-
1
-
-
0015511563
-
Conformational analysis of the sugar ring in nucleosides and nucleotides. A new description using the concept of pseudorotation
-
Altona C, Sundaralingam M (1972) Conformational analysis of the sugar ring in nucleosides and nucleotides. A new description using the concept of pseudorotation. J Am Chem Soc 94:8205-8212
-
(1972)
J Am Chem Soc
, vol.94
, pp. 8205-8212
-
-
Altona, C.1
Sundaralingam, M.2
-
2
-
-
0029776466
-
Asp anticodon hairpin: 3 ns of multiple molecular dynamics simulations
-
Asp anticodon hairpin: 3 ns of multiple molecular dynamics simulations Biophys J 71:940-954
-
(1996)
Biophys J
, vol.71
, pp. 940-954
-
-
Auffinger, P.1
Westhof, E.2
-
3
-
-
0030723027
-
Rules governing the orientation of the 2′-hydroxyl group in RNA
-
Auffinger P, Westhof E (1997) Rules governing the orientation of the 2′-hydroxyl group in RNA. J Mol Biol 274:54-63
-
(1997)
J Mol Biol
, vol.274
, pp. 54-63
-
-
Auffinger, P.1
Westhof, E.2
-
4
-
-
0344796204
-
Ion-water interaction potentials derived from free energy perturbation simulations
-
Åqvist JJ (1990) Ion-water interaction potentials derived from free energy perturbation simulations. Phys Chem 94:8021-8024
-
(1990)
Phys Chem
, vol.94
, pp. 8021-8024
-
-
Åqvist, J.J.1
-
5
-
-
33750587438
-
Molecular dynamics with coupling to an external bath
-
Berendsen HJC, Postma JPM, van Gunsteren WF, Dinola A, Haak JR (1984) Molecular dynamics with coupling to an external bath J Chem Phys 81:3684-3690
-
(1984)
J Chem Phys
, vol.81
, pp. 3684-3690
-
-
Berendsen, H.J.C.1
Postma, J.P.M.2
Van Gunsteren, W.F.3
Dinola, A.4
Haak, J.R.5
-
8
-
-
0029011701
-
A second generation force field for the simulation of proteins. nucleic acids and organic molecules
-
Cornell WD, Cieplak P, Bayly CI, Gould IR, Merz KM, Ferguson DM, Spellmeyer DC, Fox T, Caldwell JW, Kollman PA (1995) A second generation force field for the simulation of proteins. nucleic acids and organic molecules. J Am Chem Soc 117-5179-5197
-
(1995)
J Am Chem Soc
, vol.117
, pp. 5179-5197
-
-
Cornell, W.D.1
Cieplak, P.2
Bayly, C.I.3
Gould, I.R.4
Merz, K.M.5
Ferguson, D.M.6
Spellmeyer, D.C.7
Fox, T.8
Caldwell, J.W.9
Kollman, P.A.10
-
9
-
-
0025998488
-
Role of divalent metal ions in the hammerhead RNA cleavage reaction
-
Dahm SC, Uhlenbeck OC (1991) Role of divalent metal ions in the hammerhead RNA cleavage reaction. Biochemistry 30-9464-9469
-
(1991)
Biochemistry
, vol.30
, pp. 9464-9469
-
-
Dahm, S.C.1
Uhlenbeck, O.C.2
-
10
-
-
0027732494
-
Evidence for the role of solvated metal hydroxide in the hammerhead cleavage reaction
-
Dahm SC, Derrick WB, Uhlenbeck OC (1993) Evidence for the role of solvated metal hydroxide in the hammerhead cleavage reaction. Biochemistry 32:13040-13045
-
(1993)
Biochemistry
, vol.32
, pp. 13040-13045
-
-
Dahm, S.C.1
Derrick, W.B.2
Uhlenbeck, O.C.3
-
11
-
-
33846823909
-
Particle Mesh Ewald: An N.log(N) method for Ewald sums in large systems
-
Darden TA, York D, Pedersen LG (1993) Particle Mesh Ewald: an N.log(N) method for Ewald sums in large systems. J Chem Phys 98:10089-10092
-
(1993)
J Chem Phys
, vol.98
, pp. 10089-10092
-
-
Darden, T.A.1
York, D.2
Pedersen, L.G.3
-
14
-
-
0030849184
-
Evidence for a hydroxide ion bridging two magnesium ions at the active site of the hammerhead ribozyme
-
Hermann T, Auffinger P, Scott WG, Westhof E (1997) Evidence for a hydroxide ion bridging two magnesium ions at the active site of the hammerhead ribozyme. Nucleic Acids Res 25:3421-3427
