-
1
-
-
0033549817
-
Tertiary Motifs in RNA Structure and Folding
-
Batey, R. T.; Rambo, R. P.; Doudna, J. A. Tertiary Motifs in RNA Structure and Folding Angew. Chem., Int. Ed. 1999, 38, 2326-2343
-
(1999)
Angew. Chem., Int. Ed.
, vol.38
, pp. 2326-2343
-
-
Batey, R.T.1
Rambo, R.P.2
Doudna, J.A.3
-
2
-
-
0029080246
-
RNA Structure at High Resolution
-
Shen, L. X.; Zhuoping, C.; Tinoco, I., Jr. RNA Structure at High Resolution FASEB J. 1995, 9, 1023-1033
-
(1995)
FASEB J.
, vol.9
, pp. 1023-1033
-
-
Shen, L.X.1
Zhuoping, C.2
Tinoco, Jr.I.3
-
3
-
-
33747602081
-
RNA Structural Motifs: Building Blocks of a Modular Biomolecule
-
Hendrix, D. A.; Brenner, S. E.; Holbrook, S. R. RNA Structural Motifs: Building Blocks of a Modular Biomolecule Q. Rev. Biophys. 2005, 38, 221-243
-
(2005)
Q. Rev. Biophys.
, vol.38
, pp. 221-243
-
-
Hendrix, D.A.1
Brenner, S.E.2
Holbrook, S.R.3
-
4
-
-
0016354122
-
Structure of Yeast Phenylalanine tRNA at 3 Å Resolution
-
Robertus, J. D.; Ladner, J. E.; Finch, J. T.; Rhodes, D.; Brown, R. S.; Clark, B. F. C.; Klug, A. Structure of Yeast Phenylalanine tRNA at 3 Å Resolution Nature 1974, 250, 546-551
-
(1974)
Nature
, vol.250
, pp. 546-551
-
-
Robertus, J.D.1
Ladner, J.E.2
Finch, J.T.3
Rhodes, D.4
Brown, R.S.5
Clark, B.F.C.6
Klug, A.7
-
5
-
-
0016044321
-
Three-Dimensional Structure of Yeast Phenylalanine Transfer RNA at 3.0 Angstroms Resolution
-
Suddath, F. L.; Quigly, G. J.; McPherson, A.; Sneden, D.; Kim, J. J.; Kim, S. H.; Rich, A. Three-Dimensional Structure of Yeast Phenylalanine Transfer RNA at 3.0 Angstroms Resolution Nature 1974, 248, 20-24
-
(1974)
Nature
, vol.248
, pp. 20-24
-
-
Suddath, F.L.1
Quigly, G.J.2
McPherson, A.3
Sneden, D.4
Kim, J.J.5
Kim, S.H.6
Rich, A.7
-
6
-
-
0026423027
-
Structural Features that Give Rise to the Unusual Stability of RNA Hairpins Containing GNRA Loops
-
Heus, H. A.; Pardi, A. Structural Features that Give Rise to the Unusual Stability of RNA Hairpins Containing GNRA Loops Science 1991, 253, 191-194
-
(1991)
Science
, vol.253
, pp. 191-194
-
-
Heus, H.A.1
Pardi, A.2
-
7
-
-
0030596092
-
A Network of Heterogeneous Hydrogen Bonds in GNRA Tetraloops
-
Jucker, F. M.; Heus, H. A.; Yip, P. F.; Moors, E. H.; Pardi, A. A Network of Heterogeneous Hydrogen Bonds in GNRA Tetraloops J. Mol. Biol. 1996, 264, 968-980
-
(1996)
J. Mol. Biol.
, vol.264
, pp. 968-980
-
-
Jucker, F.M.1
Heus, H.A.2
Yip, P.F.3
Moors, E.H.4
Pardi, A.5
-
8
-
-
0025811124
-
Structure of an Unusually Stable Hairpin
-
Varani, G.; Cheong, C.; Tinoco, I., Jr. Structure of an Unusually Stable Hairpin Biochemistry 1991, 30, 3280-3289
-
(1991)
Biochemistry
, vol.30
, pp. 3280-3289
-
-
Varani, G.1
Cheong, C.2
Tinoco, Jr.I.3
-
9
-
-
0025108861
-
Conformation of an RNA Pseudoknot
-
Puglisi, J. D.; Wyatt, J. R.; Tinoco, I., Jr. Conformation of an RNA Pseudoknot J. Mol. Biol. 1990, 214, 437-453
-
(1990)
J. Mol. Biol.
, vol.214
, pp. 437-453
-
-
Puglisi, J.D.1
Wyatt, J.R.2
Tinoco, Jr.I.3
-
10
-
-
0029820625
-
Crystal Structure of a Group i Ribozyme Domain: Principles of RNA Packing
-
Cate, J. H.; Gooding, A. R.; Podell, E.; Zhou, K.; Golden, B. L.; Kundrot, C. E.; Cech, T. R.; Doudna, J. A. Crystal Structure of a Group I Ribozyme Domain: Principles of RNA Packing Science 1996, 273, 1678-1685
-
(1996)
Science
, vol.273
, pp. 1678-1685
-
-
Cate, J.H.1
Gooding, A.R.2
Podell, E.3
Zhou, K.4
Golden, B.L.5
Kundrot, C.E.6
Cech, T.R.7
Doudna, J.A.8
-
11
-
-
0029796982
-
RNA Tertiary Structure Mediation by Adenosine Platforms
-
Cate, J. H.; Gooding, A. R.; Podell, E.; Zhou, K.; Golden, B. L.; Szewczak, A. A.; Kundrot, C. E.; Cech, T. R.; Doudna, J. A. RNA Tertiary Structure Mediation by Adenosine Platforms Science 1996, 273, 1696-1699
-
(1996)
Science
, vol.273
, pp. 1696-1699
-
-
Cate, J.H.1
Gooding, A.R.2
Podell, E.3
Zhou, K.4
Golden, B.L.5
Szewczak, A.A.6
Kundrot, C.E.7
Cech, T.R.8
Doudna, J.A.9
-
12
-
-
0028063567
-
Three-Dimensional Structure of a Hammerhead Ribozyme
-
Pley, H. W.; Flaherty, K. M.; McKay, D. B. Three-Dimensional Structure of a Hammerhead Ribozyme Nature 1994, 372, 68-74
-
(1994)
Nature
, vol.372
, pp. 68-74
-
-
Pley, H.W.1
Flaherty, K.M.2
McKay, D.B.3
-
13
-
-
33748621478
-
Nature of Nucleic Acid-Base Stacking: Nonempirical ab Inito and Empirical Potential Characterization of 10 Stacked Base Dimers. Comparison of Stacked and H-Bonded Base Pairs
-
Sponer, J.; Leszczynski, J.; Hobza, P. Nature of Nucleic Acid-Base Stacking: Nonempirical ab Inito and Empirical Potential Characterization of 10 Stacked Base Dimers. Comparison of Stacked and H-Bonded Base Pairs J. Phys. Chem. 1996, 100, 5590-5596
-
(1996)
