-
1
-
-
85042639894
-
Helix formation by guanylic acid
-
Gellert, M., Lipsett, M.N. and Davies, D.R. (1962) Helix formation by guanylic acid. Proc. Natl Acad. Sci. USA, 48, 2013-2018.
-
(1962)
Proc. Natl Acad. Sci. USA
, vol.48
, pp. 2013-2018
-
-
Gellert, M.1
Lipsett, M.N.2
Davies, D.R.3
-
2
-
-
0023788886
-
Formation of parallel four-stranded complexes by guanine-rich motifs in DNA and its implications for meiosis
-
Sen, D. and Gilbert, W. (1988) Formation of parallel four-stranded complexes by guanine-rich motifs in DNA and its implications for meiosis. Nature, 334, 364-366.
-
(1988)
Nature
, vol.334
, pp. 364-366
-
-
Sen, D.1
Gilbert, W.2
-
3
-
-
33751020853
-
Quadruplex DNA: Sequence, topology and structure
-
DOI 10.1093/nar/gkl655
-
Burge, S., Parkinson, G.N., Hazel, P., Todd, A.K. and Neidle, S. (2006) Quadruplex DNA: sequence, topology and structure. Nucleic Acids Res., 34, 5402-5415. (Pubitemid 44742430)
-
(2006)
Nucleic Acids Research
, vol.34
, Issue.19
, pp. 5402-5415
-
-
Burge, S.1
Parkinson, G.N.2
Hazel, P.3
Todd, A.K.4
Neidle, S.5
-
4
-
-
0035018021
-
G-quadruplex DNA structures-variations on a theme
-
Simonsson, T. (2001) G-quadruplex DNA structures-variations on a theme. Biol. Chem., 382, 621-628.
-
(2001)
Biol. Chem.
, vol.382
, pp. 621-628
-
-
Simonsson, T.1
-
5
-
-
68549136741
-
G-quadruplex structures: In vivo evidence and function
-
Lipps, H.J. and Rhodes, D. (2009) G-quadruplex structures: in vivo evidence and function. Trends Cell Biol., 19, 414-422.
-
(2009)
Trends Cell Biol.
, vol.19
, pp. 414-422
-
-
Lipps, H.J.1
Rhodes, D.2
-
6
-
-
0034176194
-
G-quadruplex DNA: A potential target for anti-cancer drug design
-
DOI 10.1016/S0165-6147(00)01457-7, PII S0165614700014577
-
Han, H. and Hurley, L.H. (2000) G-quadruplex DNA: a potential target for anti-cancer drug design. Trends Pharmacol. Sci., 21, 136-142. (Pubitemid 30190138)
-
(2000)
Trends in Pharmacological Sciences
, vol.21
, Issue.4
, pp. 136-142
-
-
Han, H.1
Hurley, L.H.2
-
7
-
-
38049030699
-
Human telomere, oncogenic promoter and 50-UTR G-quadruplexes: Diverse higher order DNA and RNA targets for cancer therapeutics
-
Patel, D.J., Phan, A.T. and Kuryavyi, V. (2007) Human telomere, oncogenic promoter and 50-UTR G-quadruplexes: diverse higher order DNA and RNA targets for cancer therapeutics. Nucleic Acids Res., 35, 7429-7455.
-
(2007)
Nucleic Acids Res.
, vol.35
, pp. 7429-7455
-
-
Patel, D.J.1
Phan, A.T.2
Kuryavyi, V.3
-
8
-
-
0034122135
-
G-quadruplex DNA as a target for drug design
-
Kerwin, S.M. (2000) G-quadruplex DNA as a target for drug design. Curr. Pharm. Des., 6, 441-478.
-
(2000)
Curr. Pharm. Des.
, vol.6
, pp. 441-478
-
-
Kerwin, S.M.1
-
9
-
-
0034064858
-
G-quadruplexes as targets for drug design
-
DOI 10.1016/S0163-7258(99)00068-6, PII S0163725899000686
-
Hurley, L.H., Wheelhouse, R.T., Sun, D., Kerwin, S.M., Salazar, M., Fedoroff, O.Y., Han, F.X., Han, H., Izbicka, E. and Von Hoff, D.D. (2000) G-quadruplexes as targets for drug design. Pharmacol. Ther., 85, 141-158. (Pubitemid 30160784)
-
(2000)
Pharmacology and Therapeutics
, vol.85
, Issue.3
, pp. 141-158
-
-
Hurley, L.H.1
Wheelhouse, R.T.2
Sun, D.3
Kerwin, S.M.4
Salazar, M.5
Fedoroff, O.Y.6
Han, F.X.7
Han, H.8
Izbicka, E.9
Von Hoff, D.D.10
-
10
-
-
77449127432
-
G-quadruplexes: From guanine gels to chemotherapeutics
-
Bryan, T.M. and Baumann, P. (2010) G-quadruplexes: from guanine gels to chemotherapeutics. Methods Mol. Biol., 608, 1-16.
-
(2010)
Methods Mol. Biol.
, vol.608
, pp. 1-16
-
-
Bryan, T.M.1
Baumann, P.2
-
11
-
-
66549124907
-
The structures of quadruplex nucleic acids and their drug complexes
-
Neidle, S. (2009) The structures of quadruplex nucleic acids and their drug complexes. Curr. Opin. Struct. Biol., 19, 239-250.
-
(2009)
Curr. Opin. Struct. Biol.
, vol.19
, pp. 239-250
-
-
Neidle, S.1
-
12
-
-
63849156605
-
Function and targeting of G-quadruplexes
-
Wong, H.M., Payet, L. and Huppert, J.L. (2009) Function and targeting of G-quadruplexes. Curr. Opin. Mol. Ther., 11, 146-155.
-
(2009)
Curr. Opin. Mol. Ther.
, vol.11
, pp. 146-155
-
-
Wong, H.M.1
Payet, L.2
Huppert, J.L.3
-
13
-
-
40849116291
-
Structural diversity and extreme stability of unimolecular Oxytricha nova telomeric G-quadruplex
-
DOI 10.1021/bi702013d
-
Lee, J.Y., Yoon, J., Kihm, H.W. and Kim, D.S. (2008) Structural diversity and extreme stability of unimolecular Oxytricha nova telomeric G-quadruplex. Biochemistry, 47, 3389-3396. (Pubitemid 351399227)
-
(2008)
Biochemistry
, vol.47
, Issue.11
, pp. 3389-3396
-
-
Ja, Y.L.1
Yoon, J.2
Hyun, W.K.3
Kim, D.S.4
-
14
-
-
67649838577
-
Dramatic effect of single-base mutation on the conformational dynamics of human telomeric G-quadruplex
-
Lee, J.Y. and Kim, D.S. (2009) Dramatic effect of single-base mutation on the conformational dynamics of human telomeric G-quadruplex. Nucleic Acids Res., 37, 3625-3634.
-
(2009)
Nucleic Acids Res.
, vol.37
, pp. 3625-3634
-
-
Lee, J.Y.1
Kim, D.S.2
-
15
-
-
62549087795
-
Structural polymorphism of the four-repeat Oxytricha nova telomeric DNA sequences
-
Abu-Ghazalah, R.M. and Macgregor, R.B. Jr (2009) Structural polymorphism of the four-repeat Oxytricha nova telomeric DNA sequences. Biophy. Chem., 141, 180-185.
