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Molecular Properties and Insilico Neuroprotective Activity of Eugenol Against Glutamate Metabotrophic Receptors

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Abstract

Metabotrophic glutamate receptors were expressed abnormal in the neurodegenerative diseases. The negative regulation of the abnormal expression induce glutamate excitotoxicity has connected to interminable neurodegenerative issues for example, amyotrophic parallel sclerosis, multiple sclerosis and Parkinson's disease. The molecular target metabrophic glutamate receptors were modulated and regulated by the potent medicinal compounds. Eugenol is a medicinal value rich compound found in the buds and leaves of clove (Syzygium aromaticum (L.) Merrill and Perry), which has been accounted to have antioxidant, anticancer and neuroprotective activity. In this present study the Eugenol compound was evaluated for the neuroprotective activity through molecular docking and molecular property prediction. The eugenol compound was optimized and prepared as ligand molecule using ligprep tool. Similarly the glutamate receptors were prepared for molecular docking through auto dock tool. Prelimarily, the eugenol was evaluated for the molecular properties and drug likeliness sore. The duglikeliness score -0.60 of eugenol indicated the highest score and confirmed as potent drug like compound. Totally ten glutamate receptors were chosen and docked with eugenol ligand molecule. Among the receptors 2e4y, 3ks9, 2wjw and 3lmk were significantly inhibited by eugenol. 2e4y and 3ks9 achieved the best docking frequency (-28.01and -32.90) with atomic contact energy.
Int. J. Pharm. Sci. Rev. Res., 40(1), September October 2016; Article No. 58, Pages: 318-323 ISSN 0976 044X
International Journal of Pharmaceutical Sciences Review and Research
International Journal of Pharmaceutical Sciences Review and Research
Available online at www.globalresearchonline.net
© Copyright protected. Unauthorised republication, reproduction, distribution, dissemination and copying of this document in whole or in part is strictly prohibited.
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318
Jai Prabhu2, G.Bupesh*1, K.Prabhu2, V.S.Kalaiselvi3, K.Meenakumari1, Mudiganti Ram Krishnarao5, P.Sathyarajeswaran6,
E. Manikandan4
1 Central Research laboratory, Sree Balaji Medical College & Hospital (SBMCH), Bharath University, BIHER, Chrompet, Chennai, Tamil Nadu, India.
2 Dept of Anatomy, Sree Balaji Medical College & Hospital (SBMCH), Bharath University, BIHER, Chrompet, Chennai-600044, Tamil Nadu, India.
3Dept of Biochemistry, Sree Balaji Medical College & Hospital (SBMCH), Bharath University, BIHER, Chrompet, Chennai -600044, Tamil Nadu, India.
4 Nanosciences African Network (NANO-AFNET), Materials Research Department, iThemba LABSNational Research Foundation (NRF), 1 Old Faure
Road, Somerset West, PO BOX 722 Western Cape, South Africa.
5Dept of Industrial Biotechnology, Bharath University, BIHER, Chrompet, Chennai-600044, Tamil Nadu, India.
6Central Council for Research in Siddha, Ministry of AYUSH, Arumbakkam,Chennai, Tamil Nadu, India.
*Corresponding author’s email: bupeshgiri55@gmail.com
Accepted on: 05-07-2016; Finalized on: 31-08-2016.
ABSTRACT
Metabotrophic glutamate receptors were expressed abnormal in the neurodegenerative diseases. The negative regulation of the
abnormal expression induce glutamate excitotoxicity has connected to interminable neurodegenerative issues for example,
amyotrophic parallel sclerosis, multiple sclerosis and Parkinson's disease. The molecular target metabrophic glutamate receptors
were modulated and regulated by the potent medicinal compounds. Eugenol is a medicinal value rich compound found in the buds
and leaves of clove (Syzygium aromaticum (L.) Merrill and Perry), which has been accounted to have antioxidant, anticancer and
neuroprotective activity. In this present study the Eugenol compound was evaluated for the neuroprotective activity through
molecular docking and molecular property prediction. The eugenol compound was optimized and prepared as ligand molecule using
ligprep tool. Similarly the glutamate receptors were prepared for molecular docking through auto dock tool. Prelimarily, the eugenol
was evaluated for the molecular properties and drug likeliness sore. The duglikeliness score -0.60 of eugenol indicated the highest
score and confirmed as potent drug like compound. Totally ten glutamate receptors were chosen and docked with eugenol ligand
molecule. Among the receptors 2e4y, 3ks9, 2wjw and 3lmk were significantly inhibited by eugenol. 2e4y and 3ks9 achieved the best
docking frequency (-28.01and -32.90) with atomic contact energy.
