메뉴 건너뛰기




Volumn 8, Issue 3, 2012, Pages

Changes in lysozyme flexibility upon mutation are frequent, large and long-ranged

Author keywords

[No Author keywords available]

Indexed keywords

CONSTRAINTS MODELS; COOPERATIVITY; DISTANCE CONSTRAINTS; FLEXIBILITY INDEX; HEN EGG WHITE LYSOZYME; MECHANICAL COUPLING; ORTHOLOGS; SEQUENCE IDENTITY; STATISTICAL MECHANICAL TREATMENT; SUBDOMAIN;

EID: 84861149876     PISSN: 1553734X     EISSN: 15537358     Source Type: Journal    
DOI: 10.1371/journal.pcbi.1002409     Document Type: Article
Times cited : (44)

References (84)
  • 2
    • 33644748183 scopus 로고    scopus 로고
    • Common dynamical signatures of familial amyotrophic lateral sclerosis-associated structurally diverse Cu, Zn superoxide dismutase mutants
    • Khare SD, Dokholyan NV, (2006) Common dynamical signatures of familial amyotrophic lateral sclerosis-associated structurally diverse Cu, Zn superoxide dismutase mutants. Proc Natl Acad Sci U S A 103: 3147-3152.
    • (2006) Proc Natl Acad Sci U S A , vol.103 , pp. 3147-3152
    • Khare, S.D.1    Dokholyan, N.V.2
  • 3
    • 41149104308 scopus 로고    scopus 로고
    • Allostery: absence of a change in shape does not imply that allostery is not at play
    • Tsai CJ, del Sol A, Nussinov R, (2008) Allostery: absence of a change in shape does not imply that allostery is not at play. J Mol Biol 378: 1-11.
    • (2008) J Mol Biol , vol.378 , pp. 1-11
    • Tsai, C.J.1    del Sol, A.2    Nussinov, R.3
  • 4
    • 70349328442 scopus 로고    scopus 로고
    • The folding, stability and conformational dynamics of beta-barrel fluorescent proteins
    • Hsu ST, Blaser G, Jackson SE, (2009) The folding, stability and conformational dynamics of beta-barrel fluorescent proteins. Chem Soc Rev 38: 2951-2965.
    • (2009) Chem Soc Rev , vol.38 , pp. 2951-2965
    • Hsu, S.T.1    Blaser, G.2    Jackson, S.E.3
  • 5
    • 33745726737 scopus 로고    scopus 로고
    • Lessons in stability from thermophilic proteins
    • Razvi A, Scholtz JM, (2006) Lessons in stability from thermophilic proteins. Protein Sci 15: 1569-1578.
    • (2006) Protein Sci , vol.15 , pp. 1569-1578
    • Razvi, A.1    Scholtz, J.M.2
  • 6
    • 70349901079 scopus 로고    scopus 로고
    • Stability effects of mutations and protein evolvability
    • Tokuriki N, Tawfik DS, (2009) Stability effects of mutations and protein evolvability. Curr Opin Struct Biol 19: 596-604.
    • (2009) Curr Opin Struct Biol , vol.19 , pp. 596-604
    • Tokuriki, N.1    Tawfik, D.S.2
  • 7
    • 67650806154 scopus 로고    scopus 로고
    • 13C and 15N NMR study of the hydration response of T4 lysozyme and alphaB-crystallin internal dynamics
    • Krushelnitsky A, Zinkevich T, Mukhametshina N, Tarasova N, Gogolev Y, et al. (2009) 13C and 15N NMR study of the hydration response of T4 lysozyme and alphaB-crystallin internal dynamics. J Phys Chem B 113: 10022-10034.
    • (2009) J Phys Chem B , vol.113 , pp. 10022-10034
    • Krushelnitsky, A.1    Zinkevich, T.2    Mukhametshina, N.3    Tarasova, N.4    Gogolev, Y.5
  • 8
    • 78650269727 scopus 로고    scopus 로고
    • Comparative NMR studies demonstrate profound differences between two viroporins: p7 of HCV and Vpu of HIV-1
    • Cook GA, Zhang H, Park SH, Wang Y, Opella SJ, (2011) Comparative NMR studies demonstrate profound differences between two viroporins: p7 of HCV and Vpu of HIV-1. Biochim Biophys Acta 1808: 554-560.
    • (2011) Biochim Biophys Acta , vol.1808 , pp. 554-560
    • Cook, G.A.1    Zhang, H.2    Park, S.H.3    Wang, Y.4    Opella, S.J.5
  • 9
    • 69949152607 scopus 로고    scopus 로고
    • Conservation of side-chain dynamics within a protein family
    • Law AB, Fuentes EJ, Lee AL, (2009) Conservation of side-chain dynamics within a protein family. J Am Chem Soc 131: 6322-6323.
