-
2
-
-
27244458194
-
-
François, B.; Russell, R. J. M.; Murray, J.; Aboul-ela, F.; Masquida, B.; Vicens, Q.; Westhof, E. Nucleic Acid Res. 2005, 33, 5677-5690.
-
(2005)
Nucleic Acid Res
, vol.33
, pp. 5677-5690
-
-
François, B.1
Russell, R.J.M.2
Murray, J.3
Aboul-ela, F.4
Masquida, B.5
Vicens, Q.6
Westhof, E.7
-
4
-
-
0037424612
-
-
Kaul, M.; Barbieri, C.; Kerrigan, J.; Pilch, D. J. Mol. Biol. 2003, 326, 1373-1387.
-
(2003)
J. Mol. Biol
, vol.326
, pp. 1373-1387
-
-
Kaul, M.1
Barbieri, C.2
Kerrigan, J.3
Pilch, D.4
-
5
-
-
33748882391
-
-
Pilch, D. S.; Kaul, M.; Barbieri, C. M. Top. Curr. Chem. 2005, 253, 179-204.
-
(2005)
Top. Curr. Chem
, vol.253
, pp. 179-204
-
-
Pilch, D.S.1
Kaul, M.2
Barbieri, C.M.3
-
7
-
-
33747882519
-
-
Hobbie, S.; Bruell, C.; Kalapala, S.; Akshay, S.; Schmidt, S.; Pfister, P.; Boettger, E. Biochimie 2006, 88, 1033-1043.
-
(2006)
Biochimie
, vol.88
, pp. 1033-1043
-
-
Hobbie, S.1
Bruell, C.2
Kalapala, S.3
Akshay, S.4
Schmidt, S.5
Pfister, P.6
Boettger, E.7
-
8
-
-
33645757767
-
-
Hobbie, S.; Pfister. P.; Bruell, C.; Sander, P.; François, B.; Westhof, E.; Boettger, E. Antimicrob. Agents Chemother. 2006, 50, 1489-1496.
-
(2006)
Antimicrob. Agents Chemother
, vol.50
, pp. 1489-1496
-
-
Hobbie, S.1
Pfister, P.2
Bruell, C.3
Sander, P.4
François, B.5
Westhof, E.6
Boettger, E.7
-
9
-
-
28844501658
-
-
Hobbie, S. N.; Pfister, P.; Brüll, C.; Westhof, E.; Böttger, E. C. Antimicrob. Agents Chemother. 2005, 49, 5112-5118.
-
(2005)
Antimicrob. Agents Chemother
, vol.49
, pp. 5112-5118
-
-
Hobbie, S.N.1
Pfister, P.2
Brüll, C.3
Westhof, E.4
Böttger, E.C.5
-
10
-
-
0034699519
-
-
Careter, A.; Clemons, W.; Brodersen, D.; Morgan-Warren, R.; Wimberly, B.; Ramakrishnan, V. Nature 2000, 407, 340-348.
-
(2000)
Nature
, vol.407
, pp. 340-348
-
-
Careter, A.1
Clemons, W.2
Brodersen, D.3
Morgan-Warren, R.4
Wimberly, B.5
Ramakrishnan, V.6
-
11
-
-
4544340867
-
-
Shandrick, S.; Zhao, Q.; Han, Q.; Ayida, B. K.; Takahashi, M.; Winters, G. C.; Simonsen, K. B.; Vourloumis, B.; Hermann, T. Angew. Chem., Int. Ed. 2004, 43, 3177-3182.
-
(2004)
Angew. Chem., Int. Ed
, vol.43
, pp. 3177-3182
-
-
Shandrick, S.1
Zhao, Q.2
Han, Q.3
Ayida, B.K.4
Takahashi, M.5
Winters, G.C.6
Simonsen, K.B.7
Vourloumis, B.8
Hermann, T.9
-
13
-
-
0032571359
-
-
Fourmy, D.; Yoshizawa, S.; Puglisi, J. J. Mol. Biol. 1998, 277, 333-345.
-
(1998)
J. Mol. Biol
, vol.277
, pp. 333-345
-
-
Fourmy, D.1
Yoshizawa, S.2
Puglisi, J.3
-
15
-
-
84876802243
-
-
Arya, D, Ed, Wiley & Sons. Inc: New York
-
Arya, D., Ed. Aminoglycoside Antibiotics; Wiley & Sons. Inc: New York. 2007.
