-
1
-
-
0025037779
-
Conformational transitions in thymidine bulge-containing deoxytridecanucleotide duplexes: role of flanking sequence and temperature in modulating the equilibrium between looped-out and stacked thymidine bulge states
-
Kalnik M.W., Norman D.G., Li B.F., et al. Conformational transitions in thymidine bulge-containing deoxytridecanucleotide duplexes: role of flanking sequence and temperature in modulating the equilibrium between looped-out and stacked thymidine bulge states. J. Biol. Chem. 1990, 265:636-647.
-
(1990)
J. Biol. Chem.
, vol.265
, pp. 636-647
-
-
Kalnik, M.W.1
Norman, D.G.2
Li, B.F.3
-
2
-
-
0000099235
-
Unpaired cytosine in the deoxyoligonucleotide duplex dCAAACAAAGdCTTTTTTG is outside of the helix
-
Morden K.M., Chu Y.G., Martin F.H., et al. Unpaired cytosine in the deoxyoligonucleotide duplex dCAAACAAAGdCTTTTTTG is outside of the helix. Biochemistry 1983, 22:5557-5563.
-
(1983)
Biochemistry
, vol.22
, pp. 5557-5563
-
-
Morden, K.M.1
Chu, Y.G.2
Martin, F.H.3
-
3
-
-
0026769448
-
Comparative NMR study of an bulge loops in DNA duplexes - intrahelical stacking of A, A-A, and A-A-A bulge loops
-
Rosen M.A., Live D., Patel D.J. Comparative NMR study of an bulge loops in DNA duplexes - intrahelical stacking of A, A-A, and A-A-A bulge loops. Biochemistry 1992, 31:4004-4014.
-
(1992)
Biochemistry
, vol.31
, pp. 4004-4014
-
-
Rosen, M.A.1
Live, D.2
Patel, D.J.3
-
4
-
-
0026634020
-
Solution structure of a trinucleotide A-T-A-bulge loop within a DNA duplex
-
Rosen M.A., Shapiro L., Patel D.J. Solution structure of a trinucleotide A-T-A-bulge loop within a DNA duplex. Biochemistry 1992, 31:4015-4026.
-
(1992)
Biochemistry
, vol.31
, pp. 4015-4026
-
-
Rosen, M.A.1
Shapiro, L.2
Patel, D.J.3
-
5
-
-
0024426629
-
The contrasting structures of mismatched DNA sequences containing looped-out bases (bulges) and multiple mismatches (bubbles)
-
Bhattacharyya A., Lilley D.M. The contrasting structures of mismatched DNA sequences containing looped-out bases (bulges) and multiple mismatches (bubbles). Nucleic Acids Res. 1989, 17:6821-6840.
-
(1989)
Nucleic Acids Res.
, vol.17
, pp. 6821-6840
-
-
Bhattacharyya, A.1
Lilley, D.M.2
-
6
-
-
0025168740
-
Fragments of the HIV-1 Tat protein specifically bind TAR RNA
-
Weeks K.M., Ampe C., Schultz S.C., et al. Fragments of the HIV-1 Tat protein specifically bind TAR RNA. Science 1990, 249:1281-1285.
-
(1990)
Science
, vol.249
, pp. 1281-1285
-
-
Weeks, K.M.1
Ampe, C.2
Schultz, S.C.3
-
7
-
-
0030017851
-
Solution structure of a two-base DNA bulge complexed with an enediyne cleaving analog
-
Stassinopoulos A., Ji J., Gao X.L., et al. Solution structure of a two-base DNA bulge complexed with an enediyne cleaving analog. Science 1996, 272:1943-1946.
-
(1996)
Science
, vol.272
, pp. 1943-1946
-
-
Stassinopoulos, A.1
Ji, J.2
Gao, X.L.3
-
8
-
-
10344249872
-
Mutations that disrupt the carboxyl-terminus of gamma-sarcoglycan cause muscular dystrophy
-
McNally E.M., Duggan D., Gorospe J.R., et al. Mutations that disrupt the carboxyl-terminus of gamma-sarcoglycan cause muscular dystrophy. Hum. Mol. Genet. 1996, 5:1841-1847.
-
(1996)
Hum. Mol. Genet.
