Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 767
Aptamer sequence: AGCAGCACAGAGGTCAGATGCACTCGGACCCCATTCTCCTTCCATCCCTCATCCGTCCACCCTATGCGTGCTACCGTGAA
Target unique ID: 119518
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_698 | Aptamer 9.3 | Molecule | 2-Hydroxy-2',3',4',5,5'-pentachlorobiphenyl | 99 nM | 100 mM NaCl, 20 mM Tris-HCl, 2 mM MgCl2, 5 mM KCl, 1 mM CaCl2, pH 7.6 | 22166135 |
Structure information of aptamer
| Aptamer Sequence: | AGCAGCACAGAGGTCAGATGCACTCGGACCCCATTCTCCTTCCATCCCTCATCCGTCCACCCTATGCGTGCTACCGTGAA |
| 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_698 | Description | Aptamer 9.3 |
| Aptamer chemistry | DNA | Length | 80 nt |
| GC content | 57.5% | Molecular weight | 24,336.56 Da |
| Molarity of 1 μg/μl solution | 41.09 μM | Number of G-quadruplexes | No QGRS found |
| G-Score | N/A | Function | Aptasensor |
| Sequence | AGCAGCACAGAGGTCAGATGCACTCGGACCCCATTCTCCTTCCATCCCTCATCCGTCCACCCTATGCGTGCTACCGTGAA | ||
| Applications | Detection of Polychlorinated biphenyls (PCBs) | ||
Target information
| Type | Detail | Type | Detail |
|---|---|---|---|
| PubChem ID | 119518 | Molecular name | 2-Hydroxy-2,3,4,5,5-pentachlorobiphenyl |
| Molecular formula | C12H5Cl5O | Molecular weight | 342.4 |
| IUPAC name | 4-chloro-2-(2,3,4,5-tetrachlorophenyl)phenol | InChIKey | YIRXIYMPZUSPOV-UHFFFAOYSA-N |
| LogP | 6.326 | Topological polar surface area | 20.23 |
| Hydrogen bond acceptor | 1 | Hydrogen bond donor | 1 |
Synonym(s): 2-Hydroxy-2',3',4',5,5'-pentachlorobiphenyl; 67651-36-9; 2',3',4',5,5'-Pentachloro-2-biphenylol; 4-chloro-2-(2,3,4,5-tetrachlorophenyl)phenol; 2',3',4',5,5'-Pentachloro-(1,1'-biphenyl)-2-ol; CHEBI:34278; DTXSID10217965; ZINC2521634; 2',3',4',5,5'-Pentachloro-2-hydroxybiphenyl; Q27115963; (1,1'-Biphenyl)-2-ol, 2',3',4',5,5'-pentachloro-
Activity data
 |
Interaction ID | 767 |
| Target type | Molecule | |
| Target unique ID | 119518 | |
| Activity | 99 nM | |
| Binding Conditions/Buffer | 100 mM NaCl, 20 mM Tris-HCl, 2 mM MgCl2, 5 mM KCl, 1 mM CaCl2, pH 7.6 |
|
| Assay | Saturation curves of aptamer 9.3 to OH-PCB72 (72)-coated magnetic beads, OH-PCB106 (106)-coated magnetic beads and quenched ethanolamine (QE) magnetic beads |
|
| PubMed ID | 22166135 | |
 |
Interaction ID | 768 |
| Target type | Molecule | |
| Target unique ID | 11954135 | |
| Activity | 66 nM | |
| Binding Conditions/Buffer | 100 mM NaCl, 20 mM Tris-HCl, 2 mM MgCl2, 5 mM KCl, 1 mM CaCl2, pH 7.6 |
