-
1
-
-
0036761417
-
RNA loop-loop interactions as dynamic functional motifs
-
Brunel,C., Marquet,R., Romby,P. and Ehresmann,C. (2002) RNA loop-loop interactions as dynamic functional motifs. Biochimie, 84, 925-944.
-
(2002)
Biochimie
, vol.84
, pp. 925-944
-
-
Brunel, C.1
Marquet, R.2
Romby, P.3
Ehresmann, C.4
-
2
-
-
0025069836
-
Complex formed by complementary RNA stem-loops and its stabilization by a protein: Function of CoIE1 Rom protein
-
Eguchi,Y. and Tomizawa,J. (1990) Complex formed by complementary RNA stem-loops and its stabilization by a protein: function of CoIE1 Rom protein. Cell, 60, 199-209.
-
(1990)
Cell
, vol.60
, pp. 199-209
-
-
Eguchi, Y.1
Tomizawa, J.2
-
3
-
-
0023046221
-
Control of ColE1 plasmid replication: Binding of RNA I to RNA II and inhibition of primer formation
-
Tomizawa,J. (1986) Control of ColE1 plasmid replication: binding of RNA I to RNA II and inhibition of primer formation. Cell, 47, 89-97.
-
(1986)
Cell
, vol.47
, pp. 89-97
-
-
Tomizawa, J.1
-
4
-
-
0022518540
-
Control of primer formation for ColE1 plasmid replication: Conformational change of the primer transcript
-
Masukata,H. and Tomizawa,J. (1986) Control of primer formation for ColE1 plasmid replication: conformational change of the primer transcript. Cell, 44, 125-136.
-
(1986)
Cell
, vol.44
, pp. 125-136
-
-
Masukata, H.1
Tomizawa, J.2
-
5
-
-
0029001288
-
Bent helix formation between RNA hairpins with complementary loops
-
Marino,J.P., Gregorian,R.S., Csankovszki,G. and Crothers,D.M. (1995) Bent helix formation between RNA hairpins with complementary loops. Science, 268, 1448-1454.
-
(1995)
Science
, vol.268
, pp. 1448-1454
-
-
Marino, J.P.1
Gregorian, R.S.2
Csankovszki, G.3
Crothers, D.M.4
-
6
-
-
0032528951
-
The solution structure of an RNA loop-loop complex: The ColE1 inverted loop sequence
-
Lee,A.J. and Crothers,D.M. (1998) The solution structure of an RNA loop-loop complex: the ColE1 inverted loop sequence. Structure, 6, 993-1005.
-
(1998)
Structure
, vol.6
, pp. 993-1005
-
-
Lee, A.J.1
Crothers, D.M.2
-
7
-
-
4243618924
-
Restrained refinment of two crystalline forms of yeast aspartic acid and tRNAphe crystals
-
Westhof,E., Dumas,P. and Moras,D. (1988) Restrained refinment of two crystalline forms of yeast aspartic acid and tRNAphe crystals. Acta Crystallogr. D Biol. Crystallogr., 44, 621.
-
(1988)
Acta Crystallogr. D Biol. Crystallogr.
, vol.44
, pp. 621
-
-
Westhof, E.1
Dumas, P.2
Moras, D.3
-
8
-
-
0034637111
-
The complete atomic structure of the large ribosornal subunit at 2.4 Å resolution
-
Ban,N., Nissen,P., Hansen,J., Moore,P.B. and Steitz,T.A. (2000):The complete atomic structure of the large ribosornal subunit at 2.4 Å resolution. Science, 289, 905.
-
(2000)
Science
, vol.289
, pp. 905
-
-
Ban, N.1
Nissen, P.2
Hansen, J.3
Moore, P.B.4
Steitz, T.A.5
-
9
-
-
0034662880
-
A retroviral RNA kissing complex containing only two G-C base pairs
-
Kim,C.H. and Tinoco,I. (2000) A retroviral RNA kissing complex containing only two G-C base pairs. Proc. Natl Acad. Sci. USA, 97, 9396-9401.
-
(2000)
Proc. Natl. Acad. Sci. USA
, vol.97
, pp. 9396-9401
-
-
Kim, C.H.1
Tinoco, I.2
-
10
-
-
0035184520
-
Crystal structures of coaxially stacked kissing complexes of the HIV-1 RNA dimerization initiation site
-
Ennifar,E., Walter,P., Ehresmann,B., Ehresmann,C. and Dumas,P. (2001) Crystal structures of coaxially stacked kissing complexes of the HIV-1 RNA dimerization initiation site. Nature Struct. Biol., 8, 1064-1068.
