PhaSePro: the database of proteins driving liquid-liquid phase separation
PhaSePro: the database of proteins driving liquid-liquid phase separation
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DOI：
10.1093/nar/gkz848
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发表时间：
2020-01-08
影响因子：
14.9
通讯作者：
Pancsa, Rita
中科院分区：
文献类型：
--
作者：
Meszaros, Balint;Erdos, Gabor;Pancsa, Rita
无膜细胞器（MO）是一种动态的液体浓缩物，它承载着各种特定的细胞过程，如核糖体生物合成或RNA降解。MO通过液-液相分离（LLPS）形成，这是一个依赖于组成蛋白质和其他大分子的多价弱相互作用的过程。自从第一次发现某些蛋白质能够驱动LLPS以来，它就成为细胞空间有效组织的一般机制，在所有生命王国中都得到了利用。虽然许多实验研究报告了新的情况，但LLPS驱动程序的计算识别仍然落后，并且关于所得缩合物的序列决定因素，组成，调控和生物相关性仍然存在许多悬而未决的问题。我们克服这些问题的能力有限，主要是由于缺乏专用的LLPS数据库。因此，在这里，我们介绍PhaSePro（https：//www.example.com），这是一个开放的、全面的、手动管理的实验验证的LLPS驱动蛋白/蛋白区域的数据库。它不仅提供了大量关于此类系统的信息，而且通过引入新的LLPS特定控制词汇表来提高数据的标准化。PhaSePro可以通过一个吸引人的，用户友好的界面访问，因此有一定的潜力成为这个动态发展领域的中心资源。
Membraneless organelles (MOs) are dynamic liquid condensates that host a variety of specific cellular processes, such as ribosome biogenesis or RNA degradation. MOs form through liquid-liquid phase separation (LLPS), a process that relies on multivalent weak interactions of the constituent proteins and other macromolecules. Since the first discoveries of certain proteins being able to drive LLPS, it emerged as a general mechanism for the effective organization of cellular space that is exploited in all kingdoms of life. While numerous experimental studies report novel cases, the computational identification of LLPS drivers is lagging behind, and many open questions remain about the sequence determinants, composition, regulation and biological relevance of the resulting condensates. Our limited ability to overcome these issues is largely due to the lack of a dedicated LLPS database. Therefore, here we introduce PhaSePro (https://phasepro.elte.hu), an openly accessible, comprehensive, manually curated database of experimentally validated LLPS driver proteins/protein regions. It not only provides a wealth of information on such systems, but improves the standardization of data by introducing novel LLPS-specific controlled vocabularies. PhaSePro can be accessed through an appealing, user-friendly interface and thus has definite potential to become the central resource in this dynamically developing field.