-
(2007)
Aminoglycoside Antibiotics
-
-
-
18
-
-
31944443056
-
-
Kaul, M.; Barbieri, C.; Pilch, D. J. Am. Chem. Soc. 2006, 128, 1261-1271.
-
(2006)
J. Am. Chem. Soc
, vol.128
, pp. 1261-1271
-
-
Kaul, M.1
Barbieri, C.2
Pilch, D.3
-
20
-
-
33746388359
-
-
Réblova, K.; Lankaš, F.; Rázga, F.; Krasovska, M. V.; Koča, J.; Šponer, J. Biopolymers 2006, 82, 504-520.
-
(2006)
Biopolymers
, vol.82
, pp. 504-520
-
-
Réblova, K.1
Lankaš, F.2
Rázga, F.3
Krasovska, M.V.4
Koča, J.5
Šponer, J.6
-
21
-
-
33747880625
-
-
Vaiana, A. C.; Westhof, E.; Auffinger, P. Biochimie 2006, 88, 1061-1073.
-
(2006)
Biochimie
, vol.88
, pp. 1061-1073
-
-
Vaiana, A.C.1
Westhof, E.2
Auffinger, P.3
-
25
-
-
0001398008
-
-
Wang, J.; Cieplak, P.; Kollman, P. J. Comput. Chem. 2000, 27, 1049-1074.
-
(2000)
J. Comput. Chem
, vol.27
, pp. 1049-1074
-
-
Wang, J.1
Cieplak, P.2
Kollman, P.3
-
27
-
-
84986512474
-
-
Brooks, B. R.; Karplus, M.; Bruccoleri, R. E.; Olafson, B. D.; States, D. J.; Swaminathan, S. J. Comput. Chem. 1983, 4, 187-217. http://www.charmm.org.
-
(1983)
J. Comput. Chem
, vol.4
, pp. 187-217
-
-
Brooks, B.R.1
Karplus, M.2
Bruccoleri, R.E.3
Olafson, B.D.4
States, D.J.5
Swaminathan, S.6
-
28
-
-
0004016501
-
-
Jorgensen, W. L.; Chandrasekhar, J.; Madura, J. D.; Klein, M. L.; Impey, R. W. J. Chem. Phys. 1983, 79, 926-935.
-
(1983)
J. Chem. Phys
, vol.79
, pp. 926-935
-
-
Jorgensen, W.L.1
Chandrasekhar, J.2
Madura, J.D.3
Klein, M.L.4
Impey, R.W.5
-
29
-
-
84906403128
-
-
Frisch, M. J. Trucks, G. W, Schlegel, H. B, Seuseria, G. E, Robb, M. A, Cheeseman, J. R, Montgomery, J. A, Jr, Vreven, T, Kudin, K. N, Burant, J. C, Millam, J. M, Iyengar, S. S, Tomasi, J, Barone, V, Mennucci, B, Cossi, M, Scalmani, G, Rega, N, Petersson, G. A, Nakatsuji, H, Hada, M, Ehara, M, Toyota, K, Fukuda, R, Hasegawa, J, Ishida, M, Nakajima, T, Honda, Y, Kitao, O, Nakai, H, Klene, M, Li, X, Knox, J. E, Hratchian, H. P, Cross, J. B, Bakken. V, Adamo. C, Jaramillo, J, Gomperts, R, Stratmann, R. E, Yazyev, O, Austin, A. J, Cammi, R, Pomelli, C, Ochterski, J. W, Ayala, P. Y, Morokuma, K, Voth, G. A, Salvador, P, Dannenberg, J. J, Zakrzewski, V. G, Dapprich, S, Daniels, A. D, Strain, M. C, Farkas, O, Malick, D. K, Rabuck, A. D, Raghavachari, K, Foresman, J. B, Ortiz. J. V, Cui, Q, Baboul, A. G, Clifford, S, Cioslowski, J, Stefanov, B. B, Liu, G, Liashenko, A, Piskorz, P, Komaromi, I, Martin, R. L, Fox, D. J, Keith
-