-
(2001)
Nature Struct. Biol.
, vol.8
, pp. 1064-1068
-
-
Ennifar, E.1
Walter, P.2
Ehresmann, B.3
Ehresmann, C.4
Dumas, P.5
-
11
-
-
0031749733
-
Structure of the dimer initiation complex of HIV-1 genomic RNA
-
Mujeeb,A., Clever,J.L., Billeci,T.M., James,T.L. and Parslow,T.G. (1998) Structure of the dimer initiation complex of HIV-1 genomic RNA. Nature Struct. Biol., 5, 432-436.
-
(1998)
Nature Struct. Biol.
, vol.5
, pp. 432-436
-
-
Mujeeb, A.1
Clever, J.L.2
Billeci, T.M.3
James, T.L.4
Parslow, T.G.5
-
12
-
-
0028168585
-
Characterization of a "kissing" hairpin complex derived from the human immunodeficiency virus genome
-
Chang,K.Y. and Tinoco,I. (1994) Characterization of a "kissing" hairpin complex derived from the human immunodeficiency virus genome. Proc. Natl Acad. Sci. USA, 91, 8705-8709.
-
(1994)
Proc. Natl. Acad. Sci. USA
, vol.91
, pp. 8705-8709
-
-
Chang, K.Y.1
Tinoco, I.2
-
13
-
-
0031591383
-
The structure of an RNA "Kissing" hairpin complex of the HIV TAR hairpin loop and its complement
-
Chang,K.Y. and Tinoco,I. (1997) The structure of an RNA "Kissing" hairpin complex of the HIV TAR hairpin loop and its complement. J. Mol. Biol., 269, 52-66.
-
(1997)
J. Mol. Biol.
, vol.269
, pp. 52-66
-
-
Chang, K.Y.1
Tinoco, I.2
-
14
-
-
0032701796
-
Tackling Tat
-
Karn,J. (1999) Tackling Tat. J. Mol. Biol., 293, 235-254.
-
(1999)
J. Mol. Biol.
, vol.293
, pp. 235-254
-
-
Karn, J.1
-
15
-
-
0032531696
-
Mapping of a protein-RNA kissing hairpin interface: Rom and Tar-Tar
-
Comolli,L.R., Pelton,J.G. and Tinoco,I. (1998) Mapping of a protein-RNA kissing hairpin interface: Rom and Tar-Tar*. Nucleic Acids Res., 26, 4688-4695.
-
(1998)
Nucleic Acids Res.
, vol.26
, pp. 4688-4695
-
-
Comolli, L.R.1
Pelton, J.G.2
Tinoco, I.3
-
16
-
-
0025861307
-
Complexes formed by complementary RNA stem-loops. Their formations, structures and interaction with ColE1 Rom protein
-
Eguchi,Y. and Tomizawa,J. (1991) Complexes formed by complementary RNA stem-loops. Their formations, structures and interaction with ColE1 Rom protein. J. Mol. Biol., 220, 831-842.
-
(1991)
J. Mol. Biol.
, vol.220
, pp. 831-842
-
-
Eguchi, Y.1
Tomizawa, J.2
-
17
-
-
0033617287
-
DNA aptamers selected against the HIV-1 trans-activation responsive RNA element form RNA-DNA Kissing complexes
-
Boiziau,C., Dausse,E., Yurchenko,L. and Toulmé,J.J. (1999) DNA aptamers selected against the HIV-1 trans-activation responsive RNA element form RNA-DNA Kissing complexes. J. Biol. Chem., 274, 1273-1277.
-
(1999)
J. Biol. Chem.
, vol.274
, pp. 1273-1277
-
-
Boiziau, C.1
Dausse, E.2
Yurchenko, L.3
Toulmé, J.J.4
-
18
-
-
0034284412
-
NMR charactrization of a kissing complex formed between the TAR element of HIV-1 and a DNA aptamer
-
Collin,D., Van Heijenoort,C., Toulmé,J.J. and Guittet,E. (2000) NMR charactrization of a kissing complex formed between the TAR element of HIV-1 and a DNA aptamer. Nucleic Acids Res., 28, 3386-3391.
-
(2000)
Nucleic Acids Res.
