Kinetics of transient end-to-end contact of single-stranded DNAs

被引:25
作者
Kawai, K [1 ]
Yoshida, H [1 ]
Sugimoto, A [1 ]
Fujitsuka, M [1 ]
Majima, T [1 ]
机构
[1] Osaka Univ, Inst Sci & Ind Res, SANKEN, Osaka 5670047, Japan
关键词
D O I
10.1021/ja0524999
中图分类号
O6 [化学];
学科分类号
0703 ;
摘要
The formation of the pyrene (Py) dimer radical cation (PY2 center dot+) was used to measure the kinetics of the intrastrand end-to-end contact rates of single-stranded DNAs (ssDNAs) in the 10 nanoseconds to the tens of microseconds time range. ssDNAs labeled with Py at both ends with the lengths of 3, 6, and 9 mer were synthesized, and the two-photon ionization method was employed to generate a Py center dot+, which enables the measurements of the end-to-end contact rates from 10 ns. The formation rate of PY2 center dot+ depended on the length and the sequence of the ssDNAs, and about 1 order of magnitude faster rates were observed for the T-rich ssDNAs compared to those for the corresponding length of A-rich ssDNAs, showing that ssDNA made from adenines is much more rigid than thatcomposed of thymidines. As forthe T-rich ssDNAs, the formation Of PY2 center dot+ attributed to the misfolded structures was also observed, which is consistent with the configurational diffusion model suggested by Ansari and co-workers.
引用
收藏
页码:13232 / 13237
页数:6
相关论文
共 55 条
  • [1] Amann N, 2002, ANGEW CHEM INT EDIT, V41, P2978, DOI 10.1002/1521-3773(20020816)41:16<2978::AID-ANIE2978>3.0.CO
  • [2] 2-5
  • [3] Configurational diffusion down a folding funnel describes the dynamics of DNA hairpins
    Ansari, A
    Kuznetsov, SV
    Shen, YQ
    [J]. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2001, 98 (14) : 7771 - 7776
  • [4] Kinetics of conformational fluctuations in DNA hairpin-loops
    Bonnet, G
    Krichevsky, O
    Libchaber, A
    [J]. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 1998, 95 (15) : 8602 - 8606
  • [5] Structure-function correlations of the insulin-linked polymorphic region
    Catasti, P
    Chen, X
    Moyzis, RK
    Bradbury, EM
    Gupta, G
    [J]. JOURNAL OF MOLECULAR BIOLOGY, 1996, 264 (03) : 534 - 545
  • [6] INTRAMOLECULAR EXCIMER FORMATION OF PYRENE-LABELED LIPIDS IN LAMELLAR AND INVERTED HEXAGONAL PHASES OF LIPID MIXTURES CONTAINING UNSATURATED PHOSPHATIDYLETHANOLAMINE
    CHENG, KH
    CHEN, SY
    BUTKO, P
    VANDERMEER, BW
    SOMERHARJU, P
    [J]. BIOPHYSICAL CHEMISTRY, 1991, 39 (02) : 137 - 144
  • [7] EVIDENCE FOR INTRAMOLECULAR HYDROPHOBIC ASSOCIATION IN AQUEOUS-SOLUTION FOR PYRENE-END-CAPPED POLY(ETHYLENE OXIDE)
    DUHAMEL, J
    YEKTA, A
    HU, YZ
    WINNIK, MA
    [J]. MACROMOLECULES, 1992, 25 (25) : 7024 - 7030
  • [8] EXCIMER FLUORESCENCE OF (+)-ANTI-BENZO(A)PYRENE DIOL EPOXIDE COVALENTLY BOUND TO POLY(DG-DC) - STRUCTURAL IMPLICATIONS
    ERIKSSON, M
    ERIKSSON, S
    NORDEN, B
    JERNSTROM, B
    GRASLUND, A
    [J]. BIOPOLYMERS, 1990, 29 (8-9) : 1249 - 1260
  • [9] LOCATION OF EXCIMER-FORMING ADDUCTS OF (+)-ANTI-BENZO[A]PYRENE DIOL EPOXIDE IN DNA
    ERIKSSON, M
    KIM, SK
    SEN, S
    GRASLUND, A
    JERNSTROM, B
    NORDEN, B
    [J]. JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, 1993, 115 (05) : 1639 - 1644
  • [10] Fluorescence study of the coil-globule transition of a PEO chain in toluene
    Farinha, JPS
    Piçarra, S
    Miesel, K
    Martinho, JMG
    [J]. JOURNAL OF PHYSICAL CHEMISTRY B, 2001, 105 (43) : 10536 - 10545