-
1
-
-
0022423486
-
Base-base mismatches. Thermodynamics of double helix formation for dCA3XA3G + dCT3YT3G (X, Y = A,C,G,T)
-
Aboul-ela F, Koh D, Tinoco I Jr, Martin FH. 1985. Base-base mismatches. Thermodynamics of double helix formation for dCA3XA3G + dCT3YT3G (X, Y = A,C,G,T). Nucleic Acids Res 13: 4811-4824.
-
(1985)
Nucleic Acids Res
, vol.13
, pp. 4811-4824
-
-
Aboul-ela, F.1
Koh, D.2
Tinoco Jr., I.3
Martin, F.H.4
-
3
-
-
0032562140
-
Nearest-neighbor thermodynamic parameters for internal G•A mismatches in DNA
-
Allawi HT, SantaLucia J Jr. 1998. Nearest-neighbor thermodynamic parameters for internal G•A mismatches in DNA. Biochemistry 37: 2170-2179.
-
(1998)
Biochemistry
, vol.37
, pp. 2170-2179
-
-
Allawi, H.T.1
SantaLucia Jr., J.2
-
4
-
-
0031566427
-
RNA hydration: Three nanoseconds of multiple molecular dynamics simulations of the solvated tRNA(Asp) anticodon hairpin
-
DOI 10.1006/jmbi.1997.1022
-
Auffinger P, Westhof E. 1997. RNA hydration: Three nanoseconds of multiple molecular dynamics simulations of the solvated tRNAAsp anticodon hairpin. J Mol Biol 269: 326-341. (Pubitemid 27267756)
-
(1997)
Journal of Molecular Biology
, vol.269
, Issue.3
, pp. 326-341
-
-
Auffinger, P.1
Westhof, E.2
-
5
-
-
0037187806
-
Melting of the solvent structure around a RNA duplex: A molecular dynamics simulation study
-
Auffinger P, Westhof E. 2002. Melting of the solvent structure around a RNA duplex: A molecular dynamics simulation study. Biophys Chem 95: 203-210.
-
(2002)
Biophys Chem
, vol.95
, pp. 203-210
-
-
Auffinger, P.1
Westhof, E.2
-
6
-
-
74249115345
-
Topology links RNA secondary structure with global conformation, dynamics, and adaptation
-
Bailor MH, Sun X, Al-Hashimi HM. 2010. Topology links RNA secondary structure with global conformation, dynamics, and adaptation. Science 327: 202-206.
-
(2010)
Science
, vol.327
, pp. 202-206
-
-
Bailor, M.H.1
Sun, X.2
Al-Hashimi, H.M.3
-
7
-
-
0024292445
-
Melting of a self-complementary DNA minicircle. Comparison of optical melting theory with exchange broadening of the nuclear magnetic resonance spectrum
-
Benight AS, Schurr JM, Flynn PF, Reid BR, Wemmer DE. 1988. Melting of a self-complementary DNA minicircle. Comparison of optical melting theory with exchange broadening of the nuclear magnetic resonance spectrum. J Mol Biol 200: 377-399.
-
(1988)
J Mol Biol
, vol.200
, pp. 377-399
-
-
Benight, A.S.1
Schurr, J.M.2
Flynn, P.F.3
Reid, B.R.4
Wemmer, D.E.5
-
8
-
-
0023473988
-
Enthalpy-entropy compensations in drug-DNA binding studies
-
Breslauer KJ, Remeta DP, Chou WY, Ferrante R, Curry J, Zaunczkowski D, Snyder JG, Marky LA. 1987. Enthalpy-entropy compensations in drug-DNA binding studies. Proc Natl Acad Sci 84: 8922-8926.
-
(1987)
Proc Natl Acad Sci
, vol.84
, pp. 8922-8926
-
-
Breslauer, K.J.1
Remeta, D.P.2
Chou, W.Y.3
Ferrante, R.4
Curry, J.5
Zaunczkowski, D.6
Snyder, J.G.7
Marky, L.A.8
-
9
-
-
30844441193
-
Dynamic transition in tRNA is solvent induced
-
Caliskan G, Briber RM, Thirumalai D, Garcia-Sakai V, Woodson SA, Sokolov AP. 2006. Dynamic transition in tRNA is solvent induced. J Am Chem Soc 128: 32-33.
-
(2006)
J Am Chem Soc
, vol.128
, pp. 32-33
-
-
Caliskan, G.1
Briber, R.M.2
Thirumalai, D.3
Garcia-Sakai, V.4
Woodson, S.A.5
Sokolov, A.P.6
-
10
-
-
16644365966
-
Sequence dependence of the energetics of opening of at basepairs in DNA
-
Chen C, Russu IM. 2004. Sequence dependence of the energetics of opening of AT basepairs in DNA. Biophys J 87: 2545-2551.
