메뉴 건너뛰기




Volumn 26, Issue , 1997, Pages 629-658

Site-specific dynamics in DNA: Experiments

Author keywords

DNA; Dynamics; Electron paramagnetic resonance (EPR); Magnetic resonance; Nuclear magnetic resonance (NMR); Nucleic acid

Indexed keywords

DOUBLE STRANDED DNA; OLIGONUCLEOTIDE;

EID: 0030920687     PISSN: 10568700     EISSN: None     Source Type: Book Series    
DOI: 10.1146/annurev.biophys.26.1.629     Document Type: Review
Times cited : (48)

References (56)
  • 1
    • 0025264158 scopus 로고
    • Dynamics in synthetic oligonucleotides. A solid-state deuterium NMR study
    • Alam TM, Drobny G. 1990. Dynamics in synthetic oligonucleotides. A solid-state deuterium NMR study. Biochemistry 29(14):3421-30
    • (1990) Biochemistry , vol.29 , Issue.14 , pp. 3421-3430
    • Alam, T.M.1    Drobny, G.2
  • 2
    • 0001599904 scopus 로고
    • Magnetic ordering in synthetic oligonucleotides: A deuterium NMR investigation
    • Alam TM, Drobny GP. 1990. Magnetic ordering in synthetic oligonucleotides: a deuterium NMR investigation. J. Chem. Phys. 92(11):6840-46
    • (1990) J. Chem. Phys. , vol.92 , Issue.11 , pp. 6840-6846
    • Alam, T.M.1    Drobny, G.P.2
  • 3
    • 0000096326 scopus 로고
    • Solid-state NMR studies of DNA structure and dynamics
    • Alam TM, Drobny GP. 1991. Solid-state NMR studies of DNA structure and dynamics. Chem. Rev. 91:1545-90
    • (1991) Chem. Rev. , vol.91 , pp. 1545-1590
    • Alam, T.M.1    Drobny, G.P.2
  • 4
    • 0025005997 scopus 로고
    • A solid-state deuterium NMR investigation of conformation and order in magnetically oriented [d(CGCGAATTCGCG)]2
    • Alam TM, Orban J, Drobny G. 1990. A solid-state deuterium NMR investigation of conformation and order in magnetically oriented [d(CGCGAATTCGCG)]2. Biochemistry 29(41):9610-17
    • (1990) Biochemistry , vol.29 , Issue.41 , pp. 9610-9617
    • Alam, T.M.1    Orban, J.2    Drobny, G.3
  • 5
    • 0013145418 scopus 로고
    • Brownian dynamics simulations of diffusion-influenced reactions. Inclusion of intrinsic reactivity and gating
    • Allison SA, McCammon JA, Sines JJ. 1990. Brownian dynamics simulations of diffusion-influenced reactions. Inclusion of intrinsic reactivity and gating. J. Phys. Chem. 94(18):7133-36
    • (1990) J. Phys. Chem. , vol.94 , Issue.18 , pp. 7133-7136
    • Allison, S.A.1    McCammon, J.A.2    Sines, J.J.3
  • 6
    • 0001045906 scopus 로고
    • 1H coupling constants in DNA fragments by 2D NMR
    • 1H coupling constants in DNA fragments by 2D NMR. J. Magn. Reson. 79(3):429-38
    • (1988) J. Magn. Reson. , vol.79 , Issue.3 , pp. 429-438
    • Bax, A.1    Lerner, L.2
  • 7
    • 0001524329 scopus 로고
    • Nitrogen-15 and deuterium substituted spin labels for studies of very slow rotational motion
    • ed. LJ Berliner, J Reuben, New York: Plenum
    • Beth AH, Robinson BH. 1989. Nitrogen-15 and deuterium substituted spin labels for studies of very slow rotational motion. In Spin Labeling: Theory and Application, ed. LJ Berliner, J Reuben, 8:179-253. New York: Plenum
    • (1989) Spin Labeling: Theory and Application , vol.8 , pp. 179-253
    • Beth, A.H.1    Robinson, B.H.2
  • 8
    • 0002625053 scopus 로고
    • Applications of spin labeling to nucleic acids
    • ed. LJ Berliner, New York: Academic
    • Bobst AM. 1979. Applications of spin labeling to nucleic acids. In Spin Labeling: Theory and Applications, ed. LJ Berliner, 2:291-345. New York: Academic
    • (1979) Spin Labeling: Theory and Applications , vol.2 , pp. 291-345
    • Bobst, A.M.1
  • 9
    • 0021337798 scopus 로고
    • Dipsticking the major groove of DNA with enzymatically incorporated spin labeled deoxyuridines by electron spin resonance spectroscopy