Keywords: Eugenol, Glutamate receptors, Druglikeliness, Docking, Neuroprotective activity.
INTRODUCTION
Plants are rich wellspring of bioactive parts that have
attractive medical advantages and are traditionally useful
for various ailments. Eugenol (4-allyl-2-methoxy phenol),
is a phenolic compound found in the leaves, buds of clove
(Syzygium aromaticum (L.) Merrill and Perry1, essential
oils and is a noteworthy constituent of Ocimum,
Cinnamon, and Clove oils. Principally, eugenol is isolated
from the clove buds of Eugenia aromatica, E.
caryophyllata having a place with family Mytraceae
indigenous to the Molluca Islands, and which are likewise
developed in different parts of Indonesia, Zanzibar,
Madagascar, and Ceylon. Eugenol is a fascinating
compound inspite of its wide range of exercises like pain
relieving, calming, antifungal, antibacterial and
antihypertensive movement2. As of late, numerous
pharmacological and restorative activities of eugenol
have been explored particularly where traditional
medications are ineffectual in the treatment of infection.
Eugenol separated from the fringe activities additionally
acts at focal level. In sensory system, eugenol is acts as
neuroprotective against excitotoxicity, ischemia and
amyloid-β peptide, restrains the conduction of activity
potential in sciatic nerves and enhances neuronal and
vascular intricacies in exploratory diabetes3-7. Eugenol has
been reported to stretch bradykinin and kallikrein incited
sedation8. Old Chinese pharmacopeias uncovered that
most natural cures demonstrated for Alzheimer illness
(AD or indications reminiscent of AD) contains the organic
Rhizoma acori graminei which is rich in eugenol9.
Alzheimer's ailment (AD) is an unending and dynamic
neurodegenerative issue which was initially portrayed in
1907 by Alois Alzheimer and is described by a dynamic
loss of neurons and neurotransmitters with the nearness
of substantial quantities of extracellular amyloid plaques.
It extremely influences psychological capacity and other
behavioral angles, for example, official capacity and
dialect aptitudes. Both extracellular and intracellular
aggregation of Aβ starts a course of occasions including
synaptic and neuriticharm, microglial and astrocytic
initiation (provocative reaction), modified neuronal
ionichomeostasis, oxidative harms, changes of
kinases/phosphatases exercises, development of NFTs
and at long last cell demise. Eugenol shields neuronal cells
from NMDA-incited excitotoxic and oxidative damage4, 10.
However, no in silico reports were accessible on the
eugenol molecular mechanism on neuroprotection and
modulation. The present study investigates on the
molecular interaction, inhibition of eugenol on
metabotrophic glutamate receptors.
Molecular Properties and Insilico Neuroprotective Activity of Eugenol
Against Glutamate Metabotrophic Receptors
Research Article
Int. J. Pharm. Sci. Rev. Res., 40(1), September October 2016; Article No. 58, Pages: 318-323 ISSN 0976 044X
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MATERIALS AND METHODS
Preparation of target molecules
Glutamate receptor proteins were chosen for docking
studies. The crystal structures of the proteins are
available in Protein Data Bank (http://www.rcsb.org/pdb)
and the PDB ID for the receptors is (2E4U, 2E4V, 2E4W,
2E4X, 2E4Y, 2E4Z, 2WJW, 3KS9, 3LMK, 3MQ4) was mined
and optimized for docking studies.
Ligand preparation
The identified Chemical compound namely Eugenol from
Syzygium aromaticum clove Seed and these compound
structure were retrieved from Pubchem structural
database. Both of these compounds were prepared by
Ligprep package. The ligand molecules were generated
and the three dimensional optimizations were done and
then saved as MOL file (a file format for holding
information about the atoms, bonds, connectivity and
coordinates of a molecule).
