Nuclear Magnetic Resonance Studies of the Helix-coil Transition of Poly (dA-dT) in Aqueous Solution

Overview

Journal Proc Natl Acad Sci U S A

Specialty Science

Date 1976 Mar 1

PMID 1062778

Citations 16

Authors

D J Patel

L Canuel

Affiliations

Soon will be listed here.

Abstract

The well-resolved base and sugar proton resonances in the high resolution proton nuclear magnetic resonance (NMR) spectra of poly(dA-dT) can be monitored during the helix-coil transition. The observable resonances shift upfield on helix formation and the temperature-dependent chemical shifts exhibit a melting temperature t 1/2 = 69.9 +/- 0.3 degrees for 18.8 mM (with respect to phosphorus) poly(dA-dT) in 0.5 M Tris, 0.1 M cacodylate, D2O, pH 7.05. The observable protons are in fast exchange throughout the poly (dA-dT) helix-coil transition. The adenine H2 resonance that shifts upfield by about 1 ppm on helix formation exhibits uncertainty broadening in the fast exchange region...

Citing Articles

Conformational transitions of poly(dA-dT)poly(dA-dT) in ethanolic solutions.

Vorlickova M, Sedlacek P, Kypr J, SPONAR J Nucleic Acids Res. 1982; 10(21):6969-79.

PMID: 7177855 PMC: 326978. DOI: 10.1093/nar/10.21.6969.

Photochemically induced dynamic nuclear polarization investigation of complex formation of the NH2-terminal DNA-binding domain of lac repressor with poly[d(AT)].

Buck F, Ruterjans H, Kaptein R, Beyreuther K Proc Natl Acad Sci U S A. 1980; 77(9):5145-8.

PMID: 6933550 PMC: 350013. DOI: 10.1073/pnas.77.9.5145.

1H NMR study of an ethidium dimer poly(dA-dT) complex: evidence of a transition between bis and monointercalation.

Delbarre A, Gourevitch M, Gaugain B, Le Pecq J, Roques B Nucleic Acids Res. 1983; 11(13):4467-82.

PMID: 6866771 PMC: 326059. DOI: 10.1093/nar/11.13.4467.

Wrinkled DNA.

Arnott S, Chandrasekaran R, Puigjaner L, Walker J, Hall I, Birdsall D Nucleic Acids Res. 1983; 11(5):1457-74.

PMID: 6572358 PMC: 325808. DOI: 10.1093/nar/11.5.1457.

A 300 MHz and 600 MHz proton NMR study of a 12 base pair restriction fragment: investigation of structure by relaxation measurements.

Early T, Kearns D, Hillen W, Wells R Nucleic Acids Res. 1980; 8(23):5795-812.

PMID: 6258152 PMC: 324342. DOI: 10.1093/nar/8.23.5795.

References

Porschke D, Eigen M . Co-operative non-enzymic base recognition. 3. Kinetics of the helix-coil transition of the oligoribouridylic--oligoriboadenylic acid system and of oligoriboadenylic acid alone at acidic pH. J Mol Biol. 1971; 62(2):361-81. DOI: 10.1016/0022-2836(71)90433-5. View

Scheffler I, Elson E, Baldwin R . Helix formation by d(TA) oligomers. II. Analysis of the helix-coli transitions of linear and circular oligomers. J Mol Biol. 1970; 48(1):145-71. DOI: 10.1016/0022-2836(70)90225-1. View

Gruenwedel D . Salt effects on the denaturation of DNA. IV. A calorimetric study of the helix-coil conversion of the alternating copolymer poly[d(A-T)]. Biochim Biophys Acta. 1975; 395(3):246-57. DOI: 10.1016/0005-2787(75)90195-1. View

Gorenstein D, Kar D . 31-P chemical shifts in phosphate diester monoanions. Bond angle and torsional angle effects. Biochem Biophys Res Commun. 1975; 65(3):1073-80. DOI: 10.1016/s0006-291x(75)80495-5. View