    • (2009) J Am Chem Soc , vol.131 , pp. 6322-6323
    • Law, A.B.1    Fuentes, E.J.2    Lee, A.L.3
  • 10
    • 0033426952 scopus 로고    scopus 로고
    • Comparative molecular dynamics of mesophilic and psychrophilic protein homologues studied by 1.2 ns simulations
    • Brandsdal BO, Heimstad ES, Sylte I, Smalas AO, (1999) Comparative molecular dynamics of mesophilic and psychrophilic protein homologues studied by 1.2 ns simulations. J Biomol Struct Dyn 17: 493-506.
    • (1999) J Biomol Struct Dyn , vol.17 , pp. 493-506
    • Brandsdal, B.O.1    Heimstad, E.S.2    Sylte, I.3    Smalas, A.O.4
  • 11
    • 0029042854 scopus 로고
    • Comparative molecular dynamics simulation studies of salmon and bovine trypsins in aqueous solution
    • Heimstad ES, Hansen LK, Smalas AO, (1995) Comparative molecular dynamics simulation studies of salmon and bovine trypsins in aqueous solution. Protein Eng 8: 379-388.
    • (1995) Protein Eng , vol.8 , pp. 379-388
    • Heimstad, E.S.1    Hansen, L.K.2    Smalas, A.O.3
  • 12
    • 28644451763 scopus 로고    scopus 로고
    • Comparative molecular dynamics-similar folds and similar motions?
    • Pang A, Arinaminpathy Y, Sansom MS, Biggin PC, (2005) Comparative molecular dynamics-similar folds and similar motions? Proteins 61: 809-822.
    • (2005) Proteins , vol.61 , pp. 809-822
    • Pang, A.1    Arinaminpathy, Y.2    Sansom, M.S.3    Biggin, P.C.4
  • 13
    • 18844369136 scopus 로고    scopus 로고
    • Comparative molecular dynamics simulations of HIV-1 integrase and the T66I/M154I mutant: binding modes and drug resistance to a diketo acid inhibitor
    • Brigo A, Lee KW, Fogolari F, Mustata GI, Briggs JM, (2005) Comparative molecular dynamics simulations of HIV-1 integrase and the T66I/M154I mutant: binding modes and drug resistance to a diketo acid inhibitor. Proteins 59: 723-741.
    • (2005) Proteins , vol.59 , pp. 723-741
    • Brigo, A.1    Lee, K.W.2    Fogolari, F.3    Mustata, G.I.4    Briggs, J.M.5
  • 14
    • 67650296428 scopus 로고    scopus 로고
    • One membrane protein, two structures and six environments: a comparative molecular dynamics simulation study of the bacterial outer membrane protein PagP
    • Cox K, Sansom MS, (2009) One membrane protein, two structures and six environments: a comparative molecular dynamics simulation study of the bacterial outer membrane protein PagP. Mol Membr Biol 26: 205-214.
    • (2009) Mol Membr Biol , vol.26 , pp. 205-214
    • Cox, K.1    Sansom, M.S.2
  • 15
    • 70449923870 scopus 로고    scopus 로고
    • A comparative analysis of the equilibrium dynamics of a designed protein inferred from NMR, X-ray, and computations
    • Liu L, Koharudin LM, Gronenborn AM, Bahar I, (2009) A comparative analysis of the equilibrium dynamics of a designed protein inferred from NMR, X-ray, and computations. Proteins 77: 927-939.
    • (2009) Proteins , vol.77 , pp. 927-939
    • Liu, L.1    Koharudin, L.M.2    Gronenborn, A.M.3    Bahar, I.4
  • 16
    • 78149495449 scopus 로고    scopus 로고
    • Reaching biological timescales with all-atom molecular dynamics simulations
    • Zwier MC, Chong LT, (2010) Reaching biological timescales with all-atom molecular dynamics simulations. Curr Opin Pharmacol 10: 745-752.
    • (2010) Curr Opin Pharmacol , vol.10 , pp. 745-752
    • Zwier, M.C.1    Chong, L.T.2
  • 17
    • 21244483843 scopus 로고    scopus 로고
    • Elucidating protein thermodynamics from the three-dimensional structure of the native state using network rigidity
    • Jacobs DJ, Dallakyan S, (2005) Elucidating protein thermodynamics from the three-dimensional structure of the native state using network rigidity. Biophys J 88: 903-915.
    • (2005) Biophys J , vol.88 , pp. 903-915
    • Jacobs, D.J.1    Dallakyan, S.2
  • 18
    • 6344223617 scopus 로고    scopus 로고
    • A flexible approach for understanding protein stability
    • Livesay DR, Dallakyan S, Wood GG, Jacobs DJ, (2004) A flexible approach for understanding protein stability. FEBS Lett 576: 468-476.
    • (2004) FEBS Lett , vol.576 , pp. 468-476
    • Livesay, D.R.1    Dallakyan, S.2    Wood, G.G.3    Jacobs, D.J.4
  • 19
    • 0031281604 scopus 로고    scopus 로고
    • An algorithm for two-dimensional rigidity percolation: The pebble game
    • Jacobs DJ, Hendrickson B, (1997) An algorithm for two-dimensional rigidity percolation: The pebble game. J Comp Phys 137: 346-365.