-
(2009)
Biophy. Chem.
, vol.141
, pp. 180-185
-
-
Abu-Ghazalah, R.M.1
Macgregor Jr., R.B.2
-
16
-
-
33947359032
-
Effect of G-tract length on the topology and stability of intramolecular DNA quadruplexes
-
DOI 10.1021/bi062118j
-
Rachwal, P.A., Brown, T. and Fox, K.R. (2007) Effect of G-tract length on the topology and stability of intramolecular DNA quadruplexes. Biochemistry, 46, 3036-3044. (Pubitemid 46449127)
-
(2007)
Biochemistry
, vol.46
, Issue.11
, pp. 3036-3044
-
-
Rachwal, P.A.1
Brown, T.2
Fox, K.R.3
-
17
-
-
47249089630
-
Polymorphism of human telomeric quadruplex structures
-
Dai, J., Carver, M. and Yang, D. (2008) Polymorphism of human telomeric quadruplex structures. Biochimie, 90, 1172-1183.
-
(2008)
Biochimie
, vol.90
, pp. 1172-1183
-
-
Dai, J.1
Carver, M.2
Yang, D.3
-
18
-
-
0032508468
-
Following G-quartet formation by UV-spectroscopy
-
DOI 10.1016/S0014-5793(98)01043-6, PII S0014579398010436
-
Mergny, J.L., Phan, A.T. and Lacroix, L. (1998) Following G-quartet formation by UV-spectroscopy. FEBS Lett., 435, 74-78. (Pubitemid 28432018)
-
(1998)
FEBS Letters
, vol.435
, Issue.1
, pp. 74-78
-
-
Mergny, J.-L.1
Phan, A.-T.2
Lacroix, L.3
-
19
-
-
14844353406
-
The effect of chemical modifications on the thermal stability of different G-quadruplex-forming oligonucleotides
-
DOI 10.1093/nar/gki257
-
Sacca, B., Lacroix, L. and Mergny, J.L. (2005) The effect of chemical modifications on the thermal stability of different G-quadruplex-forming oligonucleotides. Nucleic Acids Res., 33, 1182-1192. (Pubitemid 41439911)
-
(2005)
Nucleic Acids Research
, vol.33
, Issue.4
, pp. 1182-1192
-
-
Sacca, B.1
Lacroix, L.2
Mergny, J.-L.3
-
20
-
-
39349084354
-
The formation pathway of tetramolecular G-quadruplexes
-
DOI 10.1093/nar/gkm1050
-
Bardin, C. and Leroy, J.L. (2008) The formation pathway of tetramolecular G-quadruplexes. Nucleic Acids Res., 36, 477-488. (Pubitemid 351258862)
-
(2008)
Nucleic Acids Research
, vol.36
, Issue.2
, pp. 477-488
-
-
Bardin, C.1
Leroy, J.L.2
-
21
-
-
0026316324
-
Multinuclear nuclear magnetic resonance studies of Na cation-stabilized complex formed by d(G-G-T-T-T-T-C-GG) in solution. Implications for G-tetrad structures
-
Wang, Y., de los Santos, C., Gao, X.O., Greene, K., Live, D. and Patel, D.J. (1991) Multinuclear nuclear magnetic resonance studies of Na cation-stabilized complex formed by d(G-G-T-T-T-T-C-GG) in solution. Implications for G-tetrad structures. J. Mol. Biol., 222, 819-832.
-
(1991)
J. Mol. Biol.
, vol.222
, pp. 819-832
-
-
Wang, Y.1
De Los Santos, C.2
Gao, X.O.3
Greene, K.4
Live, D.5
Patel, D.J.6
-
22
-
-
0025923158
-
1H NMR of glycosidic conformations in the tetramolecular complex formed by d(GGTTTTTGG)
-
Wang, Y., Jin, R., Gaffney, B., Jones, R.A. and Breslauer, K.J. (1991) Characterization by 1H NMR of glycosidic conformations in the tetramolecular complex formed by d(GGTTTTTGG). Nucleic Acids Res., 19, 4619-4622. (Pubitemid 21912841)
-
(1991)
Nucleic Acids Research
, vol.19
, Issue.17
, pp. 4619-4622
-
-
Wang, Y.1
Jin, R.2
Gaffney, B.3
Jones, R.A.4
Breslauer, K.J.5
-
23
-
-
0028318093
-
Three-dimensional solution structure of the thrombin-binding DNA aptamer d(GGTTGGTGTGGTTGG)
-
DOI 10.1006/jmbi.1994.1105
-
Schultze, P., Macaya, R.F. and Feigon, J. (1994) Three-dimensional solution structure of the thrombin-binding DNA aptamer d(GGT TGGTGTGGTTGG). J. Mol. Biol., 235, 1532-1547. (Pubitemid 24150403)
-
(1994)
Journal of Molecular Biology
, vol.235
, Issue.5
, pp. 1532-1547
-
-
Schultze, P.1
Macaya, R.F.2
Feigon, J.3
-
24
-
-
4143103761
-
2+
-
Mao, X., Marky, L.A. and Gmeiner, W.H. (2004) NMR structure of the thrombin-binding DNA aptamer stabilized by Sr2+. J. Biomol. Struct. Dyn., 22, 25-33. (Pubitemid 39095279)
-
(2004)
Journal of Biomolecular Structure and Dynamics
, vol.22
, Issue.1
, pp. 25-33
-
-
Mao, X.-A.1
Marky, L.A.2
Gmeiner, W.H.3
-
25
-
-
0030593464
-
Determination of the number and location of the manganese binding sites of DNA quadruplexes in solution by EPR and NMR in the presence and absence of thrombin
-
DOI 10.1006/jmbi.1996.0408
-
Marathias, V.M., Wang, K.Y., Kumar, S., Pham, T.Q., Swaminathan, S. and Bolton, P.H. (1996) Determination of the number and location of the manganese binding sites of DNA quadruplexes in solution by EPR and NMR in the presence and absence of thrombin. J. Mol. Biol., 260, 378-394. (Pubitemid 26254118)
-
(1996)
Journal of Molecular Biology
, vol.260
, Issue.3
, pp. 378-394
-
-
Marathias, V.M.1
Wang, K.Y.2
Kumar, S.3
Pham, T.Q.4
Swaminathan, S.5
Bolton, P.H.6
-
26
-
-
0034194110
-
Structures of the potassium-saturated, 2:1, and intermediate, 1:1, forms of a quadruplex DNA
-
Marathias, V.M. and Bolton, P.H. (2000) Structures of the potassium-saturated, 2:1, and intermediate, 1:1, forms of a quadruplex DNA. Nucleic Acids Res., 28, 1969-1977. (Pubitemid 30229664)
-
(2000)
Nucleic Acids Research
, vol.28
, Issue.9
, pp. 1969-1977
-
-
Marathias, V.M.1
Bolton, P.H.2
-
27
-
-
33646580058
-
Engineering the quadruplex fold: Nucleoside conformation determines both folding topology and molecularity in guanine quadruplexes
-
DOI 10.1021/ja0603958
-