|
| Assay | Saturation curves of aptamer 9.3 to OH-PCB72 (72)-coated magnetic beads, OH-PCB106 (106)-coated magnetic beads and quenched ethanolamine (QE) magnetic beads |
|
| PubMed ID | 22166135 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_177 | DNA | AGCAGCACAGAGGTCAGATGCCATAGGTGCCTGAATTGTCCCAAACATTCGCATGATCGACCTATGCGTGCTACCGTGAA | |
| Apta_228 | DNA | AGCAGCACAGAGGTCAGATGCGGCGCGGGGTCTTTTACAAATAGTTGTCCTAGCCACGCCTATGCGTGCTACCGTGAA | |
| Apta_233 | DNA | AGCAGCACAGAGGTCAGATGTGAAACATAGCATATTTACTTATGTCGCCTTGCCGGTTCCTATGCGTGCTACCGTGAA | |
| Apta_234 | DNA | AGCAGCACAGAGGTCAGATGAAATTTTGCACTTACTTGACGTTTCCTCGATAGCCACAAGCCTATGCGTGCTACCGTGAA | |
| Apta_61 | DNA | AGCAGCACAGAGGTCAGATGGCAGGTAAGCAGGCGGCTCACAAAACCATTCGCATGCGGCCCTATGCGTGCTACCGTGAA | |
| Apta_99 | DNA | AGCAGCACAGAGGTCAGATGTCGGGCGGTTCGGGACCTTGCTGCGACATATGCGTATTATCCTATGCGTGCTACCGTGAA | |
| Apta_103 | DNA | AGCAGCACAGAGGTCAGATGCATCGCATTATTCGCGGCCGGCCAACGAGAGTATGTTTCTCCTATGCGTGCTACCGTGAA | |
| Apta_106 | DNA | AGCAGCACAGAGGTCAGATGGAGCCAGGAGTCGGCCTACAGAAGATTCTGATGTACCTCACCTATGCGTGCTACCGTGAA | |
| Apta_108 | DNA | AGCAGCACAGAGGTCAGATGCTTTGCCACGGCAACGTCCCAAAACTAATGGTAACTATACCCTATGCGTGCTACCGTGAA | |
| Apta_99 | DNA | AGCAGCACAGAGGTCAGATGTCGGGCGGTTCGGGACCTTGCTGCGACATATGCGTATTATCCTATGCGTGCTACCGTGAA | |
| Apta_103 | DNA | AGCAGCACAGAGGTCAGATGCATCGCATTATTCGCGGCCGGCCAACGAGAGTATGTTTCTCCTATGCGTGCTACCGTGAA | |
| Apta_106 | DNA | AGCAGCACAGAGGTCAGATGGAGCCAGGAGTCGGCCTACAGAAGATTCTGATGTACCTCACCTATGCGTGCTACCGTGAA | |
| Apta_108 | DNA | AGCAGCACAGAGGTCAGATGCTTTGCCACGGCAACGTCCCAAAACTAATGGTAACTATACCCTATGCGTGCTACCGTGAA | |
| Apta_174 | DNA | AGCAGCACAGAGGTCAGATGTCGGTCTTGTGTATACATACCCGTGTGTTTTCATCTCAGGCCTATGCGTGCTACCGTGAA | |
| Apta_232 | DNA | AGCAGCACAGAGGTCAGATGCTATGAGCAGATCCGATAGAAAGTTAATGCCCTAGAACATCCTATGCGTGCTACCGTGAA | |
| Apta_100 | DNA | AGCAGCACAGAGGTCAGATGATTCAAGGGTAACACATCCAGGGGAACGGAATTGCAGCCCCCTATGCGTGCTACCGTGAA | |
| Apta_104 | DNA | AGCAGCACAGAGGTCAGATGCAAACCACAGCCTGAGTGGTTAGCGTATGTCATTTACGGACCTATGCGTGCTACCGTGAA | |
| Apta_107 | DNA | AGCAGCACAGAGGTCAGATGTTCATTTCAGTTGACCGATAGCATTGAGCAATGATCTATTCCTATGCGTGCTACCGTGAA | |
| Apta_104 | DNA | AGCAGCACAGAGGTCAGATGCAAACCACAGCCTGAGTGGTTAGCGTATGTCATTTACGGACCTATGCGTGCTACCGTGAA | |
| Apta_100 | DNA | AGCAGCACAGAGGTCAGATGATTCAAGGGTAACACATCCAGGGGAACGGAATTGCAGCCCCCTATGCGTGCTACCGTGAA |
DEV TOOL
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