Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 1100
Aptamer sequence: ATACCAGCTTATTCAATTGACCCGTTTCGTTCCCTCTGGGAAGTTTAGCCCAGTTGCCTGGGCGATACCAAGATAGTAAGTGCAATCT
Target unique ID: Q8NBP7
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_1015 | AP-1 | Protein | PCSK9_HUMAN | 325 nM | 25 mM Tris-HCl, 192 mM glycine, 5 mM KH2PO4, and pH 8.3 | 32415571 |
Structure information of aptamer
| Aptamer Sequence: | ATACCAGCTTATTCAATTGACCCGTTTCGTTCCCTCTGGGAAGTTTAGCCCAGTTGCCTGGGCGATACCAAGATAGTAAGTGCAATCT |
| 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_1015 | Description | AP-1 |
| Aptamer chemistry | DNA | Length | 88 nt |
| GC content | 46.6% | Molecular weight | 27,041.32 Da |
| Molarity of 1 μg/μl solution | 36.98 μM | Number of G-quadruplexes | No QGRS found |
| G-Score | N/A | Function | Targeted binding |
| Sequence | ATACCAGCTTATTCAATTGACCCGTTTCGTTCCCTCTGGGAAGTTTAGCCCAGTTGCCTGGGCGATACCAAGATAGTAAGTGCAATCT | ||
| Applications | Inhibition of proprotein convertase subtilisin/kexin 9 (PCSK9) protein | ||
Target information
| Type | Detail | Type | Detail |
|---|---|---|---|
| Uniprot ID | Q8NBP7 | Protein name | Proprotein convertase subtilisin/kexin type 9 (EC 3.4.21.-) (Neural apoptosis-regulated convertase 1) (NARC-1) (Proprotein convertase 9) (PC9) (Subtilisin/kexin-like protease PC9) |
| Gene name(s) | PCSK9 NARC1 PSEC0052 | Organism | Proprotein convertase subtilisin/kexin type 9 (EC 3.4.21.-) (Neural apoptosis-regulated convertase 1) (NARC-1) (Proprotein convertase 9) (PC9) (Subtilisin/kexin-like protease PC9) |
| Status | reviewed in uniprot database | Length | 692 |
| Mass | 74,286 | Activity regulation | Its proteolytic activity is autoinhibited by the non-covalent binding of the propeptide to the catalytic domain. Inhibited by EGTA |
| Involvement in disease | Hypercholesterolemia, familial, 3 (FHCL3) | Catalytic activity | N/A |
| PDB ID(s) | 2P4E;2PMW;2QTW;2W2M;2W2N;2W2O;2W2P;2W2Q;2XTJ;3BPS;3GCW;3GCX;3H42;3M0C;3P5B;3P5C;3SQO;4K8R;4NE9;4NMX;4OV6;5OCA;5VL7;5VLA;5VLH;5VLK;5VLL;5VLP;6E4Y;6E4Z;6MV5;6OLZ;6OM0;6OM7;6U26;6U2F;6U2N;6U2P;6U36;6U38;6U3I;6U3X;7ANQ; |
 |
Function | Crucial player in the regulation of plasma cholesterol homeostasis. |
Activity data
 |
Interaction ID | 1100 |
| Target type | Protein | |
| Target unique ID | Q8NBP7 | |
| Activity | 325 nM | |
| Binding Conditions/Buffer | 25 mM Tris-HCl, 192 mM glycine, 5 mM KH2PO4, and pH 8.3 |
