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Research Article
INTRODUCTION
Analgesics are agents which relives the pain without disturbing
consciousness. Various analgesic drugs available in the market
exhibit several side effects, such as centrally mediated tolerance,
dependence, decreased gastrointestinal motility leading to
constipation and respiratory depression and hence can not be used
continuously for long time1. It is therefore, desirable to have potent
and safer analgesic drugs which produces minimum or no side
effect. As such various laboratories all over the world are involved in
the synthesis of a variety of compounds and their evaluation for
analgesics activity2-4. Pyrimidine derivatives are biologically
interesting molecules that have established utility for the treatment
of neurodegenerative and proliferative disorders5,6. They are also
capable of showing anti-cancer activity7, as antimicrobial agents8
and as fungicides9. Along with these activities numerous research
paper have shown that pyrimidine derivatives have other diverse
pharmacological activities such as H 1 -antihistamine, as selective
type 4-phosphodiesterase inhibitors, as anti-inflammatory and
analgesic agent10-16 .
The Quantitative structure activity relationship (QSAR) of substance
is an important aspect of modern chemistry, biochemistry, medicinal
chemistry and drug discovery17-21 . The QSAR research field provides,
medicinal chemists with the ability to predict drug activity by
mathematical equations which construct a relationship between the
chemical structure and the biological activity22-24. Once a correlation
between structure and activity/property is found, any number of
compounds including those not synthesized, yet can readily be
screened for the selection of structures with desire properties. In
continuation of our previously reported work on the synthesis and
biological
evaluation
of
some
pyrimidobenzimidazole
derivatives25,26 , a QSAR studies have been investigated. The aim of
the our present study is to build QSAR models using multiple
regression method for synthesized pyrimidobenzimidazole
derivatives to explore the substitutional requirement essential for
the improved analgesic activity.
MATERIALS AND METHODS
NH
R1
R2
N R3
H
R4
Arora et al.
Table 1: Substituents, observed, calculated activity (log%AA) and residual values for trainee set, used in present study
S.No.
R1
R2
R3
R4
1
2
3
4
5
6
7
8
9
10
H
H
NO 2
COOH
H
C 6 H 5 CO
CH 3
CH 3
H
COOH
H
CH 3
H
H
Cl
H
CH 3
CH 3
Cl
H
H
H
H
H
H
H
H
CH 3
CH 3
CH 3
H
H
H
H
H
H
H
CH 3
CH 3
CH 3
1
1
1.69897
1.30103
1
1.30103
1.477121
1.77815
1.30103
1.60206
Residual
-0.00076
-0.00153
-0.00122
-0.00531
-0.00516
-0.00255
0.008285
-0.01001
0.00308
0.00249
Table 2: Possible substituent and calculated activity (log%AA) for test set used in present study
S. No.
R1
R2
R3
R4
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
CH 3
H
H
Cl
H
H
Cl
H
NO 2
H
CH 3
H
NO 2
NO 2
COOH
COOH
NO 2
NO 2
Cl
Cl
NO 2
NO 2
NO 2
NO 2
CH 3
CH 3
H
NO 2
COOH
H
C 6 H 5 CO
COOH
H
CH 3
H
H
H
NO 2
NO 2
NO 2
NO 2
NO 2
COOH
COOH
NO 2
NO 2
Cl
Cl
CH 3
CH 3
NO 2
NO 2
H
H
H
H
H
CH 3
CH 3
CH 3
CH 3
CH 3
CH 3
CH 3
H
CH 3
H
CH 3
H
CH 3
H
CH 3
CH 3
H
CH 3
H
H
CH 3
H
H
H
H
H
CH 3
CH 3
CH 3
CH 3
CH 3
CH 3
CH 3
H
CH 3
H
CH 3
H
CH 3
H
CH 3
CH 3
H
CH 3
H
H
CH 3
Cal. log % AA
(model-6)
1.133894
1.48023
1.086377
1.137521
1.271588
1.357612
1.431598
1.344549
2.005312
1.219764
1.478197
1.763354
3.637736
3.822275
3.251205
3.424158
3.251205
3.424158
2.277951
2.476411
2.613977
2.399822
2.625383
2.361648
2.239778
2.487817
Table 3: Molecular attributes, molecular indices and atom indices of pyrimidobenzimidazole derivatives
S.
No.