Tang, C.F. and Shafer, R.H. (2006) Engineering the quadruplex fold: nucleoside conformation determines both folding topology and molecularity in guanine quadruplexes. J. Am. Chem. Soc., 128, 5966-5973. (Pubitemid 43724394)
-
(2006)
Journal of the American Chemical Society
, vol.128
, Issue.17
, pp. 5966-5973
-
-
Tang, C.-F.1
Shafer, R.H.2
-
28
-
-
0035979714
-
V-shaped scaffold: A new architectural motif identified in an A·(G·G·G·G) pentad-containing dimeric DNA quadruplex involving stacked G(anti)·G(anti)·G(anti)·G(syn) tetrads
-
DOI 10.1006/jmbi.2001.4916
-
Zhang, N., Gorin, A., Majumdar, A., Kettani, A., Chernichenko, N., Skripkin, E. and Patel, D.J. (2001) V-shaped scaffold: a new architectural motif identified in an A x (G x G x G x G) pentad-containing dimeric DNA quadruplex involving stacked G(anti) x G(anti) x G(anti) x G(syn) tetrads. J. Mol. Biol., 311, 1063-1079. (Pubitemid 32803721)
-
(2001)
Journal of Molecular Biology
, vol.311
, Issue.5
, pp. 1063-1079
-
-
Zhang, N.1
Gorin, A.2
Majumdar, A.3
Kettani, A.4
Chernichenko, N.5
Skripkin, E.6
Patel, D.J.7
-
29
-
-
14144254793
-
An interlocked dimeric parallel-stranded DNA quadruplex: A potent inhibitor of HIV-1 integrase
-
DOI 10.1073/pnas.0406278102
-
Phan, A.T., Kuryavyi, V., Ma, J.B., Faure, A., Andreola, M.L. and Patel, D.J. (2005) An interlocked dimeric parallel-stranded DNA quadruplex: a potent inhibitor of HIV-1 integrase. Proc. Natl Acad. Sci. USA, 102, 634-639. (Pubitemid 40282717)
-
(2005)
Proceedings of the National Academy of Sciences of the United States of America
, vol.102
, Issue.3
, pp. 634-639
-
-
Phan, A.T.1
Kuryavyi, V.2
Ma, J.-B.3
Faure, A.4
Andreola, M.-L.5
Patel, D.J.6
-
30
-
-
84862441712
-
D(G3T4G4 forms unusual dimeric G-quadruplex structure with the same general fold in the presence of K+, Na+or NH4+ions
-
Sket, P., Crnugelj, M. and Plavec, J. (2004) d(G3T4G4) forms unusual dimeric G-quadruplex structure with the same general fold in the presence of K+, Na+or NH4+ions. Bioorg. Med. Chem., 12, 5735-5744.
-
(2004)
Bioorg. Med. Chem.
, vol.12
, pp. 5735-5744
-
-
Sket, P.1
Crnugelj, M.2
Plavec, J.3
-
31
-
-
73449099245
-
Solution structure of a unique G-quadruplex scaffold adopted by a guanosine-rich human intronic sequence
-
Kuryavyi, V. and Patel, D.J. (2010) Solution structure of a unique G-quadruplex scaffold adopted by a guanosine-rich human intronic sequence. Structure, 18, 73-82.
-
(2010)
Structure
, vol.18
, pp. 73-82
-
-
Kuryavyi, V.1
Patel, D.J.2
-
32
-
-
33644873706
-
The RCSB PDB information portal for structural genomics
-
Kouranov, A., Xie, L., de la Cruz, J., Chen, L., Westbrook, J., Bourne, P.E. and Berman, H.M. (2006) The RCSB PDB information portal for structural genomics. Nucleic Acids Res., 34, D302-D305.
-
(2006)
Nucleic Acids Res.
, vol.34
-
-
Kouranov, A.1
Xie, L.2
De La Cruz, J.3
Chen, L.4
Westbrook, J.5
Bourne, P.E.6
Berman, H.M.7
-
33
-
-
0036290781
-
Crystal structure of the potassium form of an Oxytricha nova G-quadruplex
-
DOI 10.1016/S0022-2836(02)00428-X
-
Haider, S., Parkinson, G.N. and Neidle, S. (2002) Crystal structure of the potassium form of an Oxytricha nova G-quadruplex. J. Mol. Biol., 320, 189-200. (Pubitemid 34722211)
-
(2002)
Journal of Molecular Biology
, vol.320
, Issue.2
, pp. 189-200
-
-
Haider, S.1
Parkinson, G.N.2
Neidle, S.3
-
34
-
-
33746600695
-
+ solution: An intramolecular (3 + 1) G-quadruplex scaffold
-
DOI 10.1021/ja062791w
-
Luu, K.N., Phan, A.T., Kuryavyi, V., Lacroix, L. and Patel, D.J. (2006) Structure of the human telomere in K+solution: an intramolecular (3+1) G-quadruplex scaffold. J. Am. Chem. Soci., 128, 9963-9970. (Pubitemid 44147983)
-
(2006)
Journal of the American Chemical Society
, vol.128
, Issue.30
, pp. 9963-9970
-
-
Luu, K.N.1
Phan, A.T.2
Kuryavyi, V.3
Lacroix, L.4
Patel, D.J.5
-
35
-
-
0027750779
-
Solution structure of a parallel-stranded G-quadruplex DNA
-
DOI 10.1006/jmbi.1993.1668
-
Wang, Y. and Patel, D.J. (1993) Solution structure of a parallel-stranded G-quadruplex DNA. J. Mol. Biol., 234, 1171-1183. (Pubitemid 24027245)
-
(1993)
Journal of Molecular Biology
, vol.234
, Issue.4
, pp. 1171-1183
-
-
Wang, Y.1
Patel, D.J.2
-
36
-
-
49449085241
-
Determination of alkali and halide monovalent ion parameters for use in explicitly solvated biomolecular simulations
-
Joung, I.S. and Cheatham, T.E. III (2008) Determination of alkali and halide monovalent ion parameters for use in explicitly solvated biomolecular simulations. J Phys. Chem., 112, 9020-9041.
-
(2008)
J Phys. Chem.
, vol.112
, pp. 9020-9041
-
-
Joung, I.S.1
Cheatham Iii, T.E.2
-
37
-
-
23444454552
-
The Amber biomolecular simulation programs
-
DOI 10.1002/jcc.20290
-
Case, D.A., Cheatham, T.E. III, Darden, T., Gohlke, H., Luo, R., Merz, K.M. Jr, Onufriev, A., Simmerling, C., Wang, B. and Woods, R.J. (2005) The Amber biomolecular simulation programs. J. Comp. Chem., 26, 1668-1688. (Pubitemid 43076180)
-
(2005)
Journal of Computational Chemistry
, vol.26
, Issue.16
, pp. 1668-1688
-
-
Case, D.A.1
Cheatham III, T.E.2
Darden, T.3
Gohlke, H.4
Luo, R.5
Merz Jr., K.M.6
Onufriev, A.7
Simmerling, C.8
Wang, B.9
Woods, R.J.10
-
38
-
-
0001398008
-
How well does a restrained electrostatic potential (RESP) model perform in calculating conformational energies of organic and biological molecules?