, vol.5
, pp. 1841-1847
-
-
McNally, E.M.1
Duggan, D.2
Gorospe, J.R.3
-
9
-
-
0032429154
-
A DNA polymorphism discovery resource for research on human genetic variation
-
Collins F.S., Brooks L.D., Chakravarti A. A DNA polymorphism discovery resource for research on human genetic variation. Genome Res. 1998, 8:1229-1231.
-
(1998)
Genome Res.
, vol.8
, pp. 1229-1231
-
-
Collins, F.S.1
Brooks, L.D.2
Chakravarti, A.3
-
10
-
-
28144441826
-
The bacterial ribosome as a target for antibiotics
-
Poehlsgaard J., Douthwaite S. The bacterial ribosome as a target for antibiotics. Nat. Rev. Microbiol. 2005, 3:870-881.
-
(2005)
Nat. Rev. Microbiol.
, vol.3
, pp. 870-881
-
-
Poehlsgaard, J.1
Douthwaite, S.2
-
11
-
-
10744222241
-
Structure-based drug design targeting an inactive RNA conformation: exploiting the flexibility of HIV-1 TAR RNA
-
Murchie A.I., Davis B., Isel C., et al. Structure-based drug design targeting an inactive RNA conformation: exploiting the flexibility of HIV-1 TAR RNA. J. Mol. Biol. 2004, 336:625-638.
-
(2004)
J. Mol. Biol.
, vol.336
, pp. 625-638
-
-
Murchie, A.I.1
Davis, B.2
Isel, C.3
-
12
-
-
0024516799
-
Conformation of adenosine bulge-containing deoxytridecanucleotide duplexes in solution: extra adenosine stacks into duplex independent of flanking sequence and temperature
-
Kalnik M.W., Norman D.G., Swann P.F., et al. Conformation of adenosine bulge-containing deoxytridecanucleotide duplexes in solution: extra adenosine stacks into duplex independent of flanking sequence and temperature. J. Biol. Chem. 1989, 264:3702-3712.
-
(1989)
J. Biol. Chem.
, vol.264
, pp. 3702-3712
-
-
Kalnik, M.W.1
Norman, D.G.2
Swann, P.F.3
-
13
-
-
0024471947
-
31P-NMR spectra and restrained molecular dynamics structure of an extrahelical adenosine tridecamer oligodeoxyribonucleotide duplex
-
31P-NMR spectra and restrained molecular dynamics structure of an extrahelical adenosine tridecamer oligodeoxyribonucleotide duplex. Biochemistry 1989, 28:8714-8725.
-
(1989)
Biochemistry
, vol.28
, pp. 8714-8725
-
-
Nikonowicz, E.1
Roongta, V.2
Jones, C.R.3
-
14
-
-
77952531703
-
Fluorescent analogs of biomolecular building blocks: design, properties, and applications
-
Sinkeldam R.W., Greco N.J., Tor Y. Fluorescent analogs of biomolecular building blocks: design, properties, and applications. Chem. Rev. 2010, 110:2579-2619.
-
(2010)
Chem. Rev.
, vol.110
, pp. 2579-2619
-
-
Sinkeldam, R.W.1
Greco, N.J.2
Tor, Y.3
-
15
-
-
60749104954
-
Probing specific RNA bulge conformations by modified fluorescent nucleosides
-
Jeong H.S., Kang S., Lee J.Y., et al. Probing specific RNA bulge conformations by modified fluorescent nucleosides. Org. Biomol. Chem. 2009, 7:921-925.
-
(2009)
Org. Biomol. Chem.
, vol.7
, pp. 921-925
-
-
Jeong, H.S.1
Kang, S.2
Lee, J.Y.3
-
16
-
-
0029992307
-
Fluorescence studies of DNA and RNA structure and dynamics
-
Millar D.P. Fluorescence studies of DNA and RNA structure and dynamics. Curr. Opin. Struct. Biol. 1996, 6:322-326.
-
(1996)
Curr. Opin. Struct. Biol.
, vol.6
, pp. 322-326
-
-
Millar, D.P.1
-
17
-
-
37149043845
-
Site-specific variations in RNA folding thermodynamics visualized by 2-aminopurine fluorescence
-
Ballin J.D., Bharill S., Fialcowitz-White E.J., et al. Site-specific variations in RNA folding thermodynamics visualized by 2-aminopurine fluorescence. Biochemistry 2007, 46:13948-13960.