J. Phys. Chem.
, vol.100
, pp. 5590-5596
-
-
Sponer, J.1
Leszczynski, J.2
Hobza, P.3
-
14
-
-
66749109882
-
Evidence for Stabilization of DNA/RNA-Protein Complexes Arising from Nucleobase-Amino Acid Stacking and T-Shaped Interactions
-
Wetmore, S. D.; Rutledge, L. R.; Durst, H. F. Evidence for Stabilization of DNA/RNA-Protein Complexes Arising from Nucleobase-Amino Acid Stacking and T-Shaped Interactions J. Chem. Theory Comput. 2009, 5, 1400-1410
-
(2009)
J. Chem. Theory Comput.
, vol.5
, pp. 1400-1410
-
-
Wetmore, S.D.1
Rutledge, L.R.2
Durst, H.F.3
-
15
-
-
0019558179
-
Structure of a B-DNA Dodecamer: Conformation and Dynamics
-
Drew, H. R.; Wing, R. M.; Takano, T.; Broka, C.; Tanaka, S.; Itakura, K.; Dickerson, R. E. Structure of a B-DNA Dodecamer: Conformation and Dynamics Proc. Natl. Acad. Sci. U.S.A. 1981, 78, 2179-2183
-
(1981)
Proc. Natl. Acad. Sci. U.S.A.
, vol.78
, pp. 2179-2183
-
-
Drew, H.R.1
Wing, R.M.2
Takano, T.3
Broka, C.4
Tanaka, S.5
Itakura, K.6
Dickerson, R.E.7
-
16
-
-
0027318463
-
Sequence-Dependent DNA Structure: The Role of Base Stacking Interactions
-
Hunter, C. A. Sequence-Dependent DNA Structure: The Role of Base Stacking Interactions J. Mol. Biol. 1993, 230, 1025-1054
-
(1993)
J. Mol. Biol.
, vol.230
, pp. 1025-1054
-
-
Hunter, C.A.1
-
17
-
-
0020385863
-
Mechanics of Sequence-Dependent Stacking of Bases in B-DNA
-
Calladine, C. R. Mechanics of Sequence-Dependent Stacking of Bases in B-DNA J. Mol. Biol. 1982, 161, 343-352
-
(1982)
J. Mol. Biol.
, vol.161
, pp. 343-352
-
-
Calladine, C.R.1
-
18
-
-
0029830638
-
Experimental Measurement of Aromatic Stacking Affinities in the Context of Duplex DNA
-
Guckian, K. M.; Schweitzer, B. A.; Ren, R. X.-F.; Sheils, C. J.; Paris, P. L.; Tahmassebi, D. C.; Kool, E. T. Experimental Measurement of Aromatic Stacking Affinities in the Context of Duplex DNA J. Am. Chem. Soc. 1996, 118, 8182-8183
-
(1996)
J. Am. Chem. Soc.
, vol.118
, pp. 8182-8183
-
-
Guckian, K.M.1
Schweitzer, B.A.2
Ren, R.X.-F.3
Sheils, C.J.4
Paris, P.L.5
Tahmassebi, D.C.6
Kool, E.T.7
-
20
-
-
0017569069
-
Calorimetric Determination of the Heat Capacity Changes Associated with the Conformational Transitions of Polyriboadenylic Acid and Polyribouridylic Acid
-
Suurkuusk, J.; Alvarez, J.; Freire, E.; Biltonen, R. Calorimetric Determination of the Heat Capacity Changes Associated with the Conformational Transitions of Polyriboadenylic Acid and Polyribouridylic Acid Biopolymers 1977, 16, 2641-2652
-
(1977)
Biopolymers
, vol.16
, pp. 2641-2652
-
-
Suurkuusk, J.1
Alvarez, J.2
Freire, E.3
Biltonen, R.4
-
21
-
-
0014930798
-
Molecular Interactions of Pyrimidines, Purines, and Some Other Heteroaromatic Compounds in Aqueous Media
-
Nakano, N. I.; Igarashi, S. J. Molecular Interactions of Pyrimidines, Purines, and Some Other Heteroaromatic Compounds in Aqueous Media Biochemistry 1970, 9, 577-583
-
(1970)
Biochemistry
, vol.9
, pp. 577-583
-
-
Nakano, N.I.1
Igarashi, S.J.2
-
22
-
-
33947485013
-
Interaction and Association of Bases and Nucleosides in Aqueous Solutions
-
Ts'o, P. O. P.; Melvin, I. S.; Olson, A. C. Interaction and Association of Bases and Nucleosides in Aqueous Solutions J. Am. Chem. Soc. 1963, 85, 1289-1296
-
(1963)
J. Am. Chem. Soc.
, vol.85
, pp. 1289-1296
-
-
Ts'O, P.O.P.1
Melvin, I.S.2
Olson, A.C.3
-
23
-
-
0029167904
-
H-bonded and Stacked DNA Base Pairs: Cytosine Dimer. An Ab Initio Second-Order Moller-Plesset Study
-
Hobza, P.; Sponer, J.; Polasek, M. H-bonded and Stacked DNA Base Pairs: Cytosine Dimer. An Ab Initio Second-Order Moller-Plesset Study J. Am. Chem. Soc. 1995, 117, 792-798
-
(1995)
J. Am. Chem. Soc.
, vol.117
, pp. 792-798
-
-
Hobza, P.1
Sponer, J.2
Polasek, M.3
-
24
-
-
43449137856
-
Nature and Magnitude of Aromatic Stacking of Nucleic Acid Bases
-
Hobza, P.; Sponer, J.; Riley, K. E. Nature and Magnitude of Aromatic Stacking of Nucleic Acid Bases Phys. Chem. Chem. Phys. 2008, 10, 2595-2610
-
(2008)
Phys. Chem. Chem. Phys.