    • (1997) J Comp Phys , vol.137 , pp. 346-365
    • Jacobs, D.J.1    Hendrickson, B.2
  • 20
    • 0035427398 scopus 로고    scopus 로고
    • Protein flexibility predictions using graph theory
    • Jacobs DJ, Rader AJ, Kuhn LA, Thorpe MF, (2001) Protein flexibility predictions using graph theory. Proteins 44: 150-165.
    • (2001) Proteins , vol.44 , pp. 150-165
    • Jacobs, D.J.1    Rader, A.J.2    Kuhn, L.A.3    Thorpe, M.F.4
  • 21
    • 0000785338 scopus 로고
    • Generic rigidity percolation: The pebble game
    • Jacobs DJ, Thorpe MF, (1995) Generic rigidity percolation: The pebble game. Phys Rev Lett 75: 4051-4054.
    • (1995) Phys Rev Lett , vol.75 , pp. 4051-4054
    • Jacobs, D.J.1    Thorpe, M.F.2
  • 23
    • 72549119922 scopus 로고    scopus 로고
    • Helix/coil nucleation: a local response to global demands
    • Vorov OK, Livesay DR, Jacobs DJ, (2009) Helix/coil nucleation: a local response to global demands. Biophys J 97: 3000-3009.
    • (2009) Biophys J , vol.97 , pp. 3000-3009
    • Vorov, O.K.1    Livesay, D.R.2    Jacobs, D.J.3
  • 24
    • 79951828754 scopus 로고    scopus 로고
    • Nonadditivity in conformational entropy upon molecular rigidification reveals a universal mechanism affecting folding cooperativity
    • Vorov OK, Livesay DR, Jacobs DJ, (2011) Nonadditivity in conformational entropy upon molecular rigidification reveals a universal mechanism affecting folding cooperativity. Biophys J 100: 1129-1138.
    • (2011) Biophys J , vol.100 , pp. 1129-1138
    • Vorov, O.K.1    Livesay, D.R.2    Jacobs, D.J.3
  • 25
    • 33646033429 scopus 로고    scopus 로고
    • Elucidating quantitative stability/flexibility relationships within thioredoxin and its fragments using a distance constraint model
    • Jacobs DJ, Livesay DR, Hules J, Tasayco ML, (2006) Elucidating quantitative stability/flexibility relationships within thioredoxin and its fragments using a distance constraint model. J Mol Biol 358: 882-904.
    • (2006) J Mol Biol , vol.358 , pp. 882-904
    • Jacobs, D.J.1    Livesay, D.R.2    Hules, J.3    Tasayco, M.L.4
  • 26
    • 30344476409 scopus 로고    scopus 로고
    • Conserved quantitative stability/flexibility relationships (QSFR) in an orthologous RNase H pair
    • Livesay DR, Jacobs DJ, (2006) Conserved quantitative stability/flexibility relationships (QSFR) in an orthologous RNase H pair. Proteins 62: 130-143.
    • (2006) Proteins , vol.62 , pp. 130-143
    • Livesay, D.R.1    Jacobs, D.J.2
  • 27
    • 51749092455 scopus 로고    scopus 로고
    • Hydrogen bond networks determine emergent mechanical and thermodynamic properties across a protein family
    • Livesay DR, Huynh DH, Dallakyan S, Jacobs DJ, (2008) Hydrogen bond networks determine emergent mechanical and thermodynamic properties across a protein family. Chem Cent J 2: 17.
    • (2008) Chem Cent J , vol.2 , pp. 17
    • Livesay, D.R.1    Huynh, D.H.2    Dallakyan, S.3    Jacobs, D.J.4
  • 28
    • 66149154705 scopus 로고    scopus 로고
    • Unifying mechanical and thermodynamic descriptions across the thioredoxin protein family
    • Mottonen JM, Xu M, Jacobs DJ, Livesay DR, (2009) Unifying mechanical and thermodynamic descriptions across the thioredoxin protein family. Proteins 75: 610-627.
    • (2009) Proteins , vol.75 , pp. 610-627
    • Mottonen, J.M.1    Xu, M.2    Jacobs, D.J.3    Livesay, D.R.4
  • 29
    • 77958469848 scopus 로고    scopus 로고
    • Allosteric response is both conserved and variable across three CheY orthologs
    • Mottonen JM, Jacobs DJ, Livesay DR, (2010) Allosteric response is both conserved and variable across three CheY orthologs. Biophys J 99: 2245-2254.
    • (2010) Biophys J , vol.99 , pp. 2245-2254
    • Mottonen, J.M.1    Jacobs, D.J.2    Livesay, D.R.3
  • 30
    • 79251478002 scopus 로고    scopus 로고
    • Predicting the melting point of human C-type lysozyme mutants
    • Verma D, Jacobs DJ, Livesay DR, (2010) Predicting the melting point of human C-type lysozyme mutants. Curr Protein Pept Sci 11: 562-572.