-
(2007)
Biochemistry
, vol.46
, pp. 13948-13960
-
-
Ballin, J.D.1
Bharill, S.2
Fialcowitz-White, E.J.3
-
18
-
-
34648834412
-
Structure and dynamics in DNA looped domains: CAG triplet repeat sequence dynamics probed by 2-aminopurine fluorescence
-
Lee B.J., Barch M., Castner E.W., et al. Structure and dynamics in DNA looped domains: CAG triplet repeat sequence dynamics probed by 2-aminopurine fluorescence. Biochemistry 2007, 46:10756-10766.
-
(2007)
Biochemistry
, vol.46
, pp. 10756-10766
-
-
Lee, B.J.1
Barch, M.2
Castner, E.W.3
-
19
-
-
78650640302
-
2-aminopurine as a probe of RNA conformational transitions
-
Hall K.B. 2-aminopurine as a probe of RNA conformational transitions. Methods Enzymol. 2009, 469:269-285.
-
(2009)
Methods Enzymol.
, vol.469
, pp. 269-285
-
-
Hall, K.B.1
-
20
-
-
0029111762
-
Kinking of DNA and RNA by base bulges
-
Lilley D.M.J. Kinking of DNA and RNA by base bulges. Proc. Natl. Acad. Sci. U. S. A. 1995, 92:7140-7142.
-
(1995)
Proc. Natl. Acad. Sci. U. S. A.
, vol.92
, pp. 7140-7142
-
-
Lilley, D.M.J.1
-
21
-
-
0023951245
-
The three-dimensional structure of a DNA duplex containing looped-out bases
-
Joshua-Tor L., Rabinovich D., Hope H., et al. The three-dimensional structure of a DNA duplex containing looped-out bases. Nature 1988, 334:82-84.
-
(1988)
Nature
, vol.334
, pp. 82-84
-
-
Joshua-Tor, L.1
Rabinovich, D.2
Hope, H.3
-
22
-
-
84859586717
-
Site-directed spin labelling of nucleic acids
-
Shelke S.A., Sigurdsson S.T. Site-directed spin labelling of nucleic acids. Eur. J. Org. Chem. 2012, 10.1002/ejoc.201101434.
-
(2012)
Eur. J. Org. Chem.
-
-
Shelke, S.A.1
Sigurdsson, S.T.2
-
23
-
-
0035925208
-
Site-specific incorporation of nitroxide spin labels into internal sites of the TAR RNA: structure-dependent dynamics of RNA by EPR spectroscopy
-
Edwards T.E., Okonogi T.M., Robinson B.H., et al. Site-specific incorporation of nitroxide spin labels into internal sites of the TAR RNA: structure-dependent dynamics of RNA by EPR spectroscopy. J. Am. Chem. Soc. 2001, 123:1527-1528.
-
(2001)
J. Am. Chem. Soc.
, vol.123
, pp. 1527-1528
-
-
Edwards, T.E.1
Okonogi, T.M.2
Robinson, B.H.3
-
24
-
-
0035986696
-
Investigation of RNA-protein and RNA-metal ion interactions by electron paramagnetic resonance spectroscopy. The HIV TAR-Tat motif
-
Edwards T.E., Okonogi T.M., Sigurdsson S.T. Investigation of RNA-protein and RNA-metal ion interactions by electron paramagnetic resonance spectroscopy. The HIV TAR-Tat motif. Chem. Biol. 2002, 9:699-706.
-
(2002)
Chem. Biol.
, vol.9
, pp. 699-706
-
-
Edwards, T.E.1
Okonogi, T.M.2
Sigurdsson, S.T.3
-
25
-
-
0037126726
-
Electron paramagnetic resonance dynamic signatures of TAR RNA - small molecule complexes provide insight into RNA structure and recognition
-
Edwards T.E., Sigurdsson S.T. Electron paramagnetic resonance dynamic signatures of TAR RNA - small molecule complexes provide insight into RNA structure and recognition. Biochemistry 2002, 41:14843-14847.
-
(2002)
Biochemistry
, vol.41
, pp. 14843-14847
-
-
Edwards, T.E.1
Sigurdsson, S.T.2
-
26
-
-
15744376752
-
Identification of amino acids that promote specific and rigid TAR RNA-tat protein complex formation
-
Edwards T.E., Robinson B.H., Sigurdsson S.T. Identification of amino acids that promote specific and rigid TAR RNA-tat protein complex formation. Chem. Biol. 2005, 12:329-337.
