Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 382
Aptamer sequence: GGGAGCUCAGCCUUCACUGCACUCCGGCUGGUGGACGCGGUACGAGCAAUUUGUACCGGAUGGAUGUUCGGGCAGCGGUGUGGCAGGGAUGAGCGGCACCACGGUCGGAUCCAC
Target unique ID: P27907
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_376 | class A-20 | Protein | NRAM_INBBE | 720 pM | 50 mM Tris-HCl, pH 7.5, 25 mM NaCl, 5 mM MgCl2 | 16751591 |
Structure information of aptamer
| Aptamer Sequence: | GGGAGCUCAGCCUUCACUGCACUCCGGCUGGUGGACGCGGUACGAGCAAUUUGUACCGGAUGGAUGUUCGGGCAGCGGUGUGGCAGGGAUGAGCGGCACCACGGUCGGAUCCAC |
| 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_376 | Description | class A-20 |
| Aptamer chemistry | RNA | Length | 114 nt |
| GC content | 64.0% | Molecular weight | 36,950.92 Da |
| Molarity of 1 μg/μl solution | 27.06 μM | Number of G-quadruplexes | 2 |
| G-Score | 19 | Function | Targeted therapy |
| Sequence | GGGAGCUCAGCCUUCACUGCACUCCGGCUGGUGGACGCGGUACGAGCAAUUUGUACCGGAUGGAUGUUCGGGCAGCGGUGUGGCAGGGAUGAGCGGCACCACGGUCGGAUCCAC | ||
| Applications | The aptamer not only distinguished HA derived from the influenza A virus, but also inhibited HA-mediated membrane fusion | ||
Target information
| Type | Detail | Type | Detail |
|---|---|---|---|
| Uniprot ID | P27907 | Protein name | Neuraminidase (EC 3.2.1.18) |
| Gene name(s) | NA | Organism | Neuraminidase (EC 3.2.1.18) |
| Status | reviewed in uniprot database | Length | 465 |
| Mass | 51,430 | Activity regulation | Inhibited by the neuraminidase inhibitors zanamivir (Relenza) and oseltamivir (Tamiflu) |
| Involvement in disease | N/A | Catalytic activity | Reaction=Hydrolysis of alpha-(2->3)-, alpha-(2->6)-, alpha-(2->8)- glycosidic linkages of terminal sialic acid residues in oligosaccharides, glycoproteins, glycolipids, colominic acid and synthetic substrates |
| PDB ID(s) | 1A4G;1A4Q;1NSB;1NSC;1NSD; |
 |
Function | Catalyzes the removal of terminal sialic acid residues from viral and cellular glycoconjugates. |
Activity data
 |
Interaction ID | 382 |
| Target type | Protein | |
| Target unique ID | P27907 | |
| Activity | 720 pM | |
| Binding Conditions/Buffer | 50 mM Tris-HCl, pH 7.5, 25 mM NaCl, 5 mM MgCl2 |
|
| Assay | SPR-analysis of the binding kinetics of the aptamer-HA complex. The aptamer was injected at a flow rate of 2 ml/min for 10 min (20 ml total volume; 50 nM final concentration). Sensogram runs with HA of B/Johannesburg/05/1999 injected into the flow cell at a flow rate of 20 ml/min for 3 min |