-
Wang, J., Cieplak, P. and Kollman, P.A. (2000) How well does a restrained electrostatic potential (RESP) model perform in calculating conformational energies of organic and biological molecules? J. Comp. Chem., 21, 1049-1074.
-
(2000)
J. Comp. Chem.
, vol.21
, pp. 1049-1074
-
-
Wang, J.1
Cieplak, P.2
Kollman, P.A.3
-
39
-
-
34250318638
-
Refinement of the AMBER force field for nucleic acids: Improving the description of α/γ conformers
-
DOI 10.1529/biophysj.106.097782
-
Perez, A., Marchan, I., Svozil, D., Sponer, J., Cheatham, T.E. III, Laughton, C.A. and Orozco, M. (2007) Refinement of the AMBER force field for nucleic acids: improving the description of alpha/gamma conformers. Biophys. J., 92, 3817-3829. (Pubitemid 46910569)
-
(2007)
Biophysical Journal
, vol.92
, Issue.11
, pp. 3817-3829
-
-
Perez, A.1
Marchan, I.2
Svozil, D.3
Sponer, J.4
Cheatham III, T.E.5
Laughton, C.A.6
Orozco, M.7
-
40
-
-
78651294111
-
Performance of molecular mechanics force fields for RNA simulations. Stability of UUCG and GNRA hairpins
-
Banas, P., Hollas, D., Zagarbova, M., Jurecka, P., Orozco, M., Cheatham, T.E. III, Sponer, J. and Otyepka, M. (2011) Performance of molecular mechanics force fields for RNA simulations. Stability of UUCG and GNRA hairpins. J. Chem. Theory Comp., 6, 3836-3849.
-
(2011)
J. Chem. Theory Comp.
, vol.6
, pp. 3836-3849
-
-
Banas, P.1
Hollas, D.2
Zagarbova, M.3
Jurecka, P.4
Orozco, M.5
Cheatham Iii, T.E.6
Sponer, J.7
Otyepka, M.8
-
41
-
-
0004016501
-
Comparison of simple potential functions for simulating liquid water
-
Jorgensen, W.L., Chandrasekhar, J., Madura, J. and Klein, M.L. (1983) Comparison of simple potential functions for simulating liquid water. J. Chem. Phys., 79, 926-935.
-
(1983)
J. Chem. Phys.
, vol.79
, pp. 926-935
-
-
Jorgensen, W.L.1
Chandrasekhar, J.2
Madura, J.3
Klein, M.L.4
-
42
-
-
33645961739
-
A smooth particle mesh Ewald method
-
Essmann, U., Perera, L., Berkowitz, M.L., Darden, T., Lee, H. 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
-
-
Essmann, U.1
Perera, L.2
Berkowitz, M.L.3
Darden, T.4
Lee, H.5
Pedersen, L.G.6
-
43
-
-
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. Comput. Phys., 23, 327-341.
-
(1977)
J. Comput. Phys.
, vol.23
, pp. 327-341
-
-
Ryckaert, J.P.1
Ciccotti, G.2
Berendsen, H.J.C.3
-
44
-
-
84952104504
-
An analysis of the accuracy of Langevin and molecular dynamics algorithms
-
Pastor, R.W.B., Brooksb, B.R. and Szabo, A. (1988) An analysis of the accuracy of Langevin and molecular dynamics algorithms. Mol. Phys., 65, 1409-1419.
-
(1988)
Mol. Phys.
, vol.65
, pp. 1409-1419
-
-
Pastor, R.W.B.1
Brooksb, B.R.2
Szabo, A.3
-
45
-
-
33750587438
-
Molecular dynamics with coupling to an external bath
-
Berendsen, H.J.C., Postma, J.P.M., Van Gunsteren, W.F., DiNola, A. and Haak, J.R. (1984) Molecular dynamics with coupling to an external bath. J. Comp. Phys., 81, 3684-3690.
-
(1984)
J. Comp. 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
-
46
-
-
0000043930
-
Solvation free energy of biomacromolecules: Parameters for a modified generalized born model consistent with the AMBER force field
-
Jayaram, B., Sprous, D. and Beveridge, D.L. (1998) Solvation free energy of biomacromolecules: parameters for a modified generalized born model consistent with the AMBER force field. J. Phys. Chem. B, 102, 9571-9576. (Pubitemid 128611876)
-
(1998)
Journal of Physical Chemistry B
, vol.102
, Issue.47
, pp. 9571-9576
-
-
Jayaram, B.1
Sprous, D.2
Beveridge, D.L.3
-
47
-
-
0042823487
-
Formation pathways of a guanine-quadruplex DNA revealed by molecular dynamics and thermodynamic analysis of the substates
-
Stefl, R., Cheatham, T.E. III, Spackova, N., Fadrna, E., Berger, I., Koca, J. and Sponer, J. (2003) Formation pathways of a guanine-quadruplex DNA revealed by molecular dynamics and thermodynamical analysis of the substates. Biophys. J., 85, 1787-1804. (Pubitemid 37052261)
-
(2003)
Biophysical Journal
, vol.85
, Issue.3
, pp. 1787-1804
-
-
Stefl, R.1
Cheatham III, T.E.2
Spackova, N.3
Fadrna, E.4
Berger, I.5
Koca, J.6
Sponer, J.7
-
48
-
-
33646359481
-
Predictive modelling of topology and loop variations in dimeric DNA quadruplex structures
-
DOI 10.1093/nar/gkl182
-
Hazel, P., Parkinson, G.N. and Neidle, S. (2006) Predictive modelling of topology and loop variations in dimeric DNA quadruplex structures. Nucleic Acids Res., 34, 2117-2127. (Pubitemid 44314209)
-
(2006)
Nucleic Acids Research
, vol.34
, Issue.7
, pp. 2117-2127
-
-
Hazel, P.1
Parkinson, G.N.2
Neidle, S.3
-
49
-
-
0042823487
-
Formation pathways of a guanine-quadruplex DNA revealed by molecular dynamics and thermodynamic analysis of the substates
-
Stefl, R., Cheatham, T.E. III, Spackova, N., Fadrna, E., Berger, I., Koca, J. and Sponer, J. (2003) Formation pathways of a guanine-quadruplex DNA revealed by molecular dynamics and thermodynamic analysis of the substates. Biophys. J., 85, 1787-1804. (Pubitemid 37052261)
-
(2003)
Biophysical Journal
, vol.85
, Issue.3
, pp. 1787-1804
-
-
Stefl, R.1
Cheatham III, T.E.2
Spackova, N.3
Fadrna, E.4
Berger, I.5
Koca, J.6
Sponer, J.7
-
50
-
-
0034737307
-
A dimeric DNA interface stabilized by stacked A.(G.G.G.G).A hexads and coordinated monovalent cations
-
Kettani, A., Gorin, A., Majumdar, A., Hermann, T., Skripkin, E., Zhao, H., Jones, R. and Patel, D.J. (2000) A dimeric DNA interface stabilized by stacked A.(G.G.G.G).A hexads and coordinated monovalent cations. J. Mol. Biol., 297, 627-644.
