-
1
-
-
0030014783
-
DNA topoisomerases
-
Wang J.C. DNA topoisomerases. Annu. Rev. Biochem. 65 (1996) 635-692
-
(1996)
Annu. Rev. Biochem.
, vol.65
, pp. 635-692
-
-
Wang, J.C.1
-
2
-
-
0036085460
-
Cellular roles of DNA topoisomerases: a molecular perspective
-
Wang J.C. Cellular roles of DNA topoisomerases: a molecular perspective. Nat. Rev. Mol. Cell Biol. 3 (2002) 430-440
-
(2002)
Nat. Rev. Mol. Cell Biol.
, vol.3
, pp. 430-440
-
-
Wang, J.C.1
-
3
-
-
28844493513
-
Coupling ATP hydrolysis to DNA strand passage in type IIA DNA topoisomerases
-
Maxwell A., Costenaro L., Mitelheiser S., and Bates A.D. Coupling ATP hydrolysis to DNA strand passage in type IIA DNA topoisomerases. Biochem. Soc. Trans. 33 (2005) 1460-1464
-
(2005)
Biochem. Soc. Trans.
, vol.33
, pp. 1460-1464
-
-
Maxwell, A.1
Costenaro, L.2
Mitelheiser, S.3
Bates, A.D.4
-
4
-
-
0025865792
-
Sequence requirements for mammalian topoisomerase II mediated DNA cleavage stimulated by an ellipticine derivative
-
Fossé P., René B., Le Bret M., Paoletti C., and Saucier J.M. Sequence requirements for mammalian topoisomerase II mediated DNA cleavage stimulated by an ellipticine derivative. Nucleic Acids Res. 19 (1991) 2861-2868
-
(1991)
Nucleic Acids Res.
, vol.19
, pp. 2861-2868
-
-
Fossé, P.1
René, B.2
Le Bret, M.3
Paoletti, C.4
Saucier, J.M.5
-
5
-
-
0025037693
-
Sequence-selective topoisomerase II inhibition by anthracycline derivatives in SV40 DNA: relationship with DNA binding affinity and cytotoxicity
-
Capranico G., Zunino F., Kohn K.W., and Pommier Y. Sequence-selective topoisomerase II inhibition by anthracycline derivatives in SV40 DNA: relationship with DNA binding affinity and cytotoxicity. Biochemistry 29 (1990) 562-569
-
(1990)
Biochemistry
, vol.29
, pp. 562-569
-
-
Capranico, G.1
Zunino, F.2
Kohn, K.W.3
Pommier, Y.4
-
6
-
-
0030448769
-
Drug sensitivity and sequence specificity of human recombinant DNA topoisomerases IIalpha (p170) and IIbeta (p180)
-
Cornarotti M., Tinelli S., Willmore E., Zunino F., Fisher L.M., Austin C.A., and Capranico G. Drug sensitivity and sequence specificity of human recombinant DNA topoisomerases IIalpha (p170) and IIbeta (p180). Mol. Pharmacol. 50 (1996) 1463-1471
-
(1996)
Mol. Pharmacol.
, vol.50
, pp. 1463-1471
-
-
Cornarotti, M.1
Tinelli, S.2
Willmore, E.3
Zunino, F.4
Fisher, L.M.5
Austin, C.A.6
Capranico, G.7
-
7
-
-
0030582837
-
Amsacrine-promoted DNA cleavage site determinants for the two human DNA topoisomerase II isoforms alpha and beta
-
Marsh K.L., Willmore E., Tinelli S., Cornarotti M., Meczes E.L., Capranico G., et al. Amsacrine-promoted DNA cleavage site determinants for the two human DNA topoisomerase II isoforms alpha and beta. Biochem. Pharmacol. 52 (1996) 1675-1685
-
(1996)
Biochem. Pharmacol.
