Aptamer-target interaction descriptor
Aptamer-target interaction information
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_11 | 1R03 | Protein | NRP1_HUMAN | 56 nM | 10 mM Tris-HCl, 100 mM NaCl, and 5 mM KCl (pH 7.4) | 23237717 |
Structure information of aptamer
| Aptamer Sequence: | AGAGGGGGGGGTCGGGGTGGGTCGC |
| 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_11 | Description | 1R03 |
| Aptamer chemistry | DNA | Length | 25 nt |
| GC content | 80.0% | Molecular weight | 7,941.08 Da |
| Molarity of 1 μg/μl solution | 125.93 μM | Number of G-quadruplexes | 3 |
| G-Score | 64 | Function | Aptasensor |
| Sequence | AGAGGGGGGGGTCGGGGTGGGTCGC | ||
| Applications | VEGF-detection | ||
Target information
| Type | Detail | Type | Detail |
|---|---|---|---|
| Uniprot ID | O14786 | Protein name | Neuropilin-1 (Vascular endothelial cell growth factor 165 receptor) (CD antigen CD304) |
| Gene name(s) | NRP1 NRP VEGF165R | Organism | Neuropilin-1 (Vascular endothelial cell growth factor 165 receptor) (CD antigen CD304) |
| Status | reviewed in uniprot database | Length | 923 |
| Mass | 103,134 | Activity regulation | N/A |
| Involvement in disease | N/A | Catalytic activity | N/A |
| PDB ID(s) | 1KEX;2QQI;2QQM;2QQN;3I97;4DEQ;4RN5;5C7G;5IJR;5IYY;5J1X;5JGI;5JGQ;5JHK;5L73;6FMC;6FMF;6TKK;7JJC;7O1N; |
 |
Function | Cell-surface receptor involved in the development of the cardiovascular system, in angiogenesis, in the formation of certain neuronal circuits and in organogenesis outside the nervous system. |
Activity data
|
No relevant experimental diagram |
Interaction ID | 11 |
| Target type | Protein | |
| Target unique ID | O14786 | |
| Activity | 56 nM | |
| Binding Conditions/Buffer | 10 mM Tris-HCl, 100 mM NaCl, and 5 mM KCl (pH 7.4) |
|
| Assay | N/A |
|
| PubMed ID | 23237717 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_17 | DNA | AGGGGGGGGGGTGGGGGTGGGTCCC | |
| Apta_20 | DNA | AGAGGGGGGGGTGGGGGTGGCCTGC | |
| Apta_26 | DNA | AGGGGGGGGGGTAAGGGTGGGTAGA | |
| Apta_14 | DNA | AGCGGGGGGGGCTGGGCTGGGTGGG | |
| Apta_29 | DNA | AGAGGGGGGGGACGGCCCGGGTAGA | |
| Apta_30 | DNA | AGAGGGGGGGGTGGAGGGGGCTAGA | |
| Apta_12 | DNA | TGAGGGGGTGGGTGGGACGGGTTGG | |
| Apta_13 | DNA | AGGGGGGGGGGAGGGGTCGGGGTGG | |
| Apta_15 | DNA | TGAGGGGGGGGGAGGGCGGGGCTGC | |
| Apta_16 | DNA | AGGGGGGGGGGACGGGACGGGTATA | |
| Apta_19 | DNA | TGAGGGGGGGGGAGGTCGGGCCTGC | |
| Apta_22 | DNA | TGTGGGGGTGGACTGGGTGGGTACC | |
| Apta_28 | DNA | AGTGGGGGGGGTGGAGCCGGGTAGA | |
| Apta_8 | DNA | TGTGGGGGTGGACGGGCCGGGTAGA | |
| Apta_9 | DNA | TGAGGGGGCGGCGGGGCCGGGCAGG | |
| Apta_21 | DNA | TGTGGGGGAGGACGGGCGGGGATGC | |
| Apta_25 | DNA | TGTGGGGGTGGTTGGGCGGGGCTGC | |
| Apta_27 | DNA | AGGGGGAGGGGTGGGGCCGGGCAGA | |
| Apta_245 | DNA | ACAGGGGTGTGGGGACAGGGGTGTGGGG | |
| Apta_10 | DNA | GGGGGGGGTGGCTGGGCGGGGTGGG |
DEV TOOL
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