Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 1177
Aptamer sequence: GACAGCGUGCCUAGAAGUCCAAGCUUAAAUAACCACGCUCGACAAGC
Target unique ID: P0DPI0
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_1121 | S132B-C22 | Protein | BXA1_CLOBO | 87 nM | PBS pH 7.4, 300 mM NaCl, 3 mM MgCl2, 5 mM DTT 1 mg/ml BSA, 0.2% Tween, 1 mg/ml heparin | 20452328 |
Structure information of aptamer
| Aptamer Sequence: | GACAGCGUGCCUAGAAGUCCAAGCUUAAAUAACCACGCUCGACAAGC |
| 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_1121 | Description | S132B-C22 |
| Aptamer chemistry | RNA | Length | 47 nt |
| GC content | 51.1% | Molecular weight | 15,073.09 Da |
| Molarity of 1 μg/μl solution | 66.34 μM | Number of G-quadruplexes | No QGRS found |
| G-Score | N/A | Function | Targeted therapy |
| Sequence | GACAGCGUGCCUAGAAGUCCAAGCUUAAAUAACCACGCUCGACAAGC | ||
| Applications | Reverse the symptom caused by BoNT/A | ||
Target information
| Type | Detail | Type | Detail |
|---|---|---|---|
| Uniprot ID | P0DPI0 | Protein name | Botulinum neurotoxin type A (BoNT/A) (Bontoxilysin-A) (BOTOX) (Botulinum neurotoxin type A1) [Cleaved into: Botulinum neurotoxin A light chain (LC) (EC 3.4.24.69); Botulinum neurotoxin A heavy chain (HC)] |
| Gene name(s) | botA atx bonT | Organism | Botulinum neurotoxin type A (BoNT/A) (Bontoxilysin-A) (BOTOX) (Botulinum neurotoxin type A1) [Cleaved into: Botulinum neurotoxin A light chain (LC) (EC 3.4.24.69); Botulinum neurotoxin A heavy chain (HC)] |
| Status | reviewed in uniprot database | Length | 1296 |
| Mass | 149,454 | Activity regulation | Toxin internalization is inhibited by azide or dinitrophenol or at 4 degrees Celsius |
| Involvement in disease | N/A | Catalytic activity | Reaction=Limited hydrolysis of proteins of the neuroexocytosis apparatus, synaptobrevins, SNAP25 or syntaxin |
| PDB ID(s) | 1XTF;1XTG;2ILP;2IMA;2IMB;2IMC;2ISE;2ISG;2ISH;2VU9;2VUA;2W2D;3BOK;3BON;3BOO;3V0A;3V0B;3V0C;3ZUR;3ZUS;4HEV;4IQP;4JRA;5JLV;5JMC;5MK6;5MK7;5TPB;5TPC;5V8P;5V8R;5V8U;5VGV;5VGX;6DKK;6MHJ;6XCB;6XCC;6XCD;6XCE;6XCF;7KYF;7KYH;7LZP;7M1H; |
 |
Function | Botulinum toxin causes flaccid paralysis by inhibiting neurotransmitter (acetylcholine) release from the presynaptic membranes of nerve terminals of the eukaryotic host skeletal and autonomic nervous system, with frequent heart or respiratory failure. |
Activity data
 |
Interaction ID | 1177 |
| Target type | Protein | |
| Target unique ID | P0DPI0 | |
| Activity | 87 nM | |
| Binding Conditions/Buffer | PBS pH 7.4, 300 mM NaCl, 3 mM MgCl2, 5 mM DTT 1 mg/ml BSA, 0.2% Tween, 1 mg/ml heparin |
|
| Assay | Binding specificity and affinity of aptmers |
|
| PubMed ID | 20452328 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_269 | RNA | AACGCUCAACGUCAGAAGGCAACGUAUAGGCAAGCACACUUCGACAUGAGGC | |
| Apta_154 | RNA | ACACGCGAGAUAGAGCGAGGCCUCCAAAAAUGGCCACGCCAGGAAGCAAGU | |
| Apta_155 | RNA | GACCCAGGGCCGGGACGCAAAGCAGCCAAAACAGACGGCCCCAGUCAGGGAGUU | |
| Apta_56 | DNA | GCAGCTAAGCAGGCGGCTCACAAAACCATTCGCATGCGGC | |
| Apta_92 | RNA | ACAACUUAAUGCGACGUUGGUAAAGCAUAUCAAAC | |
| Apta_237 | RNA | UUCAACGCUGUGAAGGGCUUAUACGAGCGGAUUACCC | |
| Apta_374 | RNA | GUCCCGUGCGCAAAAGUUCUUAGCGCUAGCAGUCCUAGUUGC | |
| Apta_633 | RNA | GGCAUCGGAAAGUGGGUUGAUGUAAGUAACAGGCGAUGCC | |
| Apta_715 | RNA | GGCGCUGCACGCCGAAAGGCCCGUUGAAACGUC | |
| Apta_859 | RNA | GGGAGUCUGAAGUCGGACUUGUUAUCAAUUCACUUCAGACU | |
| Apta_875 | DNA | GCCGCGACCATACAACGCAAACAACACGCCTGTACGCTTG | |
| Apta_1123 | RNA | AUUCGGGCCCAGGAACCAACUAUAUAAAUGUCCCGAAUGCUUCGACG | |
| Apta_1292 | RNA | GGCACGUGUAUUACCCUAGUGGUCGACGUGCC | |
| Apta_447 | RNA | ACGCUCAACGAGCCAGGAACAUCGACGUCAGCAAACGCGAGCGCAACCAGUAACACC | |
| Apta_305 | RNA | GGGAGGACGAUGCGGAUCGCCCUGAACCGGCCCAGCAGACUGCUGACGGCACGAUCCGCAUCGUCCUCCC | |
| Apta_574 | RNA | AUGAAAAGGGCUGGCGAGACAUAUCCGCUGGGCAAUCAGAUUCGGAGCCGCACCACCCUCGAAGUAGACA | |
| Apta_575 | RNA | AGAGCUUGACGGUCCCGAGAGUCGAGCCCAAGCUGACACUGGACCUUUGCGGACCACGUGUUGAUCGUCG | |
| Apta_766 | RNA | GGUUACCAGCCUUCACUGCGGACGGACAGAGAGUGCAACCUGCCGUGCCGCACCACGGUCGGUCACAC | |
| Apta_301 | RNA | AUACCAGCUUAUUCAAUUGCCUGAAAAGUUGAACUCCAAAUACGCGCUGAGAUAGUAAGUGCAAUCU | |
| Apta_153 | RNA | CCACAGUUCAGAGGCACCGCGAACAAAACGCAAGACAGAGUGCCGACAAGAAC |
DEV TOOL
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