, vol.52
, pp. 1675-1685
-
-
Marsh, K.L.1
Willmore, E.2
Tinelli, S.3
Cornarotti, M.4
Meczes, E.L.5
Capranico, G.6
-
8
-
-
0026093801
-
Local base sequence preferences for DNA cleavage by mammalian topoisomerase II in the presence of amsacrine or teniposide
-
Pommier Y., Capranico G., Orr A., and Kohn K.W. Local base sequence preferences for DNA cleavage by mammalian topoisomerase II in the presence of amsacrine or teniposide. Nucleic Acids Res. 19 (1991) 5973-5980
-
(1991)
Nucleic Acids Res.
, vol.19
, pp. 5973-5980
-
-
Pommier, Y.1
Capranico, G.2
Orr, A.3
Kohn, K.W.4
-
9
-
-
0023902435
-
A consensus sequence for cleavage by vertebrate DNA topoisomerase II
-
Spitzner J.R., and Muller M.T. A consensus sequence for cleavage by vertebrate DNA topoisomerase II. Nucleic Acids Res. 16 (1988) 5533-5556
-
(1988)
Nucleic Acids Res.
, vol.16
, pp. 5533-5556
-
-
Spitzner, J.R.1
Muller, M.T.2
-
10
-
-
0033214044
-
Molecular analysis of yeast and human type II topoisomerases. Enzyme-DNA and drug interactions
-
Strumberg D., Nitiss J.L., Dong J., Kohn K.W., and Pommier Y. Molecular analysis of yeast and human type II topoisomerases. Enzyme-DNA and drug interactions. J. Biol. Chem. 274 (1999) 28246-28255
-
(1999)
J. Biol. Chem.
, vol.274
, pp. 28246-28255
-
-
Strumberg, D.1
Nitiss, J.L.2
Dong, J.3
Kohn, K.W.4
Pommier, Y.5
-
11
-
-
0032189945
-
DNA sequence selectivity of topoisomerases and topoisomerase poisons
-
Capranico G., and Binaschi M. DNA sequence selectivity of topoisomerases and topoisomerase poisons. Biochim. Biophys. Acta 1400 (1998) 185-194
-
(1998)
Biochim. Biophys. Acta
, vol.1400
, pp. 185-194
-
-
Capranico, G.1
Binaschi, M.2
-
12
-
-
0033582466
-
In vitro evolution of preferred topoisomerase II DNA cleavage sites
-
Burden D.A., and Osheroff N. In vitro evolution of preferred topoisomerase II DNA cleavage sites. J. Biol. Chem. 274 (1999) 5227-5235
-
(1999)
J. Biol. Chem.
, vol.274
, pp. 5227-5235
-
-
Burden, D.A.1
Osheroff, N.2
-
13
-
-
0030741586
-
Distribution of topoisomerase II-mediated cleavage sites and relation to structural and functional landmarks in 830 kb of Drosophila DNA
-
Miassod R., Razin S.V., and Hancock R. Distribution of topoisomerase II-mediated cleavage sites and relation to structural and functional landmarks in 830 kb of Drosophila DNA. Nucleic Acids Res. 25 (1997) 2041-2046
-
(1997)
Nucleic Acids Res.
, vol.25
, pp. 2041-2046
-
-
Miassod, R.1
Razin, S.V.2
Hancock, R.3
-
14
-
-
0025740443
-
Nuclear matrix attachment regions and topoisomerase II binding and reaction sites in the vicinity of a chicken DNA replication origin
-
Razin S.V., Vassetzky Y.S., and Hancock R. Nuclear matrix attachment regions and topoisomerase II binding and reaction sites in the vicinity of a chicken DNA replication origin. Biochem. Biophys. Res. Commun. 177 (1991) 265-270
-
(1991)
Biochem. Biophys. Res. Commun.
, vol.177
, pp. 265-270
-
-
Razin, S.V.1
Vassetzky, Y.S.2
Hancock, R.3
-
15
-
-
22844436224
-
Induction of transcription within chromosomal DNA loops flanked by MAR elements causes an association of loop DNA with the nuclear matrix
-
Iarovaia O.V., Akopov S.B., Nikolaev L.G., Sverdlov E.D., and Razin S.V. Induction of transcription within chromosomal DNA loops flanked by MAR elements causes an association of loop DNA with the nuclear matrix. Nucleic Acids Res. 33 (2005) 4157-4163
-
(2005)
Nucleic Acids Res.