|
| Assay | Kd of AP-1 |
|
| PubMed ID | 32415571 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_628 | DNA | ATACCAGCTTATTCAATTAGCCCGGTATTGAGGTCGATCTCTTATCCTATGGCTTGTCCCCCATGGCTCGGTTATATCCAGATAGTAAGTGCAATCT | |
| Apta_628 | DNA | ATACCAGCTTATTCAATTAGCCCGGTATTGAGGTCGATCTCTTATCCTATGGCTTGTCCCCCATGGCTCGGTTATATCCAGATAGTAAGTGCAATCT | |
| Apta_451 | DNA | ATACCAGCTTATTCAATTGAGTAAGAGTGCACTATGTTTTACGAGCCGTTTCCTCGGCAGATAGTAAGTGCAATCT | |
| Apta_349 | DNA | ATACCAGCTTATTCAATTAGACGAGTTTTATTCATTTTCCATGTCGTAGCTTACCGTGAGATAGTAAGTGCAATCT | |
| Apta_354 | DNA | ATACCAGCTTATTCAATTCTATACTCCACTTTGCTATTTCTCGGTTCCTTCACGCGCCGATCGCAGGCTGATGAATTGAGATAGTAAGTGCAATCT | |
| Apta_450 | DNA | ATACCAGCTTATTCAATTACATGTCCTGAAGGGGAATAATATACAGCTTTGGGTGGGTAGATAGTAAGTGCAATCT | |
| Apta_1016 | DNA | ATACCAGCTTATTCAATTTCTTCGCCAGTGCCAGGATCTCAGTTGGCGGTTCATTAGCTGGGTTGGTCGAAGATAGTAAGTGCAATCT | |
| Apta_627 | DNA | ATACCAGCTTATTCAATTATGCGGGGATGAGGCTTGATCTGTGGCTCTGATCCATGATCAGTCGTCTTACGTGCGGTCCAGATAGTAAGTGCAATCT | |
| Apta_627 | DNA | ATACCAGCTTATTCAATTATGCGGGGATGAGGCTTGATCTGTGGCTCTGATCCATGATCAGTCGTCTTACGTGCGGTCCAGATAGTAAGTGCAATCT | |
| Apta_823 | DNA | GGGATACCAGCTTATTCAATTTGATTCCATCTTCCTGGACTGTCGAAAATTCAGTATCGGGAGGTTACGTATTTGGTTTATAGATAGTAAGTGCAATCT | |
| Apta_805 | DNA | ATACCAGCTTATTCAATTAGGCGGTGCATTGTGGTTGGTAGTATACATGAGGTTTGGTTGAGACTAGTCGCAAGATATAGATAGTAAGTGCAATCT | |
| Apta_625 | DNA | ATACCAGCTTATTCAATTCAGGGCGGTATGAGGCTCGATCAAGGTCGGAGCGAGAATTTTTTCGCGGAGTCGGCTGGATCAGATAGTAAGTGCAATCT | |
| Apta_625 | DNA | ATACCAGCTTATTCAATTCAGGGCGGTATGAGGCTCGATCAAGGTCGGAGCGAGAATTTTTTCGCGGAGTCGGCTGGATCAGATAGTAAGTGCAATCT | |
| Apta_792 | DNA | ATACCAGCTTATTCAATTCCCAAATTGCCACCACTTACAGCATGATAACATACTACATCTTTTCATCAAGATAGTAAGTGCAATCT | |
| Apta_626 | DNA | ATACCAGCTTATTCAATTGGTGGTAGGATGGGCTCGATCGAGGTCTTCAGTCGGCTCGGTTTAGTTTATGTTCTCCTGTAGATAGTAAGTGCAATCT | |
| Apta_626 | DNA | ATACCAGCTTATTCAATTGGTGGTAGGATGGGCTCGATCGAGGTCTTCAGTCGGCTCGGTTTAGTTTATGTTCTCCTGTAGATAGTAAGTGCAATCT | |
| Apta_31 | DNA | ATACCAGTCTATTCAATTGGGCCCGTCCGTATGGTGGGTGTGCTGGCCAGATAGTATGTGCAATCA | |
| Apta_452 | DNA | ATACCAGCTTATTCAATTGAAGAGTATAAAAAGAGTGATTATCTTTTGTAGGTTTTTTAGATAGTAAGTGCAATCT | |
| Apta_727 | DNA | ATACCAGCTTATTCAATTAGTCACACTTAGAGTTCTAACTGCTGCGCCGCCGGGAAAATACTGTACGGTTAGATAGTAAGTGCAATCT | |
| Apta_884 | DNA | ATACCAGCTTATTCAATTTGCACCACTTATTGTTACTAATCTGAGATAGTAAGTGCAATCT |
DEV TOOL
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