Active Site Prediction
Active site recoganization of Metabotrphic glutamate
receptors proof of human estrogen receptor The catalytic
sites of Metabotrphic glutamate receptors area and
volume of binding pocket was was done with Computed
Atlas of Surface Topography of Proteins (Castp) program
(http://cast.engr.uic.edu)11.
Molecular docking
In the present study the glutamate receptor proteins are
docked with the eugenol ligand. The molecular docking
was performed with AutoDock 4.2.1. In order to analyze
the effect of ligand association, all the water molecules
and the hetero atoms have been removed from the target
protein. All the hydrogen atoms were added to the
protein as it is required for the electrostatics and then
non polar hydrogen atoms were merged together.
RESULTS
The active compounds in many ayurvedhic drugs
constituted compounds like eugenol was treated for
neuroprotective role and neurodegenerative diseases.
The eugenol Figure 1 was chosen as the ligand and
appraised for the antagonist action against metabotropic
glutamate receptors. The eugenol was first predicted for
the quantitative structure activity relationship and drug
like lines using Molinsipiration tool Figure 2. The eugenol
structure was submitted in the molinspiration tools using
jmol chemical structure drawer. The molecular properties
and drug likeliness were shown in the Figure 3. The
molecular properties such as moleuclar formula: C10H12O2,
molecular weight-164.08, number of Hydrogen bond-1,
molecular log polarity- 2.61, molecular solubility -2.45,
molecular polar surface area- 24.42, molecular volume
181.27 and no stereo centers. The drug likeliness score
was found to be -0.60. The transport and recognization of
the drugs is very essential for the target specific therapy.
The target specific drug action can be assessed by the
parameters such as G- protein coupled receptor (GPCR),
ion channel modulator, nuclear receptor and protease
inhibitor presented in the Figure 4a and b. The
Bioproperty predictor predicts eugenol as the GPCR
ligand -0.86, Ion channel modulator -0.36, Kinase inhibitor
-1.14,Nuclear receptor ligand -0.78 , Protease inhibitor -
1.29, Enzyme inhibitor -0.41. The Insilico docking of
eugenol with metabotrophic glutamate receptors 2E4U,
2E4V, 2E4W, 2E4X, 2E4Y, 2E4Z, 2WJW, 3KS9, 3LMK,
3MQ4 were presented in the Figure 5a and b.The docking
cycles and other parameters were used according to the
Murris good self mentod and the docking score profile
were presented as shown in the figure.
The active sites residues of the metabotrophic glutamate
receptors were predicted by the active site prediction
tool. The active site residues in 2E4U-Phe 207,208,Arg-
206,Glu 518, 2E4V-Arg 206,Phe 208,Asn-209, 2E4W-Arg-
206,Phe 208,Asn 209,Val 504, 2E4X-Arg 206,Phe 208,Asn
209,Val 504, 2E4Y-Arg 206,Phe 208,2E4Z-Pro 56,Gly-
58,Lys-71,Asn 74,Ser-159,Ser-229, 2WJW-Asn-370,Glu-
391,Val-392, 3KS9-Trp-110, Gly-163, Ser-164, 165, 186,
Tyr-236, Asp-318,319,Ala-329,Gly 379, 3LMK- Arg
206,Phe 208Asn-445, Leu-455 and 3MQ4-Gly-158, Ala-
180,Ser-181,Thr-182Ser-187.
The predicted catalytic sites of 10 metabotrphic
glutamate receptors were utilized as the synergist locales
for eugenol compound were characteristic utilized for
docking studies presented in the Table 1. The effects of
the docking interaction between the dynamic site
deposits of target metabotrphic glutamate receptor
proteins and eugenol ligand were presented in the Table
2. By investigating the docking associations, Eugenol was
found to have the most noteworthy enactment vitality
with receptors 2e4y, 3ks9, 2wjw and 3lmk. The 2e4y
receptor showed the highest significant activity with the
Ligand eugenol. The atomic contact energy, Ligand
transformation and docking frequency was found to be -
28.01, 2740 Score kcal/mol and -1.09 -1.17 -0.60 -7.34
12.66 68.26. Similarly the 3ks9 significantly attained -
32.90, 3238 Score kcal/mol and -0.75 0.83 -0.89 -75.68
24.99 17.80. Further the above results could be valuable
for recognizable proof and improvement of new
preventive and remedial medication against
Neurodegenerative diseases.
