Effects of 3' dangling end stacking on the stability of GGCC and CCGG double helixes
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Douglas H. Turner | Susan M. Freier | D. Turner | S. Freier | T. Neilson | Barbara J. Burger | Dirk Alkema | Thomas Neilson | D. Alkema | B. J. Burger
[1] Michael Zuker,et al. Optimal computer folding of large RNA sequences using thermodynamics and auxiliary information , 1981, Nucleic Acids Res..
[2] O. C. Uhlenbeck,et al. Equimolar addition of oligoribonucleotides with T4 RNA ligase , 1977, Nucleic Acids Res..
[3] R. Ornstein,et al. An optimized potential function for the calculation of nucleic acid interaction energies I. Base stacking , 1978, Biopolymers.
[4] C. Chothia,et al. Hydrophobic bonding and accessible surface area in proteins , 1974, Nature.
[5] I. Tinoco,et al. Calorimetric and spectroscopic investigation of the helix-to-coil transition of a ribo-oligonucleotide: rA7U7. , 1975, Journal of molecular biology.
[6] W. Kauzmann. Some factors in the interpretation of protein denaturation. , 1959, Advances in protein chemistry.
[7] F. Frank-Kamenetskii,et al. Simplification of the empirical relationship between melting temperature of DNA, its GC content and concentration of sodium ions in solution. , 1971, Biopolymers.
[8] D. Patel,et al. Structure and energetics of a hexanucleotide duplex with stacked trinucleotide ends formed by the sequence d(GAATTCGCG). , 1982, Biochemistry.
[9] J. Pipas,et al. Method for predicting RNA secondary structure. , 1975, Proceedings of the National Academy of Sciences of the United States of America.
[10] N C Seeman,et al. RNA double-helical fragments at atomic resolution. II. The crystal structure of sodium guanylyl-3',5'-cytidine nonahydrate. , 1976, Journal of molecular biology.
[11] D. Pörchke. Molecular states in single‐stranded adenylate chains by relaxation analysis , 1978 .
[12] P. Doty,et al. Self-complementary oligoribonucleotides: adenylic acid-uridylic acid block copolymers. , 1971, Journal of molecular biology.
[13] W. P. Rindone,et al. Computer-aided prediction of RNA secondary structures , 1982, Nucleic Acids Res..
[14] D. Poerschke. The nature of stacking interactions in polynucleotides. Molecular states in oligo- and polyribocytidylic acids by relaxation analysis , 1976 .
[15] O. Uhlenbeck,et al. Enzymatic oligoribonucleotide synthesis with T4 RNA ligase. , 1978, Biochemistry.
[16] P. Borer,et al. A model for base overlap in RNA , 1982, Nature.
[17] Ruth Nussinov,et al. Small changes in free energy assignments for unpaired bases do not affect predicted secondary structures in single stranded RNA , 1982, Nucleic Acids Res..
[18] D. Turner,et al. Base-stacking and base-pairing contributions to helix stability: thermodynamics of double-helix formation with CCGG, CCGGp, CCGGAp, ACCGGp, CCGGUp, and ACCGGUp. , 1983, Biochemistry.
[19] D. Crothers,et al. Improved estimation of secondary structure in ribonucleic acids. , 1973, Nature: New biology.
[20] D. Porschke. The Dynamics of Nucleic‐Acid Single‐Strand Conformation Changes , 1973 .
[21] D. Turner,et al. Laser temperature jump study of solvent effects of poly(adenylic acid) stacking. , 1980, Biochemistry.
[22] T. Lohman,et al. A semiempirical extension of polyelectrolyte theory to the treatment of oligoelectrolytes: Application to oligonucleotide helix‐coil transitions , 1978 .
[23] I. Tinoco,et al. Temperature‐dependent properties of dinucleoside phosphates , 1968, Biopolymers.
[24] C Chothia,et al. Stability and specificity of protein-protein interactions: the case of the trypsin-trypsin inhibitor complexes. , 1976, Journal of molecular biology.
[25] J. Desnoyers,et al. Heat capacity of solutions by flow microcalorimetry , 1971 .
[26] J. Brahms,et al. Conformation and thermodynamic properties of oligocytidylic acids. , 1967, Journal of molecular biology.
[27] G. Fasman,et al. Single-stranded oligomers and polymers of cytidylic and 2'-deoxycytidylic acids: comparative optical rotatory studies. , 1967, Proceedings of the National Academy of Sciences of the United States of America.
[28] R. Blake,et al. Effect of sodium ion on the high‐resolution melting of lambda DNA , 1979, Biopolymers.
[29] T N Solie,et al. The interaction of nucleosides in aqueous solution. , 1968, Journal of molecular biology.
[30] D. Turner,et al. Proton magnetic resonance melting studies of CCGGp, CCGGAp, ACCGGp, CCGGUp, and ACCGGUp. , 1983, Biochemistry.
[31] T. Neilson,et al. Oligoribonucleotide synthesis. X. An improved synthesis of the anticodon loop region of methionine transfer ribonucleic acid from E. coli , 1976 .
[32] B. Pullman,et al. Aspects of the Electronic Structure of the Purine and Pyrimidine Bases of the Nucleic Acids and of Their Interactions , 1968 .
[33] D. Turner,et al. Solvent effects on the dynamics of (dG‐dC)3 , 1983, Biopolymers.
