Title: Ion-Protein Interactions Author: Mgr. et Mgr. Jan Heyda Department: Physical and Macromoleculer Chemistry Advisor: Prof. Pavel Jungwirth, DSc., IOCB AS CR, v.v.i. Advisor's e-mail address: pavel.jungwirth@uochb.cas.cz Abstract: Conventional molecular dynamics simulations in combination with ad- vanced methods of analyses were used to improve the understanding of the interac- tion between ions and proteins in salt solutions. Thus systems of diverse complexity and size were investigated, starting with simple (and molecular) salt solutions with small fragments that mimic the various functional groups of amino acids such as N-methylacetamide representing the peptide bond or alkylated ammonium cations. Continuing with individual positively charged amino acids (arginine, histidine, ly- sine) a strong binding interaction with small fluoride anion that is significantly weak- ened for larger halides (Cl− , Br− , I− ) was described. This observation was extended by detecting the strong sensitivity of fluoride to charge distribution on ammonium, lysine side chain, and the N-terminal of glycine while sensitivity of iodide was found to be low. Later it was shown that the attractive side chain-side chain interactions are significant for short positively charged peptide fragments in polyarginine and dihistidine, while...
| Identifer | oai:union.ndltd.org:nusl.cz/oai:invenio.nusl.cz:311530 |
| Date | January 2011 |
| Creators | Heyda, Jan |
| Contributors | Jungwirth, Pavel, Hof, Martin, Ettrich, Rüdiger |
| Source Sets | Czech ETDs |
| Language | English |
| Detected Language | English |
| Type | info:eu-repo/semantics/doctoralThesis |
| Rights | info:eu-repo/semantics/restrictedAccess |
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