|
| PubMed ID | 16751591 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_549 | RNA | GGAGCUCAGCCUUCACUGCAUGAUAAACCGAUGCUGGGCGAUUCUCCUGAAGUAGGGGAAGAGUUGUCAUGUAUGGGGGCACCACGGUCGGAUCCUG | |
| Apta_936 | RNA | GGAGCUCAGCCUUCACUGCGAUCACCGUGUCGGUGGCUAGUCGAUGUAUCCCGAUCACCAUUGGGGGCAAGUUUAGACAGGCACCACGGUCGGAUCCAC | |
| Apta_500 | RNA | GGGAGAAAGGGAAGCUUGAGGUGCUAUGGAGUGGAGGAGUUGAAGGUGUCGGGGUUGGCAGAAGAAGGCGAGCGUACGGAUCCAUC | |
| Apta_854 | RNA | GGGAGCUCAGAAUAAACGCUCAAGGGUAGGGAUCGUUACCCCGACAUUUUAAUGGGCCGAUGUUUCGACAUGAGGCCCGGAUCCGGC | |
| Apta_380 | RNA | GGGAUGCUUCGGCAUCCCCGAAGCCGCUAUGGACCAGUGGCGCGGCUUCGGCCCGACGGAGUGGUACCGCUUCGGCGGUACGUAAGCUUGGG | |
| Apta_720 | RNA | GGGAGAAUUCCGACCAGAAGCUUAGUAUAGCGAGGUUUAGCUACACUCGUGCUGAUCGUUUGGUACGGGACCUGCGUGUAGCCCAUAUGUGCGUCUACAUGGAUCCUCA | |
| Apta_256 | RNA | GGGCGCUAAGUCCUCGCUCAUGCGCGUCCCAUGGGGUAUAGAGGGGUCGAAGUGGACGCGCGACUCGGAUCCU | |
| Apta_314 | RNA | GGUUACCAGCCUUCACUGCUCCCGGACGCGUCUGUAUCCGCUACCCGCCGCACCACGGUCGGUCACAC | |
| Apta_337 | RNA | GGGAGGAUAUUUUCUCAGACCGUAAGUACCGAAUGUGCUUUUGGCCGAUUUUUGGCCCCUGCAGUUGCAGCAUCGUGAACUAGGAUCCGGG | |
| Apta_410 | RNA | GGGAGAGCGGAAGCGUGCUGGGCCUGUCGUUCGCUGUGUCUUGCUACGUUACGUUACACGGUUGGCAUAACCCAGAGGUCGAUGG | |
| Apta_499 | RNA | GGACGCGUGGUACCAGGCCGAUCUAUGGACGCUAUAGGCACACCGGAUACUUUAACGAUUGGCUAAGCUUCCGCGGGGAUC | |
| Apta_123 | RNA | GGGAGAAAGGGAAGCUUGAGCAGCAGGAGGGCCGGCGUUAGGGUUAGCGAGCCGAUUGAAAGAAGAAGGAACGAGCGUACGGAUCCGAUC | |
| Apta_157 | RNA | GGGUUCACUGCAGACUUGACGAAGCUUACAAACAAGAGCAAAAAGGGAGUUGACGUAGACUGUGCGGAAUGGAUCCACAUCUACGAAUUC | |
| Apta_171 | RNA | GGGAGCUCAGAAUAAACGCUCAACCAGUCUUGUGGCUUUGAAAGAGAGGAGUGUUCGACAUGAGGCCCGGAUCCGGC | |
| Apta_383 | RNA | GGCGUGACCUGAUGAGUCACGCUAAGGAGGAUUUCCGAAAGCGGCUACGGUCCGCCAGUGUUACGAAACGUUCCC | |
| Apta_710 | RNA | GGAUAAUAGCCGUAGGUUGCGAAAGCGACCCUGAUGAGUCUGGAUACCAUGCAUGAUGCACCUUGGCAGUCUUACGAAACGGUAGCGAGAGCUC | |
| Apta_724 | RNA | GGGAGAGGAUACUACUGUCAUACGUUAGGCUGUAGGCGAGGUGAAAUGAGCGGUAAUAGCCUCAGCGUAGCAUAUGCAUGAAUUCGAAGCUUCGC | |
| Apta_766 | RNA | GGUUACCAGCCUUCACUGCGGACGGACAGAGAGUGCAACCUGCCGUGCCGCACCACGGUCGGUCACAC | |
| Apta_793 | RNA | GGGAGAGAACAAUGACCUGCGGUGCCAAGCCGUCGGGUUAUGUUGAUCUCCUCAAGGACGAGUGCAUUGCAUCACGUCAGUAG | |
| Apta_705 | RNA | CCGUAAUACGACUCACUAUAGGGGAGCUCGGUACCGAAUUCAAGGUACUCUGUGCUUGUCGAUGUGUAUUGAUGGCACUUUCGAGUCAACGAGUUGACAGAACAAGUAGUCAAGCUUUGCAGAGAGGAUCCUU |
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