, vol.33
, pp. 4157-4163
-
-
Iarovaia, O.V.1
Akopov, S.B.2
Nikolaev, L.G.3
Sverdlov, E.D.4
Razin, S.V.5
-
16
-
-
1842584772
-
Chromatin loops are selectively anchored using scaffold/matrix-attachment regions
-
Heng H.H., Goetze S., Ye C.J., Liu G., Stevens J.B., Bremer S.W., et al. Chromatin loops are selectively anchored using scaffold/matrix-attachment regions. J. Cell Sci. 117 (2004) 999-1008
-
(2004)
J. Cell Sci.
, vol.117
, pp. 999-1008
-
-
Heng, H.H.1
Goetze, S.2
Ye, C.J.3
Liu, G.4
Stevens, J.B.5
Bremer, S.W.6
-
17
-
-
0021046130
-
Actively transcribed genes are associated with the nuclear matrix
-
Ciejek E.M., Tsai M.J., and O'Malley B.W. Actively transcribed genes are associated with the nuclear matrix. Nature 306 (1983) 607-609
-
(1983)
Nature
, vol.306
, pp. 607-609
-
-
Ciejek, E.M.1
Tsai, M.J.2
O'Malley, B.W.3
-
18
-
-
34247346622
-
Does topoisomerase II specifically recognize and cleave hairpins, cruciforms and crossovers of DNA?
-
René B., Fermandjian S., and Mauffret O. Does topoisomerase II specifically recognize and cleave hairpins, cruciforms and crossovers of DNA?. Biochimie 89 (2007) 508-515
-
(2007)
Biochimie
, vol.89
, pp. 508-515
-
-
René, B.1
Fermandjian, S.2
Mauffret, O.3
-
19
-
-
33745812359
-
Alteration of Escherichia coli topoisomerase IV conformation upon enzyme binding to positively supercoiled DNA
-
Crisona N.J., and Cozzarelli N.R. Alteration of Escherichia coli topoisomerase IV conformation upon enzyme binding to positively supercoiled DNA. J. Biol. Chem. 281 (2006) 18927-18932
-
(2006)
J. Biol. Chem.
, vol.281
, pp. 18927-18932
-
-
Crisona, N.J.1
Cozzarelli, N.R.2
-
20
-
-
0041306000
-
Chirality sensing by Escherichia coli topoisomerase IV and the mechanism of type II topoisomerases
-
Stone M.D., Bryant Z., Crisona N.J., Smith S.B., Vologodskii A., Bustamante C., and Cozzarelli N.R. Chirality sensing by Escherichia coli topoisomerase IV and the mechanism of type II topoisomerases. Proc. Natl Acad. Sci. U. S. A. 100 (2003) 8654-8659
-
(2003)
Proc. Natl Acad. Sci. U. S. A.
, vol.100
, pp. 8654-8659
-
-
Stone, M.D.1
Bryant, Z.2
Crisona, N.J.3
Smith, S.B.4
Vologodskii, A.5
Bustamante, C.6
Cozzarelli, N.R.7
-
21
-
-
0043194014
-
Single-molecule study of DNA unlinking by eukaryotic and prokaryotic type-II topoisomerases
-
Charvin G., Bensimon D., and Croquette V. Single-molecule study of DNA unlinking by eukaryotic and prokaryotic type-II topoisomerases. Proc. Natl Acad. Sci. U. S. A. 100 (2003) 9820-9825
-
(2003)
Proc. Natl Acad. Sci. U. S. A.