DISCUSSION
At present, different phytal activities including flavors and
zest bioactive agents are broadly utilized as alternative
therapeutic compounds as reciprocal expertise
compounds in the control and management of
neurodegenerative diseases12, 13. Human Consumption of
natural product eugenol and other derived compounds
has been used in the preparation various recepies and
medicinal formulations. These bioactive compounds were
exhibited to possess different nourishment
Int. J. Pharm. Sci. Rev. Res., 40(1), September October 2016; Article No. 58, Pages: 318-323 ISSN 0976 044X
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320
arrangements, antioxidant, anti-inflammatory properties
and restorative definitions14. These zest dynamic
standards have been shown to have fantastic cancer
prevention agent, anticonvulsant and local anaesthetic,
antistress, bacteriostatic and bactericidal and possess
brain calming properties. Eugenol is constituted in the
many ayurvedhic and siddha drugs especially the
saraswatarishtam an ayurvedhic drug possess 80% of this
compound12. Further, in cell models Eugenol is appeared
to improve the activities of a few glutathione related
proteins, repress the movement of 5-lipoxygenase and
shield essential neuronal cells from excitotoxic and
oxidative harm15-17 . The previous studies reported in
perspective of Smith et al.19 the principle objectives in
drug discovery distinguishing the innovative small
molecular scaffold exhibiting high binding affinity and
selectivity for the target with a sensible retention,
conveyance, digestion system, discharge and lethality
(ADMET) profile, lead and/or drug resemblance. In the
present study the eugenol compound was evaluated for
the neuroprotective and modulatory activity through the
insilico docking of metabotrphic glutamate receptros.
There are plenty of research were carried out to screen
the bioactive compound in invivo animal models. But
none of the reports were not identified and hypothesized
the mechanism of drug action on the molecular targets of
neurodegenerative diseases and disorders. To our mind
and from the literature, we found this is the first work
emphasis the neuroprotective and modulatory activity of
eugenol by insilico computational methods through
docking. As indicated by18, molecular docking keeps on
holding awesome guarantee in the field of computational
based molecular targeting which screens small lead
molecules by orienting and scoring them in the catalytic
site of receptor protein. The docking procedure includes
the expectation of ligand affirmation and orientation
(posturing) inside focused restricting site and their
communication energies were utilized by the scoring
capacities19, 20.
Consequently the 10 glutamate receptors 2E4U, 2E4V,
2E4W, 2E4X, 2E4Y, 2E4Z, 2WJW, 3KS9, 3LMK, 3MQ4 were
evaluated completely to hypothesize the lead binding
catalytic sites for the mechanism of protective action and
modulation. The above receptors were docked with
eugenol Ligand and interesting findings attained from this
study that the motif was found in all the glutamate
receptors. The conserved amino acid sequences were
found in all the receptors such as Arg206, Phe208 and
Asn209. Hence the molecular targets of the active site
residues were identified for targeting the neurodiseases.
Finally the docking studies, suggests that eugenol
significantly inhibits the active sites of metabotrophic
glutamate receptors 2e4y, 3ks9, 2wjw and 3lmk.
