Aptamer-target interaction descriptor
Aptamer-target interaction information
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_289 | 8A-35 | Protein | IL8_HUMAN | 1.72 pM | 30 mM Tris-HCl (pH 7.5), 150 mM NaCl, 1.5 mM MgCl2, 2mM DTT, and 1% BSA | 24129312 |
Structure information of aptamer
| Aptamer Sequence: | GGGGGCUUAUCAUUCCAUUUAGUGUUAUGAUAACC |
| 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_289 | Description | 8A-35 |
| Aptamer chemistry | RNA | Length | 35 nt |
| GC content | 40.0% | Molecular weight | 11,384.51 Da |
| Molarity of 1 μg/μl solution | 87.84 μM | Number of G-quadruplexes | No QGRS found |
| G-Score | N/A | Function | Targeted therapy |
| Sequence | GGGGGCUUAUCAUUCCAUUUAGUGUUAUGAUAACC | ||
| Applications | Development of effective therapeutic agents against inflammatory diseases | ||
Target information
| Type | Detail | Type | Detail |
|---|---|---|---|
| Uniprot ID | P10145 | Protein name | Interleukin-8 (IL-8) (C-X-C motif chemokine 8) (Chemokine (C-X-C motif) ligand 8) (Emoctakin) (Granulocyte chemotactic protein 1) (GCP-1) (Monocyte-derived neutrophil chemotactic factor) (MDNCF) (Monocyte-derived neutrophil-activating peptide) (MONAP) (Neutrophil-activating protein 1) (NAP-1) (Protein 3-10C) (T-cell chemotactic factor) [Cleaved into: MDNCF-a (GCP/IL-8 protein IV) (IL8/NAP1 form I); Interleukin-8 ((Ala-IL-8)77) (GCP/IL-8 protein II) (IL-8(1-77)) (IL8/NAP1 form II) (MDNCF-b); IL-8(5-77); IL-8(6-77) ((Ser-IL-8)72) (GCP/IL-8 protein I) (IL8/NAP1 form III) (Lymphocyte-derived neutrophil-activating factor) (LYNAP) (MDNCF-c) (Neutrophil-activating factor) (NAF); IL-8(7-77) (GCP/IL-8 protein V) (IL8/NAP1 form IV); IL-8(8-77) (GCP/IL-8 protein VI) (IL8/NAP1 form V); IL-8(9-77) (GCP/IL-8 protein III) (IL8/NAP1 form VI)] |
| Gene name(s) | CXCL8 IL8 | Organism | Interleukin-8 (IL-8) (C-X-C motif chemokine 8) (Chemokine (C-X-C motif) ligand 8) (Emoctakin) (Granulocyte chemotactic protein 1) (GCP-1) (Monocyte-derived neutrophil chemotactic factor) (MDNCF) (Monocyte-derived neutrophil-activating peptide) (MONAP) (Neutrophil-activating protein 1) (NAP-1) (Protein 3-10C) (T-cell chemotactic factor) [Cleaved into: MDNCF-a (GCP/IL-8 protein IV) (IL8/NAP1 form I); Interleukin-8 ((Ala-IL-8)77) (GCP/IL-8 protein II) (IL-8(1-77)) (IL8/NAP1 form II) (MDNCF-b); IL-8(5-77); IL-8(6-77) ((Ser-IL-8)72) (GCP/IL-8 protein I) (IL8/NAP1 form III) (Lymphocyte-derived neutrophil-activating factor) (LYNAP) (MDNCF-c) (Neutrophil-activating factor) (NAF); IL-8(7-77) (GCP/IL-8 protein V) (IL8/NAP1 form IV); IL-8(8-77) (GCP/IL-8 protein VI) (IL8/NAP1 form V); IL-8(9-77) (GCP/IL-8 protein III) (IL8/NAP1 form VI)] |