    • Bobst AM, Kao S-C, Toppin RC, Ireland JC, Thomas IE. 1984. Dipsticking the major groove of DNA with enzymatically incorporated spin labeled deoxyuridines by electron spin resonance spectroscopy. J. Mol. Biol. 176:63-74
    • (1984) J. Mol. Biol. , vol.176 , pp. 63-74
    • Bobst, A.M.1    Kao, S.-C.2    Toppin, R.C.3    Ireland, J.C.4    Thomas, I.E.5
  • 10
    • 0024281214 scopus 로고
    • Enzymatic sequence-specific spin labeling of a DNA fragment containing the recognition sequence of EcoRI
    • Bobst AM, Pauly GT, Keyes RS, Bobst EV. 1988. Enzymatic sequence-specific spin labeling of a DNA fragment containing the recognition sequence of EcoRI. FEBS Lett. 228:33-36
    • (1988) FEBS Lett. , vol.228 , pp. 33-36
    • Bobst, A.M.1    Pauly, G.T.2    Keyes, R.S.3    Bobst, E.V.4
  • 11
    • 0029759440 scopus 로고    scopus 로고
    • Spectroscopic probe for the detection of local DNA bending at an AAA triplet
    • Bobst EV, Keyes RS, Cao YY, Bobst AM. 1996. Spectroscopic probe for the detection of local DNA bending at an AAA triplet. Biochemistry 35(29):9309-13
    • (1996) Biochemistry , vol.35 , Issue.29 , pp. 9309-9313
    • Bobst, E.V.1    Keyes, R.S.2    Cao, Y.Y.3    Bobst, A.M.4
  • 12
    • 0024046398 scopus 로고
    • 2H-NMR study of the A-DNA conformation in films of oriented Na-DNA: Evidence of a disordered B-DNA contribution
    • 2H-NMR study of the A-DNA conformation in films of oriented Na-DNA: evidence of a disordered B-DNA contribution. Biopolymers 27(7):1159-70
    • (1988) Biopolymers , vol.27 , Issue.7 , pp. 1159-1170
    • Brandes, R.1    Vold, R.R.2    Kearns, D.R.3    Rupprecht, A.4
  • 13
    • 0024292931 scopus 로고
    • Static disorder and librational motions of the purine bases in films of oriented Li-DNA
    • Brandes R, Vold RR, Kearns DR, Rupprecht A. 1988. Static disorder and librational motions of the purine bases in films of oriented Li-DNA. J. Mol. Biol. 202(2):321-32
    • (1988) J. Mol. Biol. , vol.202 , Issue.2 , pp. 321-332
    • Brandes, R.1    Vold, R.R.2    Kearns, D.R.3    Rupprecht, A.4
  • 14
    • 0025137855 scopus 로고
    • Deuterium relaxation and internal motion in solid Li-DNA
    • Brandes R, Vold RR, Kearns DR, Rupprecht A. 1990. Deuterium relaxation and internal motion in solid Li-DNA. Biochemistry 29(7):1711-21
    • (1990) Biochemistry , vol.29 , Issue.7 , pp. 1711-1721
    • Brandes, R.1    Vold, R.R.2    Kearns, D.R.3    Rupprecht, A.4
  • 15
    • 0022845531 scopus 로고
    • Effects of hydration on purine motion in solid DNA
    • Brandes R, Vold RR, Vold RL, Kearns DR. 1986. Effects of hydration on purine motion in solid DNA. Biochemistry 25(23):7744-51
    • (1986) Biochemistry , vol.25 , Issue.23 , pp. 7744-7751
    • Brandes, R.1    Vold, R.R.2    Vold, R.L.3    Kearns, D.R.4
  • 17
    • 0019387686 scopus 로고
    • Structure of a B-DNA dodecamer. II. Influence of base sequence on helix structure
    • Dickerson RE, Drew HR. 1981. Structure of a B-DNA dodecamer. II. Influence of base sequence on helix structure. J. Mol. Biol. 149(4):761-86
    • (1981) J. Mol. Biol. , vol.149 , Issue.4 , pp. 761-786
    • Dickerson, R.E.1    Drew, H.R.2
  • 18
    • 0019843568 scopus 로고
    • Structure of a B-DNA dodecamer. III. Geometry of hydration
    • Drew HR, Dickerson RE. 1981. Structure of a B-DNA dodecamer. III. Geometry of hydration. J. Mol. Biol. 151(3):535-56
    • (1981) J. Mol. Biol. , vol.151 , Issue.3 , pp. 535-556
    • Drew, H.R.1    Dickerson, R.E.2
  • 20
    • 0025139834 scopus 로고