, vol.100
, pp. 9820-9825
-
-
Charvin, G.1
Bensimon, D.2
Croquette, V.3
-
22
-
-
0032545153
-
Symmetry and chirality in topoisomerase II-DNA crossover recognition
-
Timsit Y., Duplantier B., Jannink G., and Sikorav J.L. Symmetry and chirality in topoisomerase II-DNA crossover recognition. J. Mol. Biol. 284 (1998) 1289-1299
-
(1998)
J. Mol. Biol.
, vol.284
, pp. 1289-1299
-
-
Timsit, Y.1
Duplantier, B.2
Jannink, G.3
Sikorav, J.L.4
-
23
-
-
28244433817
-
Human topoisomerase IIalpha rapidly relaxes positively supercoiled DNA: implications for enzyme action ahead of replication forks
-
McClendon A.K., Rodriguez A.C., and Osheroff N. Human topoisomerase IIalpha rapidly relaxes positively supercoiled DNA: implications for enzyme action ahead of replication forks. J. Biol. Chem. 280 (2005) 39337-39345
-
(2005)
J. Biol. Chem.
, vol.280
, pp. 39337-39345
-
-
McClendon, A.K.1
Rodriguez, A.C.2
Osheroff, N.3
-
24
-
-
85047688890
-
MIB-1 and DNA topoisomerase II alpha could be helpful for predicting long-term survival of patients with glioblastoma
-
Ho D.M., Hsu C.Y., Ting L.T., and Chiang H. MIB-1 and DNA topoisomerase II alpha could be helpful for predicting long-term survival of patients with glioblastoma. Am. J. Clin. Pathol. 119 (2003) 715-722
-
(2003)
Am. J. Clin. Pathol.
, vol.119
, pp. 715-722
-
-
Ho, D.M.1
Hsu, C.Y.2
Ting, L.T.3
Chiang, H.4
-
25
-
-
0034643810
-
Novel insights into catalytic mechanism from a crystal structure of human topoisomerase I in complex with DNA
-
Redinbo M.R., Champoux J.J., and Hol W.G. Novel insights into catalytic mechanism from a crystal structure of human topoisomerase I in complex with DNA. Biochemistry 39 (2000) 6832-6840
-
(2000)
Biochemistry
, vol.39
, pp. 6832-6840
-
-
Redinbo, M.R.1
Champoux, J.J.2
Hol, W.G.3
-
26
-
-
0032489675
-
A model for the mechanism of human topoisomerase I
-
Stewart L., Redinbo M.R., Qiu X., Hol W.G., and Champoux J.J. A model for the mechanism of human topoisomerase I. Science 279 (1998) 1534-1541
-
(1998)
Science
, vol.279
, pp. 1534-1541
-
-
Stewart, L.1
Redinbo, M.R.2
Qiu, X.3
Hol, W.G.4
Champoux, J.J.5
-
27
-
-
0032489634
-
Crystal structures of human topoisomerase I in covalent and noncovalent complexes with DNA
-
Redinbo M.R., Stewart L., Kuhn P., Champoux J.J., and Hol W.G. Crystal structures of human topoisomerase I in covalent and noncovalent complexes with DNA. Science 279 (1998) 1504-1513
-
(1998)
Science
, vol.279
, pp. 1504-1513
-
-
Redinbo, M.R.1
Stewart, L.2
Kuhn, P.3
Champoux, J.J.4
Hol, W.G.5
-
28
-
-
34247580761
-
Unlocking and opening a DNA gate
-
Wang J.C. Unlocking and opening a DNA gate. Proc. Natl Acad. Sci. U. S. A. 104 (2007) 4773-4774
-
(2007)
Proc. Natl Acad. Sci. U. S. A.
, vol.104
, pp. 4773-4774
-
-
Wang, J.C.1
-
29
-
-
37549023863
-
Structural basis for gate-DNA recognition and bending by type IIA topoisomerases
-
Dong K.C., and Berger J.M. Structural basis for gate-DNA recognition and bending by type IIA topoisomerases. Nature 450 (2007) 1201-1205
-
(2007)
Nature
, vol.450
, pp. 1201-1205
-
-
Dong, K.C.1
Berger, J.M.2
-
30
-
-
34547096540
-
DNA topoisomerase II selects DNA cleavage sites based on reactivity rather than binding affinity
-
Mueller-Planitz F., and Herschlag D. DNA topoisomerase II selects DNA cleavage sites based on reactivity rather than binding affinity. Nucleic Acids Res. 35 (2007) 3764-3773
-
(2007)
Nucleic Acids Res.
