Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 229
Aptamer sequence: GGGGCCACCAACGACAUUUAUCGAAUUGAUAACCUUACGCGAGAGCGUAGUUCGUUGAUAUAAAUAGUGCCCAUGGAUC
Target unique ID: P05121
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_225 | paionap-40 | Protein | PAI1_HUMAN | 1.23 nM | HBS buffer (pH 7.4), 2mM MgCl2, 0.05% Tween 20 | 20387790 |
Structure information of aptamer
| Aptamer Sequence: | GGGGCCACCAACGACAUUUAUCGAAUUGAUAACCUUACGCGAGAGCGUAGUUCGUUGAUAUAAAUAGUGCCCAUGGAUC |
| 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_225 | Description | paionap-40 |
| Aptamer chemistry | RNA | Length | 79 nt |
| GC content | 45.6% | Molecular weight | 25,620.02 Da |
| Molarity of 1 μg/μl solution | 39.03 μM | Number of G-quadruplexes | No QGRS found |
| G-Score | N/A | Function | Targeted binding |
| Sequence | GGGGCCACCAACGACAUUUAUCGAAUUGAUAACCUUACGCGAGAGCGUAGUUCGUUGAUAUAAAUAGUGCCCAUGGAUC | ||
| Applications | Compete with high-affinity protein-protein interactions | ||
Target information
| Type | Detail | Type | Detail |
|---|---|---|---|
| Uniprot ID | P05121 | Protein name | Plasminogen activator inhibitor 1 (PAI) (PAI-1) (Endothelial plasminogen activator inhibitor) (Serpin E1) |
| Gene name(s) | SERPINE1 PAI1 PLANH1 | Organism | Plasminogen activator inhibitor 1 (PAI) (PAI-1) (Endothelial plasminogen activator inhibitor) (Serpin E1) |
| Status | reviewed in uniprot database | Length | 402 |
| Mass | 45,060 | Activity regulation | N/A |
| Involvement in disease | Plasminogen activator inhibitor-1 deficiency (PAI-1D) | Catalytic activity | N/A |
| PDB ID(s) | 1A7C;1B3K;1C5G;1DB2;1DVM;1DVN;1LJ5;1OC0;3CVM;3EOX;3PB1;3Q02;3Q03;3R4L;3UT3;4AQH;4G8O;4G8R;4IC0;5BRR;5ZLZ;6GWN;6GWP;6GWQ;6I8S;6ZRV;7AQF;7AQG;9PAI; |
 |
Function | Serine protease inhibitor. Inhibits TMPRSS7. |
Activity data
 |
Interaction ID | 229 |
| Target type | Protein | |
| Target unique ID | P05121 | |
| Activity | 1.23 nM | |
| Binding Conditions/Buffer | HBS buffer (pH 7.4), 2mM MgCl2, 0.05% Tween 20 |
|
| Assay | PAI-1 binding aptamers inhibit PAI-1-vitronectin binding |
|
| PubMed ID | 20387790 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_224 | RNA | GGGGCCACCAACGACAUUGAACCACGUAGGCUCGUUUCUGAGCCGAUCUCGAUGUUGAUAUAAAUAGUGCCCAUGGAUC | |