-
(2004)
Biophys J
, vol.87
, pp. 2545-2551
-
-
Chen, C.1
Russu, I.M.2
-
11
-
-
0016169138
-
The molecular mechanism of thermal unfolding of Escherichia coli formylmethionine transfer RNA
-
Crothers DM, Cole PE, Hilbers CW, Shulman RG. 1974. The molecular mechanism of thermal unfolding of Escherichia coli formylmethionine transfer RNA. J Mol Biol 87: 63-88.
-
(1974)
J Mol Biol
, vol.87
, pp. 63-88
-
-
Crothers, D.M.1
Cole, P.E.2
Hilbers, C.W.3
Shulman, R.G.4
-
12
-
-
34547812691
-
Time-resolved NMR studies of RNA folding
-
Furtig B, Buck J, Manoharan V, Bermel W, Jaschke A, Wenter P, Pitsch S, Schwalbe H. 2007. Time-resolved NMR studies of RNA folding. Biopolymers 86: 360-383.
-
(2007)
Biopolymers
, vol.86
, pp. 360-383
-
-
Furtig, B.1
Buck, J.2
Manoharan, V.3
Bermel, W.4
Jaschke, A.5
Wenter, P.6
Pitsch, S.7
Schwalbe, H.8
-
13
-
-
0037335588
-
Base pair opening within B-DNA: Free energy pathways for GC and at pairs from umbrella sampling simulations
-
DOI 10.1093/nar/gkg239
-
Giudice E, Varnai P, Lavery R. 2003. Base-pair opening within B-DNA: Free energy pathways for GC and AT pairs from umbrella sampling simulations. Nucleic Acids Res 31: 1434-1443. (Pubitemid 36304905)
-
(2003)
Nucleic Acids Research
, vol.31
, Issue.5
, pp. 1434-1443
-
-
Giudice, E.1
Varnai, P.2
Lavery, R.3
-
14
-
-
0028864424
-
Studies of base-pair kinetics by NMR measurement of proton exchange
-
Gueron M, Leroy JL. 1995. Studies of base-pair kinetics by NMR measurement of proton exchange. Methods Enzymol 261: 383-413.
-
(1995)
Methods Enzymol
, vol.261
, pp. 383-413
-
-
Gueron, M.1
Leroy, J.L.2
-
15
-
-
0023256126
-
A single mode of DNA base-pair opening drives imino proton exchange
-
Gueron M, Kochoyan M, Leroy JL. 1987. A single mode of DNA base-pair opening drives imino proton exchange. Nature 328: 89-92.
-
(1987)
Nature
, vol.328
, pp. 89-92
-
-
Gueron, M.1
Kochoyan, M.2
Leroy, J.L.3
-
16
-
-
67849097846
-
Extending the range of microsecond-to-millisecond chemical exchange detected in labeled and unlabeled nucleic acids by selective carbon R(1rho) NMR spectroscopy
-
Hansen AL, Nikolova EN, Casiano-Negroni A, Al-Hashimi HM. 2009. Extending the range of microsecond-to-millisecond chemical exchange detected in labeled and unlabeled nucleic acids by selective carbon R(1rho) NMR spectroscopy. J Am Chem Soc 131: 3818-3819.
-
(2009)
J Am Chem Soc
, vol.131
, pp. 3818-3819
-
-
Hansen, A.L.1
Nikolova, E.N.2
Casiano-Negroni, A.3
Al-Hashimi, H.M.4
-
17
-
-
0029163563
-
RNA chaperones and the RNA folding problem
-
Herschlag D. 1995. RNA chaperones and the RNA folding problem. J Biol Chem 270: 20871-20874.
-
(1995)
J Biol Chem
, vol.270
, pp. 20871-20874
-
-
Herschlag, D.1
-
20
-
-
0024284560
-
Study of structure, base-pair opening kinetics, and proton exchange mechanism of the d-(AATTGCAATT) self-complementary oligodeoxynucleotide in solution
-
Kochoyan M, Lancelot G, Leroy JL. 1988. Study of structure, base-pair opening kinetics, and proton exchange mechanism of the d-(AATTGCAATT) self-complementary oligodeoxynucleotide in solution. Nucleic Acids Res 16: 7685-7702.
