Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 1089
Aptamer sequence: ATAGGAGTCGACCGACCAGACCCGACCTCTCTTTCACTGTGACACAATGGTGCGTCTACATCTAGACTC
Target unique ID: Q06330
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_1004 | Apt-9 | Protein | SUH_HUMAN | 17 nM | 100 mM Tris-HCl (pH 8.0), 100 mM NaCl, 5 mM KCl, 1 mM MgCl2, 0.1% Tween 20, 1 mg/mL BSA | 32881630 |
Structure information of aptamer
| Aptamer Sequence: | ATAGGAGTCGACCGACCAGACCCGACCTCTCTTTCACTGTGACACAATGGTGCGTCTACATCTAGACTC |
| 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_1004 | Description | Apt-9 |
| Aptamer chemistry | DNA | Length | 69 nt |
| GC content | 52.2% | Molecular weight | 21,100.53 Da |
| Molarity of 1 μg/μl solution | 47.39 μM | Number of G-quadruplexes | No QGRS found |
| G-Score | N/A | Function | Targeted therapy |
| Sequence | ATAGGAGTCGACCGACCAGACCCGACCTCTCTTTCACTGTGACACAATGGTGCGTCTACATCTAGACTC | ||
| Applications | Inhibited angiogenesis through the activation of Notch signaling in vitro | ||
Target information
| Type | Detail | Type | Detail |
|---|---|---|---|
| Uniprot ID | Q06330 | Protein name | Recombining binding protein suppressor of hairless (CBF-1) (J kappa-recombination signal-binding protein) (RBP-J kappa) (RBP-J) (RBP-JK) (Renal carcinoma antigen NY-REN-30) |
| Gene name(s) | RBPJ IGKJRB IGKJRB1 RBPJK RBPSUH | Organism | Recombining binding protein suppressor of hairless (CBF-1) (J kappa-recombination signal-binding protein) (RBP-J kappa) (RBP-J) (RBP-JK) (Renal carcinoma antigen NY-REN-30) |
| Status | reviewed in uniprot database | Length | 500 |
| Mass | 55,637 | Activity regulation | N/A |
| Involvement in disease | Adams-Oliver syndrome 3 (AOS3) | Catalytic activity | N/A |
| PDB ID(s) | 2F8X;3NBN;3V79;6PY8; |
 |
Function | Transcriptional regulator that plays a central role in Notch signaling, a signaling pathway involved in cell-cell communication that regulates a broad spectrum of cell-fate determinations. |
Activity data
 |
Interaction ID | 1089 |
| Target type | Protein | |
| Target unique ID | Q06330 | |
| Activity | 17 nM | |
| Binding Conditions/Buffer | 100 mM Tris-HCl (pH 8.0), 100 mM NaCl, 5 mM KCl, 1 mM MgCl2, 0.1% Tween 20, 1 mg/mL BSA |
|
| Assay | Plots for the determination of the dissociation constant (Kd). The data were fitted to the equation f = fmax*[Apt]/ ([Apt]+Kd) by the non-linear least squares method. f: complex formation rate, fmax: maximum formation rate, [Apt]: concentration of free aptamer |
|
| PubMed ID | 32881630 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_1007 | DNA | ATAGGAGTCGACCGACCAGACCCGACCTCTCTTTCATGTGACACAATGGTGCGTCTACATCTAGACTC | |
| Apta_1005 | DNA | ATAGGAGTCGACCGACCAGACCCGACCTCTCCTTTCATGTGACACAATGGTGCGTCTACATCTAGACTC | |
| Apta_1003 | DNA | ATAGGAGTCGACCGACCAGACCCCGCCTCTCCTTTCATGTGACACAATGGTGCGTCTACATCTAGACTC | |
| Apta_997 | DNA | ATAGGAGTCGACCGACCAGACCCCGCCTCTCCTTTTCATGTGACACAATGGTGCGTCTACATCTAGACTC | |
| Apta_1010 | DNA | ATAGGAGTCGACCGACCAGACCGACCCTCGTCGTACCAACTGATGACCTAGTGGCGTCTACATCTAGACTC | |
| Apta_1000 | DNA | ATAGGAGTCGACCGACCAGAACCGTTCCCATACTTCTCCAGCGATACTTAGTGCGTCTACATCTAGACTC | |
| Apta_999 | DNA | ATAGGAGTCGACCGACCAGAGGACCCCGCTATCTAATTTATAGGCAATAAGTGCGTCTACATCTAGACTC | |
| Apta_998 | DNA | ATAGGAGTCGACCGACCAGACCAACCCTACGCGTACCAACCAGATGACCTACGTGCGTCTACATCTAGACTC | |
| Apta_1001 | DNA | ATAGGAGTCGACCGACCAGACAACCCTACGCGTACCAACCAGATGACCTACGTGCGTCTACATCTAGACTC | |
| Apta_1001 | DNA | ATAGGAGTCGACCGACCAGACAACCCTACGCGTACCAACCAGATGACCTACGTGCGTCTACATCTAGACTC | |
| Apta_1009 | DNA | ATAGGAGTCGACCGACCAGACCAACCCTACGCTCGTACCAACCAGATGACCTACGTGGCGTCTACATCTAGACTC | |
| Apta_996 | DNA | ATAGGAGTCGACCGACCAGACAACCCTACGCGACCAACCAGATGACCTACGTGCGTCTACATCTAGACTC | |
| Apta_1006 | DNA | ATAGGAGTCGACCGACCAGAACTTGTCTTAGGAGGTTTACGGTGGGAATAGTGCGTCTACATCTAGACTC | |
| Apta_1008 | DNA | ATAGGAGTCGACCGACCAGACCATTCCCACGCCAAGACCAATTTTCCCTGTGCGTCTACATCTAGACTC | |
| Apta_811 | DNA | ATAGGAGTCACGACGACCAGAATCTAAAAATGGGCAAAGAAACAGTGACTCGTTGAGATACTTATGTGCGTCTACCTCTTGACTAAT | |
| Apta_812 | DNA | ATAGGAGTCACGACGACCAGAATAGAGATATGACAGCGGGGAAGGTTAAGAGGCGCTAGGAGTATGTGCGTCTACCTCTTGACTAAT | |
| Apta_944 | DNA | ATACGACTCACTATTAGGGACAAAGCTGACAACCCTTTCATAATCTAACTACATTTATGTGCTAGACTACTGACTAC | |
| Apta_1072 | DNA | TTGAAGTGACTCCCACCCCGCCCCACCGTCCTTGCCACCGTTCCGCCATAGCAGGT | |
| Apta_921 | DNA | ATCCAGAGTGACGCAGCACGAGCCAGACATCTCACACCTGTTGCATATACATTTTGCATGGACACGGTGGCTTAGT | |
| Apta_1034 | DNA | ATGCGGATCCCGCGCGCGACCGTGTCAGCGGGGACTAGCGGTGTAGCGCGAAGCTTGCGC |
DEV TOOL
 |
 |
 |
 |