, vol.35
, pp. 3764-3773
-
-
Mueller-Planitz, F.1
Herschlag, D.2
-
32
-
-
0030589089
-
The hairpin structure of a topoisomerase II site DNA strand analyzed by combined NMR and energy minimization methods
-
Amir-Aslani A., Mauffret O., Sourgen F., Neplaz S., Maroun R.G., Lescot E., et al. The hairpin structure of a topoisomerase II site DNA strand analyzed by combined NMR and energy minimization methods. J. Mol. Biol. 263 (1996) 776-788
-
(1996)
J. Mol. Biol.
, vol.263
, pp. 776-788
-
-
Amir-Aslani, A.1
Mauffret, O.2
Sourgen, F.3
Neplaz, S.4
Maroun, R.G.5
Lescot, E.6
-
35
-
-
20144368711
-
Base pair opening in three DNA-unwinding elements
-
Coman D., and Russu I.M. Base pair opening in three DNA-unwinding elements. J. Biol. Chem. 280 (2005) 20216-20221
-
(2005)
J. Biol. Chem.
, vol.280
, pp. 20216-20221
-
-
Coman, D.1
Russu, I.M.2
-
36
-
-
33847221417
-
Functional interactions of DNA topoisomerases with a human replication origin
-
Abdurashidova G., Radulescu S., Sandoval O., Zahariev S., Danailov M.B., Demidovich A., et al. Functional interactions of DNA topoisomerases with a human replication origin. EMBO J. 26 (2007) 998-1009
-
(2007)
EMBO J.
, vol.26
, pp. 998-1009
-
-
Abdurashidova, G.1
Radulescu, S.2
Sandoval, O.3
Zahariev, S.4
Danailov, M.B.5
Demidovich, A.6
-
37
-
-
33845686801
-
Structure of the origin-binding domain of simian virus 40 large T antigen bound to DNA
-
Bochkareva E., Martynowski D., Seitova A., and Bochkarev A. Structure of the origin-binding domain of simian virus 40 large T antigen bound to DNA. EMBO J. 25 (2006) 5961-5969
-
(2006)
EMBO J.
, vol.25
, pp. 5961-5969
-
-
Bochkareva, E.1
Martynowski, D.2
Seitova, A.3
Bochkarev, A.4
-
38
-
-
33750989070
-
General method of preparation of uniformly (13)C, (15)N-labeled DNA fragments for NMR analysis of DNA structures
-
René B., Masliah G., Zargarian L., Mauffret O., and Fermandjian S. General method of preparation of uniformly (13)C, (15)N-labeled DNA fragments for NMR analysis of DNA structures. J. Biomol. NMR 36 (2006) 137-146
-
(2006)
J. Biomol. NMR
, vol.36
, pp. 137-146
-
-
René, B.1
Masliah, G.2
Zargarian, L.3
Mauffret, O.4
Fermandjian, S.5
-
39
-
-
0031941596
-
Preparation of uniformly isotope-labeled DNA oligonucleotides for NMR spectroscopy
-
Louis J.M., Martin R.G., Clore G.M., and Gronenborn A.M. Preparation of uniformly isotope-labeled DNA oligonucleotides for NMR spectroscopy. J. Biol. Chem. 273 (1998) 2374-2378
-
(1998)
J. Biol. Chem.
, vol.273
, pp. 2374-2378
-
-
Louis, J.M.1
Martin, R.G.2
Clore, G.M.3
Gronenborn, A.M.4
-
41
-
-
0242290881
-
DNA basepair step deformability inferred from molecular dynamics simulations
-
Lankas F., Sponer J., Langowski J., and Cheatham III T.E. DNA basepair step deformability inferred from molecular dynamics simulations. Biophys. J. 85 (2003) 2872-2883
-
(2003)
Biophys. J.