Scheffler I, STURTEVANT J . Thermodynamics of the helix-coil transition of the alternating copolymer of deoxyadenylic acid and deoxythymidylic acid. J Mol Biol. 1969; 42(3):577-80. DOI: 10.1016/0022-2836(69)90244-7. View

Patel D, Hilbers C . Proton nuclear magnetic resonance investigations of fraying in double-stranded d-ApTpGpCpApT in H2O solution. Biochemistry. 1975; 14(12):2651-6. DOI: 10.1021/bi00683a014. View

Patel D . Peptide antibiotic-oligonucleotide interactions. Nuclear magnetic resonance investigations of complex formation between actinomycin D and d-ApTpGpCpApT in aqueous solution. Biochemistry. 1974; 13(11):2396-402. DOI: 10.1021/bi00708a025. View

Hilbers C, Patel D . Proton nuclear magnetic resonance investigations of the nucleation and propagation reactions associated with the helix-coil transition of d-ApTpGpCpApT in H2O solution. Biochemistry. 1975; 14(12):2656-60. DOI: 10.1021/bi00683a015. View

Davies D, Baldwin R . X-ray studies on two synthetic DNA copolymers. J Mol Biol. 1963; 6:251-5. DOI: 10.1016/s0022-2836(63)80086-8. View

10.

Inman R, Baldwin R . Helix-random coil transitions in synthetic DNAs of alternating sequence. J Mol Biol. 1962; 5:172-84. DOI: 10.1016/s0022-2836(62)80082-5. View

11.

Scheffler I, Elson E, Baldwin R . Helix formation by dAT oligomers. I. Hairpin and straight-chain helices. J Mol Biol. 1968; 36(3):291-304. DOI: 10.1016/0022-2836(68)90156-3. View

12.

Patel D, Tonelli A . Assignment of the proton Nmr chemical shifts of the T-N3H and G-N1H proton resonances in isolated AT and GC Watson-Crick base pairs in double-stranded deoxy oligonucleotides in aqueous solution. Biopolymers. 1974; 13(10):1943-64. DOI: 10.1002/bip.1974.360131003. View

13.

Gueron M, Shulman R . 31P magnetic resonance of tRNA. Proc Natl Acad Sci U S A. 1975; 72(9):3482-5. PMC: 433018. DOI: 10.1073/pnas.72.9.3482. View

14.

CROSS A, Crothers D . A proton magnetic resonance study of single-stranded and double-helical deoxyribooligonucleotides. Biochemistry. 1971; 10(22):4015-23. DOI: 10.1021/bi00798a002. View

15.

Borer P, Kan L, Tso P . Conformation and interaction of short nucleic acid double-stranded helices. I. Proton magnetic resonance studies on the nonexchangeable protons of ribosyl ApApGpCpUpU. Biochemistry. 1975; 14(22):4847-63. DOI: 10.1021/bi00693a012. View

16.

Calascibetta F, Dentini M, De Santis P, Morosetti S . Conformational analysis of polynucleotide chains. Double-stranded structures. Biopolymers. 1975; 14(8):1667-84. DOI: 10.1002/bip.1975.360140810. View

17.

Kroon P, Kreishman G, Nelson J, Chan S . The effects of chain length on the secondary structure of oligoadenylates. Biopolymers. 1974; 13(12):2571-92. DOI: 10.1002/bip.1974.360131214. View

18.

Shulman R, Hilbers C, Wong Y, Wong K, Lightfoot D, Reid B . Determination of secondary and tertiary structural features of transfer RNA molecules in solution by nuclear magnetic resonance. Proc Natl Acad Sci U S A. 1973; 70(7):2042-5. PMC: 433661. DOI: 10.1073/pnas.70.7.2042. View

19.

Arter D, Walker G, Uhlenbeck O, SCHMIDT P . PMR or the self-complementary oligoribonucleotide CpCpGpG. Biochem Biophys Res Commun. 1974; 61(4):1089-94. DOI: 10.1016/s0006-291x(74)80395-5. View

20.

PULLMAN B . Intermolecular nuclear shielding values for protons of purines and flavins. J Theor Biol. 1970; 27(1):87-95. DOI: 10.1016/0022-5193(70)90130-x. View