    • (2010) Curr Protein Pept Sci , vol.11 , pp. 562-572
    • Verma, D.1    Jacobs, D.J.2    Livesay, D.R.3
  • 31
    • 0031056829 scopus 로고    scopus 로고
    • Instability, unfolding and aggregation of human lysozyme variants underlying amyloid fibrillogenesis
    • Booth DR, Sunde M, Bellotti V, Robinson CV, Hutchinson WL, et al. (1997) Instability, unfolding and aggregation of human lysozyme variants underlying amyloid fibrillogenesis. Nature 385: 787-793.
    • (1997) Nature , vol.385 , pp. 787-793
    • Booth, D.R.1    Sunde, M.2    Bellotti, V.3    Robinson, C.V.4    Hutchinson, W.L.5
  • 32
    • 0026751786 scopus 로고
    • The folding of hen lysozyme involves partially structured intermediates and multiple pathways
    • Radford SE, Dobson CM, Evans PA, (1992) The folding of hen lysozyme involves partially structured intermediates and multiple pathways. Nature 358: 302-307.
    • (1992) Nature , vol.358 , pp. 302-307
    • Radford, S.E.1    Dobson, C.M.2    Evans, P.A.3
  • 33
    • 0029653893 scopus 로고
    • Insights into protein folding using physical techniques: studies of lysozyme and alpha-lactalbumin
    • Radford SE, Dobson CM, (1995) Insights into protein folding using physical techniques: studies of lysozyme and alpha-lactalbumin. Philos Trans R Soc Lond B Biol Sci 348: 17-25.
    • (1995) Philos Trans R Soc Lond B Biol Sci , vol.348 , pp. 17-25
    • Radford, S.E.1    Dobson, C.M.2
  • 34
    • 0028952169 scopus 로고
    • Bipartite structure of the alpha-lactalbumin molten globule
    • Wu LC, Peng ZY, Kim PS, (1995) Bipartite structure of the alpha-lactalbumin molten globule. Nat Struct Biol 2: 281-286.
    • (1995) Nat Struct Biol , vol.2 , pp. 281-286
    • Wu, L.C.1    Peng, Z.Y.2    Kim, P.S.3
  • 35
    • 13844281065 scopus 로고    scopus 로고
    • Reduced global cooperativity is a common feature underlying the amyloidogenicity of pathogenic lysozyme mutations
    • Dumoulin M, Canet D, Last AM, Pardon E, Archer DB, et al. (2005) Reduced global cooperativity is a common feature underlying the amyloidogenicity of pathogenic lysozyme mutations. J Mol Biol 346: 773-788.
    • (2005) J Mol Biol , vol.346 , pp. 773-788
    • Dumoulin, M.1    Canet, D.2    Last, A.M.3    Pardon, E.4    Archer, D.B.5
  • 36
    • 84861135227 scopus 로고    scopus 로고
    • Crystallography Made Crystal Clear: Academic Press
    • Rhodes G, (2006) Crystallography Made Crystal Clear: Academic Press.
    • (2006)
    • Rhodes, G.1
  • 38
    • 0038392707 scopus 로고    scopus 로고
    • Energetic evidence for formation of a pH-dependent hydrophobic cluster in the denatured state of Thermus thermophilus ribonuclease H
    • Guzman-Casado M, Parody-Morreale A, Robic S, Marqusee S, Sanchez-Ruiz JM, (2003) Energetic evidence for formation of a pH-dependent hydrophobic cluster in the denatured state of Thermus thermophilus ribonuclease H. J Mol Biol 329: 731-743.
    • (2003) J Mol Biol , vol.329 , pp. 731-743
    • Guzman-Casado, M.1    Parody-Morreale, A.2    Robic, S.3    Marqusee, S.4    Sanchez-Ruiz, J.M.5
  • 39
    • 0033596902 scopus 로고    scopus 로고
    • A thermodynamic comparison of mesophilic and thermophilic ribonucleases H
    • Hollien J, Marqusee S, (1999) A thermodynamic comparison of mesophilic and thermophilic ribonucleases H. Biochemistry 38: 3831-3836.
    • (1999) Biochemistry , vol.38 , pp. 3831-3836
    • Hollien, J.1    Marqusee, S.2
  • 40
    • 0033598719 scopus 로고    scopus 로고
    • Structural distribution of stability in a thermophilic enzyme
    • Hollien J, Marqusee S, (1999) Structural distribution of stability in a thermophilic enzyme. Proc Natl Acad Sci U S A 96: 13674-13678.