, vol.85
, pp. 2872-2883
-
-
Lankas, F.1
Sponer, J.2
Langowski, J.3
Cheatham III, T.E.4
-
42
-
-
11444267252
-
The relative flexibility of B-DNA and A-RNA duplexes: database analysis
-
Perez A., Noy A., Lankas F., Luque F.J., and Orozco M. The relative flexibility of B-DNA and A-RNA duplexes: database analysis. Nucleic Acids Res. 32 (2004) 6144-6151
-
(2004)
Nucleic Acids Res.
, vol.32
, pp. 6144-6151
-
-
Perez, A.1
Noy, A.2
Lankas, F.3
Luque, F.J.4
Orozco, M.5
-
43
-
-
28044444099
-
Sequence-dependent conformational energy of DNA derived from molecular dynamics simulations: toward understanding the indirect readout mechanism in protein-DNA recognition
-
Arauzo-Bravo M.J., Fujii S., Kono H., Ahmad S., and Sarai A. Sequence-dependent conformational energy of DNA derived from molecular dynamics simulations: toward understanding the indirect readout mechanism in protein-DNA recognition. J. Am. Chem. Soc. 127 (2005) 16074-16089
-
(2005)
J. Am. Chem. Soc.
, vol.127
, pp. 16074-16089
-
-
Arauzo-Bravo, M.J.1
Fujii, S.2
Kono, H.3
Ahmad, S.4
Sarai, A.5
-
44
-
-
33846895418
-
Structural basis for sequence-dependent DNA cleavage by nonspecific endonucleases
-
Wang Y.T., Yang W.J., Li C.L., Doudeva L.G., and Yuan H.S. Structural basis for sequence-dependent DNA cleavage by nonspecific endonucleases. Nucleic Acids Res. 35 (2007) 584-594
-
(2007)
Nucleic Acids Res.
, vol.35
, pp. 584-594
-
-
Wang, Y.T.1
Yang, W.J.2
Li, C.L.3
Doudeva, L.G.4
Yuan, H.S.5
-
45
-
-
33745471427
-
Conserved patterns in backbone torsional changes allow for single base flipping from duplex DNA with minimal distortion of the double helix
-
Banavali N.K., Huang N., and MacKerell Jr. A.D. Conserved patterns in backbone torsional changes allow for single base flipping from duplex DNA with minimal distortion of the double helix. J. Phys. Chem. B 110 (2006) 10997-11004
-
(2006)
J. Phys. Chem. B
, vol.110
, pp. 10997-11004
-
-
Banavali, N.K.1
Huang, N.2
MacKerell Jr., A.D.3
-
46
-
-
0033928295
-
NMR evidence for base dynamics at all TpA steps in DNA
-
McAteer K., and Kennedy M.A. NMR evidence for base dynamics at all TpA steps in DNA. J. Biomol. Struct. Dyn. 17 (2000) 1001-1009
-
(2000)
J. Biomol. Struct. Dyn.
, vol.17
, pp. 1001-1009
-
-
McAteer, K.1
Kennedy, M.A.2
-
47
-
-
0028804849
-
The effects of sequence context on base dynamics at TpA steps in DNA studied by NMR
-
McAteer K., Ellis P.D., and Kennedy M.A. The effects of sequence context on base dynamics at TpA steps in DNA studied by NMR. Nucleic Acids Res. 23 (1995) 3962-3966
-
(1995)
Nucleic Acids Res.
, vol.23
, pp. 3962-3966
-
-
McAteer, K.1
Ellis, P.D.2
Kennedy, M.A.3
-
50
-
-
25844495843
-
Molecular dynamics studies on free and bound targets of the bovine papillomavirus type I e2 protein: the protein binding effect on DNA and the recognition mechanism
-
Djuranovic D., and Hartmann B. Molecular dynamics studies on free and bound targets of the bovine papillomavirus type I e2 protein: the protein binding effect on DNA and the recognition mechanism. Biophys. J. 89 (2005) 2542-2551
-
(2005)
Biophys. J.
