Aptamer-target interaction descriptor
Aptamer-target interaction information
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_1148 | DNA aptamer | Protein | NRP1_HUMAN | 1.9 nM | 138 mM NaCl; 2.7 mM KCl; pH 7.4 with 0.005% Tween 20 | 19025993 |
Structure information of aptamer
| Aptamer Sequence: | CCGTCTTCCAGACAAGAGTGCAGGG |
| 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_1148 | Description | DNA aptamer |
| Aptamer chemistry | DNA | Length | 25 nt |
| GC content | 60.0% | Molecular weight | 7,691.97 Da |
| Molarity of 1 μg/μl solution | 130.01 μM | Number of G-quadruplexes | No QGRS found |
| G-Score | N/A | Function | Target detection |
| Sequence | CCGTCTTCCAGACAAGAGTGCAGGG | ||
| Applications | VEGF recognition | ||
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 | 1208 |
| Target type | Protein | |
| Target unique ID | O14786 | |
| Activity | 1.9 nM | |
| Binding Conditions/Buffer | 138 mM NaCl; 2.7 mM KCl; pH 7.4 with 0.005% Tween 20 |
|
| Assay | N/A |
|
| PubMed ID | 19025993 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_318 | DNA | CCCGTCTTCCAGACAAGAGTGCAGGG | |
| Apta_162 | DNA | CCGTACATACTACGTACGTACGTGAACAGAGGCAGAG | |
| Apta_1038 | DNA | CCCGTCCGTATGGTGGG | |
| Apta_245 | DNA | ACAGGGGTGTGGGGACAGGGGTGTGGGG | |
| Apta_258 | DNA | CACTGCGGGGGTCTATACGTGAGGAAGAAGTGGGCAGGTC | |
| Apta_324 | DNA | CAAACAATCAAACAGCAGTGGGGTG | |
| Apta_324 | DNA | CAAACAATCAAACAGCAGTGGGGTG | |
| Apta_346 | DNA | GTACGTTCAGGAGCAGTGCGA | |
| Apta_1020 | DNA | CTGCTTTGGTAGGGCAG | |
| Apta_1039 | DNA | GCCCGTCCGTATGGTGGGT | |
| Apta_1199 | DNA | CCCTGCGGGGCTGCCCGATATGTGTCCAAGTGGTG | |
| Apta_1199 | DNA | CCCTGCGGGGCTGCCCGATATGTGTCCAAGTGGTG | |
| Apta_1199 | DNA | CCCTGCGGGGCTGCCCGATATGTGTCCAAGTGGTG | |
| Apta_1203 | DNA | CCCTGCGGGGCTACCCGATATGTGTCCGAGTGGTG | |
| Apta_1199 | DNA | CCCTGCGGGGCTGCCCGATATGTGTCCAAGTGGTG | |
| Apta_1208 | DNA | CCCTGCGGGGCTGCCCGATATGTGTCCAGGTGGTG | |
| Apta_163 | DNA | GCGCATGACCATTGATGTCTGCACCATCAGAGGCAGAG | |
| Apta_552 | DNA | CACCTGGGGGAGTATTGCGGAGGAAGGTTCCAGGTG | |
| Apta_673 | DNA | GCAGTCCTAGATCGGGTGTGGCTGGCTTGG | |
| Apta_675 | DNA | ACTGTCCGTCGGGTTTAGGGTGGCGTTCGG |
DEV TOOL
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