, vol.10
, pp. 2595-2610
-
-
Hobza, P.1
Sponer, J.2
Riley, K.E.3
-
25
-
-
33744470857
-
Benchmark Database of Accurate (MP2 and CCSD(T) Complete Basis Set Limit) Interaction Energies of Small Model Complexes, DNA Base Pairs, and Amino Acid Pairs
-
Jurecka, P.; Sponer, J.; Cerny, J.; Hobza, P. Benchmark Database of Accurate (MP2 and CCSD(T) Complete Basis Set Limit) Interaction Energies of Small Model Complexes, DNA Base Pairs, and Amino Acid Pairs Phys. Chem. Chem. Phys. 2006, 8, 1985-1993
-
(2006)
Phys. Chem. Chem. Phys.
, vol.8
, pp. 1985-1993
-
-
Jurecka, P.1
Sponer, J.2
Cerny, J.3
Hobza, P.4
-
26
-
-
75649121122
-
Comparison of Intrinsic Stacking Energies of Ten Unique Dinucleotide Steps in A-RNA and B-DNA duplexes. Can We Determine Correct Order of Stability by Quantum-Chemical Calculations?
-
Svozil, D.; Sponer, J.; Hobza, P. Comparison of Intrinsic Stacking Energies of Ten Unique Dinucleotide Steps in A-RNA and B-DNA duplexes. Can We Determine Correct Order of Stability by Quantum-Chemical Calculations? J. Phys. Chem. B 2010, 114, 1191-1203
-
(2010)
J. Phys. Chem. B
, vol.114
, pp. 1191-1203
-
-
Svozil, D.1
Sponer, J.2
Hobza, P.3
-
27
-
-
77950154377
-
On the Structure and Geometry of Biomolecular Binding Motifs (Hydrogen-Bonding, Stacking, X-H
-
Riley, K. E.; Pitonak, M.; Cerny, J.; Hobza, P. On the Structure and Geometry of Biomolecular Binding Motifs (Hydrogen-Bonding, Stacking, X-H-π): WFT and DFT Calculations J. Chem. Theory Comput. 2010, 6, 66-80
-
(2010)
J. Chem. Theory Comput.
, vol.6
, pp. 66-80
-
-
Riley, K.E.1
Pitonak, M.2
Cerny, J.3
Hobza, P.4
-
28
-
-
45649084509
-
To Stack or Not to Stack: Performance of a New Density Functional for the Uracil and Thymine Dimers
-
Gu, J.; Wang, J.; Leszczynski, J.; Xie, Y.; Schaefer, H. F., III To Stack or Not to Stack: Performance of a New Density Functional for the Uracil and Thymine Dimers Chem. Phys. Lett. 2008, 459, 164-166
-
(2008)
Chem. Phys. Lett.
, vol.459
, pp. 164-166
-
-
Gu, J.1
Wang, J.2
Leszczynski, J.3
Xie, Y.4
Schaefer Iii, H.F.5
-
29
-
-
67849084901
-
Convergence of the CCSD(T) Correction Term for the Stacked Complex Methyl Adenine-Methyl Thymine: Comparison with Lower-Cost Alternatives
-
Hobza, P.; Pitonak, M.; Janowski, T.; Neogrady, P.; Pulay, P. Convergence of the CCSD(T) Correction Term for the Stacked Complex Methyl Adenine-Methyl Thymine: Comparison with Lower-Cost Alternatives J. Chem. Theory Comput. 2009, 5, 1761-1766
-
(2009)
J. Chem. Theory Comput.
, vol.5
, pp. 1761-1766
-
-
Hobza, P.1
Pitonak, M.2
Janowski, T.3
Neogrady, P.4
Pulay, P.5
-
30
-
-
67650092678
-
Balance of Attraction and Repulsion in Nucleic-Acid Base Stacking: CCSD(T)/Complete-Basis-Set-Limit Calculations on a Uracil Dimer and a Comparison with the Force-Field Description
-
Sponer, J.; Morgado, C. A.; Jurecka, P.; Svozil, D.; Hobza, P. Balance of Attraction and Repulsion in Nucleic-Acid Base Stacking: CCSD(T)/Complete-Basis- Set-Limit Calculations on a Uracil Dimer and a Comparison with the Force-Field Description J. Chem. Theory Comput. 2009, 5, 1524-1544
-
(2009)
J. Chem. Theory Comput.
, vol.5
, pp. 1524-1544
-
-
Sponer, J.1
Morgado, C.A.2
Jurecka, P.3
Svozil, D.4
Hobza, P.5
-
31
-
-
0011682081
-
Quadratic Configuration Interacion. A General Technique for Determinig Electron Correlation Energies
-
Pople, J. A.; Head-Gordon, M.; Raghavachari, K. Quadratic Configuration Interacion. A General Technique for Determinig Electron Correlation Energies J. Chem. Phys. 1987, 87, 5968-5975
-
(1987)
J. Chem. Phys.
, vol.87
, pp. 5968-5975
-
-
Pople, J.A.1
Head-Gordon, M.2
Raghavachari, K.3
-
32
-
-
0000712654
-
Effects of Higher Electron Correlation Connection on the Calculated Intermolecular Interaction Energies of Benzene and Napthalene Dimers: Comparison between MP2 and CCSD(T) Calculations
-
Tsuzuki, S.; Uchimaru, T.; Matsumura, K.; Mikami, M.; Tanabe, K. Effects of Higher Electron Correlation Connection on the Calculated Intermolecular Interaction Energies of Benzene and Napthalene Dimers: Comparison between MP2 and CCSD(T) Calculations Chem. Phys. Lett. 2000, 319, 547-554
-
(2000)
Chem. Phys. Lett.
, vol.319
, pp. 547-554
-
-
Tsuzuki, S.1
Uchimaru, T.2
Matsumura, K.3
Mikami, M.4
Tanabe, K.5
-
33
-
-
20344381993
-
Use of Approximate Integrals in Ab Initio Theory. An Application in MP2 Energy Calculations
-
Feyereisen, M.; Fitzgerald, G.; Komornicki, A. Use of Approximate Integrals in Ab Initio Theory. An Application in MP2 Energy Calculations Chem. Phys. Lett. 1993, 208, 359-363
-
(1993)
Chem. Phys. Lett.