-
(2000)
J. Mol. Biol.
, vol.297
, pp. 627-644
-
-
Kettani, A.1
Gorin, A.2
Majumdar, A.3
Hermann, T.4
Skripkin, E.5
Zhao, H.6
Jones, R.7
Patel, D.J.8
-
51
-
-
0035914469
-
4 Triplet Repeat DNA with a G:G:G:G Tetrad and a G(:A):G(:A):G(:A):G Heptad, and its Dimeric Interaction
-
DOI 10.1006/jmbi.2001.5047, PII S0022283601950478
-
Matsugami, A., Ouhashi, K., Kanagawa, M., Liu, H., Kanagawa, S., Uesugi, S. and Katahira, M. (2001) An intramolecular quadruplex of (GGA)(4) triplet repeat DNA with a G:G:G:G tetrad and a G(:A):G(:A):G(:A):G heptad, and its dimeric interaction. J. Mol. Biol., 313, 255-269. (Pubitemid 33587186)
-
(2001)
Journal of Molecular Biology
, vol.313
, Issue.2
, pp. 255-269
-
-
Matsugami, A.1
Ouhashi, K.2
Kanagawa, M.3
Liu, H.4
Kanagawa, S.5
Uesugi, S.6
Katahira, M.7
-
52
-
-
27744511560
-
8-Methyl-2′-deoxyguanosine incorporation into parallel DNA quadruplex structures
-
DOI 10.1093/nar/gki924
-
Virgilio, A., Esposito, V., Randazzo, A., Mayol, L. and Galeone, A. (2005) 8-methyl-20-deoxyguanosine incorporation into parallel DNA quadruplex structures. Nucleic Acids Res., 33, 6188-6195. (Pubitemid 41742556)
-
(2005)
Nucleic Acids Research
, vol.33
, Issue.19
, pp. 6188-6195
-
-
Virgilio, A.1
Esposito, V.2
Randazzo, A.3
Mayol, L.4
Galeone, A.5
-
53
-
-
4444221565
-
UCSF Chimera-a visualization system for exploratory research and analysis
-
Pettersen, E.F., Goddard, T.D., Huang, C.C., Couch, G.S., Greenblatt, D.M., Meng, E.C. and Ferrin, T.E. (2004) UCSF Chimera-a visualization system for exploratory research and analysis. J. Comput. Chem., 25, 1605-1612.
-
(2004)
J. Comput. Chem.
, vol.25
, pp. 1605-1612
-
-
Pettersen, E.F.1
Goddard, T.D.2
Huang, C.C.3
Couch, G.S.4
Greenblatt, D.M.5
Meng, E.C.6
Ferrin, T.E.7
-
54
-
-
13644267721
-
Solution structure of the biologically relevant G-quadruplex element in the human c-MYC promoter. Implications for G-quadruplex stabilization
-
DOI 10.1021/bi048242p
-
Ambrus, A., Chen, D., Dai, J., Jones, R.A. and Yang, D. (2005) Solution structure of the biologically relevant G-quadruplex element in the human c-MYC promoter. Implications for G-quadruplex stabilization. Biochemistry, 44, 2048-2058. (Pubitemid 40227475)
-
(2005)
Biochemistry
, vol.44
, Issue.6
, pp. 2048-2058
-
-
Ambrus, A.1
Chen, D.2
Dai, J.3
Jones, R.A.4
Yang, D.5
-
55
-
-
70349381915
-
A G-rich sequence within the c-kit oncogene promoter forms a parallel G-quadruplex having asymmetric G-tetrad dynamics
-
Hsu, S.T., Varnai, P., Bugaut, A., Reszka, A.P., Neidle, S. and Balasubramanian, S. (2009) A G-rich sequence within the c-kit oncogene promoter forms a parallel G-quadruplex having asymmetric G-tetrad dynamics. J. Am. Chem. Soc., 131, 13399-13409.
-
(2009)
J. Am. Chem. Soc.
, vol.131
, pp. 13399-13409
-
-
Hsu, S.T.1
Varnai, P.2
Bugaut, A.3
Reszka, A.P.4
Neidle, S.5
Balasubramanian, S.6
-
56
-
-
0027172294
-
The structure of α-thrombin inhibited by a 15-mer single-stranded DNA aptamer
-
Padmanabhan, K., Padmanabhan, K.P., Ferrara, J.D., Sadler, J.E. and Tulinsky, A. (1993) The structure of alpha-thrombin inhibited by a 15-mer single-stranded DNA aptamer. J. Biol. Chem., 268, 17651-17654. (Pubitemid 23260263)
-
(1993)
Journal of Biological Chemistry
, vol.268
, Issue.24
, pp. 17651-17654
-
-
Padmanabhan, K.1
Padmanabhan, K.P.2
Ferrara, J.D.3
Sadler, J.E.4
Tulinsky, A.5
-
57
-
-
0030064793
-
An ambiguous structure of a DNA 15-mer thrombin complex
-
Padmanabhan, K. and Tulinsky, A. (1996) An ambiguous structure of a DNA 15-mer thrombin complex. Acta crystallographica, 52, 272-282.
-
(1996)
Acta Crystallographica
, vol.52
, pp. 272-282
-
-
Padmanabhan, K.1
Tulinsky, A.2
-
58
-
-
0035967879
-
A double chain reversal loop and two diagonal loops define the architecture of a unimolecular DNA quadruplex containing a pair of stacked G(syn)·G(syn)·G(anti)·G(anti) tetrads flanked by a G·(T-T) triad and a T·T·T triple
-
DOI 10.1006/jmbi.2001.4759
-
Kuryavyi, V., Majumdar, A., Shallop, A., Chernichenko, N., Skripkin, E., Jones, R. and Patel, D.J. (2001) A double chain reversal loop and two diagonal loops define the architecture of a unimolecular DNA quadruplex containing a pair of stacked G(syn)-G(syn)-G(anti)-G(anti) tetrads flanked by a G-(T-T) Triad and a T-T-T triple. J. Mol. Biol., 310, 181-194. (Pubitemid 32619961)
-
(2001)
Journal of Molecular Biology
, vol.310
, Issue.1
, pp. 181-194
-
-
Kuryavyi, V.1
Majumdar, A.2
Shallop, A.3
Chernichenko, N.4
Skripkin, E.5
Jones, R.6
Patel, D.J.7
-
59
-
-
0030993474
-
Bombyx mori single repeat telomeric DNA sequence forms a G-quadruplex capped by base triads
-
Kettani, A., Bouaziz, S., Wang, W., Jones, R.A. and Patel, D.J. (1997) Bombyx mori single repeat telomeric DNA sequence forms a G-quadruplex capped by base triads. Nat. Struct. Biol., 4, 382-389. (Pubitemid 27190837)
-
(1997)
Nature Structural Biology
, vol.4
, Issue.5
, pp. 382-389
-
-
Kettani, A.1
Bouaziz, S.2
Wang, W.3
Jones, R.A.4
Patel, D.J.5
-
60
-
-
0034604385
-
A two-stranded template-based approach to G.(C-A) triad formation: Designing novel structural elements into an existing DNA framework
-
Kettani, A., Basu, G., Gorin, A., Majumdar, A., Skripkin, E. and Patel, D.J. (2000) A two-stranded template-based approach to G.(C-A) triad formation: designing novel structural elements into an existing DNA framework. J. Mol. Biol., 301, 129-146.