-
(2005)
Chem. Biol.
, vol.12
, pp. 329-337
-
-
Edwards, T.E.1
Robinson, B.H.2
Sigurdsson, S.T.3
-
27
-
-
34248598957
-
A nucleoside that contains a rigid nitroxide spin label: a fluorophore in disguise
-
Barhate N., Cekan P., Massey A.P., et al. A nucleoside that contains a rigid nitroxide spin label: a fluorophore in disguise. Angew. Chem., Int. Ed. 2007, 46:2655-2658.
-
(2007)
Angew. Chem., Int. Ed.
, vol.46
, pp. 2655-2658
-
-
Barhate, N.1
Cekan, P.2
Massey, A.P.3
-
28
-
-
79961200425
-
Crystal structure of a DNA containing the planar, phenoxazine-derived bi-functional spectroscopic probe ç
-
Edwards T.E., Cekan P., Reginsson G.W., et al. Crystal structure of a DNA containing the planar, phenoxazine-derived bi-functional spectroscopic probe ç. Nucleic Acids Res. 2011, 39:4419-4426.
-
(2011)
Nucleic Acids Res.
, vol.39
, pp. 4419-4426
-
-
Edwards, T.E.1
Cekan, P.2
Reginsson, G.W.3
-
29
-
-
54549092772
-
Rigid spin-labeled nucleoside ç: a nonperturbing EPR probe of nucleic acid conformation
-
Cekan P., Smith A.L., Barhate N., et al. Rigid spin-labeled nucleoside ç: a nonperturbing EPR probe of nucleic acid conformation. Nucleic Acids Res. 2008, 36:5946-5954.
-
(2008)
Nucleic Acids Res.
, vol.36
, pp. 5946-5954
-
-
Cekan, P.1
Smith, A.L.2
Barhate, N.3
-
30
-
-
65249156570
-
Conformational equilibria of bulged sites in duplex DNA studied by EPR spectroscopy
-
Smith A.L., Cekan P., Brewood G.P., et al. Conformational equilibria of bulged sites in duplex DNA studied by EPR spectroscopy. J. Phys. Chem. B 2009, 113:2664-2675.
-
(2009)
J. Phys. Chem. B
, vol.113
, pp. 2664-2675
-
-
Smith, A.L.1
Cekan, P.2
Brewood, G.P.3
-
31
-
-
67651183860
-
Cocaine aptamer folding studied by EPR and fluorescence spectroscopies
-
Cekan P., Jonsson E.O., Sigurdsson S.T. Cocaine aptamer folding studied by EPR and fluorescence spectroscopies. Nucleic Acids Res. 2009, 3990-3995.
-
(2009)
Nucleic Acids Res.
, pp. 3990-3995
-
-
Cekan, P.1
Jonsson, E.O.2
Sigurdsson, S.T.3
-
32
-
-
76749164309
-
Analytical method to determine the orientation of rigid spin labels in DNA
-
Marko A., Margraf D., Cekan P., et al. Analytical method to determine the orientation of rigid spin labels in DNA. Phys. Rev. E: Stat., Nonlinear, Soft Matter Phys. 2010, 81:21911-21919.
-
(2010)
Phys. Rev. E: Stat., Nonlinear, Soft Matter Phys.
, vol.81
, pp. 21911-21919
-
-
Marko, A.1
Margraf, D.2
Cekan, P.3
-
33
-
-
70349786387
-
Relative orientation of rigid nitroxides by PELDOR: beyond distance measurements in nucleic acids
-
Schiemann O., Cekan P., Margraf D., et al. Relative orientation of rigid nitroxides by PELDOR: beyond distance measurements in nucleic acids. Angew. Chem., Int. Ed. 2009, 48:3292-3295.
-
(2009)
Angew. Chem., Int. Ed.
, vol.48
, pp. 3292-3295
-
-
Schiemann, O.1
Cekan, P.2
Margraf, D.3
-
34
-
-
49349101731
-
Theory for spin-lattice relaxation of spin probes on weakly deformable DNA
-
Smith A.L., Cekan P., Rangel D.P., et al. Theory for spin-lattice relaxation of spin probes on weakly deformable DNA. J. Phys. Chem. B 2008, 112:9219-9236.