, vol.208
, pp. 359-363
-
-
Feyereisen, M.1
Fitzgerald, G.2
Komornicki, A.3
-
34
-
-
0034798696
-
RI-MP2 Calculations with Extended Basis Sets-A Promising Tool for Study of H-bonded and Stacked DNA Base Pairs
-
Jurecka, P.; Nachtigall, P.; Hobza, P. RI-MP2 Calculations with Extended Basis Sets-A Promising Tool for Study of H-bonded and Stacked DNA Base Pairs Phys. Chem. Chem. Phys. 2001, 3, 4578-4582
-
(2001)
Phys. Chem. Chem. Phys.
, vol.3
, pp. 4578-4582
-
-
Jurecka, P.1
Nachtigall, P.2
Hobza, P.3
-
36
-
-
0011376926
-
A Structure of Yeast Phenylalanine Transfer RNA at 2.5 Å Resolution
-
Ladner, J. E.; Jack, A.; Robertus, J. D.; Brown, R. S.; Rhodes, D.; Clark, B. F. C.; Klug, A. A Structure of Yeast Phenylalanine Transfer RNA at 2.5 Å Resolution Proc. Natl. Acad. Sci. U.S.A. 1975, 72, 4414-4418
-
(1975)
Proc. Natl. Acad. Sci. U.S.A.
, vol.72
, pp. 4414-4418
-
-
Ladner, J.E.1
Jack, A.2
Robertus, J.D.3
Brown, R.S.4
Rhodes, D.5
Clark, B.F.C.6
Klug, A.7
-
37
-
-
0034636993
-
The Crystal Structure of Yeast Phenylalanine tRNA at 2.0 Å Resolution: Cleavage by Mg(2+) in 15-Year Old Crystals
-
Jovine, L.; Djordjevic, S.; Rhodes, D. The Crystal Structure of Yeast Phenylalanine tRNA at 2.0 Å Resolution: Cleavage by Mg(2+) in 15-Year Old Crystals J. Mol. Biol. 2000, 301, 401-414
-
(2000)
J. Mol. Biol.
, vol.301
, pp. 401-414
-
-
Jovine, L.1
Djordjevic, S.2
Rhodes, D.3
-
38
-
-
0033862354
-
The Crystal Structure of Yeast Phenylalanine tRNA at 1.93 Å Resolution: A Classic Structure Revisited
-
Shi, H.; Moore, P. B. The Crystal Structure of Yeast Phenylalanine tRNA at 1.93 Å Resolution: A Classic Structure Revisited RNA 2000, 6, 1091-1105
-
(2000)
RNA
, vol.6
, pp. 1091-1105
-
-
Shi, H.1
Moore, P.B.2
-
39
-
-
0017278635
-
Atomic Coordinates and Molecular Conformation of Yeast Phenylalanyl tRNA. An Independent Investigation
-
Stout, C. D.; Mizuno, H.; Rubin, J.; Brennan, T.; Rao, S. T.; Sundaralingam, M. Atomic Coordinates and Molecular Conformation of Yeast Phenylalanyl tRNA. An Independent Investigation Nucleic Acids Res. 1976, 3, 1111-1123
-
(1976)
Nucleic Acids Res.
, vol.3
, pp. 1111-1123
-
-
Stout, C.D.1
Mizuno, H.2
Rubin, J.3
Brennan, T.4
Rao, S.T.5
Sundaralingam, M.6
-
40
-
-
0018077590
-
Crystal Structure of Yeast Phenylalanine Transfer RNA. I. Crystallographic Refinement
-
Sussman, J. L.; Holbrook, S. R.; Warrant, R. W.; Church, G. M.; Kim, S. H. Crystal Structure of Yeast Phenylalanine Transfer RNA. I. Crystallographic Refinement J. Mol. Biol. 1978, 123, 607-630
-
(1978)
J. Mol. Biol.
, vol.123
, pp. 607-630
-
-
Sussman, J.L.1
Holbrook, S.R.2
Warrant, R.W.3
Church, G.M.4
Kim, S.H.5
-
41
-
-
0000521158
-
Restrained Refinement of Two Crystalline Forms of Yeast Aspartic Acid and Phenylalanine Transfer RNA Crystals
-
Westhof, E.; Dumas, P.; Moras, D. Restrained Refinement of Two Crystalline Forms of Yeast Aspartic Acid and Phenylalanine Transfer RNA Crystals Acta Crystallogr. A 1988, 44 (Pt 2) 112-123
-
(1988)
Acta Crystallogr. A
, vol.44
, Issue.PART 2
, pp. 112-123
-
-
Westhof, E.1
Dumas, P.2
Moras, D.3
-
42
-
-
0022551018
-
Restrained Refinement of the Monoclinic Form of Yeast Phenylalanine Transfer RNA. Temperature Factors and Dynamics, Coordinated Waters, and Base-Pair Propeller Twist Angles
-
Westhof, E.; Sundaralingam, M. Restrained Refinement of the Monoclinic Form of Yeast Phenylalanine Transfer RNA. Temperature Factors and Dynamics, Coordinated Waters, and Base-Pair Propeller Twist Angles Biochemistry 1986, 25, 4868-4878
-
(1986)
Biochemistry
, vol.25
, pp. 4868-4878
-
-
Westhof, E.1
Sundaralingam, M.2
-
43
-
-
0025815046
-
The 3 Å Crystal Structure of Yeast Initiator tRNA: Functional Implications in Initiator/Elongator Discrimination
-
Basavappa, R.; Sigler, P. B. The 3 Å Crystal Structure of Yeast Initiator tRNA: Functional Implications in Initiator/Elongator Discrimination EMBO J. 1991, 10, 3105-3111
-
(1991)
EMBO J.