    • (1999) Proc Natl Acad Sci U S A , vol.96 , pp. 13674-13678
    • Hollien, J.1    Marqusee, S.2
  • 43
    • 0029900040 scopus 로고    scopus 로고
    • Tyrosine 106 of CheY plays an important role in chemotaxis signal transduction in Escherichia coli
    • Zhu X, Amsler CD, Volz K, Matsumura P, (1996) Tyrosine 106 of CheY plays an important role in chemotaxis signal transduction in Escherichia coli. J Bacteriol 178: 4208-4215.
    • (1996) J Bacteriol , vol.178 , pp. 4208-4215
    • Zhu, X.1    Amsler, C.D.2    Volz, K.3    Matsumura, P.4
  • 44
    • 82455220936 scopus 로고    scopus 로고
    • A critical evaluation of correlated mutation algorithms and coevolution within allosteric mechanisms
    • In: Fenton AW, editors
    • Livesay DR, Kreth KE, Fodor AA, (2012) A critical evaluation of correlated mutation algorithms and coevolution within allosteric mechanisms In: Fenton AW, editors. Allostery: Methods and Protocols: Humana Press.
    • (2012) Allostery: Methods and Protocols: Humana Press
    • Livesay, D.R.1    Kreth, K.E.2    Fodor, A.A.3
  • 46
    • 0034680315 scopus 로고    scopus 로고
    • Flexibility and ligand exchange in a buried cavity mutant of T4 lysozyme studied by multinuclear NMR
    • Mulder FA, Hon B, Muhandiram DR, Dahlquist FW, Kay LE, (2000) Flexibility and ligand exchange in a buried cavity mutant of T4 lysozyme studied by multinuclear NMR. Biochemistry 39: 12614-12622.
    • (2000) Biochemistry , vol.39 , pp. 12614-12622
    • Mulder, F.A.1    Hon, B.2    Muhandiram, D.R.3    Dahlquist, F.W.4    Kay, L.E.5
  • 47
    • 71049135717 scopus 로고    scopus 로고
    • Insights into protein aggregation by NMR characterization of insoluble SH3 mutants solubilized in salt-free water
    • Liu J, Song J, (2009) Insights into protein aggregation by NMR characterization of insoluble SH3 mutants solubilized in salt-free water. PLoS One 4: e7805.
    • (2009) PLoS One , vol.4
    • Liu, J.1    Song, J.2
  • 48
    • 48749103749 scopus 로고    scopus 로고
    • 15N NMR relaxation studies of Y14F mutant of ketosteroid isomerase: the influence of mutation on backbone mobility
    • Lee HJ, Yoon YJ, Jang do S, Kim C, Cha HJ, et al. (2008) 15N NMR relaxation studies of Y14F mutant of ketosteroid isomerase: the influence of mutation on backbone mobility. J Biochem 144: 159-166.
    • (2008) J Biochem , vol.144 , pp. 159-166
    • Lee, H.J.1    Yoon, Y.J.2    Jang do, S.3    Kim, C.4    Cha, H.J.5
  • 49
    • 78049286310 scopus 로고    scopus 로고
    • Solution structure and dynamics of the I214V mutant of the rabbit prion protein
    • Wen Y, Li J, Xiong M, Peng Y, Yao W, et al. (2010) Solution structure and dynamics of the I214V mutant of the rabbit prion protein. PLoS One 5: e13273.
    • (2010) PLoS One , vol.5
    • Wen, Y.1    Li, J.2    Xiong, M.3    Peng, Y.4    Yao, W.5
  • 50
    • 0036305609 scopus 로고    scopus 로고
    • Effects of the N2144S mutation on backbone dynamics of a TB-cbEGF domain pair from human fibrillin-1
    • Yuan X, Werner JM, Lack J, Knott V, Handford PA, et al. (2002) Effects of the N2144S mutation on backbone dynamics of a TB-cbEGF domain pair from human fibrillin-1. J Mol Biol 316: 113-125.
    • (2002) J Mol Biol , vol.316 , pp. 113-125
    • Yuan, X.1    Werner, J.M.2    Lack, J.3    Knott, V.4    Handford, P.A.5
  • 51
    • 1842559316 scopus 로고    scopus 로고
    • The response of internal dynamics to hydrophobic core mutations in the SH3 domain from the Fyn tyrosine kinase
    • Mittermaier A, Kay LE, (2004) The response of internal dynamics to hydrophobic core mutations in the SH3 domain from the Fyn tyrosine kinase. Protein Sci 13: 1088-1099.
    • (2004) Protein Sci , vol.13 , pp. 1088-1099
    • Mittermaier, A.1    Kay, L.E.2
  • 52
    • 0037133233 scopus 로고    scopus 로고
    • A highly destabilizing mutation, G37A, of the bovine pancreatic trypsin inhibitor retains the average native conformation but greatly increases local flexibility
    • Battiste JL, Li R, Woodward C, (2002) A highly destabilizing mutation, G37A, of the bovine pancreatic trypsin inhibitor retains the average native conformation but greatly increases local flexibility. Biochemistry 41: 2237-2245.