-
(2000)
J. Mol. Biol.
, vol.301
, pp. 129-146
-
-
Kettani, A.1
Basu, G.2
Gorin, A.3
Majumdar, A.4
Skripkin, E.5
Patel, D.J.6
-
61
-
-
0034695403
-
A diamond-shaped zipper-like DNA architecture containing triads sandwiched between mismatches and tetrads
-
Kuryavyi, V., Kettani, A., Wang, W., Jones, R. and Patel, D.J. (2000) A diamond-shaped zipper-like DNA architecture containing triads sandwiched between mismatches and tetrads. J. Mol. Biol., 295, 455-469.
-
(2000)
J. Mol. Biol.
, vol.295
, pp. 455-469
-
-
Kuryavyi, V.1
Kettani, A.2
Wang, W.3
Jones, R.4
Patel, D.J.5
-
62
-
-
0033178271
-
4)
-
DOI 10.1093/nar/27.15.3018
-
Schultze, P., Hud, N.V., Smith, F.W. and Feigon, J. (1999) The effect of sodium, potassium and ammonium ions on the conformation of the dimeric quadruplex formed by the Oxytricha nova telomere repeat oligonucleotide d(G(4)T(4)G(4)). Nucleic Acids Res., 27, 3018-3028. (Pubitemid 29355713)
-
(1999)
Nucleic Acids Research
, vol.27
, Issue.15
, pp. 3018-3028
-
-
Schultze, P.1
Hud, N.V.2
Smith, F.W.3
Feigon, J.4
-
63
-
-
28444473880
-
205TI NMR methods for the characterization of monovalent cation binding to nucleic acids
-
DOI 10.1021/ja055358f
-
Gill, M.L., Strobel, S.A. and Loria, J.P. (2005) 205Tl NMR methods for the characterization of monovalent cation binding to nucleic acids. J. Am. Chem. Soc., 127, 16723-16732. (Pubitemid 41740425)
-
(2005)
Journal of the American Chemical Society
, vol.127
, Issue.47
, pp. 16723-16732
-
-
Gill, M.L.1
Strobel, S.A.2
Loria, J.P.3
-
64
-
-
0028773155
-
Refined solution structure of the dimeric quadruplex formed from the Oxytricha telomeric oligonucleotide d(GGGGTTTTGGGG)
-
Schultze, P., Smith, F.W. and Feigon, J. (1994) Refined solution structure of the dimeric quadruplex formed from the Oxytricha telomeric oligonucleotide d(GGGGTTTTGGGG). Structure, 2, 221-233.
-
(1994)
Structure
, vol.2
, pp. 221-233
-
-
Schultze, P.1
Smith, F.W.2
Feigon, J.3
-
65
-
-
33750031344
-
Crystallization and characterization of the thallium form of the Oxytricha nova G-quadruplex
-
DOI 10.1093/nar/gkl616
-
Gill, M.L., Strobel, S.A. and Loria, J.P. (2006) Crystallization and characterization of the thallium form of the Oxytricha nova G-quadruplex. Nucleic Acids Res., 34, 4506-4514. (Pubitemid 44567050)
-
(2006)
Nucleic Acids Research
, vol.34
, Issue.16
, pp. 4506-4514
-
-
Gill, M.L.1
Strobel, S.A.2
Loria, J.P.3
-
66
-
-
0035816210
-
DNA G-quartets in a 1.86 A resolution structure of an Oxytricha nova telomeric protein-DNA complex
-
DOI 10.1006/jmbi.2001.4766
-
Horvath, M.P. and Schultz, S.C. (2001) DNA G-quartets in a 1.86 A resolution structure of an Oxytricha nova telomeric protein-DNA complex. J. Mol. Biol., 310, 367-377. (Pubitemid 32664874)
-
(2001)
Journal of Molecular Biology
, vol.310
, Issue.2
, pp. 367-377
-
-
Horvath, M.P.1
Schultz, S.C.2
-
67
-
-
36148991081
-
+ solution
-
DOI 10.1093/nar/gkm706
-
Phan, A.T., Kuryavyi, V., Luu, K.N. and Patel, D.J. (2007) Structure of two intramolecular G-quadruplexes formed by natural human telomere sequences in K+solution. Nucleic Acids Res., 35, 6517-6525. (Pubitemid 350111619)
-
(2007)
Nucleic Acids Research
, vol.35
, Issue.19
, pp. 6517-6525
-
-
Phan, A.T.1
Kuryavyi, V.2
Luu, K.N.3
Patel, D.J.4
-
68
-
-
34249846802
-
Structure of the intramolecular human telomeric G-quadruplex in potassium solution: A novel adenine triple formation
-
DOI 10.1093/nar/gkm009
-
Dai, J., Punchihewa, C., Ambrus, A., Chen, D., Jones, R.A. and Yang, D. (2007) Structure of the intramolecular human telomeric G-quadruplex in potassium solution: a novel adenine triple formation. Nucleic Acids Res., 35, 2440-2450. (Pubitemid 47073725)
-
(2007)
Nucleic Acids Research
, vol.35
, Issue.7
, pp. 2440-2450
-
-
Dai, J.1
Punchihewa, C.2
Ambrus, A.3
Chen, D.4
Jones, R.A.5
Yang, D.6
-
69
-
-
34548550548
-
+ solution: Insights into structure polymorphism of the human telomeric sequence
-
DOI 10.1093/nar/gkm522
-
Dai, J., Carver, M., Punchihewa, C., Jones, R.A. and Yang, D. (2007) Structure of the Hybrid-2 type intramolecular human telomeric G-quadruplex in K+solution: insights into structure polymorphism of the human telomeric sequence. Nucleic Acids Res., 35, 4927-4940. (Pubitemid 47394180)
-
(2007)
Nucleic Acids Research
, vol.35
, Issue.15
, pp. 4927-4940
-
-
Dai, J.1
Carver, M.2
Punchihewa, C.3
Jones, R.A.4
Yang, D.5
-
70
-
-
73349099062
-
Single stranded loops of quadruplex DNA as key benchmark for testing nucleic acids force fields
-
Fadrna, E., Spackova, N., Sarzynska, J., Koca, J., Orozco, M. III, Cheatham, T.E., Kulinski, T. and Sponer, J. (2009) Single stranded loops of quadruplex DNA as key benchmark for testing nucleic acids force fields. J. Chem. Theory Comput., 5, 2514-2530.
-
(2009)
J. Chem. Theory Comput.
, vol.5
, pp. 2514-2530
-
-
Fadrna, E.1
Spackova, N.2
Sarzynska, J.3
Koca, J.4
Orozco Iii, M.5
Cheatham, T.E.6
Kulinski, T.7
Sponer, J.8
-
71
-
-
70549103338
-
Dependence of A-RNA simulations on the choice of the force field and salt strength
-
Besseova, I., Otyepka, M., Reblova, K. and Sponer, J. (2009) Dependence of A-RNA simulations on the choice of the force field and salt strength. Phys. Chem. Chem. Phys., 11, 10701-10711.
-
(2009)
Phys. Chem. Chem. Phys.
