Aptamer-target interaction descriptor
Aptamer-target interaction information
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_1038 | SL2 | Protein | NRP1_HUMAN | 49 nM | PBS and 0.005% tween-20 solution mixture was used as the running buffer, and 50 mM NaOH as the regeneration buffer | 22359573 |
Structure information of aptamer
| Aptamer Sequence: | CCCGTCCGTATGGTGGG |
| 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_1038 | Description | SL2 |
| Aptamer chemistry | DNA | Length | 17 nt |
| GC content | 70.6% | Molecular weight | 5,218.37 Da |
| Molarity of 1 μg/μl solution | 191.63 μM | Number of G-quadruplexes | No QGRS found |
| G-Score | N/A | Function | Aptasensor |
| Sequence | CCCGTCCGTATGGTGGG | ||
| Applications | Identifying high affinity aptamer sequences for the biological molecules and targeting them as antagonist for cancer cell 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 | 890 |
| Target type | Protein | |
| Target unique ID | O14786 | |
| Activity | 49 nM | |
| Binding Conditions/Buffer | PBS and 0.005% tween-20 solution mixture was used as the running buffer, and 50 mM NaOH as the regeneration buffer |
|
| Assay | N/A |
|
| PubMed ID | 22359573 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_1039 | DNA | GCCCGTCCGTATGGTGGGT | |
| Apta_1040 | DNA | CAATTGGGCCCGTCCGTATGGTGGGT | |
| Apta_64 | DNA | ACCGTGTGGAGGGTGTT | |
| Apta_211 | DNA | GGTTGGTGTGGTTGG | |
| Apta_318 | DNA | CCCGTCTTCCAGACAAGAGTGCAGGG | |
| Apta_1148 | DNA | CCGTCTTCCAGACAAGAGTGCAGGG | |
| Apta_1019 | DNA | ATCCCTGCAGTTTGGTAGGGTGCAGG | |
| Apta_1077 | RNA | CCCUCCUACAUAGGG | |
| Apta_1196 | DNA | GGGGGATGGGGG | |
| Apta_1197 | DNA | GGGGGCATGGGGG | |
| Apta_544 | DNA | GCGGGCGGTTGTATAGCGG | |
| Apta_345 | DNA | ACAGTAACCGCGTGAGGTCGA | |
| Apta_546 | DNA | CACGGCATGGTGGGCGTCGTG | |
| Apta_147 | DNA | TGCGGTTGTAGTACTCGTGGCCG | |
| Apta_250 | DNA | CCCTGGCCGCCCTCTGGCGCGCTGATGT | |
| Apta_390 | DNA | GGTGCGGCGGGACTAGTGGGTGTG | |
| Apta_483 | DNA | ATTGGGAGGGATTGGGTGGG | |
| Apta_673 | DNA | GCAGTCCTAGATCGGGTGTGGCTGGCTTGG | |
| Apta_675 | DNA | ACTGTCCGTCGGGTTTAGGGTGGCGTTCGG | |
| Apta_676 | DNA | TCAGTCCCGATCAGGTGTGGGTGGCATTGG |
DEV TOOL
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