    • (2002) Biochemistry , vol.41 , pp. 2237-2245
    • Battiste, J.L.1    Li, R.2    Woodward, C.3
  • 53
    • 0030015098 scopus 로고    scopus 로고
    • Mass Spectrometric Measurement of Changes in Protein Hydrogen Exchange Rates that Result from Point Mutations
    • Johnson RS, (1996) Mass Spectrometric Measurement of Changes in Protein Hydrogen Exchange Rates that Result from Point Mutations. J Am Soc Mass Spectrom 7: 515-521.
    • (1996) J Am Soc Mass Spectrom , vol.7 , pp. 515-521
    • Johnson, R.S.1
  • 54
    • 42449088134 scopus 로고    scopus 로고
    • Monitoring aromatic picosecond to nanosecond dynamics in proteins via 13C relaxation: expanding perturbation mapping of the rigidifying core mutation, V54A, in eglin c
    • Boyer JA, Lee AL, (2008) Monitoring aromatic picosecond to nanosecond dynamics in proteins via 13C relaxation: expanding perturbation mapping of the rigidifying core mutation, V54A, in eglin c. Biochemistry 47: 4876-4886.
    • (2008) Biochemistry , vol.47 , pp. 4876-4886
    • Boyer, J.A.1    Lee, A.L.2
  • 55
    • 0038630482 scopus 로고    scopus 로고
    • The effects of mutations on motions of side-chains in protein L studied by 2H NMR dynamics and scalar couplings
    • Millet O, Mittermaier A, Baker D, Kay LE, (2003) The effects of mutations on motions of side-chains in protein L studied by 2H NMR dynamics and scalar couplings. J Mol Biol 329: 551-563.
    • (2003) J Mol Biol , vol.329 , pp. 551-563
    • Millet, O.1    Mittermaier, A.2    Baker, D.3    Kay, L.E.4
  • 56
    • 25444519195 scopus 로고    scopus 로고
    • Backbone and side chain dynamics of mutant calmodulin-peptide complexes
    • Igumenova TI, Lee AL, Wand AJ, (2005) Backbone and side chain dynamics of mutant calmodulin-peptide complexes. Biochemistry 44: 12627-12639.
    • (2005) Biochemistry , vol.44 , pp. 12627-12639
    • Igumenova, T.I.1    Lee, A.L.2    Wand, A.J.3
  • 57
    • 4744347909 scopus 로고    scopus 로고
    • Long-range dynamic effects of point mutations propagate through side chains in the serine protease inhibitor eglin c
    • Clarkson MW, Lee AL, (2004) Long-range dynamic effects of point mutations propagate through side chains in the serine protease inhibitor eglin c. Biochemistry 43: 12448-12458.
    • (2004) Biochemistry , vol.43 , pp. 12448-12458
    • Clarkson, M.W.1    Lee, A.L.2
  • 58
    • 0035177019 scopus 로고    scopus 로고
    • Characterization of the structure and dynamics of amyloidogenic variants of human lysozyme by NMR spectroscopy
    • Chamberlain AK, Receveur V, Spencer A, Redfield C, Dobson CM, (2001) Characterization of the structure and dynamics of amyloidogenic variants of human lysozyme by NMR spectroscopy. Protein Sci 10: 2525-2530.
    • (2001) Protein Sci , vol.10 , pp. 2525-2530
    • Chamberlain, A.K.1    Receveur, V.2    Spencer, A.3    Redfield, C.4    Dobson, C.M.5
  • 59
    • 38549120278 scopus 로고    scopus 로고
    • New insight into long-range nonadditivity within protein double-mutant cycles
    • Istomin AY, Gromiha MM, Vorov OK, Jacobs DJ, Livesay DR, (2008) New insight into long-range nonadditivity within protein double-mutant cycles. Proteins 70: 915-924.
    • (2008) Proteins , vol.70 , pp. 915-924
    • Istomin, A.Y.1    Gromiha, M.M.2    Vorov, O.K.3    Jacobs, D.J.4    Livesay, D.R.5
  • 60
    • 75449086680 scopus 로고    scopus 로고
    • Thermostability in rubredoxin and its relationship to mechanical rigidity
    • Rader AJ, (2009) Thermostability in rubredoxin and its relationship to mechanical rigidity. Phys Biol 7: 16002.
    • (2009) Phys Biol , vol.7 , pp. 16002
    • Rader, A.J.1
  • 62
    • 0036888379 scopus 로고    scopus 로고
    • Identifying protein folding cores from the evolution of flexible regions during unfolding
    • Hespenheide BM, Rader AJ, Thorpe MF, Kuhn LA, (2002) Identifying protein folding cores from the evolution of flexible regions during unfolding. J Mol Graph Model 21: 195-207.
