9
34
F. Montesano et al./Bioorg. Med. Chem. 6 (1998) 925±935
Modeling
D Model building of the ꢀ
simulations. The building of the transmembrane (TM)
8. Perez, D. M.; Piascik, M. T.; Graham, R. M. Mol. Phar-
macol. 1991, 40, 876.
3
1
-AR subtypes and docking
9. Schwinn, D. A.; Lomasney, J. W. Eur. J. Pharmacol. 1992,
227, 433.
model of the three-a -AR subtypes was described in
10. Laz, T. M.; Forray, C.; Smith, K. E.; Bard, J. A.; Vaysse,
P. J. J.; Branchek, T. A.; Weinshank, R. L. Mol. Pharmacol.
1
2
3,33
detail in our previous papers.
The input structures
1
994, 46, 414.
of the ligand±receptor complexes were obtained by
docking each ligand into the target receptor structure
averaged over the last 100 picoseconds of the Molecular
Dynamics simulation. For each complex several mini-
mizations were performed in order to probe dierent
orientations and conformations of the ligands and to
optimize several fundamental interactions (i.e., the
charge reinforced H-bond between the protonated
nitrogen atom of the ligands and the carboxylate of
D3:07), which is the putative key residue for the cationic
ligand-receptor recognition.34
11. Forray, C.; Bard, J. A.; Wetzel, J. M.; Chiu, G.; Shapiro,
E.; Tang, R.; Lepor, H.; Hartig P. R.; Weinshank, R. L.;
Branchek, T. A.; Gluchowski, C. Mol. Pharmacol. 1994, 45,
7
1
03.
2. Forray, C.; Bard, J. A.; Laz, T. M.; Smith, K. E.; Vaysse,
P. J.; Weinshank, R. L.; Gluchowski, C.; Branchek, T. A.
Faseb J. 1994, 8, A353.
13. Hieble, J. P.; Bylund, D. B.; Clarke, A. E.; Eikenberg, D.
C.; Langer, S. Z.; Lefkowitz, R. J.; Minneman, K. P.; Ruolo,
R. R. Pharmacol. Rev. 1995, 47, 267.
1
4. Ford, A. P. D. W.; Williams, T. J.; Blue, D. R.; Clarke, D.
E. Trends Pharmacol. Sci. 1994, 15, 167.
5. Testa, R.; Taddei, C.; Poggesi, E.; De Stefani, C.; Cotec-
Modeling studies were performed with the molecular
graphics package QUANTA (version 4.0).35 Energy
minimizations and MD simulations were obtained by
means of the program CHARMm (version 22).36 Mini-
mizations were carried out by using 200 steps of steepest
descent followed by a conjugate gradient minimization,
1
chia, S.; Hieble, J. P.; Sulpizio, A. C.; Naselsky, D. P.;
Bergsma, D. J.; Ellis, C.; Swift, A.; Ganguly, S.; Ruolo, R. R.
Jr.; Leonardi, A. Pharmacol. Comm. 1995, 6, 79.
1
6. Pimoule, C.; Langer, S.; Graham, D. Eur. J. Pharmacol-
Mol. Pharmacol. 1995, 290, 49.
7. Schwinn, D. A.; Johnston, G. I.; Page, S. O.; Mosley, M.
Ê
until the rms gradient was less than 0.001 kcal/mol A. A
Ê
1
distance dependent dielectric term ("=4r) and a 12 A
J.; Wilson, K. H.; Worman, N. P.; Campbell, S.; Fidock, M.
D.; Furness, L. M.; Parry-Smith, D. J.; Peter, B.; Bailey, D. S.
J. Pharmacol. Exp. Ther. 1995, 272, 134.
nonbonded cuto distance were chosen. The `united atom
approximation' was used for computational eciency.36
The charge distributions of the ligands in their proto-
nated form were obtained in the AM1 framework.37
1
8. Goetz, A. S.; King, H. K.; Ward, S. D. C.; True, T. A.;
Rimele, T. J.; Saussy, D. L. Jr. Eur. J. Pharmacol. 1995, 272, R5.
9. Hieble, J. P.; Ruolo, R. R. Jr.; Sulpizio, A. C.; Naselsky,
1
D. P.; Conway, T. M.; Ellis, C.; Swift, A. M.; Ganguly, S.;
Bergsma, D. J. Pharmacol. Comm. 1995, 6, 91.
Acknowledgements
Financial support from CNR and Ministero dell' Uni-
versita e della Ricerca Scienti®ca (funds 40%) is
Á
acknowledged. The CICAIA (University of Modena) is
acknowledged for the technical support and for the
computer facilities.
2
0. Flavahan, N. A.; Vanhoutte, P. M. Trends Pharmacol. Sci.
1986, 7, 347.
1. Muramatsu, I.; Ohmura, T.; Kigoshi, S.; Hashimoto, S.;
Oshita, M. Br. J. Pharmacol. 1990, 99, 197.
2. Muramatsu, I.; Ohmura, T.; Hashimoto, S.; Oshita, M.
Pharmacol. Comm. 1995, 6, 23.
3. De Benedetti, P. G.; Fanelli, F.; Menziani, M. C.; Cocchi,
M.; Testa, R; Leonardi, A. Bioorg. Med. Chem. 1997, 5, 809.
4. Montesano, F.; Barlocco, D.; Cignarella, G.; De Benedetti,
2
2
2
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