Here, we presented an integrative database named DrLLPS (http://llps.biocuckoo.cn/) for proteins involved in liquid-liquid phase separation (LLPS), which is a ubiquitous and crucial mechanism for spatiotemporal organization of various biochemical reactions, by creating membraneless organelles (MLOs) in eukaryotic cells. From the literature, we manually collected 150 scaffold proteins that are drivers of LLPS, 987 regulators that contribute in modulating LLPS, and 8148 potential client proteins that might be dispensable for the formation of MLOs, which were then categorized into 40 biomolecular condensates. We searched potential orthologs of these known proteins, and in total DrLLPS contained 437 887 known and potential LLPS-associated proteins in 164 eukaryotes. Furthermore, we carefully annotated LLPS-associated proteins in eight model organisms, by using the knowledge integrated from 110 widely used resources that covered 16 aspects, including protein disordered regions, domain annotations, post-translational modifications (PTMs), genetic variations, cancer mutations, molecular interactions, disease-associated information, drug-target relations, physicochemical property, protein functional annotations, protein expressions/proteomics, protein 3D structures, subcellular localizations, mRNA expressions, DNA & RNA elements, and DNA methylations. We anticipate DrLLPS can serve as a helpful resource for further analysis of LLPS.
基金:
Special Project on Precision Medicine under the National Key RD Program [2017YFC0906600, 2018YFC0910500]; Natural Science Foundation of China [31970633, 31930021, 31671360, 81701567, 31671348]; Fundamental Research Funds for the Central Universities [2017KFXKJC001, 2019kfyRCPY043]; Changjiang Scholars Program of China; program for HUST Academic Frontier Youth Team
第一作者单位:[1]Huazhong Univ Sci & Technol, Coll Life Sci & Technol, Hubei Bioinformat & Mol Imaging Key Lab, Key Lab Mol Biophys,Minist Educ, Wuhan 430074, Hubei, Peoples R China
通讯作者:
推荐引用方式(GB/T 7714):
Ning Wanshan,Guo Yaping,Lin Shaofeng,et al.DrLLPS: a data resource of liquid-liquid phase separation in eukaryotes[J].NUCLEIC ACIDS RESEARCH.2020,48(D1):D288-D295.doi:10.1093/nar/gkz1027.
APA:
Ning, Wanshan,Guo, Yaping,Lin, Shaofeng,Mei, Bin,Wu, Yu...&Xue, Yu.(2020).DrLLPS: a data resource of liquid-liquid phase separation in eukaryotes.NUCLEIC ACIDS RESEARCH,48,(D1)
MLA:
Ning, Wanshan,et al."DrLLPS: a data resource of liquid-liquid phase separation in eukaryotes".NUCLEIC ACIDS RESEARCH 48..D1(2020):D288-D295