    • (2002) J Mol Graph Model , vol.21 , pp. 195-207
    • Hespenheide, B.M.1    Rader, A.J.2    Thorpe, M.F.3    Kuhn, L.A.4
  • 63
    • 61449127303 scopus 로고    scopus 로고
    • Identification of putative, stable binding regions through flexibility analysis of HIV-1 gp120
    • Tan H, Rader AJ, (2009) Identification of putative, stable binding regions through flexibility analysis of HIV-1 gp120. Proteins 74: 881-894.
    • (2009) Proteins , vol.74 , pp. 881-894
    • Tan, H.1    Rader, A.J.2
  • 66
    • 0003482379 scopus 로고    scopus 로고
    • Rigidity Theory and Applications;
    • In: Thorpe MF, editors, New York, Kluwer Academic/Plenum Publishers
    • Thorpe MF, Duxbury PM, (1999) Rigidity Theory and Applications; In: Thorpe MF, editors. New York Kluwer Academic/Plenum Publishers.
    • (1999)
    • Thorpe, M.F.1    Duxbury, P.M.2
  • 69
    • 0343742614 scopus 로고    scopus 로고
    • Automated design of the surface positions of protein helices
    • Dahiyat BI, Gordon DB, Mayo SL, (1997) Automated design of the surface positions of protein helices. Protein Sci 6: 1333-1337.
    • (1997) Protein Sci , vol.6 , pp. 1333-1337
    • Dahiyat, B.I.1    Gordon, D.B.2    Mayo, S.L.3
  • 70
    • 0037110473 scopus 로고    scopus 로고
    • Hydration structure of human lysozyme investigated by molecular dynamics simulation and cryogenic X-ray crystal structure analyses: on the correlation between crystal water sites, solvent density, and solvent dipole
    • Higo J, Nakasako M, (2002) Hydration structure of human lysozyme investigated by molecular dynamics simulation and cryogenic X-ray crystal structure analyses: on the correlation between crystal water sites, solvent density, and solvent dipole. J Comput Chem 23: 1323-1336.
    • (2002) J Comput Chem , vol.23 , pp. 1323-1336
    • Higo, J.1    Nakasako, M.2
  • 71
    • 0019816864 scopus 로고
    • Refinement of human lysozyme at 1.5 A resolution analysis of non-bonded and hydrogen-bond interactions
    • Artymiuk PJ, Blake CC, (1981) Refinement of human lysozyme at 1.5 A resolution analysis of non-bonded and hydrogen-bond interactions. J Mol Biol 152: 737-762.
    • (1981) J Mol Biol , vol.152 , pp. 737-762
    • Artymiuk, P.J.1    Blake, C.C.2
  • 72
    • 0027992695 scopus 로고
    • Structural changes of active site cleft and different saccharide binding modes in human lysozyme co-crystallized with hexa-N-acetyl-chitohexaose at pH 4.0
    • Song H, Inaka K, Maenaka K, Matsushima M, (1994) Structural changes of active site cleft and different saccharide binding modes in human lysozyme co-crystallized with hexa-N-acetyl-chitohexaose at pH 4.0. J Mol Biol 244: 522-540.
    • (1994) J Mol Biol , vol.244 , pp. 522-540
    • Song, H.1    Inaka, K.2    Maenaka, K.3    Matsushima, M.4
  • 73
    • 0029861465 scopus 로고    scopus 로고
    • Origin of carbohydrate recognition specificity of human lysozyme revealed by affinity labeling
    • Muraki M, Harata K, Sugita N, Sato K, (1996) Origin of carbohydrate recognition specificity of human lysozyme revealed by affinity labeling. Biochemistry 35: 13562-13567.
    • (1996) Biochemistry , vol.35 , pp. 13562-13567
    • Muraki, M.1    Harata, K.2    Sugita, N.3    Sato, K.4
  • 74
    • 34247569910 scopus 로고    scopus 로고
    • Convergent chemical synthesis and high-resolution x-ray structure of human lysozyme
    • Durek T, Torbeev VY, Kent SB, (2007) Convergent chemical synthesis and high-resolution x-ray structure of human lysozyme. Proc Natl Acad Sci U S A 104: 4846-4851.
    • (2007) Proc Natl Acad Sci U S A , vol.104 , pp. 4846-4851
    • Durek, T.1    Torbeev, V.Y.2    Kent, S.B.3
  • 75
    • 0036713997 scopus 로고    scopus 로고
    • Nonlinear temperature dependence of the crystal structure of lysozyme: correlation between coordinate shifts and thermal factors
    • Joti Y, Nakasako M, Kidera A, Go N, (2002) Nonlinear temperature dependence of the crystal structure of lysozyme: correlation between coordinate shifts and thermal factors. Acta Crystallogr D Biol Crystallogr 58: 1421-1432.
    • (2002) Acta Crystallogr D Biol Crystallogr , vol.58 , pp. 1421-1432
    • Joti, Y.1    Nakasako, M.2    Kidera, A.3    Go, N.4
  • 76
    • 0032581023 scopus 로고    scopus 로고
    • Contribution of hydrogen bonds to the conformational stability of human lysozyme: calorimetry and X-ray analysis of six tyrosine→phenylalanine mutants
    • Yamagata Y, Kubota M, Sumikawa Y, Funahashi J, Takano K, et al. (1998) Contribution of hydrogen bonds to the conformational stability of human lysozyme: calorimetry and X-ray analysis of six tyrosine→phenylalanine mutants. Biochemistry 37: 9355-9362.
