Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 411
Aptamer sequence: TCTAGCCCACTGCATAGAGGTAGCCACGTATGTGGGTGTTACCCATTCGTAGCTACCGGTG
Target unique ID: P49767
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_405 | hVap1_T1979 | Protein | VEGFC_HUMAN | 1.7 nM | APBB; 10 mM HEPES, pH 7.9, 125 mM NaCl, 25 mM KCl, and 1 mM MgCl2 | 24675636 |
Structure information of aptamer
| Aptamer Sequence: | TCTAGCCCACTGCATAGAGGTAGCCACGTATGTGGGTGTTACCCATTCGTAGCTACCGGTG |
| 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_405 | Description | hVap1_T1979 |
| Aptamer chemistry | DNA | Length | 61 nt |
| GC content | 54.1% | Molecular weight | 18,787.02 Da |
| Molarity of 1 μg/μl solution | 53.23 μM | Number of G-quadruplexes | No QGRS found |
| G-Score | N/A | Function | Targeted therapy |
| Sequence | TCTAGCCCACTGCATAGAGGTAGCCACGTATGTGGGTGTTACCCATTCGTAGCTACCGGTG | ||
| Applications | Demonstrated a potent inhibition of capillary tube formation of endothelial cells, comparable to the effect of a clinically approved anti-VEGF antibody drug, bevacizumab | ||
Target information
| Type | Detail | Type | Detail |
|---|---|---|---|
| Uniprot ID | P49767 | Protein name | Vascular endothelial growth factor C (VEGF-C) (Flt4 ligand) (Flt4-L) (Vascular endothelial growth factor-related protein) (VRP) |
| Gene name(s) | VEGFC | Organism | Vascular endothelial growth factor C (VEGF-C) (Flt4 ligand) (Flt4-L) (Vascular endothelial growth factor-related protein) (VRP) |
| Status | reviewed in uniprot database | Length | 419 |
| Mass | 46,883 | Activity regulation | N/A |
| Involvement in disease | Lymphatic malformation 4 (LMPHM4) | Catalytic activity | N/A |
| PDB ID(s) | 2X1W;2X1X;4BSK;6TJT; |
 |
Function | Growth factor active in angiogenesis, and endothelial cell growth, stimulating their proliferation and migration and also has effects on the permeability of blood vessels. |
Activity data
 |
Interaction ID | 411 |
| Target type | Protein | |
| Target unique ID | P49767 | |
| Activity | 1.7 nM | |
| Binding Conditions/Buffer | APBB; 10 mM HEPES, pH 7.9, 125 mM NaCl, 25 mM KCl, and 1 mM MgCl2 |
|
| Assay | Flow cytometry-based measurement of binding affinity of full-length and truncated aptamers to VEGF |
|
| PubMed ID | 24675636 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_173 | DNA | AGCAGCACAGAGGTCAGATGGCAGGTTTCGACGTACAATGCTATGGAGGCTTTATGATCGCCTATGCGTGCTACCGTGAA | |
| Apta_406 | DNA | AAAGCCCACTGCATAGAGGCCGCTCAACATGCGAGCCGGT | |
| Apta_729 | DNA | AACACCGTGGAGGATAGTTCGGTGGCTGTTCAGGGTCTCCTCCCGGTG | |
| Apta_1218 | DNA | CGACACCACACAGCAGTAAGCACTACAACATAGTGGTCTAGACTATCTCGGGCCGGTG | |
| Apta_175 | DNA | AGCAGCACAGAGGTCAGATGAGGACTGTCGATAAGTATAATGGCAAGTAGCTCGATACATCCTATGCGTGCTACCGTGAA | |
| Apta_235 | DNA | AGCAGCACAGAGGTCAGATGTGGTTCGATGCTGCAAGGTGTTGTCATTTGGCATATGTTACCTATGCGTGCTACCGTGAA | |
| Apta_109 | DNA | AGCAGCACAGAGGTCAGATGTGCGACCACCTGGATAGACGAGGGTAGTAAGGAGTGTGTTCCTATGCGTGCTACCGTGA | |
| Apta_109 | DNA | AGCAGCACAGAGGTCAGATGTGCGACCACCTGGATAGACGAGGGTAGTAAGGAGTGTGTTCCTATGCGTGCTACCGTGA | |
| Apta_534 | DNA | ATCCGTCACACCTGCTCTTGTAGGGTTCCCACCCAATTCAGTTCCGTTAAACCATGGTGTTGGCTCCCGTAT | |
| Apta_534 | DNA | ATCCGTCACACCTGCTCTTGTAGGGTTCCCACCCAATTCAGTTCCGTTAAACCATGGTGTTGGCTCCCGTAT | |
| Apta_421 | DNA | ATCTACGAATTCATCAGGGCTAAAGAGTGCAGAGTTACTTAGCCCGTGA | |
| Apta_910 | DNA | TCACGTGCATGATAGACGGCGAAGCCGTCGAGTTGCTGTGTGCCGATGCACGTGA | |
| Apta_1162 | DNA | AGAGGCTACAGCGATAAGTCGACATTGCTGACCGTACCTAGTAATACGT | |
| Apta_104 | DNA | AGCAGCACAGAGGTCAGATGCAAACCACAGCCTGAGTGGTTAGCGTATGTCATTTACGGACCTATGCGTGCTACCGTGAA | |
| Apta_106 | DNA | AGCAGCACAGAGGTCAGATGGAGCCAGGAGTCGGCCTACAGAAGATTCTGATGTACCTCACCTATGCGTGCTACCGTGAA | |
| Apta_104 | DNA | AGCAGCACAGAGGTCAGATGCAAACCACAGCCTGAGTGGTTAGCGTATGTCATTTACGGACCTATGCGTGCTACCGTGAA | |
| Apta_106 | DNA | AGCAGCACAGAGGTCAGATGGAGCCAGGAGTCGGCCTACAGAAGATTCTGATGTACCTCACCTATGCGTGCTACCGTGAA | |
| Apta_236 | DNA | AGCAGCACAGAGGTCAGATGAGATGGTTGACCGGTTGATGTGATTAAGGAGACGTCGATTCCTATGCGTGCTACCGTGAA | |
| Apta_553 | DNA | TGTACCGTCTGAGCGATTCGTACGAACGGCTTTGTACTGTTTGCACTGGCGGATTTAGCCAGTCAGTGTTAAGGAGTGC | |
| Apta_554 | DNA | TGTACCGTCTGAGCGATTCGTACCATTAGTGGGTGCTCCTTACCTGATGGTCATCTAGCCAGTCAGTGTTAAGGAGTGC |
DEV TOOL
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