Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 85
Aptamer sequence: GGCTTTACACTTTATGCTTCCGTTGCAATTTTAATGGGAGGTACATGGCGGAATAACAATTTCACACAGGAAACAG
Target unique ID: P00740
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_84 | BnFIX3 | Protein | FA9_HUMAN | 90.8 nM | 20 mM HEPES pH 7.5, 150 mM NaCl, 6 mM KCl, 2 mM MgCl2, room temperature | 31961667 |
Structure information of aptamer
| Aptamer Sequence: | GGCTTTACACTTTATGCTTCCGTTGCAATTTTAATGGGAGGTACATGGCGGAATAACAATTTCACACAGGAAACAG |
| 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_84 | Description | BnFIX3 |
| Aptamer chemistry | DNA | Length | 76 nt |
| GC content | 40.8% | Molecular weight | 23,719.03 Da |
| Molarity of 1 μg/μl solution | 42.16 μM | Number of G-quadruplexes | 2 |
| G-Score | 18 | Function | Targeted binding |
| Sequence | GGCTTTACACTTTATGCTTCCGTTGCAATTTTAATGGGAGGTACATGGCGGAATAACAATTTCACACAGGAAACAG | ||
| Applications | Inhibition of catalytic activity of target proteins | ||
Target information
| Type | Detail | Type | Detail |
|---|---|---|---|
| Uniprot ID | P00740 | Protein name | Coagulation factor IX (EC 3.4.21.22) (Christmas factor) (Plasma thromboplastin component) (PTC) [Cleaved into: Coagulation factor IXa light chain; Coagulation factor IXa heavy chain] |
| Gene name(s) | F9 | Organism | Coagulation factor IX (EC 3.4.21.22) (Christmas factor) (Plasma thromboplastin component) (PTC) [Cleaved into: Coagulation factor IXa light chain; Coagulation factor IXa heavy chain] |
| Status | reviewed in uniprot database | Length | 461 |
| Mass | 51,778 | Activity regulation | N/A |
| Involvement in disease | Hemophilia B (HEMB) | Catalytic activity | Reaction=Selective cleavage of Arg-|-Ile bond in factor X to form factor Xa |
| PDB ID(s) | 1CFH;1CFI;1EDM;1IXA;1MGX;1NL0;1RFN;2WPH;2WPI;2WPJ;2WPK;2WPL;2WPM;3KCG;3LC3;3LC5;4WM0;4WMA;4WMB;4WMI;4WMK;4WN2;4WNH;4YZU;4Z0K;4ZAE;5EGM;5F84;5F85;5F86;5JB8;5JB9;5JBA;5JBB;5JBC;5TNO;5TNT;5VYG;6MV4;6RFK;6X5J;6X5L;6X5P;7AHV; |
 |
Function | Factor IX is a vitamin K-dependent plasma protein that participates in the intrinsic pathway of blood coagulation by converting factor X to its active form in the presence of Ca(2+) ions, phospholipids, and factor VIIIa. |
Activity data
 |
Interaction ID | 85 |
| Target type | Protein | |
| Target unique ID | P00740 | |
| Activity | 90.8 nM | |
| Binding Conditions/Buffer | 20 mM HEPES pH 7.5, 150 mM NaCl, 6 mM KCl, 2 mM MgCl2, room temperature |
|