-
(1988)
Nucleic Acids Res
, vol.16
, pp. 7685-7702
-
-
Kochoyan, M.1
Lancelot, G.2
Leroy, J.L.3
-
21
-
-
27144555357
-
Regulation of translation via mRNA structure in prokaryotes and eukaryotes
-
Kozak M. 2005. Regulation of translation via mRNA structure in prokaryotes and eukaryotes. Gene 361: 13-37.
-
(2005)
Gene
, vol.361
, pp. 13-37
-
-
Kozak, M.1
-
22
-
-
0021831321
-
Proton exchange and base-pair kinetics of poly(rA)•poly(rU) and poly(rI)•poly(rC)
-
DOI 10.1016/0022-2836(85)90050-6
-
Leroy JL, Broseta D, Gueron M. 1985. Proton exchange and base-pair kinetics of poly(rA)•poly(rU) and poly(rI)•poly(rC). J Mol Biol 184: 165-178. (Pubitemid 15068269)
-
(1985)
Journal of Molecular Biology
, vol.184
, Issue.1
, pp. 165-178
-
-
Leroy, J.-L.1
Broseta, D.2
Gueron, M.3
-
23
-
-
0024292414
-
Characterization of base-pair opening in deoxynucleotide duplexes using catalyzed exchange of the imino proton
-
Leroy JL, Kochoyan M, Huynh-Dinh T, Gueron M. 1988. Characterization of base-pair opening in deoxynucleotide duplexes using catalyzed exchange of the imino proton. J Mol Biol 200: 223-238.
-
(1988)
J Mol Biol
, vol.200
, pp. 223-238
-
-
Leroy, J.L.1
Kochoyan, M.2
Huynh-Dinh, T.3
Gueron, M.4
-
24
-
-
11544358874
-
Lectins: Carbohydrate-specific proteins that mediate cellular recognition
-
Lis H, Sharon N. 1998. Lectins: Carbohydrate-specific proteins that mediate cellular recognition. Chem Rev 98: 637-674.
-
(1998)
Chem Rev
, vol.98
, pp. 637-674
-
-
Lis, H.1
Sharon, N.2
-
25
-
-
0034658244
-
A study on the enthalpy-entropy compensation in protein unfolding
-
DOI 10.1016/S0301-4622(00)00130-7, PII S0301462200001307
-
Liu L, Yang C, Guo QX. 2000. A study on the enthalpy-entropy compensation in protein unfolding. Biophys Chem 84: 239-251. (Pubitemid 30254317)
-
(2000)
Biophysical Chemistry
, vol.84
, Issue.3
, pp. 239-251
-
-
Liu, L.1
Yang, C.2
Guo, Q.-X.3
-
26
-
-
0014722597
-
Enthalpy-entropy compensation phenomena in water solutions of proteins and small molecules: A ubiquitous property of water
-
Lumry R, Rajender S. 1970. Enthalpy-entropy compensation phenomena in water solutions of proteins and small molecules: A ubiquitous property of water. Biopolymers 9: 1125-1127.
-
(1970)
Biopolymers
, vol.9
, pp. 1125-1127
-
-
Lumry, R.1
Rajender, S.2
-
27
-
-
0028897382
-
Purine-purine mismatches in RNA helices: Evidence for protonated G•A pairs and next-nearest neighbor effects
-
Morse SE, Draper DE. 1995. Purine-purine mismatches in RNA helices: Evidence for protonated G•A pairs and next-nearest neighbor effects. Nucleic Acids Res 23: 302-306.
-
(1995)
Nucleic Acids Res
, vol.23
, pp. 302-306
-
-
Morse, S.E.1
Draper, D.E.2
-
28
-
-
0036761093
-
Self-induced structural switches in RNA
-
Nagel JH, Pleij CW. 2002. Self-induced structural switches in RNA. Biochimie 84: 913-923.
-
(2002)
Biochimie
, vol.84
, pp. 913-923
-
-
Nagel, J.H.1
Pleij, C.W.2
-
29
-
-
74849109067
-
Intermediate rate atomic trajectories of RNA by solid-state NMR spectroscopy
-
Olsen GL, Bardaro MF Jr, Echodu DC, Drobny GP, Varani G. 2010. Intermediate rate atomic trajectories of RNA by solid-state NMR spectroscopy. J Am Chem Soc 132: 303-308.
-
(2010)
J Am Chem Soc
, vol.132
, pp. 303-308
-
-
Olsen, G.L.1
Bardaro Jr., M.F.2
Echodu, D.C.3
Drobny, G.P.4
Varani, G.5
-
31
-
-
0037764044
-
Non-Watson-Crick base pairing and hydration in RNA motifs: Molecular dynamics of 5S rRNA loop E
-
Reblova K, Spackova N, Stefl R, Csaszar K, Koca J, Leontis NB, Sponer J. 2003. Non-Watson-Crick base pairing and hydration in RNA motifs: Molecular dynamics of 5S rRNA loop E. Biophys J 84: 3564-3582.