    • (1998) Biochemistry , vol.37 , pp. 9355-9362
    • Yamagata, Y.1    Kubota, M.2    Sumikawa, Y.3    Funahashi, J.4    Takano, K.5
  • 77
    • 0031050618 scopus 로고    scopus 로고
    • Contribution of the hydrophobic effect to the stability of human lysozyme: calorimetric studies and X-ray structural analyses of the nine valine to alanine mutants
    • Takano K, Yamagata Y, Fujii S, Yutani K, (1997) Contribution of the hydrophobic effect to the stability of human lysozyme: calorimetric studies and X-ray structural analyses of the nine valine to alanine mutants. Biochemistry 36: 688-698.
    • (1997) Biochemistry , vol.36 , pp. 688-698
    • Takano, K.1    Yamagata, Y.2    Fujii, S.3    Yutani, K.4
  • 78
    • 0033485411 scopus 로고    scopus 로고
    • Effect of foreign N-terminal residues on the conformational stability of human lysozyme
    • Takano K, Tsuchimori K, Yamagata Y, Yutani K, (1999) Effect of foreign N-terminal residues on the conformational stability of human lysozyme. Eur J Biochem 266: 675-682.
    • (1999) Eur J Biochem , vol.266 , pp. 675-682
    • Takano, K.1    Tsuchimori, K.2    Yamagata, Y.3    Yutani, K.4
  • 79
    • 0032834649 scopus 로고    scopus 로고
    • Experimental verification of the 'stability profile of mutant protein' (SPMP) data using mutant human lysozymes
    • Takano K, Ota M, Ogasahara K, Yamagata Y, Nishikawa K, et al. (1999) Experimental verification of the 'stability profile of mutant protein' (SPMP) data using mutant human lysozymes. Protein Eng 12: 663-672.
    • (1999) Protein Eng , vol.12 , pp. 663-672
    • Takano, K.1    Ota, M.2    Ogasahara, K.3    Yamagata, Y.4    Nishikawa, K.5
  • 80
    • 0032744714 scopus 로고    scopus 로고
    • Contribution of amino acid substitutions at two different interior positions to the conformational stability of human lysozyme
    • Funahashi J, Takano K, Yamagata Y, Yutani K, (1999) Contribution of amino acid substitutions at two different interior positions to the conformational stability of human lysozyme. Protein Eng 12: 841-850.
    • (1999) Protein Eng , vol.12 , pp. 841-850
    • Funahashi, J.1    Takano, K.2    Yamagata, Y.3    Yutani, K.4
  • 81
    • 0030474922 scopus 로고    scopus 로고
    • The structure, stability, and folding process of amyloidogenic mutant human lysozyme
    • Funahashi J, Takano K, Ogasahara K, Yamagata Y, Yutani K, (1996) The structure, stability, and folding process of amyloidogenic mutant human lysozyme. J Biochem 120: 1216-1223.
    • (1996) J Biochem , vol.120 , pp. 1216-1223
    • Funahashi, J.1    Takano, K.2    Ogasahara, K.3    Yamagata, Y.4    Yutani, K.5
  • 82
    • 0026714968 scopus 로고
    • Role of proline residues in human lysozyme stability: a scanning calorimetric study combined with X-ray structure analysis of proline mutants
    • Herning T, Yutani K, Inaka K, Kuroki R, Matsushima M, et al. (1992) Role of proline residues in human lysozyme stability: a scanning calorimetric study combined with X-ray structure analysis of proline mutants. Biochemistry 31: 7077-7085.
    • (1992) Biochemistry , vol.31 , pp. 7077-7085
    • Herning, T.1    Yutani, K.2    Inaka, K.3    Kuroki, R.4    Matsushima, M.5
  • 83
    • 23144457576 scopus 로고    scopus 로고
    • H++: a server for estimating pKas and adding missing hydrogens to macromolecules
    • Gordon JC, Myers JB, Folta T, Shoja V, Heath LS, et al. (2005) H++: a server for estimating pKas and adding missing hydrogens to macromolecules. Nucleic Acids Res 33: W368-371.
    • (2005) Nucleic Acids Res , vol.33
    • Gordon, J.C.1    Myers, J.B.2    Folta, T.3    Shoja, V.4    Heath, L.S.5
  • 84
    • 0242443693 scopus 로고    scopus 로고
    • Force fields for protein simulations
    • Ponder JW, Case DA, (2003) Force fields for protein simulations. Adv Protein Chem 66: 27-85.
    • (2003) Adv Protein Chem , vol.66 , pp. 27-85
    • Ponder, J.W.1    Case, D.A.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.