    • Characterization of the overall and internal dynamics of short oligonucleotides by depolarized dynamic light scattering and NMR relaxation measurements
    • Eimer W, Williamson JR, Boxer SG, Pecora R. 1990. Characterization of the overall and internal dynamics of short oligonucleotides by depolarized dynamic light scattering and NMR relaxation measurements. Biochemistry 29:799-811
    • (1990) Biochemistry , vol.29 , pp. 799-811
    • Eimer, W.1    Williamson, J.R.2    Boxer, S.G.3    Pecora, R.4
  • 21
    • 0002844265 scopus 로고
    • Theory of slow tumbling ESR spectra for nitroxides
    • ed. LJ Berliner, New York: Academic
    • Freed JH. 1976. Theory of slow tumbling ESR spectra for nitroxides. In Spin Labeling: Theory and Applications, ed. LJ Berliner, 1:53-132. New York: Academic
    • (1976) Spin Labeling: Theory and Applications , vol.1 , pp. 53-132
    • Freed, J.H.1
  • 22
    • 0025366778 scopus 로고
    • Dependence of the torsional rigidity of DNA on base composition
    • Fujimoto BS, Schurr JM. 1990. Dependence of the torsional rigidity of DNA on base composition. Nature 344(6262):175-78
    • (1990) Nature , vol.344 , Issue.6262 , pp. 175-178
    • Fujimoto, B.S.1    Schurr, J.M.2
  • 23
    • 0001061501 scopus 로고
    • Lipid spin labels in biological membranes
    • ed. LJ Berliner, New York: Academic
    • Griffith OH, Jost P. 1976. Lipid spin labels in biological membranes. In Spin Labeling: Theory and Applications, ed. LJ Berliner, 1:454-523. New York: Academic
    • (1976) Spin Labeling: Theory and Applications , vol.1 , pp. 454-523
    • Griffith, O.H.1    Jost, P.2
  • 25
    • 0021105577 scopus 로고
    • Assignment of the non-exchangeable proton resonances of d(C-G-C-G-A-A-T-T-C-G-C-G) using two-dimensional nuclear magnetic resonance methods
    • Hare DR, Wemmer DE, Chou SH, Drobny G, Reid BR. 1983. Assignment of the non-exchangeable proton resonances of d(C-G-C-G-A-A-T-T-C-G-C-G) using two-dimensional nuclear magnetic resonance methods. J. Mol. Biol. 171(3):319-36
    • (1983) J. Mol. Biol. , vol.171 , Issue.3 , pp. 319-336
    • Hare, D.R.1    Wemmer, D.E.2    Chou, S.H.3    Drobny, G.4    Reid, B.R.5
  • 26
    • 0021166273 scopus 로고
    • Local mobility of nucleic acids as determined from crystallographic data. I. RNA and B form DNA
    • Holbrook SR, Kim SH. 1984. Local mobility of nucleic acids as determined from crystallographic data. I. RNA and B form DNA. J. Mol. Biol. 173(3):361-88
    • (1984) J. Mol. Biol. , vol.173 , Issue.3 , pp. 361-388
    • Holbrook, S.R.1    Kim, S.H.2
  • 27
    • 0025694497 scopus 로고
    • A solid state deuterium NMR study of furanose ring dynamics in [d(CGCGAATTCGCG)]2
    • Huang W-C, Orban J, Kintanar A, Reid BR, Drobny GP. 1990. A solid state deuterium NMR study of furanose ring dynamics in [d(CGCGAATTCGCG)]2. J. Am. Chem. Soc. 112:9059-68
    • (1990) J. Am. Chem. Soc. , vol.112 , pp. 9059-9068
    • Huang, W.-C.1    Orban, J.2    Kintanar, A.3    Reid, B.R.4    Drobny, G.P.5
  • 29
  • 30
    • 0029145327 scopus 로고
    • Detection of internal and overall dynamics of a two-atom-tethered spin-labeled DNA
    • Keyes RS, Bobst AM. 1995. Detection of internal and overall dynamics of a two-atom-tethered spin-labeled DNA. Biochemistry 34:9265-76
    • (1995) Biochemistry , vol.34 , pp. 9265-9276
    • Keyes, R.S.1    Bobst, A.M.2
  • 33
    • 0020692923 scopus 로고
    • Ordered water structure around a B-DNA dodecamer. A quantitative study
    • Kopka ML, Fratini AV, Drew HR, Dickerson RE. 1983. Ordered water structure around a B-DNA dodecamer. A quantitative study. J. Mol. Biol. 163(1):129-46
    • (1983) J. Mol. Biol. , vol.163 , Issue.1 , pp. 129-146
