Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 159
Aptamer sequence: GACCCAGGGCCGGGACGCAAAGCAGCCAAAACAGACGGCCCCAGUCAGGGAGUU
Target unique ID: P03372
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_155 | aptER-3 | Protein | ESR1_HUMAN | 30 nM | 12 mM HEPES/pH 7.6, 150 mM NaCl, and 10 mM MgCl2 | 24588102 |
Structure information of aptamer
| Aptamer Sequence: | GACCCAGGGCCGGGACGCAAAGCAGCCAAAACAGACGGCCCCAGUCAGGGAGUU |
| 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_155 | Description | aptER-3 |
| Aptamer chemistry | RNA | Length | 54 nt |
| GC content | 64.8% | Molecular weight | 17,765.55 Da |
| Molarity of 1 μg/μl solution | 56.29 μM | Number of G-quadruplexes | No QGRS found |
| G-Score | N/A | Function | Targeted binding |
| Sequence | GACCCAGGGCCGGGACGCAAAGCAGCCAAAACAGACGGCCCCAGUCAGGGAGUU | ||
| Applications | Effectively inhibited ER-mediated transcriptional activation in a breast cancer cell line | ||
Target information
| Type | Detail | Type | Detail |
|---|---|---|---|
| Uniprot ID | P03372 | Protein name | Estrogen receptor (ER) (ER-alpha) (Estradiol receptor) (Nuclear receptor subfamily 3 group A member 1) |
| Gene name(s) | ESR1 ESR NR3A1 | Organism | Estrogen receptor (ER) (ER-alpha) (Estradiol receptor) (Nuclear receptor subfamily 3 group A member 1) |
| Status | reviewed in uniprot database | Length | 595 |
| Mass | 66,216 | Activity regulation | N/A |
| Involvement in disease | Estrogen resistance (ESTRR) | Catalytic activity | N/A |
| PDB ID(s) | 1A52;1ERE;1ERR;1G50;1GWQ;1GWR;1HCP;1HCQ;1L2I;1PCG;1QKT;1QKU;1R5K;1SJ0;1UOM;1X7E;1X7R;1XP1;1XP6;1XP9;1XPC;1XQC;1YIM;1YIN;1ZKY;2AYR;2B1V;2B1Z;2B23;2BJ4;2FAI;2G44;2G5O;2I0J;2IOG;2IOK;2JF9;2JFA;2LLO;2LLQ;2OCF;2OUZ;2P15;2POG;2Q6J;2Q70;2QA6;2QA8;2QAB;2QE4;2QGT;2QGW;2QH6;2QR9;2QSE;2QXM;2QXS;2QZO;2R6W;2R6Y;2YAT;2YJA;3CBM;3CBO;3CBP;3DT3;3ERD;3ERT;3HLV;3HM1;3L03;3OS8;3OS9;3OSA;3Q95;3UU7;3UUA;3UUC;3UUD;4AA6;4DMA;4IU7;4IUI;4IV2;4IV4;4IVW;4IVY;4IW6;4IW8;4IWC;4IWF;4JC3;4JDD;4MG5;4MG6;4MG7;4MG8;4MG9;4MGA;4MGB;4MGC;4MGD;4O6F;4PP6;4PPP;4PPS;4PXM;4Q13;4Q50;4TUZ;4TV1;4XI3;4ZN7;4ZN9;4ZNH;4ZNS;4ZNT;4ZNU;4ZNV;4ZNW;5AAU;5AAV;5ACC;5AK2;5DI7;5DID;5DIE;5DIG;5DK9;5DKB;5DKE;5DKG;5DKS;5DL4;5DLR;5DMC;5DMF;5DP0;5DRJ;5DRM;5DTV;5DU5;5DUE;5DUG;5DUH;5DVS;5DVV;5DWE;5DWG;5DWI;5DWJ;5DX3;5DXB;5DXE;5DXG;5DXK;5DXM;5DXP;5DXQ;5DXR;5DY8;5DYB;5DYD;5DZ0;5DZ1;5DZ3;5DZH;5DZI;5E0W;5E0X;5E14;5E15;5E19;5E1C;5EGV;5EHJ;5EI1;5EIT;5FQP;5FQR;5FQS;5FQT;5FQV;5GS4;5GTR;5HYR;5JMM;5KCC;5KCD;5KCE;5KCF;5KCT;5KCU;5KCW;5KD9;5KR9;5KRA;5KRC;5KRF;5KRH;5KRI;5KRJ;5KRK;5KRL;5KRM;5KRO;5N10;5T0X;5T1Z;5T92;5T97;5TLD;5TLF;5TLG;5TLL;5TLM;5TLO;5TLP;5TLT;5TLU;5TLV;5TLX;5TLY;5TM1;5TM2;5TM3;5TM4;5TM5;5TM6;5TM7;5TM8;5TM9;5TML;5TMM;5TMO;5TMQ;5TMR;5TMS;5TMT;5TMU;5TMV;5TMW;5TMZ;5TN1;5TN3;5TN4;5TN5;5TN6;5TN7;5TN8;5TN9;5TNB;5U2B;5U2D;5UFW;5UFX;5W9C;5W9D;5WGD;5WGQ;6B0F;6C42;6CBZ;6CHW;6CHZ;6CZN;6D0F;6DF6;6DFN;6HHP;6HKB;6HKF;6HMU;6IAR;6OWC;6PET;6PFM;6PIT;6PSJ;6SBO;6SQ0;6SUO;6TJM;6TL3;6V87;6V8T;6VGH;6VIG;6VJD;6VMU;6VPF;6VPK;6VVP;6WOK;6ZOQ;6ZOR;6ZOS;7B9M;7B9R;7B9T;7BA3;7BA5;7BA6;7BA7;7BA8;7BA9;7BAA;7BAB;7JHD;7KBS;7KCA;7KCD;7MSA;7NDO;7NEL;7NFB;7NFW;7NIZ;7RRX;7RRY;7RRZ;7RS0;7RS1;7RS2;7RS3;7RS4;7RS7;7RS8;7RS9;7TE7;7UJ7; |
