Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 138
Aptamer sequence: GGGAGACAAGAAUAAACGCUCAAGUGACGUCCUGAUCGAUUGUGCAUUCGGUGUGACGAUCUUUCGACAGGAGGCUCACAACAGGC
Target unique ID: P01730
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_137 | aptamer 12 | Protein | CD4_HUMAN | 0.5 nM | 1 ml PBS containing 2 mM MgCl2 | 9705498 |
Structure information of aptamer
| Aptamer Sequence: | GGGAGACAAGAAUAAACGCUCAAGUGACGUCCUGAUCGAUUGUGCAUUCGGUGUGACGAUCUUUCGACAGGAGGCUCACAACAGGC |
| 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_137 | Description | aptamer 12 |
| Aptamer chemistry | RNA | Length | 86 nt |
| GC content | 51.2% | Molecular weight | 28,018.49 Da |
| Molarity of 1 μg/μl solution | 35.69 μM | Number of G-quadruplexes | No QGRS found |
| G-Score | N/A | Function | Targeted binding |
| Sequence | GGGAGACAAGAAUAAACGCUCAAGUGACGUCCUGAUCGAUUGUGCAUUCGGUGUGACGAUCUUUCGACAGGAGGCUCACAACAGGC | ||
| Applications | Stained CD4+ T cells in a preparation of human peripheral blood mononuclear cells | ||
Target information
| Type | Detail | Type | Detail |
|---|---|---|---|
| Uniprot ID | P01730 | Protein name | T-cell surface glycoprotein CD4 (T-cell surface antigen T4/Leu-3) (CD antigen CD4) |
| Gene name(s) | CD4 | Organism | T-cell surface glycoprotein CD4 (T-cell surface antigen T4/Leu-3) (CD antigen CD4) |
| Status | reviewed in uniprot database | Length | 458 |
| Mass | 51,111 | Activity regulation | N/A |
| Involvement in disease | Immunodeficiency 79 (IMD79) | Catalytic activity | N/A |
| PDB ID(s) | 1CDH;1CDI;1CDJ;1CDU;1CDY;1G9M;1G9N;1GC1;1JL4;1Q68;1RZJ;1RZK;1WBR;1WIO;1WIP;1WIQ;2B4C;2JKR;2JKT;2KLU;2NXY;2NXZ;2NY0;2NY1;2NY2;2NY3;2NY4;2NY5;2NY6;2QAD;3B71;3CD4;3J70;3JCB;3JCC;3JWD;3JWO;3LQA;3O2D;3S4S;3S5L;3T0E;4H8W;4JM2;4P9H;4Q6I;4R2G;4R4H;4RQS;5A7X;5A8H;5CAY;5THR;5U1F;5VN3;6CM3;6EDU;6L1Y;6MEO;6MET;6OPN;6OPO;6OPP;6OPQ;6QH6;6QH7;6U0L;6U0N;6URI;6X5B;6X5C;7T0O;7T0R; |
 |
Function | Integral membrane glycoprotein that plays an essential role in the immune response and serves multiple functions in responses against both external and internal offenses. |
Activity data
 |
Interaction ID | 138 |
| Target type | Protein | |
| Target unique ID | P01730 | |
| Activity | 0.5 nM | |
| Binding Conditions/Buffer | 1 ml PBS containing 2 mM MgCl2 |
|
| Assay | Binding analysis of a representative aptamer from each of the four classes. Biotinylated RNA aptamer sequences complexed to SA-PE were incubated with CD4 presented on L200 beads and then analyzed by flow cytometry. The mean fluoresence of beads was plotted against the concentration of Aptamer:SA-PE complex |
