Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 400
Aptamer sequence: GGGCGAAUUCAACUGCCAUCUAGGCAGUAACCAGGAGUUAGUAGGACAAGUUUCGUCC
Target unique ID: P42262
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_394 | AN58 | Protein | GRIA2_HUMAN | 419 pM | 150 mM NaCl, 3 mM KCl, 1 mM CaCl2, 1mM MgCl2, 10 HEPEs (pH 7.4), Incubation Time: 40 min | 17929944 |
Structure information of aptamer
| Aptamer Sequence: | GGGCGAAUUCAACUGCCAUCUAGGCAGUAACCAGGAGUUAGUAGGACAAGUUUCGUCC |
| 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_394 | Description | AN58 |
| Aptamer chemistry | RNA | Length | 58 nt |
| GC content | 50.0% | Molecular weight | 18,676.14 Da |
| Molarity of 1 μg/μl solution | 53.54 μM | Number of G-quadruplexes | No QGRS found |
| G-Score | N/A | Function | Targeted binding |
| Sequence | GGGCGAAUUCAACUGCCAUCUAGGCAGUAACCAGGAGUUAGUAGGACAAGUUUCGUCC | ||
| Applications | AN58 serves as a unique lead compound for developing watersoluble inhibitors with a nanomolar affinity for GluR2 AMPA receptors | ||
Target information
| Type | Detail | Type | Detail |
|---|---|---|---|
| Uniprot ID | P42262 | Protein name | Glutamate receptor 2 (GluR-2) (AMPA-selective glutamate receptor 2) (GluR-B) (GluR-K2) (Glutamate receptor ionotropic, AMPA 2) (GluA2) |
| Gene name(s) | GRIA2 GLUR2 | Organism | Glutamate receptor 2 (GluR-2) (AMPA-selective glutamate receptor 2) (GluR-B) (GluR-K2) (Glutamate receptor ionotropic, AMPA 2) (GluA2) |
| Status | reviewed in uniprot database | Length | 883 |
| Mass | 98,821 | Activity regulation | N/A |
| Involvement in disease | Neurodevelopmental disorder with language impairment and behavioral abnormalities | Catalytic activity | N/A |
| PDB ID(s) | 2WJW;2WJX;2XHD;3R7X;3RN8;3RNN;3UA8;5H8S;5YBF;5YBG;5ZG0;5ZG1;5ZG2;5ZG3;7F3O; |
 |
Function | Receptor for glutamate that functions as ligand-gated ion channel in the central nervous system. |
Activity data
 |
Interaction ID | 400 |
| Target type | Protein | |
| Target unique ID | P42262 | |
| Activity | 419 pM | |
| Binding Conditions/Buffer | 150 mM NaCl, 3 mM KCl, 1 mM CaCl2, 1mM MgCl2, 10 HEPEs (pH 7.4), Incubation Time: 40 min |
|
| Assay | Radioligand displacement assay of AN58 with S1S2. Each point represents the average intensity in arbitrary units of three radioactivity measurements of specific binding. The Kd was determined to be 0.419 ( 0.221 nM by nonlinear fitting of the binding data using eq 1 |
|
| PubMed ID | 17929944 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_703 | RNA | GGGCGGAUGAGACGCUUGGCGUGUGCUGUGGAGAGUCAUCCG | |
| Apta_256 | RNA | GGGCGCUAAGUCCUCGCUCAUGCGCGUCCCAUGGGGUAUAGAGGGGUCGAAGUGGACGCGCGACUCGGAUCCU | |
| Apta_724 | RNA | GGGAGAGGAUACUACUGUCAUACGUUAGGCUGUAGGCGAGGUGAAAUGAGCGGUAAUAGCCUCAGCGUAGCAUAUGCAUGAAUUCGAAGCUUCGC | |
| Apta_520 | RNA | GGGAGAUCUACGGAUCUCAGGGCUCUUACGGGAGCUACAUGGAAGGAGUCCAUGUGU | |
| Apta_575 | RNA | AGAGCUUGACGGUCCCGAGAGUCGAGCCCAAGCUGACACUGGACCUUUGCGGACCACGUGUUGAUCGUCG | |
| Apta_130 | RNA | GGGAGGACGAUGCGGUGGUAGCGCGAUAUAGCGCUGGUAGGGUUGCCGGUGAUCAGACGACUCGCCCGA | |
| Apta_171 | RNA | GGGAGCUCAGAAUAAACGCUCAACCAGUCUUGUGGCUUUGAAAGAGAGGAGUGUUCGACAUGAGGCCCGGAUCCGGC | |
| Apta_499 | RNA | GGACGCGUGGUACCAGGCCGAUCUAUGGACGCUAUAGGCACACCGGAUACUUUAACGAUUGGCUAAGCUUCCGCGGGGAUC | |
| Apta_647 | RNA | GGAUCCCGACUGGCGAGAGCCAGGUAACGAAUGGAUCC | |
| Apta_714 | RNA | GGCGGUUCCUGCCGAAAGGCUCGUGGCAACGUC | |
| Apta_647 | RNA | GGAUCCCGACUGGCGAGAGCCAGGUAACGAAUGGAUCC | |
| Apta_38 | RNA | GGUAGAUACGAUGGAUACCCCCUGUGGCCCGUCAACACAGGGGAAGUGGCAUGACGCGCAGCCA | |
| Apta_645 | RNA | CUGGACGACGGGGACGCCACUGGACUAGGUAAGCCAGGACCGUACGUCGGGAGCCGUCAGAAUA | |
| Apta_453 | RNA | GGGCUAGCUGAUCGUACCAGUAGCGUGGCCUGGGGGGCCUAGUCGUGCGAUACUAACAGCUAACACCC | |
| Apta_612 | RNA | GGGCGACCCUGAUGAGCCUUAGGAUAUGCUUCGGCAGAAGGACGUCGAAACGGUGAAAGCCGUAGGUUGCCC | |
| Apta_294 | RNA | AUACCAGCUUAUUCAAUUGCCUGAUUAGCGGUAUCACGAUUACUUACCUUCGUUGCUGAGAUAGUAAGUGCAAUCU | |
| Apta_297 | RNA | AUACCAGCUUAUUCAAUUGCCUGAGUAGCUGGGUCCGUCCCCACACAUUACCAUUUGUAGAUAGUAAGUGCAAUCU | |
| Apta_1248 | RNA | GGGUGACUUUUCCCUCAGGCUCCUGUGAAGCAACCGAAUGGACUGAAAUGAAACCGCCC | |
| Apta_496 | RNA | GGGCUAGCUGAUCGUACCCAGUAGCGUGGCAUGGGGUGCCUAGUCGGGCGAUACUAACAGCUAACACCC | |
| Apta_416 | RNA | GGACCUCGGCGAAAGCCGGUAACGCCACAAGUCGGAGGGUAAGAUCUGACAGGAACUGGGUGACGGAGGUUAGGUGC |
DEV TOOL
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