, vol.10
, pp. 3105-3111
-
-
Basavappa, R.1
Sigler, P.B.2
-
44
-
-
0033744175
-
The Crystal Structure of HIV Reverse-Transcription Primer tRNA(Lys,3) Shows a Canonical Anticodon Loop
-
Benas, P.; Bec, G.; Keith, G.; Marquet, R.; Ehresmann, C.; Ehresmann, B.; Dumas, P. The Crystal Structure of HIV Reverse-Transcription Primer tRNA(Lys,3) Shows a Canonical Anticodon Loop RNA 2000, 6, 1347-1355
-
(2000)
RNA
, vol.6
, pp. 1347-1355
-
-
Benas, P.1
Bec, G.2
Keith, G.3
Marquet, R.4
Ehresmann, C.5
Ehresmann, B.6
Dumas, P.7
-
45
-
-
0022666946
-
Asp, A Model for tRNA-mRNA Recognition
-
Asp, A Model for tRNA-mRNA Recognition Proc. Natl. Acad. Sci. U.S.A. 1986, 83, 932-936
-
(1986)
Proc. Natl. Acad. Sci. U.S.A.
, vol.83
, pp. 932-936
-
-
Moras, D.1
Dock, A.C.2
Dumas, P.3
Westhof, E.4
Romby, P.5
Ebel, J.P.6
Giege, R.7
-
46
-
-
0014210985
-
Conformation of the Anticodon Loop in tRNA
-
Fuller, W.; Hodgson, A. Conformation of the Anticodon Loop in tRNA Nature 1967, 215, 817-821
-
(1967)
Nature
, vol.215
, pp. 817-821
-
-
Fuller, W.1
Hodgson, A.2
-
48
-
-
0035805229
-
Recognition of Cognate Transfer RNA by the 30S Ribosomal Unit
-
Ogle, J. M.; Brodersen, D. E.; Clemons, W. M.; Tarry, M. J.; Carter, A. P.; Ramakrishnan, V. Recognition of Cognate Transfer RNA by the 30S Ribosomal Unit Science 2001, 292, 897-902
-
(2001)
Science
, vol.292
, pp. 897-902
-
-
Ogle, J.M.1
Brodersen, D.E.2
Clemons, W.M.3
Tarry, M.J.4
Carter, A.P.5
Ramakrishnan, V.6
-
50
-
-
34249870122
-
Mechanism of Expanding the Decoding Capacity of tRNAs by Modification of Uridines
-
Weixlbaumer, A.; Murphy, F. V.; Dziergowska, A.; Malkiewicz, A.; Vendeix, F. A. P.; Agris, P. F.; Ramakrishnan, V. Mechanism of Expanding the Decoding Capacity of tRNAs by Modification of Uridines Nat. Struct. Mol. Biol. 2007, 14, 498-502
-
(2007)
Nat. Struct. Mol. Biol.
, vol.14
, pp. 498-502
-
-
Weixlbaumer, A.1
Murphy, F.V.2
Dziergowska, A.3
Malkiewicz, A.4
Vendeix, F.A.P.5
Agris, P.F.6
Ramakrishnan, V.7
-
51
-
-
0033081413
-
Cys-EF-Tu-GDPNP Reveals General and Specific Features in the Ternary Complex and in tRNA
-
Cys-EF-Tu-GDPNP Reveals General and Specific Features in the Ternary Complex and in tRNA Structure 1999, 7, 143-156
-
(1999)
Structure
, vol.7
, pp. 143-156
-
-
Nissen, P.1
Thirup, S.2
Kjeldgaard, M.3
Nyborg, J.4
-
52
-
-
0037415750
-
ATP Binding by Glutamyl-tRNA Synthase is Switched to the Productive Mode by tRNA Binding
-
Sekine, S.; Nureki, O.; Dubois, D. Y.; Bernier, S.; Chenevert, R.; Lapointe, J.; Vassylyev, D. G.; Yokoyama, S. ATP Binding by Glutamyl-tRNA Synthase is Switched to the Productive Mode by tRNA Binding EMBO J. 2003, 22, 676-688
-
(2003)
EMBO J.
, vol.22
, pp. 676-688
-
-
Sekine, S.1
Nureki, O.2
Dubois, D.Y.3
Bernier, S.4
Chenevert, R.5
Lapointe, J.6
Vassylyev, D.G.7
Yokoyama, S.8
-
53
-
-
27144520077
-
Aminoacylation Complex Structures Leucyl-tRNA Synthase and tRNALeu Reveal Two Modes of Discriminator-Base Recognition
-
Fukunaga, R.; Yokoyama, S. Aminoacylation Complex Structures Leucyl-tRNA Synthase and tRNALeu Reveal Two Modes of Discriminator-Base Recognition Nat. Struct. Mol. Biol. 2005, 12, 915-922
-
(2005)
Nat. Struct. Mol. Biol.
, vol.12
, pp. 915-922
-
-
Fukunaga, R.1
Yokoyama, S.2
-
55
-
-
0000946971
-
-
3 rd ed. Fasman, G. P. CRC Press: Cleveland, OH, Nucleic Acids
-
Arnott, S.; Campbell-Smith, P. J.; Chandrasekaran, R. In Handbook of Biochemistry and Molecular Biology, 3 rd ed.; Fasman, G. P., Ed.; CRC Press: Cleveland, OH, 1976; Nucleic Acids, Vol. II; pp 411-422.
-
(1976)
Handbook of Biochemistry and Molecular Biology
, vol.2
, pp. 411-422
-
-
Arnott, S.1
Campbell-Smith, P.J.2
Chandrasekaran, R.3
-
56
-
-
84879593536
-
-
AMBER 8. University of California: San Francisco, CA
-
Case, D. A.; Darden, T. A.; Cheatham, T. E., III; Simmerling, C. L.; Wang, J.; Duke, R. E.; Luo, R.; Merz, K. M.; Wang, B.; Pearlman, D. A., AMBER 8. University of California: San Francisco, CA, 2004.
-
(2004)
-
-
Case, D.A.1
Darden, T.A.2
Cheatham Iii, T.E.3
Simmerling, C.L.4
Wang, J.5
Duke, R.E.6
Luo, R.7
Merz, K.M.8
Wang, B.9
Pearlman, D.A.10
-
57
-
-
75749083809
-
-
Gaussian, Inc. Wallingford, CT
-
Frisch, M. J.; Trucks, G. W.; Schlegel, H. B.; Scuseria, G. E.; Robb, M. A.; Cheeseman, J. R.; Scalmani, G.; Barone, V.; Mennucci, B.; Petersson, G. A. Gaussian 09, Revision A.2; Gaussian, Inc.: Wallingford, CT, 2009.
