图 书 馆
从寡聚体蛋白质的界面区域发现功能基序Discovery of Functional Motifs from the Interface Region of Oligomeric Proteins using Frequent Subgraph Mining Method |
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| 课程网址: | https://videolectures.net/videos/kdd2016_hasan_interface_region |
| 主讲教师: | Mohammad Al Hasan |
| 开课单位: | KDD 2016研讨会 |
| 开课时间: | 2025-02-04 |
| 课程语种: | 英语 |
| 中文简介: |  |
| 课程简介: | Studying the interface region of a protein complex pavesthe way for understanding its dynamics and functionalities.Existing works study a protein interface region by the com-position of its residues, by the geometry of the interfaceresidues, or by directly aligning interface regions. Very fewworks use graphs as the tool for modeling the interface re-gions. In this work, we use interface residues for formingnetworks from a set of protein structures, and then find sub-graphs that are frequent in those networks. For finding suchsubgraphs, we use a scalable frequent subgraph mining al-gorithm, which can mine frequent sub-network patterns ofa specific size. We then discover the functional motif alongthe interface region of a given protein from those mined sub-graphs. In our experiment, we use PDB structures from twodimeric protein complexes: HIV-1 protease (329 structures)and triosephosphate isomerase (TIM) (86 structures). Theproposed frequent subgraph based approach discovers thegraphs representing the dimerization lock which is formed atthe base of the structure, in 323 of the 329 HIV-1 proteasestructures. Similarly, for 86 TIM structures, the approachdiscovers the dimerization lock formation in 50 structures.Our method captures the locking mechanism at the dimericinterface by taking into account the spatial positioning ofthe interfacial residues through graphs. |
| 关 键 词: | 频繁子图; 挖掘方法; 功能基序 |
| 课程来源: | 视频讲座网 |
| 数据采集: | 2025-03-16：liyq |
| 最后编审: | 2025-03-16：liyq |
| 阅读次数: | 5 |