Informace o publikaci

Family-wide annotation and schematic 2D visualization of secondary structure elements

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SVOBODOVÁ VAŘEKOVÁ Radka HUTAŘOVÁ VAŘEKOVÁ Ivana MIDLIK Adam HUTAŘ Jan MOTURU Tarakaramji NAVRÁTILOVÁ Veronika KOČA Jaroslav BERKA Karel

Rok publikování 2018
Druh Další prezentace na konferencích
Fakulta / Pracoviště MU

Přírodovědecká fakulta

Citace
Popis Large amount of structural data is available about individual protein families originating from different organisms, binding various ligands and containing diverse mutations. Secondary structure elements (SSEs) are often characteristic for a protein family and participate in the formation of protein fold. Composition and organization of SSEs can help to identify similarities and differences between proteins within protein families. To utilize the SSEs for research on protein families, we should be able to easily and automatically link and intercompare corresponding SSEs within one protein family. Specifically, the corresponding SSEs should have the same name (annotation) and we need a transparent and coherent schema of their localization in the protein structures, retaining structural information (i.e., minimize a deviation between SSEs distances in 2D schema and in 3D structure). We developed a tool set [1] fulfilling these requirements. It was successfully tested on all CATH families and its utilization in Protein Data Bank and CATH is planned. [1] Svobodová Vařeková, R., Midlik, A., Hutařová Vařeková, I., Hutař, J., Navrátilová, V., Koča, J., Berka, K. (2018). Secondary Structure Elements-Annotations and Schematic 2D Visualizations Stable for Individual Protein Families. Biophys J, 114(3), 46a-47a.