-
(2009)
Gaussian 09, Revision A.2
-
-
Frisch, M.J.1
Trucks, G.W.2
Schlegel, H.B.3
Scuseria, G.E.4
Robb, M.A.5
Cheeseman, J.R.6
Scalmani, G.7
Barone, V.8
Mennucci, B.9
Petersson, G.A.10
-
58
-
-
43049141516
-
The M06 Suite of Density Functionals for Main Group Thermochemistry, Thermochemical Kinetics, Noncovalent Interactions, Excited States, and Transition Elements: Two New Functionals and a Systematic Testing of Four M06-Class Functionals and 12 Other Functionals
-
Zhao, Y.; Truhlar, D. G. The M06 Suite of Density Functionals for Main Group Thermochemistry, Thermochemical Kinetics, Noncovalent Interactions, Excited States, and Transition Elements: Two New Functionals and a Systematic Testing of Four M06-Class Functionals and 12 Other Functionals Theor. Chem. Acc. 2008, 120, 215-241
-
(2008)
Theor. Chem. Acc.
, vol.120
, pp. 215-241
-
-
Zhao, Y.1
Truhlar, D.G.2
-
60
-
-
0000478908
-
Symmetry-Adapted Perturbation Theory of Nonadditive Three-Body Interactions in van der Waals Molecules. I. General Theory
-
Moszynski, R.; Wormer, P. E. S.; Jeziorski, B.; van der Avoird, A. Symmetry-Adapted Perturbation Theory of Nonadditive Three-Body Interactions in van der Waals Molecules. I. General Theory J. Chem. Phys. 1995, 103, 8058-8074
-
(1995)
J. Chem. Phys.
, vol.103
, pp. 8058-8074
-
-
Moszynski, R.1
Wormer, P.E.S.2
Jeziorski, B.3
Van Der Avoird, A.4
-
61
-
-
84862681792
-
Simultaneous Interactions of Pyridine with Substituted Benzene Ring and H-F in X-ben?pyr.H-F Complexes: A Cooperative Study
-
Gholipour, A. R.; Saydi, H.; Neiband, M. S.; Neyband, R. S. Simultaneous Interactions of Pyridine with Substituted Benzene Ring and H-F in X-ben?pyr...H-F Complexes: A Cooperative Study Struct. Chem. 2012, 117, 489-496
-
(2012)
Struct. Chem.
, vol.117
, pp. 489-496
-
-
Gholipour, A.R.1
Saydi, H.2
Neiband, M.S.3
Neyband, R.S.4
-
62
-
-
35548941520
-
Interchain Impacts on Electronic Structures of Heterocyclic Oligomers and Polymers Containing Group 14, 15, and 16 Heteroatoms: Quantum Chemical Calculations in Combination with Molecular Dynamics Simulations
-
Zhang, G.; Ma, J.; Wen, J. Interchain Impacts on Electronic Structures of Heterocyclic Oligomers and Polymers Containing Group 14, 15, and 16 Heteroatoms: Quantum Chemical Calculations in Combination with Molecular Dynamics Simulations J. Phys. Chem. B 2007, 111, 11670-11679
-
(2007)
J. Phys. Chem. B
, vol.111
, pp. 11670-11679
-
-
Zhang, G.1
Ma, J.2
Wen, J.3
-
63
-
-
84872569714
-
Preferred Configurations of Peptide-Peptide Interactions
-
Adhikari, U.; Scheiner, S. Preferred Configurations of Peptide-Peptide Interactions J. Phys. Chem. A 2013, 117, 489-496
-
(2013)
J. Phys. Chem. A
, vol.117
, pp. 489-496
-
-
Adhikari, U.1
Scheiner, S.2
-
64
-
-
71749112203
-
Cooperativity of π-Stacking and Hydrogen Bonding Interactions and Substituent Effects on X-ben||pyr
-
Ebrahimi, A.; Mostafa, H.; Razieh, S. N.; Gholipour, A. R. Cooperativity of π-Stacking and Hydrogen Bonding Interactions and Substituent Effects on X-ben||pyr-H-F Complexes Phys. Chem. Chem. Phys. 2009, 11, 11424-11431
-
(2009)
Phys. Chem. Chem. Phys.
, vol.11
, pp. 11424-11431
-
-
Ebrahimi, A.1
Mostafa, H.2
Razieh, S.N.3
Gholipour, A.R.4
-
65
-
-
81855190701
-
Evolution of Amide Stacking in Larger Gamma-Peptides: Triamide H-Bonded Cycles
-
James, W. H., III; Buchanan, E. G.; Muller, C. W.; Dean, J. C.; Kosenkov, D.; Slipchenko, L. V.; Guo, L.; Reidenbach, A. G.; Gellman, S. H.; Zwier, T. S. Evolution of Amide Stacking in Larger Gamma-Peptides: Triamide H-Bonded Cycles J. Phys. Chem. A 2011, 115, 13783-13798
-
(2011)
J. Phys. Chem. A
, vol.115
, pp. 13783-13798
-
-
James Iii, W.H.1
Buchanan, E.G.2
Muller, C.W.3
Dean, J.C.4
Kosenkov, D.5
Slipchenko, L.V.6
Guo, L.7
Reidenbach, A.G.8
Gellman, S.H.9
Zwier, T.S.10
-
66
-
-
84864758830
-
Directionality of Inter- and Intramolecular OHO Hydrogen Bonds: DFT Study Followed by AIM and NBO Analysis
-
Majerz, I. Directionality of Inter- and Intramolecular OHO Hydrogen Bonds: DFT Study Followed by AIM and NBO Analysis J. Phys. Chem. A 2012, 116, 7992-8000
-
(2012)
J. Phys. Chem. A
, vol.116
, pp. 7992-8000
-
-
Majerz, I.1
-
67
-
-
84860513565
-
Interactions of Glutathione Tripeptide with Gold Cluster: Influence of Intramolecular Hydrogen Bond on Complexation Behavior
-
Aliakbar Tehrani, Z.; Jamshidi, Z.; Jebeli Javan, M.; Fattahi, A. Interactions of Glutathione Tripeptide with Gold Cluster: Influence of Intramolecular Hydrogen Bond on Complexation Behavior J. Phys. Chem. A 2012, 116, 4338-4347
-
(2012)
J. Phys. Chem. A
, vol.116
, pp. 4338-4347
-
-
Aliakbar Tehrani, Z.1
Jamshidi, Z.2
Jebeli Javan, M.3
Fattahi, A.4
-
68
-
-
80755171507
-
Molecular Design of Hypercoordinated Silacyclophanes
-
Doronina, E. P.; Belogolova, E. F.; Sidorkin, V. F. Molecular Design of Hypercoordinated Silacyclophanes Organometallics 2011, 30, 5595-5603
-
(2011)
Organometallics
, vol.30
, pp. 5595-5603
-
-
Doronina, E.P.1
Belogolova, E.F.2
Sidorkin, V.F.3
-
69
-
-
79957463930
-
-
Semichem Inc. Shawnee Mission, KS
-
Dennington, R.; Keith, T.; Millam, J., GaussView 5.0; Semichem Inc.: Shawnee Mission, KS, 2009.