Frisch, M. J. Trucks, G. W.; Schlegel, H. B.; Seuseria, G. E.; Robb, M. A.; Cheeseman, J. R.; Montgomery, J. A., Jr.; Vreven, T.; Kudin, K. N.; Burant, J. C.; Millam, J. M.; Iyengar, S. S.; Tomasi, J.; Barone, V.; Mennucci, B.; Cossi, M.; Scalmani, G.; Rega, N.; Petersson, G. A.; Nakatsuji, H.; Hada, M.; Ehara, M.; Toyota, K.; Fukuda, R.; Hasegawa, J.; Ishida, M.; Nakajima, T.; Honda, Y.; Kitao, O.; Nakai, H.; Klene, M.; Li, X.; Knox, J. E.; Hratchian, H. P.; Cross, J. B.; Bakken. V.; Adamo. C.; Jaramillo, J.; Gomperts, R.; Stratmann, R. E.; Yazyev, O.; Austin, A. J.; Cammi, R.; Pomelli, C.; Ochterski, J. W.; Ayala, P. Y.; Morokuma, K.; Voth, G. A.; Salvador, P.; Dannenberg, J. J.; Zakrzewski, V. G.; Dapprich, S.; Daniels, A. D.; Strain, M. C.; Farkas, O.; Malick, D. K.; Rabuck, A. D.; Raghavachari, K.; Foresman, J. B.; Ortiz. J. V.; Cui, Q.; Baboul, A. G.; Clifford, S.; Cioslowski, J.; Stefanov, B. B.; Liu, G.; Liashenko, A.; Piskorz, P.; Komaromi, I.; Martin, R. L.; Fox, D. J.; Keith, T.; Al-Laham, M. A.; Peng, C. Y.; Nanayakkara, A.; Challacombe, M.; Gill, P. M. W.; Johnson, B.; Chen, W.; Wong, M. W.; Gonzalez, C.; Pople, J. A. Gaussian 03; Gaussian, Inc.: Wallingford, CT, 2004.
-
-
-
-
30
-
-
0037112601
-
-
Asensio, J. L.; Hidalgo, A.; Cuesta, I.; González, C.; Cañada, J.; Vicent, C.; Chiara, J. L.; Cuevas, G.; Jiménez-Barbero, J. Chem.- Eur. J. 2002, 8, 5228-5240.
-
(2002)
Chem.- Eur. J
, vol.8
, pp. 5228-5240
-
-
Asensio, J.L.1
Hidalgo, A.2
Cuesta, I.3
González, C.4
Cañada, J.5
Vicent, C.6
Chiara, J.L.7
Cuevas, G.8
Jiménez-Barbero, J.9
-
31
-
-
27344436659
-
-
Phillips, J. C.; Schulten, K.; Braun, R.; Wang, W.; Gumbart, J.; Tajkhorshid, E.; Villa, E.; Chipot, C.; Skeel, R. D.; Kalé, L. J. Comput. Chem. 2005, 26, 1781-1802. http://www.ks.uiuc.edu/ Research/namd.
-
(2005)
J. Comput. Chem
, vol.26
, pp. 1781-1802
-
-
Phillips, J.C.1
Schulten, K.2
Braun, R.3
Wang, W.4
Gumbart, J.5
Tajkhorshid, E.6
Villa, E.7
Chipot, C.8
Skeel, R.D.9
Kalé, L.10
-
32
-
-
36449007836
-
-
Feller, S. E.; Zhang, Y.; Pastor, R. W.; Brooks, B. R. J. Chem. Phys. 1995, 103, 4613.
-
(1995)
J. Chem. Phys
, vol.103
, pp. 4613
-
-
Feller, S.E.1
Zhang, Y.2
Pastor, R.W.3
Brooks, B.R.4
-
34
-
-
0033104039
-
-
Darden, T.; Perera, L.; Li, L.; Pedersen, L. Structure 1999, 7, R55-R60.
-
(1999)
Structure
, vol.7
-
-
Darden, T.1
Perera, L.2
Li, L.3
Pedersen, L.4
-
35
-
-
33646940952
-
-
Ryckaert, J.; Ciccotti, G.; Berendsen, H. J. Comput. Phys. 1977, 32, 327-341.
-
(1977)
J. Comput. Phys
, vol.32
, pp. 327-341
-
-
Ryckaert, J.1
Ciccotti, G.2
Berendsen, H.3
-
37
-
-
33847318371
-
-
McDowell, S. E.; Špačková, N.; Šponer, J.; Walter, N. G. Biopolymers 2006, 85, 169-183.
-
(2006)
Biopolymers
, vol.85
, pp. 169-183
-
-
McDowell, S.E.1
Špačková, N.2
Šponer, J.3
Walter, N.G.4
-
38
-
-
49649118605
-
-
Sarzyńska, J.; Réblová, K.; Šponer, J.; Kuliński, T. Biopolymers 2008, 89, 732-46.
