Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 1050
Aptamer sequence: GGGTAGCAGCCCCGCGGAGGGTCGGCTATAAGAACCAAGA
Target unique ID: Other-40
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_967 | No.2 | Other | RhD+ red blood cell | 737.7 nM | 10 mM Tris-HCl, 50 mM KCl, pH 9.0, 1.5 mM MgCl2, 400 µM each dNTP | 32319623 |
Structure information of aptamer
| Aptamer Sequence: | GGGTAGCAGCCCCGCGGAGGGTCGGCTATAAGAACCAAGA |
| 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_967 | Description | No.2 |
| Aptamer chemistry | DNA | Length | 40 nt |
| GC content | 62.5% | Molecular weight | 12,429.99 Da |
| Molarity of 1 μg/μl solution | 80.45 μM | Number of G-quadruplexes | No QGRS found |
| G-Score | N/A | Function | Targeted therapy |
| Sequence | GGGTAGCAGCCCCGCGGAGGGTCGGCTATAAGAACCAAGA | ||
| Applications | For masking RhD antigens on RBCs, and thus valuable for prevention or at least amelioration of RhD+-related hemolytic anemia in RhD-individuals | ||
Target information
| Type | Detail | Type | Detail |
|---|---|---|---|
| Target ID | Other-40 | Name | RhD+ red blood cell |
Activity data
 |
Interaction ID | 1050 |
| Target type | Other | |
| Target unique ID | Other-40 | |
| Activity | 737.7 nM | |
| Binding Conditions/Buffer | 10 mM Tris-HCl, 50 mM KCl, pH 9.0, 1.5 mM MgCl2, 400 µM each dNTP |
|
| Assay | Binding dynamics of ssDNA aptamers to RhD+ RBCs. RhD+ RBCs (2% suspension, 100 μl/well) were stained in triplicate with different concentrations (200?1,200 nM) of Alexa Fluor 488?labeled each ssDNA at 37 ℃ for 60 min. After being washed, the cells were analyzed by flow cytometry. The Kd was analyzed. Data are plotted by fluorescence intensity (y?axis) against ssDNA aptamer concentrations (x-axis) using GraphPad Prism V6 software. Experiments were performed three times, and data is a mean of the triplicates. ssDNA, single-stranded DNA; Rh, Rhesus; RBCs, red blood cells; Kd, dissociation constant |
|
| PubMed ID | 32319623 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_745 | DNA | GGTTGCATGCCGTGGGGAGGGGGGTGGGTTTTATAGCGTACTCAG | |
| Apta_818 | DNA | GGGCTGGCCAGATCAGACCCCGGATGATCATCCTTGTGAGAACCA | |
| Apta_781 | DNA | GTACGCCGCAAGACGAGTTGTGTATAAGCCGGC | |
| Apta_1045 | DNA | GGTGCTCAGGGAACTGTCTGAGGGATCAGGCTTAAGCCTGTCGAGCAGTT | |
| Apta_462 | DNA | GGTATAGACCCCTGAGTCCTACCGAGGGCACGGCA | |
| Apta_717 | RNA | GGCGCAGCCCGCCGAAAGGCACGUGGAACCGUC | |
| Apta_1062 | DNA | GGGGTCTTGCAGGTCCCGTAGGAGGGGCCATTGGAGTGGGG | |
| Apta_846 | DNA | GTGCAGACAGCTAGTAGTGGTGACTTTCTGTCCAAATCAAGATAA | |
| Apta_134 | RNA | GGGAGGACGAUGCGGGCCGUUGUUGUGUGCCGCCCCAGACGACUCGCCCGA | |
| Apta_77 | DNA | GGTGTGGGCGACATGGGGGTTGGTGGTGTAGGAGCGCCAT | |
| Apta_91 | RNA | GAUAACCUCGAUGCGACGUUCGGCCUCAAAAUCAA | |
| Apta_125 | DNA | TGGTGGATGGCGCAGTCGGCGACAA | |
| Apta_150 | DNA | CCGTAGGTTCGGGGCGGAGTGGTCCGGAAGGTGGCGTGG | |
| Apta_159 | DNA | GCGTGCAGCATGACCACCGATGTCACACTTAATGAGAAT | |
| Apta_326 | DNA | GCAACAGGGTATCCAAAGGATCAAA | |
| Apta_338 | DNA | GGGCGCGTTCTTCGTGGTTACTTTTAGTCCCG | |
| Apta_375 | DNA | TTGGGGAGGGGCACTGGGCAGTGTAATTTACGAAAGCGAG | |
| Apta_423 | DNA | TGGGAGCTGATGTCGCATGGGTTTTGATCACATGA | |
| Apta_683 | DNA | GCAGTACGATCGGGGGTGGGTGGATGTAGG | |
| Apta_795 | DNA | CGCAGCAAGGAGATTCGAGGGGGAAGGTTTGTTATAGGGGTTAATGGA |
DEV TOOL
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