, vol.11
, pp. 10701-10711
-
-
Besseova, I.1
Otyepka, M.2
Reblova, K.3
Sponer, J.4
-
72
-
-
36749098380
-
Dynamics of B-DNA on the microsecond time scale
-
DOI 10.1021/ja0753546
-
Perez, A., Luque, F.J. and Orozco, M. (2007) Dynamics of B-DNA on the microsecond time scale. J. Am. Chem. Soc., 129, 14739-14745. (Pubitemid 350207887)
-
(2007)
Journal of the American Chemical Society
, vol.129
, Issue.47
, pp. 14739-14745
-
-
Perez, A.1
Luque, F.J.2
Orozco, M.3
-
73
-
-
34250318638
-
Refinement of the AMBER force field for nucleic acids: Improving the description of α/γ conformers
-
DOI 10.1529/biophysj.106.097782
-
Perez, A., Marchan, I., Svozil, D., Sponer, J., Cheatham, T.E. III, Laughton, C.A. and Orozco, M. (2007) Refinement of the AMBER force field for nucleic acids. Improving the description of alpha/gamma conformers. Biophys. J., 11, 3817-3829. (Pubitemid 46910569)
-
(2007)
Biophysical Journal
, vol.92
, Issue.11
, pp. 3817-3829
-
-
Perez, A.1
Marchan, I.2
Svozil, D.3
Sponer, J.4
Cheatham III, T.E.5
Laughton, C.A.6
Orozco, M.7
-
74
-
-
70450248170
-
A systematic molecular dynamics study of nearest-neighbor effects on base pair and base pair step conformations and fluctuations in B-DNA
-
Lavery, R., Zakrzewska, K., Beveridge, D., Bishop, T.C., Case, D.A., Cheatham, T. III, Dixit, S., Jayaram, B., Lankas, F., Laughton, C. et al. (2010) A systematic molecular dynamics study of nearest-neighbor effects on base pair and base pair step conformations and fluctuations in B-DNA. Nucleic Acids Res., 38, 299-313.
-
(2010)
Nucleic Acids Res.
, vol.38
, pp. 299-313
-
-
Lavery, R.1
Zakrzewska, K.2
Beveridge, D.3
Bishop, T.C.4
Case, D.A.5
Cheatham Iii, T.6
Dixit, S.7
Jayaram, B.8
Lankas, F.9
Laughton, C.10
-
75
-
-
77953697462
-
A measure of bending in nucleic acids structures applied to A-tract DNA
-
Lankas, F., Spackova, N., Moakher, M., Enkhbayar, P. and Sponer, J. A measure of bending in nucleic acids structures applied to A-tract DNA. Nucleic Acids Res., 38, 3414-3422.
-
Nucleic Acids Res.
, vol.38
, pp. 3414-3422
-
-
Lankas, F.1
Spackova, N.2
Moakher, M.3
Enkhbayar, P.4
Sponer, J.5
-
76
-
-
0028639181
-
Structural properties of the [d(G3T4G3)]2 quadruplex: Evidence for sequential syn-syn deoxyguanosines
-
Strahan, G.D., Shafer, R.H. and Keniry, M.A. (1994) Structural properties of the [d(G3T4G3)]2 quadruplex: evidence for sequential syn-syn deoxyguanosines. Nucleic Acids Res., 22, 5447-5455.
-
(1994)
Nucleic Acids Res.
, vol.22
, pp. 5447-5455
-
-
Strahan, G.D.1
Shafer, R.H.2
Keniry, M.A.3
-
77
-
-
33645326510
-
Nature of base stacking: Reference quantum-chemical stacking energies in ten unique B-DNA base-pair steps
-
Sponer, J., Jurecka, P., Marchan, I., Luque, F.J., Orozco, M. and Hobza, P. (2006) Nature of base stacking: reference quantum-chemical stacking energies in ten unique B-DNA base-pair steps. Chemistry, 12, 2854-2865.
-
(2006)
Chemistry
, vol.12
, pp. 2854-2865
-
-
Sponer, J.1
Jurecka, P.2
Marchan, I.3
Luque, F.J.4
Orozco, M.5
Hobza, P.6
-
78
-
-
43449137856
-
Nature and magnitude of aromatic stacking of nucleic acid bases
-
Sponer, J., Riley, K.E. and Hobza, P. (2008) Nature and magnitude of aromatic stacking of nucleic acid bases. Phys. Chem. Chem. Phys., 10, 2595-2610.
-
(2008)
Phys. Chem. Chem. Phys.
, vol.10
, pp. 2595-2610
-
-
Sponer, J.1
Riley, K.E.2
Hobza, P.3
-
79
-
-
0038202304
-
Small change in a G-rich sequence, a dramatic change in topology: New dimeric G-quadruplex folding motif with unique loop orientations
-
DOI 10.1021/ja0348694
-
Crnugelj, M., Sket, P. and Plavec, J. (2003) Small change in a G-rich sequence, a dramatic change in topology: new dimeric G-quadruplex folding motif with unique loop orientations. J. Am. Chem. Soc., 125, 7866-7871. (Pubitemid 36782162)
-
(2003)
Journal of the American Chemical Society
, vol.125
, Issue.26
, pp. 7866-7871
-
-
Crnugelj, M.1
Sket, P.2
Plavec, J.3
-
80
-
-
0036076677
-
2: A bimolecular G-quadruplex with a novel fold
-
DOI 10.1016/S0022-2836(02)00569-7
-
Crnugelj, M., Hud, N.V. and Plavec, J. (2002) The solution structure of d(G(4)T(4)G(3))(2): a bimolecular G-quadruplex with a novel fold. J. Mol. Biol., 320, 911-924. (Pubitemid 34808814)
-
(2002)
Journal of Molecular Biology
, vol.320
, Issue.5
, pp. 911-924
-
-
Crnugelj, M.1
Hud, N.V.2
Plavec, J.3
-
81
-
-
33845864239
-
A new modified thrombin binding aptamer containing a 5′-5′ inversion of polarity site
-
DOI 10.1093/nar/gkl915
-
Martino, L., Virno, A., Randazzo, A., Virgilio, A., Esposito, V., Giancola, C., Bucci, M., Cirino, G. and Mayol, L. (2006) A new modified thrombin binding aptamer containing a 50-50 inversion of polarity site. Nucleic Acids Res., 34, 6653-6662. (Pubitemid 46019401)
-
(2006)
Nucleic Acids Research
, vol.34
, Issue.22
, pp. 6653-6662
-
-
Martino, L.1
Virno, A.2
Randazzo, A.3
Virgilio, A.4
Esposito, V.5
Giancola, C.6
Bucci, M.7
Cirino, G.8
Mayol, L.9
-
82
-
-
0032566629
-
Solution structure of a Na cation stabilized DNA quadruplex containing G·G·G·G· and G·C·G·C· tetrads formed by G-G-G-C repeats observed in adeno-associated viral DNA
-
DOI 10.1006/jmbi.1998.2030
-
Kettani, A., Bouaziz, S., Gorin, A., Zhao, H., Jones, R.A. and Patel, D.J. (1998) Solution structure of a Na cation stabilized DNA quadruplex containing G-G-G-G and G-C-G-C tetrads formed by G-G-G-C repeats observed in adeno-associated viral DNA. J. Mol. Biol., 282, 619-636. (Pubitemid 28428857)
-
(1998)
Journal of Molecular Biology
, vol.282
, Issue.3
, pp. 619-636
-
-
Kettani, A.1
Bouaziz, S.2
Gorin, A.3
Zhao, H.4
Jones, R.A.5
Patel, D.J.6
-
83
-
-
0034836422
-
Structural dynamics and cation interactions of DNA quadruplex molecules containing mixed guanine/cytosine quartets: Revealed by large-scale MD simulations
-
DOI 10.1021/ja002656y
-
Spackova, N., Berger, I. and Sponer, J. (2001) Structural dynamics and cation interactions of DNA quadruplex molecules containing mixed guanine/cytosine quartets revealed by large-scale MD simulations. J. Am. Chem. Soc., 123, 3295-3307. (Pubitemid 32884618)
-
(2001)
Journal of the American Chemical Society
, vol.123
, Issue.14
, pp. 3295-3307
-
-
Spackova, N.1
Berger, I.2
Sponer, J.3
-
84
-
-
1342303388
-
Effects of an 8-bromodeoxyguanosine incorporation on the parallel quadruplex structure [d(TGGGT)] 4
-
Esposito, V., Randazzo, A., Piccialli, G., Petraccone, L., Giancola, C. and Mayol, L. (2004) Effects of an 8-bromodeoxyguanosine incorporation on the parallel quadruplex structure [d(TGGGT)]4. Org. Biomol. Chem., 2, 313-318.