-
(2009)
GaussView 5.0
-
-
Dennington, R.1
Keith, T.2
Millam, J.3
-
70
-
-
6944251055
-
Note on an Approximation Treatment for Many-Electron Systems
-
Moller, C.; Plesset, M. S. Note on an Approximation Treatment for Many-Electron Systems Phys. Rev. 1934, 46, 618-622
-
(1934)
Phys. Rev.
, vol.46
, pp. 618-622
-
-
Moller, C.1
Plesset, M.S.2
-
72
-
-
66349120487
-
Universal Solvation Model Based on Solute Electron Density and on a Continuum Model of the Solvent Defined by the Bulk Dielectric Constant and Atomic Surface Tensions
-
Marenich, A. V.; Cramer, C. J.; Truhlar, D. G. Universal Solvation Model Based on Solute Electron Density and on a Continuum Model of the Solvent Defined by the Bulk Dielectric Constant and Atomic Surface Tensions J. Phys. Chem. B 2009, 113, 6378-6396
-
(2009)
J. Phys. Chem. B
, vol.113
, pp. 6378-6396
-
-
Marenich, A.V.1
Cramer, C.J.2
Truhlar, D.G.3
-
73
-
-
65249135879
-
Performance of SM6, SM8, and SMD on the SAMPL1 Test Set for the Prediction of Small-Molecule Solvation Free Energies
-
Marenich, A. V.; Cramer, C. J.; Truhlar, D. G. Performance of SM6, SM8, and SMD on the SAMPL1 Test Set for the Prediction of Small-Molecule Solvation Free Energies J. Phys. Chem. B 2009, 113, 4538-4543
-
(2009)
J. Phys. Chem. B
, vol.113
, pp. 4538-4543
-
-
Marenich, A.V.1
Cramer, C.J.2
Truhlar, D.G.3
-
74
-
-
0348110653
-
True Stabilization Energies for the Optimal Planar Hydrogen-Bonded and Stacked Structures of Guanine-Cytosine, Adenine-Thymine, and Their 9- and 1-Methyl Derivatives: Complete Basis Set Calculations at the MP2 and CCSD(T) Levels and Comparison with Experiment
-
Jurecka, P.; Hobza, P. True Stabilization Energies for the Optimal Planar Hydrogen-Bonded and Stacked Structures of Guanine-Cytosine, Adenine-Thymine, and Their 9- and 1-Methyl Derivatives: Complete Basis Set Calculations at the MP2 and CCSD(T) Levels and Comparison with Experiment J. Am. Chem. Soc. 2003, 125, 15608-15613
-
(2003)
J. Am. Chem. Soc.
, vol.125
, pp. 15608-15613
-
-
Jurecka, P.1
Hobza, P.2
-
75
-
-
0018471205
-
Experimental Studies of Molecular Interactions between Nitrogen Bases of Nucleic Acids
-
Yanson, I. K.; Teplitsky, A. B.; Sukhodub, L. F. Experimental Studies of Molecular Interactions between Nitrogen Bases of Nucleic Acids Biopolymers 1979, 18, 1149-1170
-
(1979)
Biopolymers
, vol.18
, pp. 1149-1170
-
-
Yanson, I.K.1
Teplitsky, A.B.2
Sukhodub, L.F.3
-
76
-
-
34547454290
-
Density-Functional, Density-Functional Tight-Binding, and Wave Function Calculations on Biomolecular Systems
-
Kubar, T.; Jureka, P.; Cerny, J.; Rezac, J.; Otyepka, M.; Valdess, H.; Hobza, P. Density-Functional, Density-Functional Tight-Binding, and Wave Function Calculations on Biomolecular Systems J. Phys. Chem. A 2007, 111, 5642-5647
-
(2007)
J. Phys. Chem. A
, vol.111
, pp. 5642-5647
-
-
Kubar, T.1
Jureka, P.2
Cerny, J.3
Rezac, J.4
Otyepka, M.5
Valdess, H.6
Hobza, P.7
-
77
-
-
65249175089
-
Reference Quantum Chemical Calculations on RNA Base Pairs Directly Involving the 2′-OH Group of Ribose
-
Sponer, J.; Jurecka, P.; Zgarbova, M.; Riley, K. E.; Sponer, J. E.; Hobza, P. Reference Quantum Chemical Calculations on RNA Base Pairs Directly Involving the 2′-OH Group of Ribose J. Chem. Theory Comput. 2009, 5, 1166-1179
-
(2009)
J. Chem. Theory Comput.
, vol.5
, pp. 1166-1179
-
-
Sponer, J.1
Jurecka, P.2
Zgarbova, M.3
Riley, K.E.4
Sponer, J.E.5
Hobza, P.6
-
78
-
-
46449083572
-
Bringing Order to Translation: The Contributions of Transfer RNA Anticodon-Domain Modifications
-
Agris, P. F. Bringing Order to Translation: The Contributions of Transfer RNA Anticodon-Domain Modifications EMBO Rep. 2008, 9, 629-635
-
(2008)
EMBO Rep.
, vol.9
, pp. 629-635
-
-
Agris, P.F.1
-
79
-
-
39749138785
-
A Structural Understanding of the Dynamic Ribosome Machine
-
Steitz, T. A. A Structural Understanding of the Dynamic Ribosome Machine Nat. Rev. Mol. Cell Biol. 2008, 9, 242-253
-
(2008)
Nat. Rev. Mol. Cell Biol.
