Thermodynamic comparison of PNA/DNA and DNA/DNA hybridization reactions at ambient temperature

被引:65
作者
Schwarz, FP
Robinson, S
Butler, JM
机构
[1] Natl Inst Stand & Technol, Ctr Adv Res Biotechnol, Rockville, MD 20850 USA
[2] Natl Inst Stand & Technol, Div Biotechnol, Gaithersburg, MD 20899 USA
关键词
D O I
10.1093/nar/27.24.4792
中图分类号
Q5 [生物化学]; Q7 [分子生物学];
学科分类号
071010 ; 081704 ;
摘要
The thermodynamics of 13 hybridization reactions between 10 base DNA sequences of design 5'-ATGCXYATGC-3' with X, Y = A, C, G, T and their complementary PNA and DNA sequences were determined from isothermal titration calorimetry (ITC) measurements at ambient temperature. For the PNA/DNA hybridization reactions, the binding constants range from 1.8 x 10(6) M-1 for PNA(TT)/DNA to 4.15 x 10(7) M-1 for PNA(GA)/DNA and the binding enthalpies range from -194 kJ mol(-1) for PNA(CG)/DNA to -77 kJ mol(-1) for PNA(GT)/DNA. For the corresponding DNA/ DNA binding reactions, the binding constants range from 2.9 x 10(5) M-1 for DNA(GT)/DNA to 1.9 x 10(7) M-1 for PNA(GA)/DNA and the binding enthalpies range from -223 kJ mol(-1) for DNA(CG)/DNA to -124 kJ mol(-1) for DNA(TT)/DNA. Most of the PNA sequences exhibited tighter binding affinities than their corresponding DNA sequences resulting from smaller entropy changes in the PNA/DNA hybridization reactions. van't Hoff enthalpies and extrapolated Delta G values determined from UV melting studies on the duplexes exhibited closer agreement with the ITC binding enthalpies and Delta G values for the, DNA/DNA duplexes than for the PNA/DNA duplexes.
引用
收藏
页码:4792 / 4800
页数:9
相关论文
共 41 条
[31]   Crystal structure of a peptide nucleic acid (PNA) duplex at 1.7 angstrom resolution [J].
Rasmussen, H ;
Kastrup, JS ;
Nielsen, JN ;
Nielsen, JM ;
Nielsen, PE .
NATURE STRUCTURAL BIOLOGY, 1997, 4 (02) :98-101
[32]   Hybridization of peptide nucleic acid [J].
Ratilainen, T ;
Holmén, A ;
Tuite, E ;
Haaima, G ;
Christensen, L ;
Nielsen, PE ;
Nordén, B .
BIOCHEMISTRY, 1998, 37 (35) :12331-12342
[33]   Improved nearest-neighbor parameters for predicting DNA duplex stability [J].
SantaLucia, J ;
Allawi, HT ;
Seneviratne, A .
BIOCHEMISTRY, 1996, 35 (11) :3555-3562
[34]  
SCHWARZ FP, 1993, J BIOL CHEM, V268, P7668
[35]   POSITIVE-ION FAST-ATOM-BOMBARDMENT TANDEM MASS-SPECTROMETRY OF PEPTIDE NUCLEIC-ACIDS [J].
TAKAO, T ;
FUKUDA, H ;
COULL, J ;
SHIMONISHI, Y .
RAPID COMMUNICATIONS IN MASS SPECTROMETRY, 1994, 8 (12) :925-928
[36]   Simple and sensitive detection of mutations in the ras proto-oncogenes using PNA-mediated PCR clamping [J].
Thiede, C ;
Bayerdorffer, E ;
Blasczyk, R ;
Wittig, B ;
Neubauer, A .
NUCLEIC ACIDS RESEARCH, 1996, 24 (05) :983-984
[37]   Ionic effects on the stability and conformation of peptide nucleic acid complexes [J].
Tomac, S ;
Sarkar, M ;
Ratilainen, T ;
Wittung, P ;
Nielsen, PE ;
Norden, B ;
Graslund, A .
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, 1996, 118 (24) :5544-5552
[38]   THE CONTRIBUTION OF DNA SINGLE-STRANDED ORDER TO THE THERMODYNAMICS OF DUPLEX FORMATION [J].
VESNAVER, G ;
BRESLAUER, KJ .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 1991, 88 (09) :3569-3573
[39]   Peptide nucleic acid probes for sequence-specific DNA biosensors [J].
Wang, J ;
Palecek, E ;
Nielsen, PE ;
Rivas, G ;
Cai, XH ;
Shiraishi, H ;
Dontha, N ;
Luo, DB ;
Farias, PAM .
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, 1996, 118 (33) :7667-7670
[40]   RAPID MEASUREMENT OF BINDING CONSTANTS AND HEATS OF BINDING USING A NEW TITRATION CALORIMETER [J].
WISEMAN, T ;
WILLISTON, S ;
BRANDTS, JF ;
LIN, LN .
ANALYTICAL BIOCHEMISTRY, 1989, 179 (01) :131-137