-
(2003)
Biophys J
, vol.84
, pp. 3564-3582
-
-
Reblova, K.1
Spackova, N.2
Stefl, R.3
Csaszar, K.4
Koca, J.5
Leontis, N.B.6
Sponer, J.7
-
32
-
-
77954360115
-
Direct observation of the temperature-induced melting process of the Salmonella fourU RNA thermometer at base-pair resolution
-
Rinnenthal J, Klinkert B, Narberhaus F, Schwalbe H. 2010. Direct observation of the temperature-induced melting process of the Salmonella fourU RNA thermometer at base-pair resolution. Nucleic Acids Res 38: 3834-3847.
-
(2010)
Nucleic Acids Res
, vol.38
, pp. 3834-3847
-
-
Rinnenthal, J.1
Klinkert, B.2
Narberhaus, F.3
Schwalbe, H.4
-
33
-
-
0030299990
-
G•A and U-U mismatches can stabilize RNA internal loops of three nucleotides
-
DOI 10.1021/bi961789m
-
Schroeder S, Kim J, Turner DH. 1996. G•A and U•U mismatches can stabilize RNA internal loops of three nucleotides. Biochemistry 35: 16105-16109. (Pubitemid 27044071)
-
(1996)
Biochemistry
, vol.35
, Issue.50
, pp. 16105-16109
-
-
Schroeder, S.1
Kim, J.2
Turner, D.H.3
-
34
-
-
0035107447
-
Entropy-enthalpy compensation: Fact or artifact?
-
Sharp K. 2001. Entropy-enthalpy compensation: Fact or artifact? Protein Sci 10: 661-667.
-
(2001)
Protein Sci
, vol.10
, pp. 661-667
-
-
Sharp, K.1
-
35
-
-
0015216137
-
Estimation of secondary structure in ribonucleic acids
-
Tinoco I Jr, Uhlenbeck OC, Levine MD. 1971. Estimation of secondary structure in ribonucleic acids. Nature 230: 362-367.
-
(1971)
Nature
, vol.230
, pp. 362-367
-
-
Tinoco Jr., I.1
Uhlenbeck, O.C.2
Levine, M.D.3
-
37
-
-
0024974083
-
Conformation and dynamics of an RNA internal loop
-
Varani G, Wimberly B, Tinoco I Jr. 1989. Conformation and dynamics of an RNA internal loop. Biochemistry 28: 7760-7772.
-
(1989)
Biochemistry
, vol.28
, pp. 7760-7772
-
-
Varani, G.1
Wimberly, B.2
Tinoco Jr., I.3
-
38
-
-
68449092202
-
Architecture and secondary structure of an entire HIV-1 RNA genome
-
Watts JM, Dang KK, Gorelick RJ, Leonard CW, Bess JW Jr, Swanstrom R, Burch CL, Weeks KM. 2009. Architecture and secondary structure of an entire HIV-1 RNA genome. Nature 460: 711-716.
-
(2009)
Nature
, vol.460
, pp. 711-716
-
-
Watts, J.M.1
Dang, K.K.2
Gorelick, R.J.3
Leonard, C.W.4
Bess Jr., J.W.5
Swanstrom, R.6
Burch, C.L.7
Weeks, K.M.8
-
39
-
-
33750970551
-
Direct measurement of the full, sequence-dependent folding landscape of a nucleic acid
-
Woodside MT, Anthony PC, Behnke-Parks WM, Larizadeh K, Herschlag D, Block SM. 2006. Direct measurement of the full, sequence-dependent folding landscape of a nucleic acid. Science 314: 1001-1004.
-
(2006)
Science
, vol.314
, pp. 1001-1004
-
-
Woodside, M.T.1
Anthony, P.C.2
Behnke-Parks, W.M.3
Larizadeh, K.4
Herschlag, D.5
Block, S.M.6
-
40
-
-
37549017736
-
Visualizing spatially correlated dynamics that directs RNA conformational transitions
-
Zhang Q, Stelzer AC, Fisher CK, Al-Hashimi HM. 2007. Visualizing spatially correlated dynamics that directs RNA conformational transitions. Nature 450: 1263-1267.
-
(2007)
Nature
, vol.450
, pp. 1263-1267
-
-
Zhang, Q.1
Stelzer, A.C.2
Fisher, C.K.3
Al-Hashimi, H.M.4
|