5628 Journal of Medicinal Chemistry, 2004, Vol. 47, No. 23
He´ja et al.
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was resuspended in 10 vol of buffer B. Aliquots (1000 µL) of
crude synaptic membrane homogenate in buffer B were
incubated with a 1000 µL solution of test compounds at 20 °C
for 40 min in the presence of a 200 µL solution of [3H]GABA
and isoguvacine in final concentration of 15 nM and 40 µM,
respectively. The nonspecific binding was determined with 100
µM (RS)baclofen. After the incubation, samples of 1000 µL
were centrifuged in Eppendorf tubes at 11000g for 3 min at
20 °C. The supernatant of the samples was aspirated under
vacuum, and the pellets were rinsed two times with ice-cold
buffer B. The pellet was solubilized with vortex in 150 µL of
10% SDS solution, and the radioactivity of samples was
counted in HiSafe 3 scintillation mixture. IC50 of the standard,
(RS)baclofen, was found to be 0.4 ( 0.09 µM.
Molecular Modeling. All calculations were performed
using Sybyl 6.6 package (SYBYL 6.7.1 Tripos Inc., 1699 South
Hanley Rd., St. Louis, Missouri, 63144) with Tripos force field
and Gasteiger-Hu¨ckel charges. The Tripos force field was used
throughout the calculations for its simplicity, robustness, and
considerably faster execution times as compared to other, more
sophisticated force fields (e.g. AMBER or MMFF94) and
because of the inherent uncertainty of side chain positions in
a model to be constructed on the basis of the amino acid
sequence alone. The TM regions (TM3 and TM2) were built
by Sybyl Build Biopolymer command based on amino acid
sequence of TM3 (TM2) followed by minimization with sim-
plexing and applying Powell algorithm. The relative orienta-
tion of TM3 and TM2 was calculated using a knowledge-based
scale for transmembrane helix structure prediction.34 Geom-
etry of each ligand molecule was obtained upon molecular
mechanics energy minimization of the positively charged form
using simplexing and applying Powell and BFGS algorithm
alternately. Docking procedures were performed as follows:6
ligand molecules were positioned in the hypothesized manner
(CdO group of COOH faced to Tyr-140 of TM3 and Thr-89 of
TM2, OH group of COOH faced to Asn-137 and N faced to Ser-
133). After minor manual adjustments for finding a favorable
initial position for the ligand, the energy of the system was
minimized throughout the docking procedure during which
neither site nor ligand geometry was fixed. H-Bonding interac-
tion was accepted if donor-acceptor and hydrogen-acceptor
distances were below 3.0 Å and 2.5 Å, respectively.35
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Frommer, W. B. Conservation of amino acid transporters in
fungi, plants and animals. Trends Biol. Sci. 2002, 27, 139-147.
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the γ-aminobutyric acid transporter GAT-1 plays a critical role
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Synthesis and antiinflammatory activity of trisubstituted py-
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Garvey, E.; Girard, G. R.; Kaiser, C.; Ku, T. W.; Lafferty, J. J.;
Moonsammy, G. I.; Oh, H. J.; Rush, J. A.; Setler, P. E.; Stringer,
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Data Analysis. Duplicate measurements of binding and
transport were repeated in two to six experiments (N ) 2 to
N ) 6). Data are expressed as means ( SD and were analyzed
using one-way analysis of variances (ANOVAs, Origin ver. 6.1).
A value of P < 0.05 was considered significant. Concentration-
inhibition curves were fitted with the use of Origin ver. 6.1.
Acknowledgment. This work was supported by
grants 1/047 NKFP MediChem (Hungary), OTKA
T031753, Center of Excellence on Biomolecular Chem-
istry QLK2-CT-2002-90436 (EU), and Bolyai fellowship
to EÄ va Sza´rics, Ph.D. Professor Istva´n Simon (Institute
of Enzymology, Biological Research Center, Hungarian
Academy of Sciences) is gratefully acknowledged for his
advice on two-TM model building.
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