Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 31
Aptamer sequence: ATACCAGTCTATTCAATTGGGCCCGTCCGTATGGTGGGTGTGCTGGCCAGATAGTATGTGCAATCA
Target unique ID: O14786
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_31 | VEa5 | Protein | NRP1_HUMAN | 120 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: | ATACCAGTCTATTCAATTGGGCCCGTCCGTATGGTGGGTGTGCTGGCCAGATAGTATGTGCAATCA |
| 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_31 | Description | VEa5 |
| Aptamer chemistry | DNA | Length | 66 nt |
| GC content | 50.0% | Molecular weight | 20,406.06 Da |
| Molarity of 1 μg/μl solution | 49.01 μM | Number of G-quadruplexes | No QGRS found |
| G-Score | N/A | Function | Aptasensor |
| Sequence | ATACCAGTCTATTCAATTGGGCCCGTCCGTATGGTGGGTGTGCTGGCCAGATAGTATGTGCAATCA | ||
| 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 | 31 |
| Target type | Protein | |
| Target unique ID | O14786 | |
| Activity | 120 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_884 | DNA | ATACCAGCTTATTCAATTTGCACCACTTATTGTTACTAATCTGAGATAGTAAGTGCAATCT | |
| Apta_451 | DNA | ATACCAGCTTATTCAATTGAGTAAGAGTGCACTATGTTTTACGAGCCGTTTCCTCGGCAGATAGTAAGTGCAATCT | |
| Apta_349 | DNA | ATACCAGCTTATTCAATTAGACGAGTTTTATTCATTTTCCATGTCGTAGCTTACCGTGAGATAGTAAGTGCAATCT | |
| Apta_1015 | DNA | ATACCAGCTTATTCAATTGACCCGTTTCGTTCCCTCTGGGAAGTTTAGCCCAGTTGCCTGGGCGATACCAAGATAGTAAGTGCAATCT | |
| Apta_1016 | DNA | ATACCAGCTTATTCAATTTCTTCGCCAGTGCCAGGATCTCAGTTGGCGGTTCATTAGCTGGGTTGGTCGAAGATAGTAAGTGCAATCT | |
| Apta_759 | DNA | GAGGCATACCAGCTTATTATTGGGGCCGGGGCAAGGGGGGGGTACCGTGGTAGGACAGATAGTAAGTGCAATCTGCGAA | |
| Apta_450 | DNA | ATACCAGCTTATTCAATTACATGTCCTGAAGGGGAATAATATACAGCTTTGGGTGGGTAGATAGTAAGTGCAATCT | |
| Apta_452 | DNA | ATACCAGCTTATTCAATTGAAGAGTATAAAAAGAGTGATTATCTTTTGTAGGTTTTTTAGATAGTAAGTGCAATCT | |
| Apta_625 | DNA | ATACCAGCTTATTCAATTCAGGGCGGTATGAGGCTCGATCAAGGTCGGAGCGAGAATTTTTTCGCGGAGTCGGCTGGATCAGATAGTAAGTGCAATCT | |
| Apta_625 | DNA | ATACCAGCTTATTCAATTCAGGGCGGTATGAGGCTCGATCAAGGTCGGAGCGAGAATTTTTTCGCGGAGTCGGCTGGATCAGATAGTAAGTGCAATCT | |
| Apta_727 | DNA | ATACCAGCTTATTCAATTAGTCACACTTAGAGTTCTAACTGCTGCGCCGCCGGGAAAATACTGTACGGTTAGATAGTAAGTGCAATCT | |
| Apta_627 | DNA | ATACCAGCTTATTCAATTATGCGGGGATGAGGCTTGATCTGTGGCTCTGATCCATGATCAGTCGTCTTACGTGCGGTCCAGATAGTAAGTGCAATCT | |
| Apta_627 | DNA | ATACCAGCTTATTCAATTATGCGGGGATGAGGCTTGATCTGTGGCTCTGATCCATGATCAGTCGTCTTACGTGCGGTCCAGATAGTAAGTGCAATCT | |
| Apta_805 | DNA | ATACCAGCTTATTCAATTAGGCGGTGCATTGTGGTTGGTAGTATACATGAGGTTTGGTTGAGACTAGTCGCAAGATATAGATAGTAAGTGCAATCT | |
| Apta_792 | DNA | ATACCAGCTTATTCAATTCCCAAATTGCCACCACTTACAGCATGATAACATACTACATCTTTTCATCAAGATAGTAAGTGCAATCT | |
| Apta_626 | DNA | ATACCAGCTTATTCAATTGGTGGTAGGATGGGCTCGATCGAGGTCTTCAGTCGGCTCGGTTTAGTTTATGTTCTCCTGTAGATAGTAAGTGCAATCT | |
| Apta_628 | DNA | ATACCAGCTTATTCAATTAGCCCGGTATTGAGGTCGATCTCTTATCCTATGGCTTGTCCCCCATGGCTCGGTTATATCCAGATAGTAAGTGCAATCT | |
| Apta_628 | DNA | ATACCAGCTTATTCAATTAGCCCGGTATTGAGGTCGATCTCTTATCCTATGGCTTGTCCCCCATGGCTCGGTTATATCCAGATAGTAAGTGCAATCT | |
| Apta_626 | DNA | ATACCAGCTTATTCAATTGGTGGTAGGATGGGCTCGATCGAGGTCTTCAGTCGGCTCGGTTTAGTTTATGTTCTCCTGTAGATAGTAAGTGCAATCT | |
| Apta_411 | DNA | AGACGTAAGTTAATTGGACTTGGTCGTGTGCGGCACAGCGATTGAAAT |
DEV TOOL
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