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LLPSDB: a database of proteins undergoing liquid-liquid phase separation in vitro
Qian Li1, Xiaojun Peng1, Yuanqing Li1
1College of Life Sciences, University of Chinese Academy of Sciences, Beijing, 100049, China.
Nucleic Acids Research
|January 8, 2020
Summary
Liquid-liquid phase separation (LLPS) forms distinct protein-rich droplets crucial for cell function and disease. LLPSDB is a new database cataloging proteins and conditions involved in LLPS to aid research.
Area of Science:
- Biochemistry
- Molecular Biology
- Biophysics
Background:
- Liquid-liquid phase separation (LLPS) drives the formation of biomolecular condensates, essential in cellular physiology and pathology.
- Protein phase behavior is influenced by intrinsic sequences and external micro-environmental factors.
- Understanding LLPS is critical for comprehending cellular organization and disease mechanisms.
Purpose of the Study:
- To introduce LLPSDB, a novel, web-accessible database for proteins involved in LLPS.
- To provide a comprehensive, curated collection of proteins and experimental conditions related to LLPS.
- To facilitate research on the relationship between protein properties and phase separation behavior.
Main Methods:
- Curated collection of published literature on proteins and LLPS.
- Inclusion of biomolecular information (protein sequence, modifications, nucleic acids).
- Detailed recording of experimental conditions and phase behavior descriptions.
Main Results:
- LLPSDB currently contains 1182 entries, representing 273 unique proteins and 2394 specific conditions.
- The database offers diverse data, including protein sequences, modifications, nucleic acid interactions, and detailed experimental parameters.
- LLPSDB is the first dedicated database for LLPS-related proteins.
Conclusions:
- LLPSDB serves as a valuable resource for investigating the sequence-phase behavior relationship in proteins.
- The database can enhance the development of predictive models for phase separation.
- LLPSDB contributes to a deeper understanding of LLPS in cellular functions and diseases.
