Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 1020
Aptamer sequence: ATACGACTCACTATTAGGGATGTCCACCATATAGATCGATTTAAGTCCCTCGTTATTAATGCTAGACTACTGACTACAA
Target unique ID: Other-36
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_932 | H1 | Other | poly(histidine)-tagged thioredoxin 1 (His-TrxA) | 173 nM | 20 mM Tris-HCl, 100 mM NaCl, 5 mM MgCl2, and 0.1% bovine serum albumin with 10 µg/mL yeast tRNA and 10 µg/mL salmon sperm DNA | 33195056 |
Structure information of aptamer
| Aptamer Sequence: | ATACGACTCACTATTAGGGATGTCCACCATATAGATCGATTTAAGTCCCTCGTTATTAATGCTAGACTACTGACTACAA |
| 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_932 | Description | H1 |
| Aptamer chemistry | DNA | Length | 79 nt |
| GC content | 38.0% | Molecular weight | 24,224.59 Da |
| Molarity of 1 μg/μl solution | 41.28 μM | Number of G-quadruplexes | No QGRS found |
| G-Score | N/A | Function | Targeted binding |
| Sequence | ATACGACTCACTATTAGGGATGTCCACCATATAGATCGATTTAAGTCCCTCGTTATTAATGCTAGACTACTGACTACAA | ||
| Applications | H1 specifically bound to cognate target protein | ||
Target information
| Type | Detail | Type | Detail |
|---|---|---|---|
| Target ID | Other-36 | Name | poly (histidine)-tagged thioredoxin 1 (His-TrxA) |
Activity data
 |
Interaction ID | 1020 |
| Target type | Other | |
| Target unique ID | Other-36 | |
| Activity | 173 nM | |
| Binding Conditions/Buffer | 20 mM Tris-HCl, 100 mM NaCl, 5 mM MgCl2, and 0.1% bovine serum albumin with 10 µg/mL yeast tRNA and 10 µg/mL salmon sperm DNA |
|
| Assay | Isolated aptamers specifically recognize target proteins in Western blot. Purified proteins and E. coli cell lysates are separated on SDS-PAGE, stained with Coomassie Brilliant Blue (left) and probed with Cy5.5-labeled corresponding aptamers (right). The dissociation constants of aptamer H1 toward their cognate target proteins are determined to be in the nanomolar range by dot blot |
|
| PubMed ID | 33195056 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_931 | DNA | ATACGACTCACTATTAGGGACCACATAAACATGCATCGCTCAATAACGGGATATTGTTGTGCTAGACTACTGACTACAA | |
| Apta_944 | DNA | ATACGACTCACTATTAGGGACAAAGCTGACAACCCTTTCATAATCTAACTACATTTATGTGCTAGACTACTGACTAC | |
| Apta_550 | DNA | GGTAATACGACTCACTATAGGGAGATACCAGCTTATTCAATTTTACAGAACAACCAACGTCGCTCCGGGTACTTCTTCATCGAGATAGTAAGTGCAATCT | |
| Apta_792 | DNA | ATACCAGCTTATTCAATTCCCAAATTGCCACCACTTACAGCATGATAACATACTACATCTTTTCATCAAGATAGTAAGTGCAATCT | |
| Apta_1103 | DNA | TACGACTCACTATAGGGATCCACCTATGGCAGATTGAGCCCAAGGGCTGTGCAGCGAATTCCCTTTAGTGAGGGTT | |
| Apta_1106 | DNA | TACGACTCACTATAGGGATCCTTCGCATCCGGCACGATGGCTAGGACACCCCGATGAATTCCCTTTAGTGAGGGTT | |
| Apta_626 | DNA | ATACCAGCTTATTCAATTGGTGGTAGGATGGGCTCGATCGAGGTCTTCAGTCGGCTCGGTTTAGTTTATGTTCTCCTGTAGATAGTAAGTGCAATCT | |
| Apta_627 | DNA | ATACCAGCTTATTCAATTATGCGGGGATGAGGCTTGATCTGTGGCTCTGATCCATGATCAGTCGTCTTACGTGCGGTCCAGATAGTAAGTGCAATCT | |
| Apta_626 | DNA | ATACCAGCTTATTCAATTGGTGGTAGGATGGGCTCGATCGAGGTCTTCAGTCGGCTCGGTTTAGTTTATGTTCTCCTGTAGATAGTAAGTGCAATCT | |
| Apta_627 | DNA | ATACCAGCTTATTCAATTATGCGGGGATGAGGCTTGATCTGTGGCTCTGATCCATGATCAGTCGTCTTACGTGCGGTCCAGATAGTAAGTGCAATCT | |
| Apta_883 | DNA | CGTACCGGCCAGTGATTACGACGAGACGAGCTTATGCGTATTGATGCCTAACTATCTACA | |
| Apta_1008 | DNA | ATAGGAGTCGACCGACCAGACCATTCCCACGCCAAGACCAATTTTCCCTGTGCGTCTACATCTAGACTC | |
| Apta_1114 | DNA | TAATACGACTCACTATAGGGAGACCCAAGCCGATTTATTTTGTGCAGCTTTTGTTCCCTTTAGTGAGGGTTAATT | |
| Apta_704 | DNA | GTACGAATTCACGAGGTTGCCAGCGGGGCCAGCCACTTCTGTCAGTGAATTCCTGCTCGTATATCTACTCGCCCGCCTGCGAGCATGGAGTCGGATCCTCTA | |
| Apta_628 | DNA | ATACCAGCTTATTCAATTAGCCCGGTATTGAGGTCGATCTCTTATCCTATGGCTTGTCCCCCATGGCTCGGTTATATCCAGATAGTAAGTGCAATCT | |
| Apta_628 | DNA | ATACCAGCTTATTCAATTAGCCCGGTATTGAGGTCGATCTCTTATCCTATGGCTTGTCCCCCATGGCTCGGTTATATCCAGATAGTAAGTGCAATCT | |
| Apta_321 | DNA | AACCGCCCAAATCCCTAAGAGTCGGACTGCAACCTATGCTATCGTTGATGTCTGTCCAAGCAACACAGACACACTACACACGCACA | |
| Apta_281 | DNA | CCGTAATACGACTCACTATAGGGGAGCTCGGTACCGAATTCATGTTGGTAGTTGGCTTGTGTTCGTGTGTTAAGCTTTCAGAGAGGATCCTT | |
| Apta_78 | DNA | ATCTCGACTAGTCATAGGGGGCGCGAACATACGCGGTTGGTGTGGTTGGCTGACAATACTCGT | |
| Apta_233 | DNA | AGCAGCACAGAGGTCAGATGTGAAACATAGCATATTTACTTATGTCGCCTTGCCGGTTCCTATGCGTGCTACCGTGAA |
DEV TOOL
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