Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 893
Aptamer sequence: GGGTCTTCCTGGACTGTCGAAAATTCAGTATCGGGAGGTTACGTATTTGGTTTATAGATAGTAA
Target unique ID: 43895
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_807 | two arm | Cell | Escherichia coli(E.coli)O157:H7 | 110 nM | 30 mM Tris-HCl (pH 7.5), 150 mM NaCl, 1.5 mM MgCl2, 2 mM dithiothreitol, and 1% BSA | 22166202 |
Structure information of aptamer
| Aptamer Sequence: | GGGTCTTCCTGGACTGTCGAAAATTCAGTATCGGGAGGTTACGTATTTGGTTTATAGATAGTAA |
| 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_807 | Description | two arm |
| Aptamer chemistry | DNA | Length | 64 nt |
| GC content | 40.6% | Molecular weight | 19,880.76 Da |
| Molarity of 1 μg/μl solution | 50.30 μM | Number of G-quadruplexes | No QGRS found |
| G-Score | N/A | Function | Aptasensor |
| Sequence | GGGTCTTCCTGGACTGTCGAAAATTCAGTATCGGGAGGTTACGTATTTGGTTTATAGATAGTAA | ||
| Applications | Diagnostic ligand against the pathogen-related food borne illness | ||
Target information
| Type | Detail | Type | Detail |
|---|---|---|---|
| ATCC ID | 43895 | Cell name | Escherichia coli(E.coli) O157:H7 |
| Category | Bacteria | Organism | N/A |
| Product type | N/A | Cell type | N/A |
| Morphology | N/A | Tissue | N/A |
| Disease | N/A | Product format | Freeze-dried |
| Antigen expression | N/A | Genes expressed | N/A |
| Cell description | Produces Shiga-like toxins I and II. Quality control strain for Difco products. |
|
|
| Application(s) | Media testing; Quality control | ||
Activity data
 |
Interaction ID | 893 |
| Target type | Cell | |
| Target unique ID | 43895 | |
| Activity | 110 nM | |
| Binding Conditions/Buffer | 30 mM Tris-HCl (pH 7.5), 150 mM NaCl, 1.5 mM MgCl2, 2 mM dithiothreitol, and 1% BSA |
|
| Assay | Determination of the dissociation constant (Kd) for ‘Two arm’ aptamer to the O157:H7 strain |
|
| PubMed ID | 22166202 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_823 | DNA | GGGATACCAGCTTATTCAATTTGATTCCATCTTCCTGGACTGTCGAAAATTCAGTATCGGGAGGTTACGTATTTGGTTTATAGATAGTAAGTGCAATCT | |
| Apta_808 | DNA | GGGTCTTCCTGGACTGTCGAAAATTCAGTATCGGGAGG | |
| Apta_247 | DNA | GGCTTTACACTTTATGCTTCCGTACCAGAACATATCGAGTGATCCTGGGAGGATAACAATTTCACACAGGAAACAG | |
| Apta_798 | DNA | GTTCGTGGTGTGCTGGATGTCGGAGATGGTCCGCTTCGTTCAACTACTACGCATTTTGACACATCCAGCAGCACGA | |
| Apta_753 | DNA | GGGCACAGACGGAAGATGAGAATTGTGGGGCTTAGTATAGTGAGGTGCGTGT | |
| Apta_782 | DNA | AGGTGTGACTCGATCTGTGGGGGTTGGGGGGTGGTTTTTCGGAA | |
| Apta_1274 | DNA | GACTTCGTCGTCTTTAGACTAGCAGTTAGGGTTTACGATTGTGGAGTTAGCCCCCAGGG | |
| Apta_742 | DNA | ATCGTCTGCTCCGTCCAATAGGACCGATAGGAACCACGGACTGCATGTTTCTGCATTTGACGTGGTTTGGTGTGAGGTCGTGC | |
| Apta_524 | DNA | ATCCGTCACACCTGCTCTGGCATTAGTATTCCATAGCCGGCCAAGTCTATGTAGTGGTGTTGGCTCCCGTAT | |
| Apta_1173 | DNA | TTGACTTGCCACTGACTACCCCAGTATCTCTTCAACGCTATGGTGCATGTACTACGTATTGAAGTCAGTCGGTCGTCATC | |
| Apta_670 | DNA | TTGCCTAACCGTGAAGGTAAAACGATTTAGTCAAACGTGGGAGGGCGGTGGTGTTGACTGATCGATTTTATTCCA | |
| Apta_736 | DNA | ATCGTCTGCTCCGTCCAATATGATGACACCTGCATAATTTATAGTGAGTCTTGATTCACGCTGCATTTGGTGTGAGGTCGTGC | |
| Apta_144 | DNA | GGTGCGGTTCGTGCGGTTGTAGTACTCGTGGCCGATAGAGGTAG | |
| Apta_180 | DNA | GGTCCCCCGTAAATTGAGAATTTGGGCGTTTTGGTTCTA | |
| Apta_279 | DNA | TTTTTTTTGGGCGAAGACCGGGACGGGAGGAAAGAGATGTTTGGTTTT | |
| Apta_751 | DNA | GGTCGCAGATGGATTAAGTATGTGGGTGGGGGGGTGGAAGTTAAT | |
| Apta_988 | DNA | AAGGATGACTGACGACGATGGGAATGGAGAGGAAGGGGATATAGGTATGTTGGATGTAG | |
| Apta_1043 | DNA | TTCAAGGCGGCGAGATTTAGTGGTTGGGAGGCTGTACGCCCTACGTGAAC | |
| Apta_1177 | DNA | TCCTACTCGTGATATCGGTGTTTATGGTGTCTGTCTTCATGTAGGA | |
| Apta_525 | DNA | ATCCGTCACACCTGCTCTCAATCTGAAATATTGCAAGCAGTGCTCACAATTTGTTGGTGTTGGCTCCCGTAT |
DEV TOOL
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