    • Kopka, M.L.1    Fratini, A.V.2    Drew, H.R.3    Dickerson, R.E.4
  • 35
    • 0022964809 scopus 로고
    • Structure of the DNA-Eco RI endonuclease recognition complex at 3 Å resolution
    • McClarin JA, Frederick CA, Wang BC, Greene P, Boyer HW, et al. 1986. Structure of the DNA-Eco RI endonuclease recognition complex at 3 Å resolution. Science 234:1526-41
    • (1986) Science , vol.234 , pp. 1526-1541
    • McClarin, J.A.1    Frederick, C.A.2    Wang, B.C.3    Greene, P.4    Boyer, H.W.5
  • 37
    • 0020430519 scopus 로고
    • Studies on sequence recognition by type II restriction and modification enzymes
    • Modrich P. 1982. Studies on sequence recognition by type II restriction and modification enzymes. CRC Crit. Rev. Biochem. 13:287-323
    • (1982) CRC Crit. Rev. Biochem. , vol.13 , pp. 287-323
    • Modrich, P.1
  • 38
    • 0024788819 scopus 로고
    • Solution structure of the EcoR1 DNA sequence: Refinement of NMR-derived distance geometry structures by NOSEY-spectrum back-calculations
    • Nerdal W, Hare DR, Reid BR. 1989. Solution structure of the EcoR1 DNA sequence: refinement of NMR-derived distance geometry structures by NOSEY-spectrum back-calculations. Biochemistry 28:10008-22
    • (1989) Biochemistry , vol.28 , pp. 10008-10022
    • Nerdal, W.1    Hare, D.R.2    Reid, B.R.3
  • 40
    • 0026108691 scopus 로고
    • DNA: A model compound for solution studies of macromolecules
    • Pecora R. 1991. DNA: a model compound for solution studies of macromolecules. Science 251:893-97
    • (1991) Science , vol.251 , pp. 893-897
    • Pecora, R.1
  • 41
    • 0027561360 scopus 로고
    • Persistence analysis of the static and dynamical helix deformation of DNA oligonucleotides
    • Pr'evost C, Louse-May S, Ravishanaker G, Lavery R, Beveridge DL. 1993. Persistence analysis of the static and dynamical helix deformation of DNA oligonucleotides. Biopolymers 33:335-50
    • (1993) Biopolymers , vol.33 , pp. 335-350
    • Pr'evost, C.1    Louse-May, S.2    Ravishanaker, G.3    Lavery, R.4    Beveridge, D.L.5
  • 44
    • 0029026516 scopus 로고
    • Static contributions to the persistence length of DNA and dynamic contributions to DNA curvature
    • Schellman JA, Harvey CH. 1995. Static contributions to the persistence length of DNA and dynamic contributions to DNA curvature. Biophys. Chem. 55:95-114
    • (1995) Biophys. Chem. , vol.55 , pp. 95-114
    • Schellman, J.A.1    Harvey, C.H.2
  • 45
    • 0000166387 scopus 로고
    • Fluorescence studies of nucleic acids: Dynamics, rigidities, and structures
    • ed. JR Lakowicz, New York: Plenum
    • Schurr JM, Fujimoto BS, Wu P, Song L. 1992. Fluorescence studies of nucleic acids: dynamics, rigidities, and structures. In Topics in Fluorescence Spectroscopy, ed. JR Lakowicz, 3:137-229. New York: Plenum
    • (1992) Topics in Fluorescence Spectroscopy , vol.3 , pp. 137-229
    • Schurr, J.M.1    Fujimoto, B.S.2    Wu, P.3    Song, L.4
  • 46
    • 0022389525 scopus 로고
    • Rotational dynamics of DNA from 10(-10) to 10(-5) seconds: Comparison of theory with optical experiments
    • Shibata JH, Fujimoto BS, Schurr JM. 1985. Rotational dynamics of DNA from 10(-10) to 10(-5) seconds: comparison of theory with optical experiments. Biopolymers 24:1909-30
    • (1985) Biopolymers , vol.24 , pp. 1909-1930
    • Shibata, J.H.1    Fujimoto, B.S.2    Schurr, J.M.3
  • 47
    • 0025370846 scopus 로고
    • Normal mode theory for Brownian dynamics of a weakly bending rod: Comparison with Brownian dynamics simulations
    • Song L, Allison SA, Schurr JM. 1990. Normal mode theory for Brownian dynamics of a weakly bending rod: comparison with Brownian dynamics simulations. Biopolymers 29:1773-91