, vol.28
, pp. 3386-3391
-
-
Collin, D.1
Van Heijenoort, C.2
Toulmé, J.J.3
Guittet, E.4
-
19
-
-
0036129837
-
A new peculiar DNA structure: NMR solution of a DNA kissing complex
-
Barbault,F., Huynh-Dinh,T., Paoletti,J. and Lancelot,G. (2002) A new peculiar DNA structure: NMR solution of a DNA kissing complex. J. Biomol. Struct. Dyn., 19, 649-658.
-
(2002)
J. Biomol. Struct. Dyn.
, vol.19
, pp. 649-658
-
-
Barbault, F.1
Huynh-Dinh, T.2
Paoletti, J.3
Lancelot, G.4
-
20
-
-
0032795088
-
In vitro selection identifies key determinants for loop-loop interactions: RNA aptamers selective for the TAR RNA element of HIV-1
-
Ducongé,F. and Toulmé,J.J. (1999) In vitro selection identifies key determinants for loop-loop interactions: RNA aptamers selective for the TAR RNA element of HIV-1. RNA, 5, 1605-1614.
-
(1999)
RNA
, vol.5
, pp. 1605-1614
-
-
Ducongé, F.1
Toulmé, J.J.2
-
21
-
-
0034647516
-
Is a closing "GA pair" a rule for stable loop-loop RNA complexes
-
Ducongé,F., Di Primo,C. and Toulmé,J.J. (2000) Is a closing "GA pair" a rule for stable loop-loop RNA complexes. J. Biol. Chem., 275, 21287-21294.
-
(2000)
J. Biol. Chem.
, vol.275
, pp. 21287-21294
-
-
Ducongé, F.1
Di Primo, C.2
Toulmé, J.J.3
-
22
-
-
0034671676
-
Molecular dynamics studies of the HIV-1 TAR and its complex with argininamide
-
Nifosi,R., Reyes,C.M. and Kollman,P.A. (2000) Molecular dynamics studies of the HIV-1 TAR and its complex with argininamide. Nucleic Acids Res., 28, 4944-4955.
-
(2000)
Nucleic Acids Res.
, vol.28
, pp. 4944-4955
-
-
Nifosi, R.1
Reyes, C.M.2
Kollman, P.A.3
-
23
-
-
0034999080
-
Molecular dynamics and binding specificity analysis of the bovine immunodeficiency virus BIV Tat-TAR complex
-
Reyes,C.M., Nifosi,R., Frankel,A.D. and Kollman,P.A. (2001) Molecular dynamics and binding specificity analysis of the bovine immunodeficiency virus BIV Tat-TAR complex. Biophys. J., 80, 2833-2842.
-
(2001)
Biophys. J.
, vol.80
, pp. 2833-2842
-
-
Reyes, C.M.1
Nifosi, R.2
Frankel, A.D.3
Kollman, P.A.4
-
24
-
-
0036909138
-
Molecular modeling and dynamics studies of HIV-1 kissing loop structures
-
Pattabiran,N., Martinez,H. and Shapiro,B. (2002) Molecular modeling and dynamics studies of HIV-1 kissing loop structures. J. Biomol. Struct. Dyn., 20, 397-412.
-
(2002)
J. Biomol. Struct. Dyn.
, vol.20
, pp. 397-412
-
-
Pattabiran, N.1
Martinez, H.2
Shapiro, B.3
-
25
-
-
84986512474
-
CHARMM: A program for macromolecular energy, minimization and dynamics calculations
-
Brooks,B.R., Bruccoleri,R.E., Olafson,B.D., States,D.J., Swaminathan,S. and Karplus,M. (1983) CHARMM: a program for macromolecular energy, minimization and dynamics calculations. J. Comput. Chem., 4, 187-217.
-
(1983)
J. Comput. Chem.
, vol.4
, pp. 187-217
-
-
Brooks, B.R.1
Bruccoleri, R.E.2
Olafson, B.D.3
States, D.J.4
Swaminathan, S.5
Karplus, M.6
-
26
-
-
0000214231
-
All-atom empirical forcefield for nucleic acids: Application to molecular dynamics simulations of DNA and RNA in solution
-
Foloppe,N. and Mackerell,A.D. (2000) All-atom empirical forcefield for nucleic acids: application to molecular dynamics simulations of DNA and RNA in solution. J. Comput. Chem., 21, 105-120.