-
(2008)
Biopolymers
, vol.89
, pp. 732-746
-
-
Sarzyńska, J.1
Réblová, K.2
Šponer, J.3
Kuliński, T.4
-
39
-
-
84906388545
-
-
Bekker; H., Berendsen; H. J. C., Dijkstra; E. J., Achterop; S., van Drunen; R., van der Spoel; D., Sijbers; K., Keegstra; H., Reitsma; B., Renardus; M. K. R. Gromacs: A Parallel Computer for Molecular Dynamics Simulations. Physics Computing 92; World Scientific: River Edge, NJ, 1993.
-
Bekker; H., Berendsen; H. J. C., Dijkstra; E. J., Achterop; S., van Drunen; R., van der Spoel; D., Sijbers; K., Keegstra; H., Reitsma; B., Renardus; M. K. R. Gromacs: A Parallel Computer for Molecular Dynamics Simulations. Physics Computing 92; World Scientific: River Edge, NJ, 1993.
-
-
-
-
42
-
-
27344454932
-
-
van der Spoel, D.; Lindahl, E.; Hess, B.; Groenhof, G.; Mark, A. E.; Berendsen, H. J. C. J. Comput. Chem. 2005, 26, 1701-1718.
-
(2005)
J. Comput. Chem
, vol.26
, pp. 1701-1718
-
-
van der Spoel, D.1
Lindahl, E.2
Hess, B.3
Groenhof, G.4
Mark, A.E.5
Berendsen, H.J.C.6
-
43
-
-
84906388546
-
-
van der Spoel, D.; Lindahl, E.; Hess, B. GROMACS. User Manual, version 3.3. http://www.gromacs.org.
-
van der Spoel, D.; Lindahl, E.; Hess, B. GROMACS. User Manual, version 3.3. http://www.gromacs.org.
-
-
-
-
44
-
-
0003803285
-
-
University Science Books: New York
-
Bloomfield, V.; Crothers, D.; Tinoco, I. Nucleic Acids: Structures, Properties, and Functions; University Science Books: New York. 2000; http://books.google.com/books.
-
(2000)
Nucleic Acids: Structures, Properties, and Functions
-
-
Bloomfield, V.1
Crothers, D.2
Tinoco, I.3
-
46
-
-
0029878720
-
-
Humphrey, W.; Dalke, A.; Schulten, K. J. Mol. Graphics 1996, 14, 33-38. http://www.ks.uiuc.edu/Research/vmd.
-
(1996)
J. Mol. Graphics
, vol.14
, pp. 33-38
-
-
Humphrey, W.1
Dalke, A.2
Schulten, K.3
-
47
-
-
3142673418
-
-
Pantano, S.; Tyagi, M.; Giacca, M.; Carloni, P. Fur. Biophys. J. 2004, 33, 344-351.
-
(2004)
Fur. Biophys. J
, vol.33
, pp. 344-351
-
-
Pantano, S.1
Tyagi, M.2
Giacca, M.3
Carloni, P.4
-
49
-
-
84906369111
-
-
MolDyAna. http://moldyana.icm.edu.pl/moldyana/.
-
MolDyAna
-
-
-
50
-
-
0033549817
-
-
Batey, R.; Rambo, R.; Doudna, J. Angew. Chem., Int. Ed. 1999, 38, 2326-2343.
-
(1999)
Angew. Chem., Int. Ed
, vol.38
, pp. 2326-2343
-
-
Batey, R.1
Rambo, R.2
Doudna, J.3
-
53
-
-
33748568807
-
-
Yang, G.; Trylska, J.; Tor, Y.; McCammon, J. A. J. Med. Chem. 2006, 49, 5478-5490.
-
(2006)
J. Med. Chem
, vol.49
, pp. 5478-5490
-
-
Yang, G.1
Trylska, J.2
Tor, Y.3
McCammon, J.A.4
-
55
-
-
57449121568
-
-
Dlugosz, M.; Antosiewicz, J. M.; Trylska, J. J. Chem. Theory Comput. 2008, 4, 549-559.
-
(2008)
J. Chem. Theory Comput
, vol.4
, pp. 549-559
-
-
Dlugosz, M.1
Antosiewicz, J.M.2
Trylska, J.3
|