    • (1990) Biopolymers , vol.29 , pp. 1773-1791
    • Song, L.1    Allison, S.A.2    Schurr, J.M.3
  • 49
    • 0024368385 scopus 로고
    • Sequence- and structure-dependent DNA base dynamics: Synthesis, structure, and dynamics of site and sequence specifically spin-labeled DNA
    • Spaltenstein A, Robinson BH, Hopkins PB. 1989. Sequence- and structure-dependent DNA base dynamics: synthesis, structure, and dynamics of site and sequence specifically spin-labeled DNA. Biochemistry 28(24):9484-95
    • (1989) Biochemistry , vol.28 , Issue.24 , pp. 9484-9495
    • Spaltenstein, A.1    Robinson, B.H.2    Hopkins, P.B.3
  • 50
    • 0024996245 scopus 로고
    • Base dynamics of local Z-DNA conformations as detected by EPR with spin-labeled deoxycytidine analogues
    • Strobel OK, Keyes RS, Bobst AM. 1990. Base dynamics of local Z-DNA conformations as detected by EPR with spin-labeled deoxycytidine analogues. Biochemistry 29:8522-28
    • (1990) Biochemistry , vol.29 , pp. 8522-8528
    • Strobel, O.K.1    Keyes, R.S.2    Bobst, A.M.3
  • 51
    • 26544473673 scopus 로고
    • Rotational dynamics of a rigid symmetric top macromolecule application to circular cylinders
    • Tirado MM, de la Torre JG. 1980. Rotational dynamics of a rigid symmetric top macromolecule application to circular cylinders. J. Chem. Phys. 73:1986-93
    • (1980) J. Chem. Phys. , vol.73 , pp. 1986-1993
    • Tirado, M.M.1    De La Torre, J.G.2
  • 52
    • 0000481877 scopus 로고
    • Rapid anisotropic motion of spin labels: Models for motion averaging of the ESR parameters
    • Van SP, Birrell GB, Griffith OH. 1974. Rapid anisotropic motion of spin labels: models for motion averaging of the ESR parameters. J. Magn. Reson. 15:444-59
    • (1974) J. Magn. Reson. , vol.15 , pp. 444-459
    • Van, S.P.1    Birrell, G.B.2    Griffith, O.H.3
  • 53
    • 0020838451 scopus 로고
    • Temperature dependence of the dynamic light scattering of linear Ø29 DNA: Implications for spontaneous opening of the double helix
    • Wilcoxon J, Schurr JM. 1983. Temperature dependence of the dynamic light scattering of linear Ø29 DNA: implications for spontaneous opening of the double helix. Biopolymers 22:2273-321
    • (1983) Biopolymers , vol.22 , pp. 2273-2321
    • Wilcoxon, J.1    Schurr, J.M.2
  • 54
    • 0019331504 scopus 로고
    • Crystal structure analysis of a complete turn of B-DNA
    • Wing R, Drew H, Takano T, Broka C, Tanaka S, et al. 1980. Crystal structure analysis of a complete turn of B-DNA. Nature 287(5784):755-58
    • (1980) Nature , vol.287 , Issue.5784 , pp. 755-758
    • Wing, R.1    Drew, H.2    Takano, T.3    Broka, C.4    Tanaka, S.5
  • 55
    • 0026511587 scopus 로고
    • Toward a dynamical structure of DNA, comparison of theoretical and experimental NOE intensities
    • Withka JM, Swaminathan S, Srinivasan J, Beveridge DL, Bolton PH. 1992. Toward a dynamical structure of DNA, comparison of theoretical and experimental NOE intensities. Science 255:597-99
    • (1992) Science , vol.255 , pp. 597-599
    • Withka, J.M.1    Swaminathan, S.2    Srinivasan, J.3    Beveridge, D.L.4    Bolton, P.H.5
  • 56
    • 0023408482 scopus 로고
    • Time-resolved FPA of short restriction fragments. The friction factor for rotation of DNA about its symmetry axis
    • Wu P, Fujimoto BS, Schurr JM. 1987. Time-resolved FPA of short restriction fragments. The friction factor for rotation of DNA about its symmetry axis. Biopolymers 26:1463-88
    • (1987) Biopolymers , vol.26 , pp. 1463-1488
    • Wu, P.1    Fujimoto, B.S.2    Schurr, J.M.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.