<i>In Silico</i> Analysis of Glutamate Receptors in <i>Capsicum chinense</i>: Structure, Evolution, and Molecular Interactions
Plant glutamate receptors (GLRs) are integral membrane proteins that function as non-selective cation channels, involved in the regulation of developmental events crucial in plants. Knowledge of these proteins is restricted to a few species and their true agonists are still unknown in plants. Using...
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| Format: | Article |
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MDPI AG
2024-03-01
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| Series: | Plants |
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| Online Access: | https://www.mdpi.com/2223-7747/13/6/812 |
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| author | Fabiola León-García Federico García-Laynes Georgina Estrada-Tapia Miriam Monforte-González Manuel Martínez-Estevez Ileana Echevarría-Machado |
| author_facet | Fabiola León-García Federico García-Laynes Georgina Estrada-Tapia Miriam Monforte-González Manuel Martínez-Estevez Ileana Echevarría-Machado |
| author_sort | Fabiola León-García |
| collection | DOAJ |
| description | Plant glutamate receptors (GLRs) are integral membrane proteins that function as non-selective cation channels, involved in the regulation of developmental events crucial in plants. Knowledge of these proteins is restricted to a few species and their true agonists are still unknown in plants. Using tomato SlGLRs, a search was performed in the pepper database to identify GLR sequences in habanero pepper (<i>Capsicum chinense</i> Jacq.). Structural, phylogenetic, and orthology analysis of the CcGLRs, as well as molecular docking and protein interaction networks, were conducted. Seventeen CcGLRs were identified, which contained the characteristic domains of GLR. The variation of conserved residues in the M2 transmembrane domain between members suggests a difference in ion selectivity and/or conduction. Also, new conserved motifs in the ligand-binding regions are reported. Duplication events seem to drive the expansion of the species, and these were located in the evolution by using orthologs. Molecular docking analysis allowed us to identify differences in the agonist binding pocket between CcGLRs, which suggest the existence of different affinities for amino acids. The possible interaction of some CcGLRs with proteins leads to suggesting specific functions for them within the plant. These results offer important functional clues for CcGLR, probably extrapolated to other Solanaceae. |
| first_indexed | 2024-04-24T17:53:33Z |
| format | Article |
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| institution | Directory Open Access Journal |
| issn | 2223-7747 |
| language | English |
| last_indexed | 2024-04-24T17:53:33Z |
| publishDate | 2024-03-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Plants |
| spelling | doaj.art-2140ac20d8374a68b04d0dacf73fcaea2024-03-27T14:00:43ZengMDPI AGPlants2223-77472024-03-0113681210.3390/plants13060812<i>In Silico</i> Analysis of Glutamate Receptors in <i>Capsicum chinense</i>: Structure, Evolution, and Molecular InteractionsFabiola León-García0Federico García-Laynes1Georgina Estrada-Tapia2Miriam Monforte-González3Manuel Martínez-Estevez4Ileana Echevarría-Machado5Unidad de Biología Integrativa, Centro de Investigación Científica de Yucatán, Calle 43, #130, x 32 and 34, Mérida 97205, Yucatán, MexicoUnidad de Biología Integrativa, Centro de Investigación Científica de Yucatán, Calle 43, #130, x 32 and 34, Mérida 97205, Yucatán, MexicoUnidad de Biología Integrativa, Centro de Investigación Científica de Yucatán, Calle 43, #130, x 32 and 34, Mérida 97205, Yucatán, MexicoUnidad de Biología Integrativa, Centro de Investigación Científica de Yucatán, Calle 43, #130, x 32 and 34, Mérida 97205, Yucatán, MexicoUnidad de Biología Integrativa, Centro de Investigación Científica de Yucatán, Calle 43, #130, x 32 and 34, Mérida 97205, Yucatán, MexicoUnidad de Biología Integrativa, Centro de Investigación Científica de Yucatán, Calle 43, #130, x 32 and 34, Mérida 97205, Yucatán, MexicoPlant glutamate receptors (GLRs) are integral membrane proteins that function as non-selective cation channels, involved in the regulation of developmental events crucial in plants. Knowledge of these proteins is restricted to a few species and their true agonists are still unknown in plants. Using tomato SlGLRs, a search was performed in the pepper database to identify GLR sequences in habanero pepper (<i>Capsicum chinense</i> Jacq.). Structural, phylogenetic, and orthology analysis of the CcGLRs, as well as molecular docking and protein interaction networks, were conducted. Seventeen CcGLRs were identified, which contained the characteristic domains of GLR. The variation of conserved residues in the M2 transmembrane domain between members suggests a difference in ion selectivity and/or conduction. Also, new conserved motifs in the ligand-binding regions are reported. Duplication events seem to drive the expansion of the species, and these were located in the evolution by using orthologs. Molecular docking analysis allowed us to identify differences in the agonist binding pocket between CcGLRs, which suggest the existence of different affinities for amino acids. The possible interaction of some CcGLRs with proteins leads to suggesting specific functions for them within the plant. These results offer important functional clues for CcGLR, probably extrapolated to other Solanaceae.https://www.mdpi.com/2223-7747/13/6/812habanero pepperglutamate receptorstructurephylogenyligandmolecular docking |
| spellingShingle | Fabiola León-García Federico García-Laynes Georgina Estrada-Tapia Miriam Monforte-González Manuel Martínez-Estevez Ileana Echevarría-Machado <i>In Silico</i> Analysis of Glutamate Receptors in <i>Capsicum chinense</i>: Structure, Evolution, and Molecular Interactions Plants habanero pepper glutamate receptor structure phylogeny ligand molecular docking |
| title | <i>In Silico</i> Analysis of Glutamate Receptors in <i>Capsicum chinense</i>: Structure, Evolution, and Molecular Interactions |
| title_full | <i>In Silico</i> Analysis of Glutamate Receptors in <i>Capsicum chinense</i>: Structure, Evolution, and Molecular Interactions |
| title_fullStr | <i>In Silico</i> Analysis of Glutamate Receptors in <i>Capsicum chinense</i>: Structure, Evolution, and Molecular Interactions |
| title_full_unstemmed | <i>In Silico</i> Analysis of Glutamate Receptors in <i>Capsicum chinense</i>: Structure, Evolution, and Molecular Interactions |
| title_short | <i>In Silico</i> Analysis of Glutamate Receptors in <i>Capsicum chinense</i>: Structure, Evolution, and Molecular Interactions |
| title_sort | i in silico i analysis of glutamate receptors in i capsicum chinense i structure evolution and molecular interactions |
| topic | habanero pepper glutamate receptor structure phylogeny ligand molecular docking |
| url | https://www.mdpi.com/2223-7747/13/6/812 |
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