-
(2004)
Org. Biomol. Chem.
, vol.2
, pp. 313-318
-
-
Esposito, V.1
Randazzo, A.2
Piccialli, G.3
Petraccone, L.4
Giancola, C.5
Mayol, L.6
-
85
-
-
1942521319
-
A Conformationally Constrained Nucleotide Analogue Controls the Folding Topology of a DNA G-Quadruplex
-
DOI 10.1021/ja039192z
-
Dominick, P.K. and Jarstfer, M.B. (2004) A conformationally constrained nucleotide analogue controls the folding topology of a DNA g-quadruplex. J. Am. Chem. Soc., 126, 5050-5051. (Pubitemid 38509445)
-
(2004)
Journal of the American Chemical Society
, vol.126
, Issue.16
, pp. 5050-5051
-
-
Dominick, P.K.1
Jarstfer, M.B.2
-
86
-
-
29044436682
-
(3 + 1) Assembly of three human telomeric repeats into an asymmetric dimeric G-quadruplex
-
DOI 10.1021/ja0543090
-
Zhang, N., Phan, A.T. and Patel, D.J. (2005) (3+1) Assembly of three human telomeric repeats into an asymmetric dimeric G-quadruplex. J. Am. Chem. Soc., 127, 17277-17285. (Pubitemid 41791046)
-
(2005)
Journal of the American Chemical Society
, vol.127
, Issue.49
, pp. 17277-17285
-
-
Zhang, N.1
Phan, A.T.2
Patel, D.J.3
-
87
-
-
0027918585
-
Solution structure of the human telomeric repeat d[AG3(T2AG3)3] G-tetraplex
-
DOI 10.1016/0969-2126(93)90015-9
-
Wang, Y. and Patel, D.J. (1993) Solution structure of the human telomeric repeat d[AG3(T2AG3)3] G-tetraplex. Structure, 1, 263-282. (Pubitemid 2031126)
-
(1993)
Structure
, vol.1
, Issue.4
, pp. 263-282
-
-
Wang Yong1
Patel, D.J.2
-
88
-
-
67749124298
-
Structure of the human telomere in K+solution: A stable basket-type G-quadruplex with only two G-tetrad layers
-
Lim, K.W., Amrane, S., Bouaziz, S., Xu, W., Mu, Y., Patel, D.J., Luu, K.N. and Phan, A.T. (2009) Structure of the human telomere in K+solution: a stable basket-type G-quadruplex with only two G-tetrad layers. J. Am. Chem. Soc., 131, 4301-4309.
-
(2009)
J. Am. Chem. Soc.
, vol.131
, pp. 4301-4309
-
-
Lim, K.W.1
Amrane, S.2
Bouaziz, S.3
Xu, W.4
Mu, Y.5
Patel, D.J.6
Luu, K.N.7
Phan, A.T.8
-
89
-
-
77950344651
-
Structure of a two-G-tetrad intramolecular G-quadruplex formed by a variant human telomeric sequence in K+solution: Insights into the interconversion of human telomeric G-quadruplex structures
-
Zhang, Z., Dai, J., Veliath, E., Jones, R.A. and Yang, D. (2010) Structure of a two-G-tetrad intramolecular G-quadruplex formed by a variant human telomeric sequence in K+solution: insights into the interconversion of human telomeric G-quadruplex structures. Nucleic Acids Res., 38, 1009-1021.
-
(2010)
Nucleic Acids Res.
, vol.38
, pp. 1009-1021
-
-
Zhang, Z.1
Dai, J.2
Veliath, E.3
Jones, R.A.4
Yang, D.5
-
90
-
-
0037142071
-
Crystal structure of parallel quadruplexes from human telomeric DNA
-
DOI 10.1038/nature755
-
Parkinson, G.N., Lee, M.P. and Neidle, S. (2002) Crystal structure of parallel quadruplexes from human telomeric DNA. Nature, 417, 876-880. (Pubitemid 34670337)
-
(2002)
Nature
, vol.417
, Issue.6891
, pp. 876-880
-
-
Parkinson, G.N.1
Lee, M.P.H.2
Neidle, S.3
-
91
-
-
33847675742
-
Structural basis for binding of porphyrin to human telomeres
-
DOI 10.1021/bi062244n
-
Parkinson, G.N., Ghosh, R. and Neidle, S. (2007) Structural basis for binding of porphyrin to human telomeres. Biochemistry, 46, 2390-2397. (Pubitemid 46362413)
-
(2007)
Biochemistry
, vol.46
, Issue.9
, pp. 2390-2397
-
-
Parkinson, G.N.1
Ghosh, R.2
Neidle, S.3
-
92
-
-
0024436330
-
Conservation of the human telomere sequence (TTAGGG)(n) among vertebrates
-
Meyne, J., Ratliff, R.L. and Moyzis, R.K. (1989) Conservation of the human telomere sequence (TTAGGG)n among vertebrates. Proc. Natl Acad. Sci. USA, 86, 7049-7053. (Pubitemid 19240864)
-
(1989)
Proceedings of the National Academy of Sciences of the United States of America
, vol.86
, Issue.18
, pp. 7049-7053
-
-
Meyne, J.1
Ratliff, R.L.2
Moyzis, R.K.3
-
93
-
-
47849105417
-
Structures, folding patterns, and functions of intramolecular DNA G-quadruplexes found in eukaryotic promoter regions
-
Qin, Y. and Hurley, L.H. (2008) Structures, folding patterns, and functions of intramolecular DNA G-quadruplexes found in eukaryotic promoter regions. Biochimie, 90, 1149-1171.
-
(2008)
Biochimie
, vol.90
, pp. 1149-1171
-
-
Qin, Y.1
Hurley, L.H.2
|