Article ; Online: Design and Synthesis of Ubiquitin-Based Chemical Tools with Unnatural Amino Acids for Selective Detection of Deubiquitinases.
Methods in molecular biology (Clifton, N.J.)
2022 Volume 2591, Page(s) 59–78
Abstract: Several chemical approaches have been applied to develop Ub-based substrates and probes selective toward one or a narrow subset of deubiquitinases (DUBs). Since DUBs are highly specific toward ubiquitin and exhibit low activity toward shorter peptides, ... ...
| Abstract | Several chemical approaches have been applied to develop Ub-based substrates and probes selective toward one or a narrow subset of deubiquitinases (DUBs). Since DUBs are highly specific toward ubiquitin and exhibit low activity toward shorter peptides, it is challenging to design truly selective chemical tools to investigate one DUB in biological samples. Incorporating amino acids other than canonical LRG at the P4-P2 positions in the Ub improves DUB activity and selectivity toward Ub derivatives. Here, we describe the protocol for identifying selective peptide sequences using a hybrid combinatorial substrate library (HyCoSuL) approach that can be introduced in the C-terminal motif of Ub. Furthermore, we describe the synthesis protocol of Ub-based probes and substrates containing unnatural amino acids and the application of Ub-based probes to detect DUBs in cell lysates. |
|---|---|
| MeSH term(s) | Ubiquitin/metabolism ; Amino Acids/metabolism ; Amino Acid Sequence ; Peptides/chemistry ; Deubiquitinating Enzymes/metabolism ; Ubiquitination |
| Chemical Substances | Ubiquitin ; Amino Acids ; Peptides ; Deubiquitinating Enzymes (EC 3.4.19.12) |
| Language | English |
| Publishing date | 2022-11-09 |
| Publishing country | United States |
| Document type | Journal Article ; Research Support, Non-U.S. Gov't |
| ISSN | 1940-6029 |
| ISSN (online) | 1940-6029 |
| DOI | 10.1007/978-1-0716-2803-4_5 |
| Database | MEDical Literature Analysis and Retrieval System OnLINE |
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