Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 438
Aptamer sequence: GGGAGACAAGAAUAAACGCUCAAGGCAUUUCUGCUAGUCUGGUUGUAAGAUAUUCAACACGUGAGUUUCGACAGGAGGCUCACAACAGGC
Target unique ID: Q05127
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_432 | 1G8-14 | Protein | VP35_EBOZM | 3.7 nM | 10mM HEPES (pH 7.0), 150 mM NaCl, 2mM TCEP (tris(2-carboxyethyl)phosphine), 1mM MgCl2 | 24067086 |
Structure information of aptamer
| Aptamer Sequence: | GGGAGACAAGAAUAAACGCUCAAGGCAUUUCUGCUAGUCUGGUUGUAAGAUAUUCAACACGUGAGUUUCGACAGGAGGCUCACAACAGGC |
| 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_432 | Description | 1G8-14 |
| Aptamer chemistry | RNA | Length | 90 nt |
| GC content | 46.7% | Molecular weight | 29,057.32 Da |
| Molarity of 1 μg/μl solution | 34.41 μM | Number of G-quadruplexes | No QGRS found |
| G-Score | N/A | Function | Targeted therapy |
| Sequence | GGGAGACAAGAAUAAACGCUCAAGGCAUUUCUGCUAGUCUGGUUGUAAGAUAUUCAACACGUGAGUUUCGACAGGAGGCUCACAACAGGC | ||
| Applications | Be used clinically as NAALADase inhibitors or be modified to carry imaging agents and therapeutic agents directed to prostate cancer cells | ||
Target information
| Type | Detail | Type | Detail |
|---|---|---|---|
| Uniprot ID | Q05127 | Protein name | Polymerase cofactor VP35 (Ebola VP35) (eVP35) |
| Gene name(s) | VP35 | Organism | Polymerase cofactor VP35 (Ebola VP35) (eVP35) |
| Status | reviewed in uniprot database | Length | 340 |
| Mass | 37,362 | Activity regulation | N/A |
| Involvement in disease | N/A | Catalytic activity | N/A |
| PDB ID(s) | 3FKE;3L25;3L26;3L27;3L28;3L29;4IBB;4IBC;4IBD;4IBE;4IBF;4IBG;4IBI;4IBJ;4IBK;4IJE;4IJF;4YPI;4ZTA;4ZTG;4ZTI;6GBO;6GBP; |
 |
Function | Plays an essential role in viral RNA synthesis and also a role in suppressing innate immune signaling. |
Activity data
 |
Interaction ID | 438 |
| Target type | Protein | |
| Target unique ID | Q05127 | |
| Activity | 3.7 nM | |
| Binding Conditions/Buffer | 10mM HEPES (pH 7.0), 150 mM NaCl, 2mM TCEP (tris(2-carboxyethyl)phosphine), 1mM MgCl2 |
|
| Assay | ITC raw data and corresponding binding isotherms for 1G8-14 binding to eVP35 IID |
|
| PubMed ID | 24067086 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_137 | RNA | GGGAGACAAGAAUAAACGCUCAAGUGACGUCCUGAUCGAUUGUGCAUUCGGUGUGACGAUCUUUCGACAGGAGGCUCACAACAGGC | |
| Apta_433 | RNA | GGGAGACAAGAAUAAACGCUCAACGUUCAGUAUAACAGUCCGAGUCUAACACACAAUGGGACACUGAAUUCGACAGGAGGCUCACAACAGGC | |
| Apta_272 | RNA | GGGAGACAAGAAUAAACGCUCAACACAGAACGCGGUCCCCACACAGGACAGGAGCCAGCCCCGGUUCGACAGGAGGCUCACAACAGGC | |
| Apta_171 | RNA | GGGAGCUCAGAAUAAACGCUCAACCAGUCUUGUGGCUUUGAAAGAGAGGAGUGUUCGACAUGAGGCCCGGAUCCGGC | |
| Apta_790 | DNA | GGGAGACAAGAATAAACGCTCAAGAAGTGAAAATGACAGAACACAACATTCGACAGGAGGCTCACAACAGGC | |
| Apta_854 | RNA | GGGAGCUCAGAAUAAACGCUCAAGGGUAGGGAUCGUUACCCCGACAUUUUAAUGGGCCGAUGUUUCGACAUGAGGCCCGGAUCCGGC | |
| Apta_490 | DNA | GGGAGACAAGAATAAACGCTCAAGGGCGTGGTGGGTGGGGTACTAATAATGTGCGTTTGTTCGACAGGAGGCTCACAACAGGC | |
| Apta_502 | DNA | GGGAGACAAGAATAAACGCTCAAATGGACTTTTGAATGTGGCAACAAATTCGACAGGAGGCTCACAACAGGC | |
| Apta_723 | RNA | GGGAGCUCAGAAUAAACGCUCAAAUCCGUGGACAGGGCGUAAGCGCCUUCGACAUGAGACACGGAUCCUGCGACGAAUUCAGC | |
| Apta_501 | DNA | GGGAGACAAGAATAAACGCTCAATTTAACGTATTTATTCAAGCTCGTATTCGACAGGAGGCTCACAACAGGC | |
| Apta_170 | RNA | GGGAGACAAGACUAGACGCUCAAUGUGGGCCACGCCCGAUUUUACGCUUUUACCCGCACGCGAUUGGUUUGUUUCCC | |
| Apta_169 | RNA | GGGAGACAAGACUAGACGCUCAAUGUGGGCCACGCCCGAUUUUACGCUUUUACCCGCACGCGAUUGGUUUGUUUUCGACAUGAGACUCACAACAGUUCCCUUUAGUGAGGGUUAAUU | |
| Apta_415 | RNA | GGGAGGACGAUGCGGAAACUCAUCGGUAGCCUUCCUGCGGUCAGUCUAUUAGGACCAGACGACUCGCUGAGGAUCCGAGA | |
| Apta_793 | RNA | GGGAGAGAACAAUGACCUGCGGUGCCAAGCCGUCGGGUUAUGUUGAUCUCCUCAAGGACGAGUGCAUUGCAUCACGUCAGUAG | |
| Apta_1224 | RNA | GGAGGCGCCAACUGAAUGAAUGUUCUGGAUCUGCUAGAGACUAUCUGCUUCGGCAGCACUCUCCGUUAACAACACGUACAUCCGUAACUAGUCGCGUCAC | |
| Apta_59 | RNA | GGACCUCGGCGAAAGCUAACGUCUCAUGGCUAAAUUGCCAUGUUGCUACAAAUGAUAUGACUAGAGAGGUUAGGUGCCUCGUGAUGUCCAGUCGC | |
| Apta_416 | RNA | GGACCUCGGCGAAAGCCGGUAACGCCACAAGUCGGAGGGUAAGAUCUGACAGGAACUGGGUGACGGAGGUUAGGUGC | |
| Apta_612 | RNA | GGGCGACCCUGAUGAGCCUUAGGAUAUGCUUCGGCAGAAGGACGUCGAAACGGUGAAAGCCGUAGGUUGCCC | |
| Apta_1053 | RNA | GCCGCAAGUACGAGGGCGGCGCGCUCGACGCGGUUAGAUGAGUGUCGCCGUUUCCGAAGAUUGGCUACGCGGGG | |
| Apta_874 | RNA | GGAUAAUAGCCGUAGGUUGCGAAAGCGACCCUGAUGAGCCUUAGGAUAUGUCUGGAUACCAUGCAUGAUGCACCUUGGCAGUCUUACAGAAGGACGUCGAAACGGUAGCGAGAGCUC |
DEV TOOL
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