|
| PubMed ID | 9705498 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_432 | RNA | GGGAGACAAGAAUAAACGCUCAAGGCAUUUCUGCUAGUCUGGUUGUAAGAUAUUCAACACGUGAGUUUCGACAGGAGGCUCACAACAGGC | |
| Apta_433 | RNA | GGGAGACAAGAAUAAACGCUCAACGUUCAGUAUAACAGUCCGAGUCUAACACACAAUGGGACACUGAAUUCGACAGGAGGCUCACAACAGGC | |
| Apta_272 | RNA | GGGAGACAAGAAUAAACGCUCAACACAGAACGCGGUCCCCACACAGGACAGGAGCCAGCCCCGGUUCGACAGGAGGCUCACAACAGGC | |
| Apta_854 | RNA | GGGAGCUCAGAAUAAACGCUCAAGGGUAGGGAUCGUUACCCCGACAUUUUAAUGGGCCGAUGUUUCGACAUGAGGCCCGGAUCCGGC | |
| Apta_171 | RNA | GGGAGCUCAGAAUAAACGCUCAACCAGUCUUGUGGCUUUGAAAGAGAGGAGUGUUCGACAUGAGGCCCGGAUCCGGC | |
| Apta_790 | DNA | GGGAGACAAGAATAAACGCTCAAGAAGTGAAAATGACAGAACACAACATTCGACAGGAGGCTCACAACAGGC | |
| Apta_490 | DNA | GGGAGACAAGAATAAACGCTCAAGGGCGTGGTGGGTGGGGTACTAATAATGTGCGTTTGTTCGACAGGAGGCTCACAACAGGC | |
| Apta_502 | DNA | GGGAGACAAGAATAAACGCTCAAATGGACTTTTGAATGTGGCAACAAATTCGACAGGAGGCTCACAACAGGC | |
| Apta_501 | DNA | GGGAGACAAGAATAAACGCTCAATTTAACGTATTTATTCAAGCTCGTATTCGACAGGAGGCTCACAACAGGC | |
| Apta_723 | RNA | GGGAGCUCAGAAUAAACGCUCAAAUCCGUGGACAGGGCGUAAGCGCCUUCGACAUGAGACACGGAUCCUGCGACGAAUUCAGC | |
| Apta_170 | RNA | GGGAGACAAGACUAGACGCUCAAUGUGGGCCACGCCCGAUUUUACGCUUUUACCCGCACGCGAUUGGUUUGUUUCCC | |
| Apta_414 | RNA | GGGAGGACGAUGCGGCCGAUUAGAACUGGGCUGAGGCGUUCUGCAUUUCGGUGAUCAGACGACUCGCUGAGGAUCCGAGA | |
| Apta_415 | RNA | GGGAGGACGAUGCGGAAACUCAUCGGUAGCCUUCCUGCGGUCAGUCUAUUAGGACCAGACGACUCGCUGAGGAUCCGAGA | |
| Apta_169 | RNA | GGGAGACAAGACUAGACGCUCAAUGUGGGCCACGCCCGAUUUUACGCUUUUACCCGCACGCGAUUGGUUUGUUUUCGACAUGAGACUCACAACAGUUCCCUUUAGUGAGGGUUAAUU | |
| Apta_719 | RNA | GGAAUGGAUCCACAUCUACGAAGGCUUUGAAGGUGAGACCGUGCAAAUGAGGAUGGUGUGGAUGAUUAGGGUUGUCGGUUUUCACUGCAGACUUGACGAAGCUU | |
| Apta_1222 | RNA | GGAGGCGCCAACUGAAUGAAACCGUGCUAAGGAGUUGGACUCCGCUGCUUCGGCAGAGCGAUAUAGUGCCAGCUGAUACAUCCGUAACUAGUCGCGUCAC | |
| Apta_816 | RNA | GGGUUCACUGCAGACUUGACGAAGCUUGAGAGAUGCCCCCUGAUGUGCAUUCUUGUUGUGUUGCGGCAAUGGAUCCACAUCUACGAAUUC | |
| Apta_1225 | RNA | GGAGGCGCCAACUGAAUGAAAGAGGUAACGAAAGAUGAUUGUGCCUGCUUCGGCAGUACAACUUCUCGGAUAAAUGAUUAUCCGUAACUAGUCGCGUCAC | |
| Apta_256 | RNA | GGGCGCUAAGUCCUCGCUCAUGCGCGUCCCAUGGGGUAUAGAGGGGUCGAAGUGGACGCGCGACUCGGAUCCU | |
| Apta_624 | RNA | GGGAAUGGAUCCACAUCUACGAAUUCGAAUUGCCGUAAUUUCCCGUGGAGCGAUGCUUCACUGCAGACUUGACGAAGCUU |
DEV TOOL
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