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
Molecular attributes
MSA
MV
134.85
80.58
148.30
89.46
140.60
87.85
142.91
87.87
143.98
88.59
180.83
110.15
154.97
96.89
158.67
101.70
152.71
93.55
155.71
96.84
146.69
89.68
142.56
87.92
152.44
91.83
142.32
88.45
190.13
110.26
160.74
96.69
148.52
93.55
logP
2.35
2.82
2.31
2.05
2.87
3.57
3.29
3.99
3.57
2.75
2.82
2.31
2.05
2.87
3.57
2.75
3.57
MR
64.14
68.97
71.26
70.69
68.74
94.51
74.01
83.67
78.40
80.35
68.97
71.26
70.69
68.74
94.51
80.35
78.40
Molecular Indices
SFI
R
2.10
7.27
2.33
7.65
2.72
8.56
2.76
8.56
2.49
7.65
3.58
11.13
2.56
8.06
2.68
8.72
2.60
8.31
2.87
9.22
2.33
7.65
2.72
8.56
2.76
8.56
2.49
7.65
3.58
11.13
2.87
9.22
2.60
8.31
B
1.59
1.56
1.55
1.55
1.56
1.26
1.58
1.67
1.66
1.65
1.58
1.53
1.53
1.58
1.25
1.62
1.68
W
318
394
559
559
394
1164
464
606
522
719
391
568
568
391
1188
728
519
Atom counts
TA
THA
28
4
31
4
30
7
31
6
28
5
40
5
34
4
40
4
34
5
37
6
31
4
30
7
31
6
28
5
40
5
37
6
34
5
HD
2
2
2
3
2
2
2
2
2
3
2
2
3
2
2
3
2
HA
1
1
3
3
1
2
1
1
1
3
1
3
3
1
2
3
1
458
Arora et al.
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
156.39
146.71
147.57
152.17
148.88
140.92
150.25
151.34
158.99
151.91
161.06
142.90
152.13
157.24
151.86
157.81
153.84
146.89
153.37
94.57
92.98
86.35
94.72
89.55
88.67
96.88
94.65
100.50
95.58
102.35
91.74
97.57
101.15
96.10
102.53
97.55
89.90
96.68
3.52
3.00
3.05
3.52
3.00
2.26
2.96
2.00
2.70
2.00
2.70
2.82
3.52
3.52
2.82
3.47
2.77
2.77
3.47
78.63
80.92
73.59
78.63
80.92
78.58
88.24
78.01
87.67
78.01
87.67
76.06
85.72
85.72
76.06
85.96
76.30
76.30
85.96
2.45
2.83
2.23
2.45
2.83
3.36
3.45
3.40
3.49
3.40
3.49
3.12
3.22
3.12
3.22
3.06
2.95
2.95
3.06
From the (Table 2), it is clear that the molecule 24 can be use as a
very good analgesic compound. The results have suggested that for
the good analgesic activity, pyrimidobenzimidazole derivatives must
contain substituents on both the R 1 & R 2 positions and one of which
8.31
9.22
7.91
8.31
9.22
9.88
10.53
9.88
10.54
9.88
10.54
8.97
9.63
9.63
8.97
9.63
8.97
8.97
9.63
1.66
1.65
1.68
1.68
1.62
1.61
1.69
1.61
1.69
1.61
1.69
1.57
1.67
1.67
1.58
1.67
1.58
1.56
1.65
522
719
438
519
728
842
1048
842
1048
842
1048
646
820
814
640
814
640
646
820
37
36
34
37
36
32
38
33
39
33
39
30
36
36
30
39
33
33
39
4
7
4
4
7
10
10
9
9
9
9
8
8
8
8
7
7
7
7
2
2
2
2
2
2
2
3
3
3
3
2
2
2
2
2
2
2
2
1
3
1
1
3
5
5
5
5
5
5
3
3
3
3
3
3
3
3
Table 4: Correlation matrix demonstrating correlation of the physicochemical parameters molecular indices and atom indices used and
their correlation with the activity (log%aa)
log (%AA)
MSA
MV
logP
MR
SFI
R
B
W
TA
THA
HD
HA
log (%AA)
1
0.276
0.451
0.290
0.463
0.383
0.401
0.215
0.353
0.596
0.380
0.192
0.437
MSA
MV
logP
MR
SFI
TA
THA
HD
HA
1
0.976
0.720
0.952
0.836
0.863
- 0.582
0.875
0.876
- 0.140
- 0.084
- 0.002
1
0.767
0.962
0.821
0.840
- 0.459
0.842
0.929
- 0.103
- 0.062
0.026
1
0.705
0.332
0.368
- 0.033
0.380
0.747
- 0.504
- 0.462
- 0.537
1
0.876
0.913
- 0.470
0.914
0.931
0.032
0.003
0.141
1
0.981
-0.701
0.975
0.703
0.382
0.197
0.482
1
-0.681
0.998
0.770
0.309
0.182
0.454
1
-0.706
-0.210
-0.102
0.152
-0.198
1
0.764
0.270
0.152
0.415
1
-0.117
0.082
0.076
1
0.500
0.889
1
0.722
The MLR analysis was started with mono variable and then the multi
variables using two variables, three variables and so on. In the multi
variable MLR analyses two sets of combination for the parameters
were studied, the first set was the combination of physicochemical
parameter with atom indices and the second was molecular indices
with atom indices. The mono variable equations showed poor
regression coefficient values but on increase in the number of
variables, good regression coefficient values were obtained, the
maximum number of variables in both type of sets were eight.
Stepwise selection and elimination of variables produced MLR
models with combination of six, seven and eight variables which
showed good regression coefficient values and the equations of the
same models are given below.
Set-1 (Physicochemical parameters with atom indices)
Arora et al.
2
1.8
1.6
1.4
1.2
1
0.8
0.8
1.2
1.4
1.6
1.8
2.
3.
4.
Arora et al.
12.
13.
14.
15.
16.
17.
18.
19.
20.
461