, vol.89
, pp. 2542-2551
-
-
Djuranovic, D.1
Hartmann, B.2
-
52
-
-
34250317372
-
Topoisomerase II, scaffold component, promotes chromatin compaction in vitro in a linker-histone H1-dependent manner
-
Hizume K., Araki S., Yoshikawa K., and Takeyasu K. Topoisomerase II, scaffold component, promotes chromatin compaction in vitro in a linker-histone H1-dependent manner. Nucleic Acids Res. 35 (2007) 2787-2799
-
(2007)
Nucleic Acids Res.
, vol.35
, pp. 2787-2799
-
-
Hizume, K.1
Araki, S.2
Yoshikawa, K.3
Takeyasu, K.4
-
53
-
-
27744578574
-
A nuclear magnetic resonance investigation of the energetics of basepair opening pathways in DNA
-
Coman D., and Russu I.M. A nuclear magnetic resonance investigation of the energetics of basepair opening pathways in DNA. Biophys. J. 89 (2005) 3285-3292
-
(2005)
Biophys. J.
, vol.89
, pp. 3285-3292
-
-
Coman, D.1
Russu, I.M.2
-
54
-
-
0033572734
-
An NMR and molecular modelling analysis of d(CTACTGCTTTAG). d(CTAAAGCAGTAG) reveals that the particular behaviour of TpA steps is related to edge-to-edge contacts of their base-pairs in the major groove
-
Leporc S., Mauffret O., Tevanian G., Lescot E., Monnot M., and Fermandjian S. An NMR and molecular modelling analysis of d(CTACTGCTTTAG). d(CTAAAGCAGTAG) reveals that the particular behaviour of TpA steps is related to edge-to-edge contacts of their base-pairs in the major groove. Nucleic Acids Res. 27 (1999) 4759-4767
-
(1999)
Nucleic Acids Res.
, vol.27
, pp. 4759-4767
-
-
Leporc, S.1
Mauffret, O.2
Tevanian, G.3
Lescot, E.4
Monnot, M.5
Fermandjian, S.6
-
56
-
-
0029400480
-
NMRPipe: a multidimensional spectral processing system based on UNIX pipes
-
Delaglio F., Grzesiek S., Vuister G.W., Zhu G., Pfeifer J., and Bax A. NMRPipe: a multidimensional spectral processing system based on UNIX pipes. J. Biomol. NMR 6 (1995) 277-293
-
(1995)
J. Biomol. NMR
, vol.6
, pp. 277-293
-
-
Delaglio, F.1
Grzesiek, S.2
Vuister, G.W.3
Zhu, G.4
Pfeifer, J.5
Bax, A.6
-
57
-
-
0001123057
-
NMR of nucleic acids: from spectrum to structure
-
Roberts G.C.K. (Ed), Oxford University Press, Oxford, UK
-
Wijmenga S.S., Mooren M.W., and Hilbers C.W. NMR of nucleic acids: from spectrum to structure. In: Roberts G.C.K. (Ed). NMR of Macromolecules: A Practical Approach (1993), Oxford University Press, Oxford, UK 217-283
-
(1993)
NMR of Macromolecules: A Practical Approach
, pp. 217-283
-
-
Wijmenga, S.S.1
Mooren, M.W.2
Hilbers, C.W.3
-
58
-
-
0004040543
-
-
University of California, San Francisco
-
Goddard T.D., and Kneller D.G. Sparky 3 (2006), University of California, San Francisco
-
(2006)
Sparky 3
-
-
Goddard, T.D.1
Kneller, D.G.2
-
59
-
-
0000455182
-
On the evaluation of interproton distances for three-dimensional structure determination by NMR using a relaxation rate matrix analysis
-
Post C.B., Meadows R.P., and Gorenstein D.G. On the evaluation of interproton distances for three-dimensional structure determination by NMR using a relaxation rate matrix analysis. J. Am. Chem. Soc. 112 (1990) 6796-6803
-
(1990)