Figure 1: Three dimensional Entity of Eugenol
Figure 2: Bioactivity Score prediction of Eugenol
Int. J. Pharm. Sci. Rev. Res., 40(1), September October 2016; Article No. 58, Pages: 318-323 ISSN 0976 044X
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Figure 3: Molecular Properties and Druglikeliness score prediction of Eugenol
Figure 4: Three dimensional Entity of Glutamate receptors (a.2E4U,
b.2E4V, c.2E4W, d.2E4X, e.2E4Y, f.2E4Z, g.2WJW, h. 3KS9, i.3LMK
and j.3MQ4)
Int. J. Pharm. Sci. Rev. Res., 40(1), September October 2016; Article No. 58, Pages: 318-323 ISSN 0976 044X
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Table 1: Catalytic Site prediction of Metabotrophic Glutamate Receptors
S.No
Glutamate Receptors
Catalytic Amino acid residues
1
2E4U
Phe 207,208,Arg-206,Glu 518
2
2E4V
Arg 206,Phe 208,Asn-209
3
2E4W
Arg-206,Phe 208,Asn 209,Val 504
4
2E4X
Arg 206,Phe 208,Asn 209,Val 504
5
2E4Y
Arg 206,Phe 208
6
2E4Z
Pro 56,Gly-58,Lys-71,Asn 74,Ser-159,Ser-229
7
2WJW
Asn-370,Glu-391,Val-392
8
3KS9
Trp-110, Gly-163, Ser-164, 165, 186, Tyr-236, Asp-318,319,Ala-329,Gly
379
9
3LMK
Arg 206,Phe 208Asn-445, Leu-455
10
3MQ4
Gly-158, Ala-180,Ser-181,Thr-182Ser-187
Table 2: Molecular Interaction and Docking scores of Eugenol Glutamate receptors
S.No.
Eugenol with
Glutamate Receptors
Score
kcal/mol
Area
Atomic Contact Energy
(ACE)
Ligand Transformation
1.
2E4U
3780
429.50
23.00
-0.74465 -1.39370 -2.06089 25.53879 6.43612
48.63786
2.
2E4V
2732
293.00
-88.82
0.13 -0.38 -0.26 -3.45 1.47 -9.77
3.
2E4W
3598
415.50
-17.00
-0.41 0.08 -2.37 29.75 -0.84 0.23
4.
2E4X
3440
372.40
-111.28
-0.83 -0.75 0.31 16.36 -19.86 49.08
5.
2E4Y
2740
291.80
-28.01
-1.09 -1.17 -0.60 -7.34 12.66 68.26
6.
2e4z
3116
352.80
-178.78
-0.41 0.18 -0.93 35.08 11.39 -17.24
7.
2WJW
2732
364.50
-57.39
-2.85 -1.54 1.23 -11.08 -36.16 -21.89
8.
3LMK
3566
402.20
-64.26
-0.69 -0.22 -1.32 15.69 -11.19 -31.08
9.
3MQ4
3588
405.50
-112.96
-1.11 0.33 0.46 -11.26 -41.40 -7.75
10.
4S47
3238
336.70
-32.90
-0.75 0.83 -0.89 -75.68 24.99 17.80
CONCLUSION
The significance of lead molecules from different
traditional medicines and their utilization upgrades the
proteinligand association ponders through in-silico.
From the present investigation, we infer that the eugenol
ligand was taken for the docking study which indicated
that great interaction and inhibitory impact with the
molecular targets of neural disorders through 10
metabotrophic glutamate receptors. Consequently we
can foresee that four receptors 2e4y, 3ks9, 2wjw and
3lmk were pronouncedly inhibited by eugenol lead
molecule. Therefore, we conclude, the eugenol can be
strongly recommended and promoting as chemotherapy
drugs for neuroprotection.
Acknowledgement
We wish to thank Dr. V. Sankar, Associate Professor,
ALM.PGIMBS, Dept.of.Anatomy, University of Madras,
Chennai, India for his keen interest in this area of
research.
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Int. J. Pharm. Sci. Rev. Res., 40(1), September October 2016; Article No. 58, Pages: 318-323 ISSN 0976 044X
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International Journal of Pharmaceutical Sciences Review and Research
Available online at www.globalresearchonline.net
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Scientific validation of Ayurvedic, Siddha and other types of alternative medicines is very important to bring them to the main stream of medical practice. One step in this direction is to identify the active biomolecules and their roles as medicines. Bioactive molecules in standard ayurvedic medical formulations play a vital role in curing diseases. The present study deals with the GC MS analysis of one such ayurvedic nerve tonic, namely, Sarswatarishtam. It was observed that two important biomolecules, namely, eugenol and serine were predominantly present in Saraswatarishtam. These two biomolecules are well known for their neuroprotective and neuroplastic activities. This finding clearly is one step forward in the much needed scientific validation of ayurvedic medicines.
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