-
(2008)
J. Phys. Chem. B
, vol.112
, pp. 9219-9236
-
-
Smith, A.L.1
Cekan, P.2
Rangel, D.P.3
-
36
-
-
47549102069
-
Single base interrogation by a fluorescent nucleotide: each of the four DNA bases identified by fluorescence spectroscopy
-
Cekan P., Sigurdsson S.T. Single base interrogation by a fluorescent nucleotide: each of the four DNA bases identified by fluorescence spectroscopy. Chem. Commun. 2008, 3393-3395.
-
(2008)
Chem. Commun.
, pp. 3393-3395
-
-
Cekan, P.1
Sigurdsson, S.T.2
-
37
-
-
0020188035
-
Extrahelical bases in duplex DNA
-
Evans D.H., Morgan A.R. Extrahelical bases in duplex DNA. J. Mol. Biol. 1982, 160:117-122.
-
(1982)
J. Mol. Biol.
, vol.160
, pp. 117-122
-
-
Evans, D.H.1
Morgan, A.R.2
-
38
-
-
0015901815
-
Polynucleotides. XIV. Photochemical evidence for an extrahelical, solvent-accessible environment of non-complementary residues in polynucleotide helices
-
Lomant A.J., Fresco J.R. Polynucleotides. XIV. Photochemical evidence for an extrahelical, solvent-accessible environment of non-complementary residues in polynucleotide helices. J. Mol. Biol. 1973, 77:345-354.
-
(1973)
J. Mol. Biol.
, vol.77
, pp. 345-354
-
-
Lomant, A.J.1
Fresco, J.R.2
-
39
-
-
0033613081
-
Solution structure of a five-adenine bulge loop within a DNA duplex
-
Dornberger U., Hillisch A., Gollmick F.A., et al. Solution structure of a five-adenine bulge loop within a DNA duplex. Biochemistry 1999, 38:12860-12868.
-
(1999)
Biochemistry
, vol.38
, pp. 12860-12868
-
-
Dornberger, U.1
Hillisch, A.2
Gollmick, F.A.3
-
40
-
-
0037096918
-
Solution structure of dAATAA and dAAUAA DNA bulges
-
Gollmick F.A., Lorenz M., Dornberger U., et al. Solution structure of dAATAA and dAAUAA DNA bulges. Nucleic Acids Res. 2002, 30:2669-2677.
-
(2002)
Nucleic Acids Res.
, vol.30
, pp. 2669-2677
-
-
Gollmick, F.A.1
Lorenz, M.2
Dornberger, U.3
-
41
-
-
33751016032
-
Fluorescent DNA base replacements: reporters and sensors for biological systems
-
Wilson J.N., Kool E.T. Fluorescent DNA base replacements: reporters and sensors for biological systems. Org. Biomol. Chem. 2006, 4:4265-4274.
-
(2006)
Org. Biomol. Chem.
, vol.4
, pp. 4265-4274
-
-
Wilson, J.N.1
Kool, E.T.2
-
43
-
-
0024965969
-
Conformational transitions in cytidine bulge-containing deoxytridecanucleotide duplexes: extra cytidine equilibrates between looped out (low temperature) and stacked (elevated temperature) conformations in solution
-
Kalnik M.W., Norman D.G., Zagorski M.G., et al. Conformational transitions in cytidine bulge-containing deoxytridecanucleotide duplexes: extra cytidine equilibrates between looped out (low temperature) and stacked (elevated temperature) conformations in solution. Biochemistry 1989, 28:294-303.
-
(1989)
Biochemistry
, vol.28
, pp. 294-303
-
-
Kalnik, M.W.1
Norman, D.G.2
Zagorski, M.G.3
-
45
-
-
0028933904
-
Solution structure of two mismatches A.A and T.T in the K-ras gene context by nuclear magnetic resonance and molecular dynamics
-
Gervais V., Cognet J.A., Le Bret M., et al. Solution structure of two mismatches A.A and T.T in the K-ras gene context by nuclear magnetic resonance and molecular dynamics. Eur. J. Biochem. 1995, 228:279-290.
-
(1995)
Eur. J. Biochem.
, vol.228
, pp. 279-290
-
-
Gervais, V.1
Cognet, J.A.2
Le Bret, M.3
|