Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 1229
Aptamer sequence: GGCGCGAGGAAGGAGGUCUGAGGAGGUCACUGCGCC
Target unique ID: 154723879
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_1167 | Corn | Molecule | CID 154723879 | 70 nM | 50 mM Tris-HCl pH 7.5, 0.1 M KCl, 10 mM MgCl2 | 28945234 |
Structure information of aptamer
| Aptamer Sequence: | GGCGCGAGGAAGGAGGUCUGAGGAGGUCACUGCGCC |
| 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_1167 | Description | Corn |
| Aptamer chemistry | RNA | Length | 36 nt |
| GC content | 69.4% | Molecular weight | 11,777.09 Da |
| Molarity of 1 μg/μl solution | 84.91 μM | Number of G-quadruplexes | 2 |
| G-Score | 21 | Function | Live-cell imaging |
| Sequence | GGCGCGAGGAAGGAGGUCUGAGGAGGUCACUGCGCC | ||
| Applications | Designing selfassembling RNA nanostructures | ||
Target information
| Type | Detail | Type | Detail |
|---|---|---|---|
| PubChem ID | 154723879 | Molecular name | CID 154723879 |
| Molecular formula | C12H9F2N3O3 | Molecular weight | 281.21 |
| IUPAC name | (5E)-5-[(3,5-difluoro-4-hydroxyphenyl)methylidene]-3-methyl-2-(nitrosomethylidene)imidazolidin-4-one | InChIKey | GXOMNFVJDRZPKL-KWBNEJDUSA-N |
| LogP | 0.03 | Topological polar surface area | 87.45 |
| Hydrogen bond acceptor | 5 | Hydrogen bond donor | 2 |
Synonym(s): DFHO; 1420815-34-4; (5E)-5-[(3,5-difluoro-4-hydroxyphenyl)methylidene]-3-methyl-2-(nitrosomethylidene)imidazolidin-4-one
Activity data
 |
Interaction ID | 1229 |
| Target type | Molecule | |
| Target unique ID | 154723879 | |
| Activity | 70 nM | |
| Binding Conditions/Buffer | 50 mM Tris-HCl pH 7.5, 0.1 M KCl, 10 mM MgCl2 |
|
| Assay | Binding of ThT to Corn |
|
| PubMed ID | 28945234 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_632 | RNA | GACGAGAAGGAGUGCUGGUUAUACUAGCGGUUAGGUCACUCGUC | |
| Apta_218 | RNA | AGCCGCGAGGGGAGGGAUAGGGUAGGGCGCGGCU | |
| Apta_633 | RNA | GGCAUCGGAAAGUGGGUUGAUGUAAGUAACAGGCGAUGCC | |
| Apta_1292 | RNA | GGCACGUGUAUUACCCUAGUGGUCGACGUGCC | |
| Apta_703 | RNA | GGGCGGAUGAGACGCUUGGCGUGUGCUGUGGAGAGUCAUCCG | |
| Apta_378 | RNA | UGCUCUUAGAAUGGGACUAAGACACGGGAC | |
| Apta_1194 | DNA | GGGAGAGGTGGGAGCGGGGCCAGGG | |
| Apta_262 | DNA | ACGGACTCGCAAAAGGTGGAACAGGAGTGGGCCCCGCGGC | |
| Apta_386 | DNA | GGAAAAGATGGTATGGGCCCTAGAAAGTCCACCCGGCGCC | |
| Apta_880 | DNA | GCCGCACAATCGGGTTGGGCAGGGAGGGCACGTGTGGCGC | |
| Apta_1188 | DNA | CGGGCGGGGCGTGGGGTGTTGGAGTGGAGGGCGGGGCGGC | |
| Apta_374 | RNA | GUCCCGUGCGCAAAAGUUCUUAGCGCUAGCAGUCCUAGUUGC | |
| Apta_1166 | RNA | GAUGUAACUGAAUGAAAUGGUGAAGGACGGGUCCAGUAGGCUGC | |
| Apta_304 | RNA | CGGCCGAUAGAAAGACUACUUGAGCCCUUAAAUGAGGUUAUGUGCGGCCG | |
| Apta_859 | RNA | GGGAGUCUGAAGUCGGACUUGUUAUCAAUUCACUUCAGACU | |
| Apta_71 | DNA | GGCGAGTAGGTTGGTGTGGTTGGGGCTCGCC | |
| Apta_212 | RNA | AGGAAGGCUUUAGGUCUGAGAUCUCGGAAU | |
| Apta_231 | RNA | GGGAGGACGAUGCGGGUGUGGGGCG | |
| Apta_371 | RNA | GGCAGACCAUACGGGAGAGAAACUUGCC | |
| Apta_560 | RNA | GGAAGAGAUGGCGACUAAAACGACUUGUCGC |
DEV TOOL
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