PerMemDB: A database for eukaryotic peripheral membrane proteins
Katerina C Nastou1, Georgios N Tsaousis1, Vassiliki A Iconomidou1
1Section of Cell Biology and Biophysics, Department of Biology, National and Kapodistrian University of Athens, Panepistimiopolis, Athens 15701, Greece.
Biochimica Et Biophysica Acta. Biomembranes
|October 21, 2019
Summary
Peripheral membrane proteins are crucial for cellular functions. The new PerMemDB database offers a comprehensive resource for studying these proteins, aiding future research into their evolution and function.
Area of Science:
- Biochemistry
- Bioinformatics
- Cell Biology
Background:
- Most cellular proteins interact with membranes, either temporarily or permanently.
- Peripheral membrane proteins form transient, non-covalent complexes with lipids and proteins, vital for cellular processes.
Purpose of the Study:
- To create a comprehensive database, PerMemDB, for eukaryotic peripheral membrane proteins.
- To consolidate data from UniProt and computational predictions for peripheral membrane proteins.
Main Methods:
- Designed and constructed the PerMemDB database.
- Utilized MBPpred, a computational method, for predicting membrane-interacting proteins.
- Integrated data from UniProt and MBPpred predictions.
Main Results:
- PerMemDB is the most complete repository for eukaryotic peripheral membrane proteins.
- The database contains 231,770 proteins from 1009 organisms.
- Entries include cross-references, literature links, interaction annotations, and domain information.
Conclusions:
- PerMemDB provides a valuable resource for understanding peripheral membrane protein evolution and function.
- The database facilitates enhanced proteome-wide analyses.
- Accessible via a web interface for browsing, searching, and BLAST queries.
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