Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 888
Aptamer sequence: GCGGGATCCTATGACGCATTGACCCACAACACACTACTGTCGCTCGGTTCGAACTTCGTGCGACTGTTCCCTATAGTGAGTCGTATTAGAATTCCGC
Target unique ID: 93009
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_804 | NK2 | Cell | virulent strain M. tuberculosis (H37Rv) | 31 nM | 25 mM Tris-HCl, 50 mM KCl, 200 mM NaCl, 0.2 mM EDTA, 5.0% (v/v) glycerol, and 0.5 mM DTT | 17442275 |
Structure information of aptamer
| Aptamer Sequence: | GCGGGATCCTATGACGCATTGACCCACAACACACTACTGTCGCTCGGTTCGAACTTCGTGCGACTGTTCCCTATAGTGAGTCGTATTAGAATTCCGC |
| 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_804 | Description | NK2 |
| Aptamer chemistry | DNA | Length | 97 nt |
| GC content | 51.5% | Molecular weight | 29,764.03 Da |
| Molarity of 1 μg/μl solution | 33.60 μM | Number of G-quadruplexes | No QGRS found |
| G-Score | N/A | Function | Targeted therapy |
| Sequence | GCGGGATCCTATGACGCATTGACCCACAACACACTACTGTCGCTCGGTTCGAACTTCGTGCGACTGTTCCCTATAGTGAGTCGTATTAGAATTCCGC | ||
| Applications | New therapeutic reagent against virulent Mycobacterium tuberculosis | ||
Target information
| Type | Detail | Type | Detail |
|---|---|---|---|
| ATCC ID | 93009 | Cell name | virulent strain M. tuberculosis (H37Rv) |
| Category | N/A | Organism | Homo sapiens, human |
| Product type | N/A | Cell type | N/A |
| Morphology | N/A | Tissue | N/A |
| Disease | N/A | Product format | Test tube |
| Antigen expression | N/A | Genes expressed | N/A |
| Cell description | N/A |
|
|
| Application(s) | Molecular biology | ||
Activity data
 |
Interaction ID | 888 |
| Target type | Cell | |
| Target unique ID | 93009 | |
| Activity | 31 nM | |
| Binding Conditions/Buffer | 25 mM Tris-HCl, 50 mM KCl, 200 mM NaCl, 0.2 mM EDTA, 5.0% (v/v) glycerol, and 0.5 mM DTT |
|
| Assay | Isothermal titration calorimetry (ITC) measurement of aptamer (NK2)-MTB interactions. (A) aptamer (NK2)-H37Rv interaction; (B) aptamer (NK2)–BCG interaction |
|
| PubMed ID | 17442275 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_553 | DNA | TGTACCGTCTGAGCGATTCGTACGAACGGCTTTGTACTGTTTGCACTGGCGGATTTAGCCAGTCAGTGTTAAGGAGTGC | |
| Apta_1181 | DNA | GAATTCAGTCGGACAGCGTAGTAAGAATCTGTTTCTGGTCCTAGTCTTGCTTGTGTTTCCTGATGGACGAATATCGTCTCCC | |
| Apta_403 | DNA | GTCTTGACTAGTTACGCCCCCAAGAACCCGCTTGCCGTGGTGACGTTGATCATGTCGTTTGGTCATTCAGTTGGCGCCTC | |
| Apta_554 | DNA | TGTACCGTCTGAGCGATTCGTACCATTAGTGGGTGCTCCTTACCTGATGGTCATCTAGCCAGTCAGTGTTAAGGAGTGC | |
| Apta_725 | DNA | ATCCAGAGTGACGCAGCATGCTCATCCACGATTCTGGCGAATTTAGTGCCTGTCTTTTTCTCTTGGACACGGTGGCTTAGT | |
| Apta_881 | DNA | AGCGTCGAATACCACTACAGCCCGCACTCAACCACCGTTCCTTTGTTTAATTTTGCACATCTAATGGAGCTCGTGGTCAG | |
| Apta_1009 | DNA | ATAGGAGTCGACCGACCAGACCAACCCTACGCTCGTACCAACCAGATGACCTACGTGGCGTCTACATCTAGACTC | |
| Apta_1108 | DNA | GTGCTTAGGTGCAGAACGCACACACGCTCGGTATGACGTGTTCGCTACGGTATAATTGCAGGCGCGAGCACAACAG | |
| Apta_1109 | DNA | GGTATGTGTCGTTGATCTGGATATCTATGCCTAATGCTCGTAGGCGACTGTTCGGATAGTAACGTTGACCGCATAC | |
| Apta_768 | DNA | GAATTCAGTCGGACAGCGGCACTTGCGACACGTTTGTCGGGTAAATGCGTGTATTTTCTTTTCGATGGACGAATATCGTCTCCC | |
| Apta_863 | DNA | CTCCTCTGACTGTAACCACGCCCAGAAACAGCACCCTTACATCGACTGGACCTTCCGCGGCATAGGTAGTCCAGAAGCC | |
| Apta_931 | DNA | ATACGACTCACTATTAGGGACCACATAAACATGCATCGCTCAATAACGGGATATTGTTGTGCTAGACTACTGACTACAA | |
| Apta_952 | DNA | TCACCTCATACGACTCACTATAGCGGACCCCACTCACTGCTCGGACTCTCCCCCTCCCCGCCTGGCTCGAACAAGCTTGC | |
| Apta_996 | DNA | ATAGGAGTCGACCGACCAGACAACCCTACGCGACCAACCAGATGACCTACGTGCGTCTACATCTAGACTC | |
| Apta_998 | DNA | ATAGGAGTCGACCGACCAGACCAACCCTACGCGTACCAACCAGATGACCTACGTGCGTCTACATCTAGACTC | |
| Apta_1001 | DNA | ATAGGAGTCGACCGACCAGACAACCCTACGCGTACCAACCAGATGACCTACGTGCGTCTACATCTAGACTC | |
| Apta_1001 | DNA | ATAGGAGTCGACCGACCAGACAACCCTACGCGTACCAACCAGATGACCTACGTGCGTCTACATCTAGACTC | |
| Apta_1010 | DNA | ATAGGAGTCGACCGACCAGACCGACCCTCGTCGTACCAACTGATGACCTAGTGGCGTCTACATCTAGACTC | |
| Apta_1111 | DNA | GTGCGTCGCATGATCGCGATTAGTGCGACCATGTACGATTCTCACGACAACGACACTGTACTTGAGGACTGTCTCC | |
| Apta_1114 | DNA | TAATACGACTCACTATAGGGAGACCCAAGCCGATTTATTTTGTGCAGCTTTTGTTCCCTTTAGTGAGGGTTAATT |
DEV TOOL
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