Aptamer-target interaction descriptor
Aptamer-target interaction information
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_372 | C13.20 | Protein | ARBK1_HUMAN | 48 nM | 20 mM Tris (pH 7.0), 50 mM NaCl, 5 mM MgCl2, 2 mM DTT, and 0.1% Lubrol (without nonspecific RNA) | 22727813 |
Structure information of aptamer
| Aptamer Sequence: | GACCAUACGGGAGAGAAACU |
| The optimal secondary structure in dot-bracket notation: | ..((....)).......... |
| The centroid secondary structure in dot-bracket notation: | ..((....)).......... |
The MFE structure
The Centroid structure
The mountain plot representation
Aptamer information
| Type | Detail | Type | Detail |
|---|---|---|---|
| Aptamer ID | Apta_372 | Description | C13.20 |
| Aptamer chemistry | RNA | Length | 20 nt |
| GC content | 50.0% | Molecular weight | 6,475.97 Da |
| Molarity of 1 μg/μl solution | 154.42 μM | Number of G-quadruplexes | No QGRS found |
| G-Score | N/A | Function | Targeted binding |
| Sequence | GACCAUACGGGAGAGAAACU | ||
| Applications | Trap a novel conformational state of a protein kinase | ||
Target information
| Type | Detail | Type | Detail |
|---|---|---|---|
| Uniprot ID | P25098 | Protein name | Beta-adrenergic receptor kinase 1 (Beta-ARK-1) (EC 2.7.11.15) (G-protein coupled receptor kinase 2) |
| Gene name(s) | GRK2 ADRBK1 BARK BARK1 | Organism | Beta-adrenergic receptor kinase 1 (Beta-ARK-1) (EC 2.7.11.15) (G-protein coupled receptor kinase 2) |
| Status | reviewed in uniprot database | Length | 689 |
| Mass | 79,574 | Activity regulation | In contrast to other AGC family kinases, the catalytic activity is solely regulated by the binding of substrates and ligands |
| Involvement in disease | N/A | Catalytic activity | Reaction=[beta-adrenergic receptor] + ATP = [beta-adrenergic receptor]-phosphate + ADP + H(+) |
| PDB ID(s) | 1BAK;3CIK;3KRW;3KRX;3V5W;4MK0;4PNK;5HE1;5UKK;5UKL;5UUU;5UVC;5WG3;5WG4;5WG5;6C2Y;6U7C;7K7L;7K7Z;7PWD; |
 |
Function | Specifically phosphorylates the agonist-occupied form of the beta-adrenergic and closely related receptors, probably inducing a desensitization of them. |
Activity data
|
No relevant experimental diagram |
Interaction ID | 378 |
| Target type | Protein | |
| Target unique ID | P25098 | |
| Activity | 48 nM | |
| Binding Conditions/Buffer | 20 mM Tris (pH 7.0), 50 mM NaCl, 5 mM MgCl2, 2 mM DTT, and 0.1% Lubrol (without nonspecific RNA) |
|
| Assay | N/A |
|
| PubMed ID | 22727813 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_373 | RNA | CCAUACGGGAGAGAAACU | |
| Apta_371 | RNA | GGCAGACCAUACGGGAGAGAAACUUGCC | |
| Apta_208 | DNA | AGGAAGGGGTGGAAT | |
| Apta_1160 | DNA | TTCAGTATCCCACGGGTGGAATCA | |
| Apta_86 | RNA | GAAACGACUCGACAACCUCGAGCGACGUGAAUCAU | |
| Apta_360 | DNA | GGGAACGCATACGCCGCAGTATTTCCC | |
| Apta_630 | DNA | GACCAGGGCAAACGGTAGGGAGTGGTC | |
| Apta_231 | RNA | GGGAGGACGAUGCGGGUGUGGGGCG | |
| Apta_322 | DNA | GAAGTGAAAATGACAGAACACAACA | |
| Apta_322 | DNA | GAAGTGAAAATGACAGAACACAACA | |
| Apta_138 | RNA | GGAGGUGCUCCGAAAGGAACUCC | |
| Apta_647 | RNA | GGAUCCCGACUGGCGAGAGCCAGGUAACGAAUGGAUCC | |
| Apta_647 | RNA | GGAUCCCGACUGGCGAGAGCCAGGUAACGAAUGGAUCC | |
| Apta_924 | RNA | GCCUUUUCGGGAUACGCGGAGGGUGGGCAA | |
| Apta_319 | RNA | ACCCUGAUGGUAGACGCCGGGGUG | |
| Apta_90 | RNA | ACAACCUAAAUGCGACGUUGGGUCAAAAACGUGAA | |
| Apta_93 | RNA | CUCCGCUAUCUAACGUAUGAUAGAAUGGAUGACUA | |
| Apta_96 | RNA | UCGCUAAUUAUAGGCGGAGUGCGACGUUAUAAAUA | |
| Apta_713 | RNA | GGCGGUGCUGGCCGAAAGGCGCUUGGAAACGUC | |
| Apta_715 | RNA | GGCGCUGCACGCCGAAAGGCCCGUUGAAACGUC |
DEV TOOL
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