-
(1997)
Nucleic Acids Res
, vol.25
, pp. 3421-3427
-
-
Hermann, T.1
Auffinger, P.2
Scott, W.G.3
Westhof, E.4
-
15
-
-
0028288686
-
A kinetic and thermodynamic framework for the hammerhead ribozyme reaction
-
Hertel KJ, Herschlag D, Uhlenbeck OC (1994) A kinetic and thermodynamic framework for the hammerhead ribozyme reaction. Biochemistry 33:3374-3385
-
(1994)
Biochemistry
, vol.33
, pp. 3374-3385
-
-
Hertel, K.J.1
Herschlag, D.2
Uhlenbeck, O.C.3
-
16
-
-
0001628106
-
Molecular dynamics studies of a high resolution Z-DNA crystal
-
Lee H, Darden TA, Pedersen LG (1995) Molecular dynamics studies of a high resolution Z-DNA crystal. J Chem Phys 102:3830-3834
-
(1995)
J Chem Phys
, vol.102
, pp. 3830-3834
-
-
Lee, H.1
Darden, T.A.2
Pedersen, L.G.3
-
17
-
-
0028842731
-
Divalent metal ions and the internal equilibrium of the hammerhead ribozyme
-
Long DM, LaRiviere FJ, Uhlenbeck OC (1995) Divalent metal ions and the internal equilibrium of the hammerhead ribozyme. Biochemistry 34:14435-14440
-
(1995)
Biochemistry
, vol.34
, pp. 14435-14440
-
-
Long, D.M.1
LaRiviere, F.J.2
Uhlenbeck, O.C.3
-
18
-
-
0345001279
-
Crystallographic structures of RNA oligoribonucleotides and ribozymes
-
Neidle S (ed). London (in press)
-
Masquida B, Westhof E (1997). Crystallographic structures of RNA oligoribonucleotides and ribozymes. In: Neidle S (ed) Oxford handbook of nucleic acid structure. London (in press)
-
(1997)
Oxford Handbook of Nucleic Acid Structure
-
-
Masquida, B.1
Westhof, E.2
-
20
-
-
0029949701
-
Structure and function of the hammerhead ribozyme: An unfinished story
-
McKay DB (1996) Structure and function of the hammerhead ribozyme: an unfinished story. RNA 2:395-403
-
(1996)
RNA
, vol.2
, pp. 395-403
-
-
McKay, D.B.1
-
21
-
-
0024788282
-
A computational approach to the mechanism of self-cleavage of hammerhead RNA
-
Mei HY, Kaaret TW, Bruice TC (1989) A computational approach to the mechanism of self-cleavage of hammerhead RNA. Proc Natl Acad Sci USA 86:9727-9731
-
(1989)
Proc Natl Acad Sci USA
, vol.86
, pp. 9727-9731
-
-
Mei, H.Y.1
Kaaret, T.W.2
Bruice, T.C.3
-
22
-
-
0031577316
-
Theoretical studies of an exceptionally stable RNA tetraloop: Observation of convergence from an incorrect NMR structure to the correct one using unrestrained molecular dynamics
-
Miller JL, Kollman PA (1997) Theoretical studies of an exceptionally stable RNA tetraloop: observation of convergence from an incorrect NMR structure to the correct one using unrestrained molecular dynamics. J Mol Biol 270:436-450
-
(1997)
J Mol Biol
, vol.270
, pp. 436-450
-
-
Miller, J.L.1
Kollman, P.A.2
-
23
-
-
0004279414
-
-
San Francisco. California
-
Pearlman DA, Case DA, Caldwell JW, Ross WS, Cheatham TE, DeBolt S, Ferguson D, Seibel G, Singh UC, Weiner PK, Kollman PA (1994) AMBER 4.1. San Francisco. California
-
(1994)
AMBER 4.1
-
-
Pearlman, D.A.1
Case, D.A.2
Caldwell, J.W.3
Ross, W.S.4
Cheatham, T.E.5
Debolt, S.6
Ferguson, D.7
Seibel, G.8
Singh, U.C.9
Weiner, P.K.10
Kollman, P.A.11
-
24
-
-
0028063567
-
Three-dimensional structure of a hammerhead ribozyme
-
Pley HW, Flaherty KM, McKay DB (1994) Three-dimensional structure of a hammerhead ribozyme. Nature 372:68-74
-
(1994)
Nature
, vol.372
, pp. 68-74
-
-
Pley, H.W.1
Flaherty, K.M.2
McKay, D.B.3
-
25
-
-
0017182937
-
Structural domains of transfer RNA molecules
-
Quigley GJ, Rich A (1976) Structural domains of transfer RNA molecules. Science 194:796-806.