| Status | reviewed in uniprot database | Length | 99 |
| Mass | 11,098 | Activity regulation | N/A |
| Involvement in disease | N/A | Catalytic activity | N/A |
| PDB ID(s) | 1ICW;1IKL;1IKM;1IL8;1ILP;1ILQ;1QE6;1ROD;2IL8;3IL8;4XDX;5D14;5WDZ;6LFM;6LFO;6N2U;6WZM;6XMN; |
 |
Function | Chemotactic factor that mediates inflammatory response by attracting neutrophils, basophils, and T-cells to clear pathogens and protect the host from infection. |
Activity data
 |
Interaction ID | 298 |
| Target type | Protein | |
| Target unique ID | P10145 | |
| Activity | 1.72 pM | |
| Binding Conditions/Buffer | 30 mM Tris-HCl (pH 7.5), 150 mM NaCl, 1.5 mM MgCl2, 2mM DTT, and 1% BSA |
|
| Assay | Each aptamer (0.001 w 1000 nM) was pre-incubated with 0.1 nM [125I]-IL-8 at room temperature for 40 min, followed by the addition of 1x10**6 human neutrophils and incubation at 4 ℃ for 90 min. The inhibitory activities of 8A-44, 8A-44COM, 8A-35 and 8A-30 were analyzed by measuring the radioactivity of the cell surface-bound [125I]-IL-8 using a g-scintillation counter |
|
| PubMed ID | 24129312 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_1079 | RNA | GGGCGCUCAAUUUUUUAUUGCAUUUUUCUUUGAGCGCCC | |
| Apta_703 | RNA | GGGCGGAUGAGACGCUUGGCGUGUGCUGUGGAGAGUCAUCCG | |
| Apta_1141 | RNA | ACGAGUCUGGUCCUUCCUUUGACGACUAUUGUUUGGUAUCGAUCAACAACAA | |
| Apta_634 | RNA | GGUCUUACGUCGUUCGCGACUAUUGGGAGACC | |
| Apta_1292 | RNA | GGCACGUGUAUUACCCUAGUGGUCGACGUGCC | |
| Apta_98 | RNA | CGAUGCGGUCUCAUGCGUCGAGUGUGAGUUUACCUUCG | |
| Apta_172 | RNA | GGAGACAUCCCUCUUGUUGGUGGUGCCGUGUGGAUGUCUC | |
| Apta_370 | RNA | GGGAGGACGCGUCGCCGUAAUGGAUGUUUUGCUCCCUG | |
| Apta_425 | RNA | UGCCGCCAUAUCACACGGAUUUAAUCGCCGUAGAAAAGCAUGUCAAAGCCG | |
| Apta_426 | RNA | UGCCGCUAUAAUGCACGGAUUUAAUCGCCGUAGAAAAGCAUGUCAAAGCCG | |
| Apta_1121 | RNA | GACAGCGUGCCUAGAAGUCCAAGCUUAAAUAACCACGCUCGACAAGC | |
| Apta_859 | RNA | GGGAGUCUGAAGUCGGACUUGUUAUCAAUUCACUUCAGACU | |
| Apta_714 | RNA | GGCGGUUCCUGCCGAAAGGCUCGUGGCAACGUC | |
| Apta_716 | RNA | GGCGCUUCAUGCCGAAAGGCCCGUUGUAACGUC | |
| Apta_394 | RNA | GGGCGAAUUCAACUGCCAUCUAGGCAGUAACCAGGAGUUAGUAGGACAAGUUUCGUCC | |
| Apta_1249 | RNA | AAUCGGCCCAAUUUUACCUUCGGACUUCAGUAUCUAGUGUGGCUUUAAAUCAUAGC | |
| Apta_365 | RNA | GGACCUAUGCAGUAGCCAGUGUGGACUGGGCUGCCCCCCC | |
| Apta_367 | RNA | CGAGCGUAGAAUGUCUUCCCACUAGACGUCGUUCGGCCCC | |
| Apta_521 | RNA | GGGUUGGGAAGAAACUGUGGCACUUCGGUGCCAGCAACCC | |
| Apta_660 | RNA | UGGGAGGAGUGCUGCUCUCCAGGCACUCUUGUUGCUCGGA |
DEV TOOL
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