| Apta_1222 | RNA | GGAGGCGCCAACUGAAUGAAACCGUGCUAAGGAGUUGGACUCCGCUGCUUCGGCAGAGCGAUAUAGUGCCAGCUGAUACAUCCGUAACUAGUCGCGUCAC | |
| Apta_157 | RNA | GGGUUCACUGCAGACUUGACGAAGCUUACAAACAAGAGCAAAAAGGGAGUUGACGUAGACUGUGCGGAAUGGAUCCACAUCUACGAAUUC | |
| Apta_6 | RNA | GGAAAGACGCUAGCGAAUUGGUUCCUCGAAAGGGGAAAGCGUUAUUAAGAAACCAAAAUUUCC | |
| Apta_520 | RNA | GGGAGAUCUACGGAUCUCAGGGCUCUUACGGGAGCUACAUGGAAGGAGUCCAUGUGU | |
| Apta_1290 | RNA | GCGCGAGAAACGGUCACUAGAAUAGUGGGCCGUCAUGCUAACGCCUCUUUCGGUGUUGGGGAAUAUUGGCCAAUCGAGU | |
| Apta_1221 | RNA | GGAGGCGCCAACUGAAUGAACGAGUUGAAAUGCGGAUCAAGUUACUGCUUCGGCAGUACCUAGUGGGAAAAGUUCUUGGGUCCGUAACUAGUCGCGUCAC | |
| Apta_551 | RNA | GGAUGUCCAGUCGCUUGCAAUGCCCUUUUAGACCCUGAUGAGCGGUGCUAGUUAGUUGCAGUUUCGGUUGUUACGCGAAACGGUGAAAGCCGUAGGUCU | |
| Apta_720 | RNA | GGGAGAAUUCCGACCAGAAGCUUAGUAUAGCGAGGUUUAGCUACACUCGUGCUGAUCGUUUGGUACGGGACCUGCGUGUAGCCCAUAUGUGCGUCUACAUGGAUCCUCA | |
| Apta_1224 | RNA | GGAGGCGCCAACUGAAUGAAUGUUCUGGAUCUGCUAGAGACUAUCUGCUUCGGCAGCACUCUCCGUUAACAACACGUACAUCCGUAACUAGUCGCGUCAC | |
| Apta_1226 | RNA | GGAGGCGCCAACUGAAUGAAGGUGUAUUUCAGUUAAAGAACUUGCUGCUUCGGCAGCGUUCUGAGUUACUAGUCCAAUAAUCCGUAACUAGUCGCGUCAC | |
| Apta_557 | RNA | GGAACACUAUCCGAUGGCACCGACCAUAGGCUCGGGUUGCCAGAGGUUCCACACUUUCAUCGAAAAGCCUAUGCUAGGCAAUGACAUGGACUCCUUGGUCAUUAGGAUCG | |
| Apta_816 | RNA | GGGUUCACUGCAGACUUGACGAAGCUUGAGAGAUGCCCCCUGAUGUGCAUUCUUGUUGUGUUGCGGCAAUGGAUCCACAUCUACGAAUUC | |
| Apta_1223 | RNA | GGAGGCGCCAACUGAAUGAAAGGUUACGCUUCAACGCCGUGCAGCUGCUUCGGCAGGCUUGUGAGUACAUGGCCCAUUGAUCCGUAACUAGUCGCGUCAC | |
| Apta_1225 | RNA | GGAGGCGCCAACUGAAUGAAAGAGGUAACGAAAGAUGAUUGUGCCUGCUUCGGCAGUACAACUUCUCGGAUAAAUGAUUAUCCGUAACUAGUCGCGUCAC | |
| Apta_494 | RNA | GGGAGAUACCAGCUUAUUCAAUUCUGGCAAUGGGCUAUCCCAAGUGCUAGGCUUCAGGGAGCGAGGACCAGACGACGUACCUAACCCUAAGGUGAGAUAGUAAGUGCAAUCU | |
| Apta_54 | RNA | GUACAACACAUCAUUACGGCUGCUAUUGGCUCCAAGCGUCUUUCUCCCUGGUCAAUAGUCCAGCCACCACG | |
| Apta_576 | RNA | GGCACCAAAGCUGAAGUAGCGGGAUAACUCAAAUUACUUUAGGUGUAUGAAGGUGAAACUAGCAAUGAA | |
| Apta_707 | RNA | GGCCUAAAACAUACCAGAUUUCGAUCUGGAGAGGUGAAGAAUUCGACCACCUAGGCCGGU | |
| Apta_984 | RNA | GGGAGGACGAUGCGGCGUAUUGCGCGAGGAUUAUCCGCUCAUCGUUGUUGUUGUGCAGACGACUCGCCCGA |
DEV TOOL
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