-
(1976)
Science
, vol.194
, pp. 796-806
-
-
Quigley, G.J.1
Rich, A.2
-
26
-
-
33646940952
-
Numerical integration of cartesian equations of motion of a system with constraints: Molecular dynamics of n-alkanes
-
Ryckaert JP, Ciccotti G, Berendsen HJC (1977) Numerical integration of cartesian equations of motion of a system with constraints: molecular dynamics of n-alkanes. J Comput Phys 23:327-336
-
(1977)
J Comput Phys
, vol.23
, pp. 327-336
-
-
Ryckaert, J.P.1
Ciccotti, G.2
Berendsen, H.J.C.3
-
27
-
-
0029951474
-
Ribozymes: Structure and mechanism in RNA catalysis
-
Scott WG, Klug A (1996) Ribozymes: structure and mechanism in RNA catalysis. Trends Biochem Sci 21:220-224
-
(1996)
Trends Biochem Sci
, vol.21
, pp. 220-224
-
-
Scott, W.G.1
Klug, A.2
-
28
-
-
0029073091
-
The crystal structure of an all-RNA hammerhead ribozyme: A proposed mechanism for RNA catalytic cleavage
-
Scott WG, Finch JT, Klug A (1995) The crystal structure of an all-RNA hammerhead ribozyme: a proposed mechanism for RNA catalytic cleavage. Cell 81:991-1002
-
(1995)
Cell
, vol.81
, pp. 991-1002
-
-
Scott, W.G.1
Finch, J.T.2
Klug, A.3
-
29
-
-
0030476765
-
Capturing the structure of a catalytic RNA intermediate: The hammerhead ribozyme
-
Scott WG, Murray JB, Arnold JRP, Stoddard BL, Klug A (1996) Capturing the structure of a catalytic RNA intermediate: the hammerhead ribozyme. Science 274:2065-2069
-
(1996)
Science
, vol.274
, pp. 2065-2069
-
-
Scott, W.G.1
Murray, J.B.2
Arnold, J.R.P.3
Stoddard, B.L.4
Klug, A.5
-
30
-
-
0029609884
-
Modeling of a possible conformational change associated with the catalytic mechanism in the hammerhead ribozyme
-
Setlik RF, Shibata M, Sarma RH, Sanna MH, Kazim AL, Ornstein RL, Tomasi TB, Rein RJ (1995) Modeling of a possible conformational change associated with the catalytic mechanism in the hammerhead ribozyme. J Biomol Struct Dynam 13:515-522
-
(1995)
J Biomol Struct Dynam
, vol.13
, pp. 515-522
-
-
Setlik, R.F.1
Shibata, M.2
Sarma, R.H.3
Sanna, M.H.4
Kazim, A.L.5
Ornstein, R.L.6
Tomasi, T.B.7
Rein, R.J.8
-
31
-
-
0031028479
-
A conformational change in the catalytic core of the hammerhead ribozyme upon cleavage of an RNA substrate
-
Simorre J-P, Legault P, Hangar AB, Michiels P, Pardi A (1997) A conformational change in the catalytic core of the hammerhead ribozyme upon cleavage of an RNA substrate. Biochemistry 36:518-525
-
(1997)
Biochemistry
, vol.36
, pp. 518-525
-
-
Simorre, J.-P.1
Legault, P.2
Hangar, A.B.3
Michiels, P.4
Pardi, A.5
-
32
-
-
0026651086
-
Small catalytic RNAs
-
Symons RH (1992) Small catalytic RNAs. Annu Rev Biochem 61:641-671
-
(1992)
Annu Rev Biochem
, vol.61
, pp. 641-671
-
-
Symons, R.H.1
-
33
-
-
0028942751
-
Temperature-dependent change in rate-determining step in a reaction catalyzed by a hammerhead ribozyme
-
Takagi, Y, Taira K (1995) Temperature-dependent change in rate-determining step in a reaction catalyzed by a hammerhead ribozyme. FEBS Lett 361:273-276
-
(1995)
FEBS Lett
, vol.361
, pp. 273-276
-
-
Takagi, Y.1
Taira, K.2
-
35
-
-
0027973506
-
A three-dimensional model for the hammerhead ribozyme based on fluorescence measurements
-
Tuschl T, Gohlke C, Jovin TM, Westhof E, Eckstein F (1994) A three-dimensional model for the hammerhead ribozyme based on fluorescence measurements. Science 266:785-789
-
(1994)
Science
, vol.266
, pp. 785-789
-
-
Tuschl, T.1
Gohlke, C.2
Jovin, T.M.3
Westhof, E.4
Eckstein, F.5
-
36
-
-
0023221419
-
A small catalytic oligoribonucleotide
-
Uhlenbeck O (1987) A small catalytic oligoribonucleotide. Nature 328:596-600
-
(1987)
Nature
, vol.328
, pp. 596-600
-
-
Uhlenbeck, O.1
-
37
-
-
0029082407
-
New crystal structures of nucleic acids and their complexes
-
Wahl MC, Sundaralingam M (1995) New crystal structures of nucleic acids and their complexes. Curr Opin Struct Biol 5:282-295
-
(1995)
Curr Opin Struct Biol
, vol.5
, pp. 282-295
-
-
Wahl, M.C.1
Sundaralingam, M.2
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