 |
Function | Nuclear hormone receptor. |
Activity data
 |
Interaction ID | 159 |
| Target type | Protein | |
| Target unique ID | P03372 | |
| Activity | 30 nM | |
| Binding Conditions/Buffer | 12 mM HEPES/pH 7.6, 150 mM NaCl, and 10 mM MgCl2 |
|
| Assay | Binding curves of the aptamers for ERa determined using filter-binding assays. The apparent Kd determined from binding curves is shown next to the title of each curve. Each experiment was repeated at least three times and the standard deviation was shown as error bars |
|
| PubMed ID | 24588102 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_416 | RNA | GGACCUCGGCGAAAGCCGGUAACGCCACAAGUCGGAGGGUAAGAUCUGACAGGAACUGGGUGACGGAGGUUAGGUGC | |
| Apta_154 | RNA | ACACGCGAGAUAGAGCGAGGCCUCCAAAAAUGGCCACGCCAGGAAGCAAGU | |
| Apta_888 | DNA | GGCGACCCCCGGGCTACCAGACAATGTACGCAGCAAGAGTGACGGTCGTACCTCGGAGTC | |
| Apta_61 | DNA | AGCAGCACAGAGGTCAGATGGCAGGTAAGCAGGCGGCTCACAAAACCATTCGCATGCGGCCCTATGCGTGCTACCGTGAA | |
| Apta_383 | RNA | GGCGUGACCUGAUGAGUCACGCUAAGGAGGAUUUCCGAAAGCGGCUACGGUCCGCCAGUGUUACGAAACGUUCCC | |
| Apta_585 | DNA | GATCGAGGGCAGCGATAGCTGGGCTAATAAGGTTAGCCCCATCGGTC | |
| Apta_1121 | RNA | GACAGCGUGCCUAGAAGUCCAAGCUUAAAUAACCACGCUCGACAAGC | |
| Apta_645 | RNA | CUGGACGACGGGGACGCCACUGGACUAGGUAAGCCAGGACCGUACGUCGGGAGCCGUCAGAAUA | |
| Apta_766 | RNA | GGUUACCAGCCUUCACUGCGGACGGACAGAGAGUGCAACCUGCCGUGCCGCACCACGGUCGGUCACAC | |
| Apta_574 | RNA | AUGAAAAGGGCUGGCGAGACAUAUCCGCUGGGCAAUCAGAUUCGGAGCCGCACCACCCUCGAAGUAGACA | |
| Apta_52 | RNA | ACUGUCCUCCCUUCAGAGAGCGCGGGACCCUUAACUUGGGGCCCACGAACAGCUUCAGUUCCGUCUCGGCGU | |
| Apta_898 | DNA | ATACGGGAGCCAACACCAACAAAACTAGCAAATTAGAGCCGTATCGGAGCCTATAGAGCAGGTGTGACGGAT | |
| Apta_447 | RNA | ACGCUCAACGAGCCAGGAACAUCGACGUCAGCAAACGCGAGCGCAACCAGUAACACC | |
| Apta_526 | DNA | ATACGGGAGCCAACACCAAGTAACACACGCGGACCAGAAATACATCCCCCCGTAGAGCAGGTGTGACGGAT | |
| Apta_153 | RNA | CCACAGUUCAGAGGCACCGCGAACAAAACGCAAGACAGAGUGCCGACAAGAAC | |
| Apta_290 | DNA | GAACTCACCGGGAAGAAGCCCGTTCCGTCACAGACATGTT | |
| Apta_340 | DNA | TACTCAGGGCACTGCAAGCAATTGTGGTCCCAATGGGCTGAGTA | |
| Apta_488 | DNA | CGACCAGGGTGGGAGGGGGACGGGCTGGCGGCGCGCGGTAATG | |
| Apta_514 | DNA | ACTCAGCACGCGTGTAGGGAAAACCAACCGCCCACAAGCTGCATGCAACG | |
| Apta_690 | RNA | GGGCGAAUUCCCGAGGACCAAAUAGUACCACCCGGGAAAACAGCUAAUGCCGAAACGGAGAUUUUUUCUGCAGAAGCU |
DEV TOOL
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