importance of conformational averaging, J. Am. Chem. Soc. 119, 8547-8561.
    • (1997) J. Am. Chem. Soc. , vol.119 , pp. 8547-8561
    • Andersen, N.H.1    Neidigh, J.W.2    Harris, S.M.3    Lee, G.M.4    Liu, Z.5    Tong, H.6
  • 44
    • 0032545169 scopus 로고    scopus 로고
    • Characterisation of low-energy exited states of folded proteins
    • Baxter, N. J., Hosszu, L. L. P., Waltho, J. P., and Williamson, M. P. (1998) Characterisation of low-energy exited states of folded proteins, J. Mol. Biol. 284, 1625-1639.
    • (1998) J. Mol. Biol. , vol.284 , pp. 1625-1639
    • Baxter, N.J.1    Hosszu, L.L.P.2    Waltho, J.P.3    Williamson, M.P.4
  • 45
    • 0029207339 scopus 로고
    • 1H chemical shifts obtained as a function of temperature and trifluoroethanol concentration for the peptide series, GGXGG
    • 1H chemical shifts obtained as a function of temperature and trifluoroethanol concentration for the peptide series, GGXGG, J. Biomol. NMR 5, 14-24.
    • (1995) J. Biomol. NMR , vol.5 , pp. 14-24
    • Merutka, G.1    Dyson, H.J.2    Wright, P.E.3
  • 46
    • 0024449503 scopus 로고
    • 15N inverse detected heteronuclear NMR spectroscopy: Application to staphylococcal nuclease
    • 15N inverse detected heteronuclear NMR spectroscopy: Application to staphylococcal nuclease, Biochemistry 28, 8972-8979.
    • (1989) Biochemistry , vol.28 , pp. 8972-8979
    • Key, L.E.1    Torchia, D.A.2    Bax, A.3
  • 47
    • 0035058986 scopus 로고    scopus 로고
    • Structural and dynamic characterization of an unfolded state of poplar apoplastocyanin formed under nondenaturing conditions
    • Bai, Y., Chung, J., Dyson, H. J., and Wright, P. E. (2001) Structural and dynamic characterization of an unfolded state of poplar apoplastocyanin formed under nondenaturing conditions, Protein Sci. 10, 1056-1066.
    • (2001) Protein Sci. , vol.10 , pp. 1056-1066
    • Bai, Y.1    Chung, J.2    Dyson, H.J.3    Wright, P.E.4
  • 48
    • 0031027137 scopus 로고    scopus 로고
    • Characterization of the backbone dynamics of folded and denatured states of an SH3 domain
    • Farrow, N. A., Zhang, O., Forman-Kay, J. D., and Kay, L. E. (1997) Characterization of the backbone dynamics of folded and denatured states of an SH3 domain, Biochemistry 36, 2390-2492.
    • (1997) Biochemistry , vol.36 , pp. 2390-2492
    • Farrow, N.A.1    Zhang, O.2    Forman-Kay, J.D.3    Kay, L.E.4
  • 49
    • 33646719091 scopus 로고
    • Model free approach to the interpretation of nuclear magnetic resonance relaxation in macromolecules. 1. Theory and range of validity
    • Lipari, G., and Szabo, A. (1982) Model free approach to the interpretation of nuclear magnetic resonance relaxation in macromolecules. 1. Theory and range of validity, J. Am. Chem. Soc. 104, 4546-4559.
    • (1982) J. Am. Chem. Soc. , vol.104 , pp. 4546-4559
    • Lipari, G.1    Szabo, A.2
  • 50
    • 0024293204 scopus 로고
    • Conformation of peptide fragments of proteins in aqueous solution: Implication for initiation of protein folding
    • Wright, P. E., Dyson, H. J., and Lerner, R. A. (1988) Conformation of peptide fragments of proteins in aqueous solution: Implication for initiation of protein folding, Biochemistry 27, 7167-7175.
    • (1988) Biochemistry , vol.27 , pp. 7167-7175
    • Wright, P.E.1    Dyson, H.J.2    Lerner, R.A.3


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