-
(2000)
J. Comput. Chem.
, vol.21
, pp. 105-120
-
-
Foloppe, N.1
Mackerell, A.D.2
-
27
-
-
0004016501
-
Comparison of simple potential functions for simulating water
-
Jorengsen,W.L., Chandrasekhar,J., Madura,J.D., Imprey,R.W. and Klein,M.L. (1983) Comparison of simple potential functions for simulating water. J. Chem. Phys., 79, 926-935.
-
(1983)
J. Chem. Phys.
, vol.79
, pp. 926-935
-
-
Jorengsen, W.L.1
Chandrasekhar, J.2
Madura, J.D.3
Imprey, R.W.4
Klein, M.L.5
-
28
-
-
0001655657
-
Finite representation of an infinite bulk system: Solvent boundary potential for computer simulations
-
Beglov,D. and Roux,B. (1994) Finite representation of an infinite bulk system: solvent boundary potential for computer simulations. J. Chem. Phys., 100, 9050-9063.
-
(1994)
J. Chem. Phys.
, vol.100
, pp. 9050-9063
-
-
Beglov, D.1
Roux, B.2
-
29
-
-
33645961739
-
A smooth particle mesh ewald method
-
Essman,U., Perera,L., Berkowitz,M.L., Darden,T.D. and Pedersen,L.G. (1995) A smooth particle mesh ewald method. J. Chem. Phys., 103, 8577-8593.
-
(1995)
J. Chem. Phys.
, vol.103
, pp. 8577-8593
-
-
Essman, U.1
Perera, L.2
Berkowitz, M.L.3
Darden, T.D.4
Pedersen, L.G.5
-
30
-
-
33646940952
-
Numerical integration of the Cartesian equations of motion of a system with constraints: Molecular dynamics of n-alkanes
-
Ryckaert,J.-P., Ciccotti,G. and Berendsen,H.J.C. (1977) Numerical integration of the Cartesian equations of motion of a system with constraints: molecular dynamics of n-alkanes. J. Comp. Phys., 23, 327-341.
-
(1977)
J. Comp. Phys.
, vol.23
, pp. 327-341
-
-
Ryckaert, J.-P.1
Ciccotti, G.2
Berendsen, H.J.C.3
-
31
-
-
0034698001
-
A-DNA conformational motifs in ligand bound double helices
-
Lu,X.J., Shakked,Z. and Olson,W.K. (2000) A-DNA conformational motifs in ligand bound double helices. J. Mol. Biol., 300, 819-840.
-
(2000)
J. Mol. Biol.
, vol.300
, pp. 819-840
-
-
Lu, X.J.1
Shakked, Z.2
Olson, W.K.3
-
32
-
-
14244271476
-
Molecular dynamics simulation of nucleic acids: Successes, limitations and promise
-
Cheatham,T.E., Kollman,P.A. and Young,M.A. (2001) Molecular dynamics simulation of nucleic acids: successes, limitations and promise. Biopolymers, 56, 232-256.
-
(2001)
Biopolymers
, vol.56
, pp. 232-256
-
-
Cheatham, T.E.1
Kollman, P.A.2
Young, M.A.3
-
33
-
-
0033654654
-
Molecular dynamics simulation of nucleic acids
-
Cheatham,T.E. and Kollman,P.A. (2001) Molecular dynamics simulation of nucleic acids. Annu. Rev. Phys. Chem., 51, 435-471.
-
(2001)
Annu. Rev. Phys. Chem.
, vol.51
, pp. 435-471
-
-
Cheatham, T.E.1
Kollman, P.A.2
-
34
-
-
0344479434
-
L'échange des protons iminos: Une sonde du mouvement d'ouverture des bases des acides nucléiques
-
Leroy,J.L. (1990) L'échange des protons iminos: une sonde du mouvement d'ouverture des bases des acides nucléiques. Regard Biochimie, 5, 57-65.
-
(1990)
Regard Biochimie
, vol.5
, pp. 57-65
-
-
Leroy, J.L.1
-
35
-
-
0037102491
-
The non Watson-Crick base pairs and their associated isostericity matrices
-
Leontis,N.B., Stombaugh,J. and Westhof,E. (2002) The non Watson-Crick base pairs and their associated isostericity matrices. Nucleic Acids Res., 30, 3497-3531.
-
(2002)
Nucleic Acids Res.
