Design of potentially active ligands for SH2 domains by molecular modeling methods

• Дата: 2014
• Автори: Hurmach, V.V., Balinskyi, O.M., Platonov, M.O., Boyko, O.M., Borysko, P.O., Prylutskyy, Yu.I.
• Формат: Стаття
• Мова: English
• Опубліковано: Інститут молекулярної біології і генетики НАН України 2014
• Назва видання: Вiopolymers and Cell
• Теми: Bioinformatics
• Онлайн доступ: http://dspace.nbuv.gov.ua/handle/123456789/154423
• Назва журналу: Digital Library of Periodicals of National Academy of Sciences of Ukraine
• Цитувати: Design of potentially active ligands for SH2 domains by molecular modeling methods / V.V. Hurmach, O.M. Balinskyi, M.O. Platonov, O.M. Boyko, P.O. Borysko, Yu.I. Prylutskyy // Вiopolymers and Cell. — 2014. — Т. 30, № 4. — С. 321-325. — Бібліогр.: 12 назв. — англ.

Search for new chemical structures possessing specific biological activity is a complex problem that needs the use of the latest achievements of molecular modeling technologies. It is well known that SH2 domains play a major role in ontogenesis as intermediaries of specific protein-protein interactions. Aim. Developing an algorithm to investigate the properties of SH2 domain binding, search for new potential active compounds for the whole SH2 domains class. Methods. In this paper, we utilize a complex of computer modeling methods to create a generic set of potentially active compounds targeting universally at the whole class of SH2 domains. A cluster analysis of all available three-dimensional structures of SH2 domains was performed and general pharmacophore models were formulated. The models were used for virtual screening of collection of drug-like compounds provided by Enamine Ltd. Results. The design technique for library of potentially active compounds for SH2 domains class was proposed. Conclusions. The original algorithm of SH2 domains research with molecular docking method was developed. Using our algorithm, the active compounds for SH2 domains were found.