[34] Andrew Dearing,et al. Studies of nucleotide conformations and interactions. The relative stabilities of double‐helical B‐DNA sequence isomers , 1981, Biopolymers.
[35] D. Turner,et al. Laser temperature-jump study of stacking in adenylic acid polymers. , 1979, Biochemistry.
[36] W. Salser. Globin mRNA sequences: analysis of base pairing and evolutionary implications. , 1978, Cold Spring Harbor symposia on quantitative biology.
[37] I. Tinoco,et al. Stability of ribonucleic acid double-stranded helices. , 1974, Journal of molecular biology.
[38] J. Sturtevant,et al. Heats of thermally induced helix–coil transitions of DNA in aqueous solution , 1973, Biopolymers.
[39] I. Tinoco,et al. Estimation of Secondary Structure in Ribonucleic Acids , 1971, Nature.
[40] D. Kearns,et al. Proton NMR evidence for a left-handed helical structure of poly(ribocytidylic acid) in neutral solution , 1982 .
[41] S. Kim,et al. Solvent-accessible surfaces of nucleic acids. , 1979, Journal of molecular biology.
[42] G. Felsenfeld,et al. The conformation of polyriboadenylic acid at low temperature and neutral pH. A single‐stranded rodlike structure , 1975, Biopolymers.
[43] T. Lohman,et al. Na+ effects on transitions of DNA and polynucleotides of variable linear charge density , 1976, Biopolymers.
[44] K. Breslauer,et al. Salt‐dependent conformational transitions in the self‐complementary deoxydodecanucleotide d(CGCAATTCGCG): Evidence for hairpin formation , 1983, Biopolymers.
[45] H. Eisenberg,et al. Deoxyribonueleate solutions: Sedimentation in a density gradient, partial specific volumes, density and refractive index increments, and preferential interactions , 1968, Biopolymers.
[46] T. Lohman,et al. Thermodynamic analysis of ion effects on the binding and conformational equilibria of proteins and nucleic acids: the roles of ion association or release, screening, and ion effects on water activity , 1978, Quarterly Reviews of Biophysics.
[47] K. Breslauer,et al. A calorimetric investigation of single stranded base stacking in the ribo-oligonucleotide A7. , 1977, Biophysical chemistry.
[48] I. Tinoco,et al. DNA and RNA oligomer thermodynamics: The effect of mismatched bases on double‐helix stability , 1981, Biopolymers.
[49] J. Sturtevant,et al. The Heat of the Reaction between Polyriboadenylic Acid and Polyribouridylic Acid , 1963 .
[50] R Nussinov,et al. Sequential folding of a messenger RNA molecule. , 1981, Journal of molecular biology.
[51] S. D. Christian,et al. Vapor pressure studies of hydrophobic interactions. formation of benzene-benzene and cyclohexane-cyclohexanol dimers in dilute aqueous solution , 1981 .
[52] G. S. Manning. The molecular theory of polyelectrolyte solutions with applications to the electrostatic properties of polynucleotides , 1978, Quarterly Reviews of Biophysics.
[53] G. Felsenfeld,et al. The physical and chemical properties of nucleic acids. , 1967, Annual review of biochemistry.
[54] N C Seeman,et al. RNA double-helical fragments at atomic resolution. I. The crystal and molecular structure of sodium adenylyl-3',5'-uridine hexahydrate. , 1976, Journal of molecular biology.
[55] S. Shaner,et al. Double helical DNA: conformations, physical properties, and interactions with ligands. , 1981, Annual review of biochemistry.
[56] B. Pullman,et al. Quantum-mechanical investigations of the electronic structure of nucleic acids and their constituents. , 1969, Progress in nucleic acid research and molecular biology.
[57] D. Patel,et al. Premelting and melting transitions in the d(CGCGAATTCGCG) self-complementary duplex in solution. , 1982, Biochemistry.
[58] S. Abdulnur,et al. HYDROPHOBIC STACKING OF BASES AND THE SOLVENT DENATURATION OF DNA * , 1964 .
[59] P. Privalov,et al. Thermodynamics of base interaction in (A)n and (A.U)n. , 1978, Journal of molecular biology.
[60] D. Turner,et al. Nuclear overhauser studies of CCGGAp, ACCGGp, and ACCGGUp. , 1983, Biochemistry.
[61] N. Kallenbach,et al. Secondary structure in polyuridylic acid. Non-classical hydrogen bonding and the function of the ribose 2'-hydroxyl group. , 1978, Journal of molecular biology.
[62] E. Freire,et al. Calorimetric determination of the heat capacity changes associated with the conformational transitions of polyriboadenylic acid and polyribouridylic acid , 1977, Biopolymers.
[63] O. Sǐnanoğlu. The solvophobic theory for the prediction of molecular conformations and biopolymer bindings in solutions with recent direct experimental tests , 1980 .
[64] J. Brahms,et al. Conformational stability of dinucleotides in solution. , 1967, Journal of molecular biology.
[65] D. Turner,et al. Solvent effects on the kinetics and thermodynamics of stacking in poly(cytidylic acid). , 1981, Biochemistry.
[66] J. Neumann,et al. 1H‐nmr comparative studies of polynucleotides: Conformation and dynamic structure of polyribo(uridylic) and polyribo(cytidylic) acids in neutral solution , 1982 .