J. Am. Chem. Soc.
, vol.112
, pp. 6796-6803
-
-
Post, C.B.1
Meadows, R.P.2
Gorenstein, D.G.3
-
60
-
-
0034794444
-
Improving the accuracy of NMR structures of DNA by means of a database potential of mean force describing base-base positional interactions
-
Kuszewski J., Schwieters C., and Clore G.M. Improving the accuracy of NMR structures of DNA by means of a database potential of mean force describing base-base positional interactions. J. Am. Chem. Soc. 123 (2001) 3903-3918
-
(2001)
J. Am. Chem. Soc.
, vol.123
, pp. 3903-3918
-
-
Kuszewski, J.1
Schwieters, C.2
Clore, G.M.3
-
63
-
-
0024058085
-
The definition of generalized helicoidal parameters and of axis curvature for irregular nucleic acids
-
Lavery R., and Sklenar H. The definition of generalized helicoidal parameters and of axis curvature for irregular nucleic acids. J. Biomol. Struct. Dyn. 6 (1988) 63-91
-
(1988)
J. Biomol. Struct. Dyn.
, vol.6
, pp. 63-91
-
-
Lavery, R.1
Sklenar, H.2
-
64
-
-
0242396923
-
3DNA: a software package for the analysis, rebuilding and visualization of three-dimensional nucleic acid structures
-
Lu X.J., and Olson W.K. 3DNA: a software package for the analysis, rebuilding and visualization of three-dimensional nucleic acid structures. Nucleic Acids Res. 31 (2003) 5108-5121
-
(2003)
Nucleic Acids Res.
, vol.31
, pp. 5108-5121
-
-
Lu, X.J.1
Olson, W.K.2
-
65
-
-
0032922174
-
A modified version of the Cornell et al. force field with improved sugar pucker phases and helical repeat
-
Cheatham III T.E., Cieplak P., and Kollman P.A. A modified version of the Cornell et al. force field with improved sugar pucker phases and helical repeat. J. Biomol. Struct. Dyn. 16 (1999) 845-862
-
(1999)
J. Biomol. Struct. Dyn.
, vol.16
, pp. 845-862
-
-
Cheatham III, T.E.1
Cieplak, P.2
Kollman, P.A.3
-
66
-
-
0029011701
-
A second generation force field for the simulation of proteins, nucleic acids and organic molecules
-
Cornell W.D., Cieplak P., Bayly C.I., Gould I.R., Merz K.M., Ferguson D.M., et al. A second generation force field for the simulation of proteins, nucleic acids and organic molecules. J. Am. Chem. Soc. 117 (1995) 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
-
67
-
-
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. Numerical integration of the Cartesian equations of motion of a system with constraints: molecular dynamics of n-alkanes. J. Comput. Phys. 23 (1977) 327-341
-
(1977)
J. Comput. Phys.
, vol.23
, pp. 327-341
-
-
Ryckaert, J.-P.1
Ciccotti, G.2
Berendsen, H.J.C.3
-
68
-
-
33846823909
-
Particle mesh Ewald: an N·log(N) method for Ewadl sums in large systems
-
Darden T., York D., and Pedersen L. Particle mesh Ewald: an N·log(N) method for Ewadl sums in large systems. J. Chem. Phys. 98 (1993) 10089-10092
-
(1993)
J. Chem. Phys.
, vol.98
, pp. 10089-10092
-
-
Darden, T.1
York, D.2
Pedersen, L.3
-
69
-
-
33645961739
-
A smooth particle mesh Ewald method
-
Essmann U., Perera L., Berkowitz M.L., Darden T., Lee H., and Pedersen L.G. A smooth particle mesh Ewald method. J. Chem. Phys. 103 (1995) 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
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