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Ubiquitin carboxyl-terminal hydrolase37 (UCH37)-aptamer
Description
In 2017, Jung Hoon Lee and colleagues used SELEX (Systematic Evolution of Ligands by Exponential enrichment) technique to isolate high affinity RNA aptamers that bind to the UCH37 protein[1].SELEX
In 2017, Jung Hoon Lee and Min Jae Lee isolated 20 specific sequences for targeting Ubiquitin carboxyl-terminal hydrolase37 in a 40nt sequence poolthrough 15 rounds of selection[1].
Detailed information are accessible on SELEX page.
Structure
The 2D structure of the figure is based on the article by ribodraw tool to draw[1].5'-GGGUUCACUGCAGACUUGACGAAGCUUGGAGGGCAUGCUUCGGGCAAACCUGUAGGGGUGCGGCUCUAAUGGAUCCACAUCUACGAAUUC-3'
Ligand information
SELEX ligand
Ubiquitin carboxyl-terminal hydrolase is a member of a gene family whose products hydrolyze small C-terminal adducts of ubiquitin to generate the ubiquitin monomer.
| Name | Uniprot ID | Pfam | MW | Amino acids sequences | PDB | Gene ID |
|---|---|---|---|---|---|---|
| Ubiquitin carboxyl-terminal hydrolase37 (UCH37) | Q9WUP7 | PF01088 | 37.617 kDa | MSSNAGEWCLMESDPGVFTELIKGFGCRGAQVEEIWSLEPESFEKLKPVHGLIFLFKWQPGEEPAGSVVQDSRLETIFFAKQVINNACATQAIVSVLLNCTHQDVHLGETLSEFKEFSQSFDAAMKGLALSNSDVIRQVHNSFARQQMFEFDTKTPAKEEDAFHFVSYVPVNGRLYELDGLREGPIDLGACNQDDWITAVRPVIEKRIQKYSEGEIRFNLMAIVSDRKMIYEQKIAELQRQLAEEEPMDTDQGSTVLSAIQSEVARNQMLIEEEVQKLKRYKIENIRRKHNYLPFIMELLKTLAEHQQLIPLVEKAKEKQNAKKAQETK | 4WLR | 56207 |
Some isolated sequences bind to the affinity of the protein.
| Name | Sequence | Ligand | Affinity |
|---|---|---|---|
| UCH37‐1 | 5'-GGGUUCACUGCAGACUUGACGAAGCUUGGAGGGCAUGCUUCGGGCAAACCUGUAGGGGUGCGGCUCUAAUGGAUCCACAUCUACGAAUUC-3' | Ubiquitin carboxyl-terminal hydrolase37 (UCH37) | NA |
Similar compound
We used the Dail server website to compare the structural similarities of ligand proteins, and chose the top 10 in terms of similarity for presentation. The Dali server is a network service for comparing protein structures in 3D. Dali compares them against those in the Protein Data Bank (PDB). Z-score is a standard score that is converted from an original score. The list of neighbours is sorted by Z-score. Similarities with a Z-score lower than 2 are spurious. RMSD(Root Mean Square Deviation) value is used to measure the degree to which atoms deviate from the alignment position.
| PDB | Z-socre | RMSD | Description |
|---|---|---|---|
| 6HGC-A | 29.9 | 2.5 | Ubiquitin carboxyl-terminal hydrolase calypso,ubi |
| 2LEN-A | 16.7 | 2.7 | Ubiquitin carboxyl-terminal hydrolase isozyme l1 |
| 7EN4-A | 16.5 | 2.7 | Ubiquitin carboxyl-terminal hydrolase yuh1 |
| 1VP7-B | 7.6 | 2.2 | Exodeoxyribonuclease vii small subunit |
| 7BIN-V | 7.3 | 1.1 | Flagellar biosynthetic protein flip |
| 2I1K-A | 7.3 | 1.3 | Moesin |
| 5Y9O-A | 7.2 | 2.6 | Wipa |
| 5N9J-G | 7.1 | 6.4 | Mediator of rna polymerase ii transcription subun |
| 8AP9-G | 7.1 | 2.5 | Atp synthase gamma subunit |
| 2ZDI-C | 7.1 | 2.4 | Prefoldin subunit beta |
References
[1] Isolation and Characterization of RNA Aptamers against a Proteasome‐Associated Deubiquitylating Enzyme UCH37.Lee, J. H., & Lee, M. J.
ChemBioChem, 18(2), 171-175. (2017)