Antiviral potential of natural compounds against influenza virus hemagglutinin.
Identifieur interne : 000342 ( Main/Exploration ); précédent : 000341; suivant : 000343Antiviral potential of natural compounds against influenza virus hemagglutinin.
Auteurs : S. Kannan [Inde] ; P. Kolandaivel [Inde]Source :
- Computational biology and chemistry [ 1476-928X ] ; 2017.
Descripteurs français
- KwdFr :
- MESH :
English descriptors
- KwdEn :
- Antiviral Agents (chemistry), Antiviral Agents (pharmacology), Binding Sites (drug effects), Biological Products (chemistry), Biological Products (pharmacology), Hemagglutinin Glycoproteins, Influenza Virus (metabolism), Hydrogen Bonding, Molecular Dynamics Simulation, Orthomyxoviridae (chemistry), Orthomyxoviridae (drug effects).
- MESH :
- chemical , chemistry : Antiviral Agents, Biological Products.
- chemical , metabolism : Hemagglutinin Glycoproteins, Influenza Virus.
- chemical , pharmacology : Antiviral Agents, Biological Products.
- chemistry : Orthomyxoviridae.
- drug effects : Binding Sites, Orthomyxoviridae.
- Hydrogen Bonding, Molecular Dynamics Simulation.
Abstract
Influenza virus of different subtypes H1N1, H2N2, H3N2 and H5N1 cause many human pandemic deaths and threatening the people worldwide. The Hemagglutinin (HA) protein mediates viral attachment to host receptors act as an attractive target. The sixteen natural compounds have been chosen to target the HA protein. Molecular docking studies have been performed to find binding affinity of the compounds. Out of the sixteen, three compounds CI, CII and CIII found to posses a higher binding affinity. The molecular dynamics (MD) simulation has been performed to study the structural, dynamical properties for the nine different complexes CI, CII, CIII bound with H1, H2, H3 proteins and the results were compared. The molecular mechanics Poission-Boltzmann surface area (MM-PBSA) method is used to compare the binding free energy, its different energy components and per residue binding contribution. The H1 subtype shows higher binding preference for all the curcumin derivatives than H2 and H3. The binding capability of protein subtypes with curcumin derivatives and the binding affinity of curcumin compounds are in the order H1>H2>H3 and CI>CII>CIII respectively. The two -O-CH3- groups present in the CI compound help to have strong binding with HA protein than CII and CIII. The van der Waals interaction energy plays a significant role for binding in all the complexes. The hydrogen bonding interactions were monitored throughout the MD simulation. The conserved region (153-155) and the helix region (193-194) of H1, H2, H3 protein subtypes are found to possess higher binding susceptibility for binding of the curcumin derivatives.
DOI: 10.1016/j.compbiolchem.2017.11.001
PubMed: 29149637
Affiliations:
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<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Antiviral potential of natural compounds against influenza virus hemagglutinin.</title><author><name sortKey="Kannan, S" sort="Kannan, S" uniqKey="Kannan S" first="S" last="Kannan">S. Kannan</name><affiliation wicri:level="1"><nlm:affiliation>Department of Physics, Bharathiar University, Coimbatore, 641 046, India.</nlm:affiliation><country xml:lang="fr">Inde</country><wicri:regionArea>Department of Physics, Bharathiar University, Coimbatore, 641 046</wicri:regionArea><wicri:noRegion>641 046</wicri:noRegion></affiliation></author><author><name sortKey="Kolandaivel, P" sort="Kolandaivel, P" uniqKey="Kolandaivel P" first="P" last="Kolandaivel">P. Kolandaivel</name><affiliation wicri:level="1"><nlm:affiliation>Department of Physics, Bharathiar University, Coimbatore, 641 046, India. Electronic address: ponkvel@hotmail.com.</nlm:affiliation><country xml:lang="fr">Inde</country><wicri:regionArea>Department of Physics, Bharathiar University, Coimbatore, 641 046</wicri:regionArea><wicri:noRegion>641 046</wicri:noRegion></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2017">2017</date><idno type="RBID">pubmed:29149637</idno><idno type="pmid">29149637</idno><idno type="doi">10.1016/j.compbiolchem.2017.11.001</idno><idno type="wicri:Area/PubMed/Corpus">000026</idno><idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Corpus" wicri:corpus="PubMed">000026</idno><idno type="wicri:Area/PubMed/Curation">000026</idno><idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Curation">000026</idno><idno type="wicri:Area/PubMed/Checkpoint">000039</idno><idno type="wicri:explorRef" wicri:stream="Checkpoint" wicri:step="PubMed">000039</idno><idno type="wicri:Area/Ncbi/Merge">000E34</idno><idno type="wicri:Area/Ncbi/Curation">000E34</idno><idno type="wicri:Area/Ncbi/Checkpoint">000E34</idno><idno type="wicri:Area/Main/Merge">000342</idno><idno type="wicri:Area/Main/Curation">000342</idno><idno type="wicri:Area/Main/Exploration">000342</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en">Antiviral potential of natural compounds against influenza virus hemagglutinin.</title><author><name sortKey="Kannan, S" sort="Kannan, S" uniqKey="Kannan S" first="S" last="Kannan">S. Kannan</name><affiliation wicri:level="1"><nlm:affiliation>Department of Physics, Bharathiar University, Coimbatore, 641 046, India.