| Assay | Binding of BnFIX1, BnFIX2, BnFIX3, and their natural counterparts to factor IXa. Data are average ± SD of three independent determinations |
|
| PubMed ID | 31961667 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_247 | DNA | GGCTTTACACTTTATGCTTCCGTACCAGAACATATCGAGTGATCCTGGGAGGATAACAATTTCACACAGGAAACAG | |
| Apta_246 | DNA | GGCTTTACACTTTATGCTTCCGGCCCGCGGAAATGATAACGCGTATGGTGGTATAACAATTTCACACAGGAAACAG | |
| Apta_83 | DNA | GGCTTTACACTTTATGCTTCCGTAAAAACACAAACACACGCACATACATAAAATAACAATTTCACACAGGAAACAG | |
| Apta_248 | DNA | GGCTTTACACTTTATGCTTCCGGCCGAGGATTTTCATACCCCGCACGAACGCATAACAATTTCACACAGGAAACAG | |
| Apta_82 | DNA | GGCTTTACACTTTATGCTTCCGAAACAACGCAGAAAGTCTTTACAACATTACATAACAATTTCACACAGGAAACAG | |
| Apta_1135 | DNA | GCCGAGATTGCACTTACTATCTCATCAATAAAGATTATAGGGTGAAGGTGATAGTAGGTGGTATATAGGGTAATTGAATAAGCTGGTATGCGC | |
| Apta_1119 | DNA | GGGAATGGATCCACATCTACGAATTCGGTTGTGAAGATTGGGAGCGTCGTGGCTACTTCACTGCAGACTTGACGAAGCTT | |
| Apta_1134 | DNA | GCCGAGATTGCACTTACTATCTGTTGAGGGAAGAAGTGGTGTAATGTGGAATAATTGTTGTAATAGTAATTGATAAGCTGGTATGCGC | |
| Apta_281 | DNA | CCGTAATACGACTCACTATAGGGGAGCTCGGTACCGAATTCATGTTGGTAGTTGGCTTGTGTTCGTGTGTTAAGCTTTCAGAGAGGATCCTT | |
| Apta_1132 | DNA | GCCGAGATTGCACTTACTATCTGAAAGGGTGGAGATTGATAGGTATAGAGAAACGATAAGGGGGTGTAGAGTAATTGAATAAGCTGGTATGCGC | |
| Apta_409 | DNA | GCAATGGTACGGTACTTCCGGATGCGGAAACTGGCTAATTGGTGAGGCTGGGGCGGTCGTGCAGCAAAAGTGCACGCTACTTTGCTAA | |
| Apta_581 | DNA | GTACCAGCTTATTCAATTCGCGGAAGACGAATTCCAAGCGCGCGCGGGTCACGCGACTTGGGAATGAGCAAGGGTTGGCCCGAGATAGTATGTTCATCAG | |
| Apta_1016 | DNA | ATACCAGCTTATTCAATTTCTTCGCCAGTGCCAGGATCTCAGTTGGCGGTTCATTAGCTGGGTTGGTCGAAGATAGTAAGTGCAATCT | |
| Apta_1042 | DNA | ATCACGATATGCCCGGCTCATCGGGGTTCAGTTGGGCGGTCACATGGAAA | |
| Apta_1129 | DNA | GCCGAGATTGCACTTACTATCTGATGTTATTGTGTTTATTGGAATTTAAAGTATATGGGATGTTTGGTTAGTAATTGAATAAGCTGGTATGCGC | |
| Apta_1130 | DNA | GCCGAGATTGCACTTACTATCTATTAGGAATAAGGTATGAATAGAGATGTATAAGTTGTGTGGACGGTGTAATTGAATAAGCTGGTATGCGC | |
| Apta_823 | DNA | GGGATACCAGCTTATTCAATTTGATTCCATCTTCCTGGACTGTCGAAAATTCAGTATCGGGAGGTTACGTATTTGGTTTATAGATAGTAAGTGCAATCT | |
| Apta_465 | DNA | AGCTGACACAGCAGGTTGGTGGGGGTGGCTTCCAGTTGGGTTGACAATACGTAGGGACACGAAGTCCAACCACGAGTCGAGCAATCTCGAAAT | |
| Apta_354 | DNA | ATACCAGCTTATTCAATTCTATACTCCACTTTGCTATTTCTCGGTTCCTTCACGCGCCGATCGCAGGCTGATGAATTGAGATAGTAAGTGCAATCT | |
| Apta_805 | DNA | ATACCAGCTTATTCAATTAGGCGGTGCATTGTGGTTGGTAGTATACATGAGGTTTGGTTGAGACTAGTCGCAAGATATAGATAGTAAGTGCAATCT |
DEV TOOL
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