, vol.9
, pp. 242-253
-
-
Steitz, T.A.1
-
80
-
-
0029911794
-
Asp: Structuring Effects of C-H.O Hydrogen Bonds and of Long-Range Hydration Forces
-
Asp: Structuring Effects of C-H...O Hydrogen Bonds and of Long-Range Hydration Forces J. Am. Chem. Soc. 1996, 118, 1181-1189
-
(1996)
J. Am. Chem. Soc.
, vol.118
, pp. 1181-1189
-
-
Auffinger, P.1
Louise-May, S.2
Westhof, E.3
-
81
-
-
0033439802
-
C-H.O and C-H.N Interactions in RNA Structures
-
Brandl, M.; Lindauer, K.; Meyer, M.; Suhnel, J. C-H...O and C-H...N Interactions in RNA Structures Theor. Chem. Acc. 1999, 101, 103-113
-
(1999)
Theor. Chem. Acc.
, vol.101
, pp. 103-113
-
-
Brandl, M.1
Lindauer, K.2
Meyer, M.3
Suhnel, J.4
-
82
-
-
0037035204
-
Red- versus Blue-Shifting Hydrogen Bonds: Are There Fundamental Distictions?
-
Scheiner, S.; Kar, T. Red- versus Blue-Shifting Hydrogen Bonds: Are There Fundamental Distictions? J. Phys. Chem. A 2002, 106, 1784-1789
-
(2002)
J. Phys. Chem. A
, vol.106
, pp. 1784-1789
-
-
Scheiner, S.1
Kar, T.2
-
83
-
-
0035971221
-
αH.O Hydrogen Bond of Amino Acid Residues
-
αH..O Hydrogen Bond of Amino Acid Residues J. Biol. Chem. 2001, 276, 9832-9837
-
(2001)
J. Biol. Chem.
, vol.276
, pp. 9832-9837
-
-
Scheiner, S.1
Kar, T.2
Gu, Y.3
-
84
-
-
84859043832
-
Magnitude of CH/O Interactions between Carbohydrate and Water
-
Tsuzuki, S.; Uchimaru, T.; Mikami, M. Magnitude of CH/O Interactions between Carbohydrate and Water Theor. Chem. Acc. 2012, 131, 1192-1200
-
(2012)
Theor. Chem. Acc.
, vol.131
, pp. 1192-1200
-
-
Tsuzuki, S.1
Uchimaru, T.2
Mikami, M.3
-
85
-
-
77956330672
-
Estimating Hydrogen Bond Energy
-
Wendler, K.; Thar, J.; Zahn, S.; Kirchner, B. Estimating Hydrogen Bond Energy J. Phys. Chem. A 2010, 114, 9529-9536
-
(2010)
J. Phys. Chem. A
, vol.114
, pp. 9529-9536
-
-
Wendler, K.1
Thar, J.2
Zahn, S.3
Kirchner, B.4
-
86
-
-
33744807172
-
The Building Blocks and Motifs of RNA Architecture
-
Leontis, N. B.; Lescoute, A.; Westhof, E. The Building Blocks and Motifs of RNA Architecture Curr. Opin. Struct. Biol. 2006, 16, 279-287
-
(2006)
Curr. Opin. Struct. Biol.
, vol.16
, pp. 279-287
-
-
Leontis, N.B.1
Lescoute, A.2
Westhof, E.3
-
88
-
-
69849114530
-
Classification and Energetics of the Base-Phosphate Interactions in RNA
-
Zirbel, C. L.; Sponer, J. E.; Sponer, J.; Stombaugh, J.; Leontis, N. B. Classification and Energetics of the Base-Phosphate Interactions in RNA Nucleic Acids Res. 2009, 37, 4898-4918
-
(2009)
Nucleic Acids Res.
, vol.37
, pp. 4898-4918
-
-
Zirbel, C.L.1
Sponer, J.E.2
Sponer, J.3
Stombaugh, J.4
Leontis, N.B.5
-
89
-
-
13444288185
-
Compilation of tRNA Sequences and Sequences of tRNA Genes
-
Sprinzl, M.; Vassilenko, K. S. Compilation of tRNA Sequences and Sequences of tRNA Genes Nucleic Acids Res. 2005, 33, D139-D140
-
(2005)
Nucleic Acids Res.
, vol.33
-
-
Sprinzl, M.1
Vassilenko, K.S.2
-
90
-
-
0003634460
-
-
Grosjean, H. Benne, R. ASM Press: Herndon, VA
-
Auffinger, P.; Westhof, E. In Modification and Editing of RNA; Grosjean, H.; Benne, R., Eds.; ASM Press: Herndon, VA, 1998; pp 569-576.
-
(1998)
Modification and Editing of RNA
, pp. 569-576
-
-
Auffinger, P.1
Westhof, E.2
-
91
-
-
0029077732
-
An Anticodon Sequence Mutant of Escherichia coli Initiator tRNA: Possible Importance of a Newly Acquired Base Modification next to the Anticodon on Its Activity in Initiation
-
Mangroo, D.; Limbach, P. A.; McCloskey, J. A.; RajBhandary, U. L. An Anticodon Sequence Mutant of Escherichia coli Initiator tRNA: Possible Importance of a Newly Acquired Base Modification Next to the Anticodon on Its Activity in Initiation J. Bacteriol. 1995, 177, 2858-2862
-
(1995)
J. Bacteriol.
, vol.177
, pp. 2858-2862
-
-
Mangroo, D.1
Limbach, P.A.2
McCloskey, J.A.3
Rajbhandary, U.L.4
-
92
-
-
33847107595
-
Impact of Pyrophosphate and O-Ethyl-Substituted Pyrophosphate Groups on DNA Structure
-
Rogacheva, M. V.; Bochenkova, A. V.; Kuznetsova, S. A.; Saparbaev, M. K.; Nemukhin, A. V. Impact of Pyrophosphate and O-Ethyl-Substituted Pyrophosphate Groups on DNA Structure J. Phys. Chem. B 2006, 111, 432-438
-
(2006)
J. Phys. Chem. B
, vol.111
, pp. 432
-
-
Rogacheva, M.V.1
Bochenkova, A.V.2
Kuznetsova, S.A.3
Saparbaev, M.K.4
Nemukhin, A.V.5
|