</nlm:affiliation><country xml:lang="fr">Inde</country><wicri:regionArea>Department of Physics, Bharathiar University, Coimbatore, 641 046</wicri:regionArea><wicri:noRegion>641 046</wicri:noRegion></affiliation></author><author><name sortKey="Kolandaivel, P" sort="Kolandaivel, P" uniqKey="Kolandaivel P" first="P" last="Kolandaivel">P. Kolandaivel</name><affiliation wicri:level="1"><nlm:affiliation>Department of Physics, Bharathiar University, Coimbatore, 641 046, India. Electronic address: ponkvel@hotmail.com.</nlm:affiliation><country xml:lang="fr">Inde</country><wicri:regionArea>Department of Physics, Bharathiar University, Coimbatore, 641 046</wicri:regionArea><wicri:noRegion>641 046</wicri:noRegion></affiliation></author></analytic><series><title level="j">Computational biology and chemistry</title><idno type="eISSN">1476-928X</idno><imprint><date when="2017" type="published">2017</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Antiviral Agents (chemistry)</term><term>Antiviral Agents (pharmacology)</term><term>Binding Sites (drug effects)</term><term>Biological Products (chemistry)</term><term>Biological Products (pharmacology)</term><term>Hemagglutinin Glycoproteins, Influenza Virus (metabolism)</term><term>Hydrogen Bonding</term><term>Molecular Dynamics Simulation</term><term>Orthomyxoviridae (chemistry)</term><term>Orthomyxoviridae (drug effects)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Antiviraux ()</term><term>Antiviraux (pharmacologie)</term><term>Glycoprotéine hémagglutinine du virus influenza (métabolisme)</term><term>Liaison hydrogène</term><term>Orthomyxoviridae ()</term><term>Produits biologiques ()</term><term>Produits biologiques (pharmacologie)</term><term>Simulation de dynamique moléculaire</term><term>Sites de fixation ()</term></keywords><keywords scheme="MESH" type="chemical" qualifier="chemistry" xml:lang="en"><term>Antiviral Agents</term><term>Biological Products</term></keywords><keywords scheme="MESH" type="chemical" qualifier="metabolism" xml:lang="en"><term>Hemagglutinin Glycoproteins, Influenza Virus</term></keywords><keywords scheme="MESH" type="chemical" qualifier="pharmacology" xml:lang="en"><term>Antiviral Agents</term><term>Biological Products</term></keywords><keywords scheme="MESH" qualifier="chemistry" xml:lang="en"><term>Orthomyxoviridae</term></keywords><keywords scheme="MESH" qualifier="drug effects" xml:lang="en"><term>Binding Sites</term><term>Orthomyxoviridae</term></keywords><keywords scheme="MESH" qualifier="métabolisme" xml:lang="fr"><term>Glycoprotéine hémagglutinine du virus influenza</term></keywords><keywords scheme="MESH" qualifier="pharmacologie" xml:lang="fr"><term>Antiviraux</term><term>Produits biologiques</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Hydrogen Bonding</term><term>Molecular Dynamics Simulation</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Antiviraux</term><term>Liaison hydrogène</term><term>Orthomyxoviridae</term><term>Produits biologiques</term><term>Simulation de dynamique moléculaire</term><term>Sites de fixation</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Influenza virus of different subtypes H1N1, H2N2, H3N2 and H5N1 cause many human pandemic deaths and threatening the people worldwide. The Hemagglutinin (HA) protein mediates viral attachment to host receptors act as an attractive target. The sixteen natural compounds have been chosen to target the HA protein. Molecular docking studies have been performed to find binding affinity of the compounds. Out of the sixteen, three compounds CI, CII and CIII found to posses a higher binding affinity. The molecular dynamics (MD) simulation has been performed to study the structural, dynamical properties for the nine different complexes CI, CII, CIII bound with H1, H2, H3 proteins and the results were compared. The molecular mechanics Poission-Boltzmann surface area (MM-PBSA) method is used to compare the binding free energy, its different energy components and per residue binding contribution. The H1 subtype shows higher binding preference for all the curcumin derivatives than H2 and H3. The binding capability of protein subtypes with curcumin derivatives and the binding affinity of curcumin compounds are in the order H1>H2>H3 and CI>CII>CIII respectively. The two -O-CH3- groups present in the CI compound help to have strong binding with HA protein than CII and CIII. The van der Waals interaction energy plays a significant role for binding in all the complexes. The hydrogen bonding interactions were monitored throughout the MD simulation. The conserved region (153-155) and the helix region (193-194) of H1, H2, H3 protein subtypes are found to possess higher binding susceptibility for binding of the curcumin derivatives.</div></front></TEI><affiliations><list><country><li>Inde</li></country></list><tree><country name="Inde"><noRegion><name sortKey="Kannan, S" sort="Kannan, S" uniqKey="Kannan S" first="S" last="Kannan">S. Kannan</name></noRegion><name sortKey="Kolandaivel, P" sort="Kolandaivel, P" uniqKey="Kolandaivel P" first="P" last="Kolandaivel">P. Kolandaivel</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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