Aptamer-target interaction descriptor
Aptamer-target interaction information
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_789 | PS1NP | Cell | Hodgkin lymphoma (HL) tumor cells | 10 nM | Dulbecco's PBS with 4.5 g/L glucose and 5 mM MgCl2; Binding buffer to reduce nonspecific background binding: 1 mg/mL BSA and 0.1 mg/mL t-RNA | 24233078 |
Structure information of aptamer
| Aptamer Sequence: | TAACTTTGAAGGAAAGGCTACAAACTCTTC |
| 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_789 | Description | PS1NP |
| Aptamer chemistry | DNA | Length | 30 nt |
| GC content | 36.7% | Molecular weight | 9,197.98 Da |
| Molarity of 1 μg/μl solution | 108.72 μM | Number of G-quadruplexes | No QGRS found |
| G-Score | N/A | Function | Target recognition |
| Sequence | TAACTTTGAAGGAAAGGCTACAAACTCTTC | ||
| Applications | Detection of HL cells | ||
Target information
| Type | Detail | Type | Detail |
|---|---|---|---|
| ATCC ID | TIB-180 | Cell name | Hodgkin lymphoma (HL) tumor cells |
| Category | Human cells | Organism | Homo sapiens, human |
| Product type | N/A | Cell type | erythroblast |
| Morphology | lymphoblast | Tissue | Bone; Marrow |
| Disease | Erythroleukemia | Product format | Frozen |
| Antigen expression | HLA A3, Aw32, Bw35; Ia+ | Genes expressed | Hemoglobin; globin (G gamma, A gamma, epsilon, eta and alpha chains); beta-2-microglobulin; glycophorin |
| Cell description | N/A |
|
|
| Application(s) | 3D cell culture; Immune system disorder research; Immunology | ||
Activity data
 |
Interaction ID | 873 |
| Target type | Cell | |
| Target unique ID | TIB-180 | |
| Activity | 10 nM | |
| Binding Conditions/Buffer | Dulbecco's PBS with 4.5 g/L glucose and 5 mM MgCl2; Binding buffer to reduce nonspecific background binding: 1 mg/mL BSA and 0.1 mg/mL t-RNA |
|
| Assay | Cell-binding affinity of aptamers was analyzed using a series dilution |
|
| PubMed ID | 24233078 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_852 | DNA | CATCTGTGTGAAGACTATATGGCGCTCACATATTTCTTTC | |
| Apta_66 | DNA | TACCGTGGTAGGGAAGGTTGGAGTGTA | |
| Apta_503 | DNA | ACTTTTGAATGTGGCAACAAATTCGACAGG | |
| Apta_240 | DNA | TTTTTAATTAAAGCTCGCCATCAAATAGCTTT | |
| Apta_470 | DNA | CTGTAATTGGCGTATGTAACCCAGGCACCAAACACCTCAT | |
| Apta_306 | DNA | CAAGGTAACCAGTACAAGGTGCTAAACGTAATGGCTTCG | |
| Apta_179 | DNA | TCGGTTGAGTGAGATTAGTCAAATGTTTAGAAGACAACCTC | |
| Apta_65 | DNA | CTACCGTGGTAGGGAAGGTTGGAGTGTAG | |
| Apta_167 | DNA | TGCTCCTTGGCCTTAGCCCTGGAACCATCAATCCTCTTCG | |
| Apta_205 | DNA | TTAAGGCTTTAGGTCTGAGATCTCTT | |
| Apta_220 | DNA | ATCAACTCACCGTAGGTCTAGTGAGAACTTCAAGTCTACT | |
| Apta_290 | DNA | GAACTCACCGGGAAGAAGCCCGTTCCGTCACAGACATGTT | |
| Apta_322 | DNA | GAAGTGAAAATGACAGAACACAACA | |
| Apta_323 | DNA | GGCTATAGCACATGGGTAAAACGAC | |
| Apta_323 | DNA | GGCTATAGCACATGGGTAAAACGAC | |
| Apta_322 | DNA | GAAGTGAAAATGACAGAACACAACA | |
| Apta_323 | DNA | GGCTATAGCACATGGGTAAAACGAC | |
| Apta_439 | DNA | TAACACTCGATTCTCCTAGCCCGCTAGAAATTCCCCTCCC | |
| Apta_468 | DNA | CTGTAATTGGCGTATGTAACCCAGGCACCAAACACCCCAT | |
| Apta_469 | DNA | CTGTAATTGGCGTATGTAACCCAGGCACCAAACACCCCAG |
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