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@proceedings{1488644,
author = {Hammerová, Zuzana and Houser, Josef and Kozmon, Stanislav and Mishra, Deepti and Koča, Jaroslav and Wimmerová, Michaela},
booktitle = {XIX. setkání biochemiků a molekulárních biologů},
keywords = {carbohydrate; sugar; protein complexes; CH-pi stacking},
language = {eng},
isbn = {978-80-210-9069-9},
title = {Carbohydrate-protein binding site interaction},
year = {2018}
}
TY - CONF
ID - 1488644
AU - Hammerová, Zuzana - Houser, Josef - Kozmon, Stanislav - Mishra, Deepti - Koča, Jaroslav - Wimmerová, Michaela
PY - 2018
TI - Carbohydrate-protein binding site interaction
SN - 9788021090699
KW - carbohydrate
KW - sugar
KW - protein complexes
KW - CH-pi stacking
N2 - Interactions of saccharides with receptors belong to the most important ones in cell recognition, growth or differentiation, as well as in many pathological processes. These interactions are mediated by so-called glycocode – saccharide code which is read by many proteins. Saccharides interact with proteins in various ways. The most famous are hydrogen bridges but saccharides utilize also hydrophobic interactions or metal-ion mediated interaction. We concentrated mainly on CH-pi stacking interaction – the dispersion driven interaction between carbohydrate apolar faces and aromatic amino-acid residues. This interaction has been underestimated for a long time but we found out that it is a highly important interaction in carbohydrate-protein complexes. In our computational structure-based study we examined structures stored in Protein Data Bank (PDB) database. We examined complexes with a carbohydrate in a close proximity of an aromatic amino acid (tryptophan, tyrosine, phenylalanine, and histidine). We detected the presence of CH-pi stacking and examined the geometry parameters of these binding sites. Each aromatic amino acid showed a unique CH-pi stacking pattern, demonstrated by a characteristic orientation, bond distances, and bond angles between the carbohydrate and a particular amino acid. Besides CH-pi stacking interaction, we detected also hydrogen bridges and compare the frequencies of these two types of carbohydrate-protein interaction. These results provide insight into the importance of CH-pi stacking in carbohydrate-protein interactions and may help in drug development, receptor studies or protein engineering.
ER -
HAMMEROVÁ, Zuzana, Josef HOUSER, Stanislav KOZMON, Deepti MISHRA, Jaroslav KOČA and Michaela WIMMEROVÁ. Carbohydrate-protein binding site interaction. In \textit{XIX. setkání biochemiků a molekulárních biologů}. 2018. ISBN~978-80-210-9069-9.
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