, vol.30
, pp. 3497-3531
-
-
Leontis, N.B.1
Stombaugh, J.2
Westhof, E.3
-
36
-
-
0036083830
-
The IMB Jena image library of biological macromolecules: 2002 update
-
Reichtert,J. and Sühnel,J. (2002) The IMB Jena image library of biological macromolecules: 2002 update. Nucleic Acids Res., 30, 253-254.
-
(2002)
Nucleic Acids Res.
, vol.30
, pp. 253-254
-
-
Reichtert, J.1
Sühnel, J.2
-
37
-
-
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. and Doudna,J.A. (1996) RNA tertiary structure mediation by adenosine platforms. Science, 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
-
38
-
-
0034615759
-
Structure of the S15, S6, S18-rRNA complex: Assembly of the 30S ribosome central domain
-
Agalarov,S.C., Prasad,G.S., Funke,P.M., Stout,C.D. and Williamson,J.R. (2000) Structure of the S15, S6, S18-rRNA complex: assembly of the 30S ribosome central domain. Science, 288, 107-113.
-
(2000)
Science
, vol.288
, pp. 107-113
-
-
Agalarov, S.C.1
Prasad, G.S.2
Funke, P.M.3
Stout, C.D.4
Williamson, J.R.5
-
39
-
-
0030929777
-
Solution structure of (rGCGAGCGC)2 by two-dimensional NMR and the iterative relaxation matrix approach
-
Wu,M., SantaLucia,J.J. and Turner,D.H. (1997) Solution structure of (rGCGAGCGC)2 by two-dimensional NMR and the iterative relaxation matrix approach. Biochemistry, 36, 4449-4460.
-
(1997)
Biochemistry
, vol.36
, pp. 4449-4460
-
-
Wu, M.1
SantaLucia, J.J.2
Turner, D.H.3
-
40
-
-
0031552595
-
Non-canonical interactions in a kissing loop complex: The dimerization initiation site of HIV-1 genomic RNA
-
Paillart,J.C., Westhof,E., Ehresmann,C., Ehresmann,B. and Marquet,R. (1997) Non-canonical interactions in a kissing loop complex: the dimerization initiation site of HIV-1 genomic RNA. J. Mol. Biol., 270, 36-49.
-
(1997)
J. Mol. Biol.
, vol.270
, pp. 36-49
-
-
Paillart, J.C.1
Westhof, E.2
Ehresmann, C.3
Ehresmann, B.4
Marquet, R.5
-
41
-
-
0034662880
-
A retroviral kissing complex containing only two G.C base pairs
-
Chul-Hyun,K. and Tinoco,J. (2000) A retroviral kissing complex containing only two G.C base pairs. Proc. Natl Acad. Sci. USA, 97, 9396-9401.
-
(2000)
Proc. Natl. Acad. Sci. USA
, vol.97
, pp. 9396-9401
-
-
Chul-Hyun, K.1
Tinoco, J.2
-
42
-
-
0033575733
-
tRNA prefers to kiss
-
Scarabino,D., Crisari,A., Lorenzini,S., Williams,K. and Valentini,G.P.T. (1999) tRNA prefers to kiss. EMBO J., 18, 4571-4578.
-
(1999)
EMBO J.
, vol.18
, pp. 4571-4578
-
-
Scarabino, D.1
Crisari, A.2
Lorenzini, S.3
Williams, K.4
Valentini, G.P.T.5
-
43
-
-
0033827659
-
Convergence of natural and artificial evolution on an RNA loop-loop interaction: The HIV-1 dimerization initiation site
-
Lodmell,J.S., Ehresmann,C., Ehresmann,B. and Marquet,R. (2000) Convergence of natural and artificial evolution on an RNA loop-loop interaction: the HIV-1 dimerization initiation site. Nucleic Acids Res., 6, 1267-1276.
-
(2000)
Nucleic Acids Res.
, vol.6
, pp. 1267-1276
-
-
Lodmell, J.S.1
Ehresmann, C.2
Ehresmann, B.3
Marquet, R.4
-
44
-
-
0035902775
-
Structure and dimerization of HIV-1 kissing loop aptamers
-
Lodmell,J.S., Ehresmann,C., Ehresmann,B. and Marquet,R. (2001) Structure and dimerization of HIV-1 kissing loop aptamers. J. Mol. Biol., 311, 475-490.
-
(2001)
J. Mol. Biol.
, vol.311
, pp. 475-490
-
-
Lodmell, J.S.1
Ehresmann, C.2
Ehresmann, B.3
Marquet, R.4
|