Aptamer-target interaction descriptor
Aptamer-target interaction information
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_491 | r10/47 | Protein | POLG_HCVNZ | 23.5 nM | HEPES-buffered saline containing 1 mM CaCl2, 2.7 mM MgCl2, and 0.005% surfactant P-20 (HBS-CKM) | 16940097 |
Structure information of aptamer
| Aptamer Sequence: | TTGGGGTCTGCTCGGGATTGCGGAGAACGTGAATCT |
| 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_491 | Description | r10/47 |
| Aptamer chemistry | DNA | Length | 36 nt |
| GC content | 55.6% | Molecular weight | 11,203.18 Da |
| Molarity of 1 μg/μl solution | 89.26 μM | Number of G-quadruplexes | No QGRS found |
| G-Score | N/A | Function | Targeted therapy |
| Sequence | TTGGGGTCTGCTCGGGATTGCGGAGAACGTGAATCT | ||
| Applications | Inhibition of HCV | ||
Target information
| Type | Detail | Type | Detail |
|---|---|---|---|
| Uniprot ID | Q81258 | Protein name | Genome polyprotein [Cleaved into: Core protein precursor (Capsid protein C) (p23); Mature core protein (p21); Envelope glycoprotein E1 (gp32) (gp35); Envelope glycoprotein E2 (NS1) (gp68) (gp70); Viroporin p7; Protease NS2 (p23) (EC 3.4.22.-) (Non-structural protein 2) (NS2); Serine protease/helicase NS3 (EC 3.4.21.98) (EC 3.6.1.15) (EC 3.6.4.13) (Hepacivirin) (NS3 helicase) (NS3 protease) (NS3P) (Viroporin p70); Non-structural protein 4A (NS4A) (p8); Non-structural protein 4B (NS4B) (p27); Non-structural protein 5A (NS5A) (p56/58); RNA-directed RNA polymerase (EC 2.7.7.48) (NS5B) (p68)] |
| Gene name(s) | N/A | Organism | Genome polyprotein [Cleaved into: Core protein precursor (Capsid protein C) (p23); Mature core protein (p21); Envelope glycoprotein E1 (gp32) (gp35); Envelope glycoprotein E2 (NS1) (gp68) (gp70); Viroporin p7; Protease NS2 (p23) (EC 3.4.22.-) (Non-structural protein 2) (NS2); Serine protease/helicase NS3 (EC 3.4.21.98) (EC 3.6.1.15) (EC 3.6.4.13) (Hepacivirin) (NS3 helicase) (NS3 protease) (NS3P) (Viroporin p70); Non-structural protein 4A (NS4A) (p8); Non-structural protein 4B (NS4B) (p27); Non-structural protein 5A (NS5A) (p56/58); RNA-directed RNA polymerase (EC 2.7.7.48) (NS5B) (p68)] |
| Status | reviewed in uniprot database | Length | 3021 |
| Mass | 329,578 | Activity regulation | Inhibited by the antiviral drug hexamethylene amiloride (By similarity) |
| Involvement in disease | N/A | Catalytic activity | Reaction=Hydrolysis of four peptide bonds in the viral precursor polyprotein, commonly with Asp or Glu in the P6 position, Cys or Thr in P1 and Ser or Ala in P1 |
| PDB ID(s) | 6P6S; |
 |
Function | Packages viral RNA to form a viral nucleocapsid, and promotes virion budding. |
Activity data
 |
Interaction ID | 496 |
| Target type | Protein | |
| Target unique ID | Q81258 | |
| Activity | 23.5 nM | |
| Binding Conditions/Buffer | HEPES-buffered saline containing 1 mM CaCl2, 2.7 mM MgCl2, and 0.005% surfactant P-20 (HBS-CKM) |
|
| Assay | The percentage of aptamer bound is plotted against the concentration of polymerase. Estimated values for KD are also shown. Results are expressed as the means of three replicates, and error bars represent the standard errors of the means |
|
| PubMed ID | 16940097 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_364 | DNA | TATGGTATGCTGTGTGGTATGGGGTGGCGTGCTCT | |
| Apta_1240 | DNA | GGAGTAGTGGGGATTGTGGTGTATGTTGTC | |
| Apta_861 | DNA | CAGGTTGGTCTGGTTGGGTTTGGCTCCTGTGTACGCAACCTG | |
| Apta_671 | DNA | GCATCTGATCGGGTGTGGGTGGCGTAAAGG | |
| Apta_1195 | DNA | GGGGTTGGGGGGAGGCGGGGAATGGGGG | |
| Apta_35 | DNA | TGGGTGGCCTCCCGTTTATTCGAGATTTGGTTGAATTTGT | |
| Apta_266 | DNA | TGGATGGTAGCTCGGTCGGGGTGGGTGGGTTGGCAAGTCT | |
| Apta_857 | DNA | GCTATGGGTGGTCTGGTTGGGATTGGCCCCGGGAGCTGGC | |
| Apta_1261 | DNA | GGGCGGACGCTAGGTGGTGATGCTGTGCTACACGTGTTGT | |
| Apta_943 | DNA | GAAGGTGGAGCGGTTAGGATACTAGCGAATGAAGACACGTTAGCTGATCT | |
| Apta_666 | DNA | TCGACCTCGCGCGAGGAGGGTGGAGGGTCGTAGAGCGCGTA | |
| Apta_617 | DNA | CAATGGGGTCGGGCGGGCCGGGTGTCATGGTGGACGGAGATGGGACGTAGAGGGCGGT | |
| Apta_255 | DNA | TAGCGATACTGCGTGGGTTGGGGCGGGTAGGGCCAGCAGTCTCGT | |
| Apta_1156 | DNA | TTCTGGTGTGGTAACTCATGTATCGGTCGTGGGGGTCGTGGCATT | |
| Apta_930 | DNA | TTGCACTATGTTTTAGCTAGGGTTCCCTCCGGAGATAGTAAGTGCAA | |
| Apta_143 | DNA | GGTGCGGTTCGTGCGGTTGTAGTACTCGTGGCCGATAGAGGTAGTTTCG | |
| Apta_1162 | DNA | AGAGGCTACAGCGATAAGTCGACATTGCTGACCGTACCTAGTAATACGT | |
| Apta_16 | DNA | AGGGGGGGGGGACGGGACGGGTATA | |
| Apta_18 | DNA | TGGGGGGTTGGACGGGCGGGGCTGC | |
| Apta_22 | DNA | TGTGGGGGTGGACTGGGTGGGTACC |
DEV TOOL
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