Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 1101
Aptamer sequence: ATACCAGCTTATTCAATTTCTTCGCCAGTGCCAGGATCTCAGTTGGCGGTTCATTAGCTGGGTTGGTCGAAGATAGTAAGTGCAATCT
Target unique ID: Q8NBP7
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_1016 AP-2 Protein PCSK9_HUMAN 327 nM 25 mM Tris-HCl, 192 mM glycine, 5 mM KH2PO4, and pH 8.3 32415571
Structure information of aptamer
Aptamer Sequence: ATACCAGCTTATTCAATTTCTTCGCCAGTGCCAGGATCTCAGTTGGCGGTTCATTAGCTGGGTTGGTCGAAGATAGTAAGTGCAATCT
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_1016 Description AP-2
Aptamer chemistry DNA Length 88 nt
GC content 45.5% Molecular weight 27,167.39 Da
Molarity of 1 μg/μl solution 36.81 μM Number of G-quadruplexes No QGRS found
G-Score N/A Function Targeted binding
Sequence ATACCAGCTTATTCAATTTCTTCGCCAGTGCCAGGATCTCAGTTGGCGGTTCATTAGCTGGGTTGGTCGAAGATAGTAAGTGCAATCT
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 1101
Target type Protein
Target unique ID Q8NBP7
Activity 327 nM
Binding Conditions/Buffer

25 mM Tris-HCl, 192 mM glycine, 5 mM KH2PO4, and pH 8.3
Assay

Kd of AP-2
PubMed ID 32415571
Similar aptamers
Aptamer ID Aptamer chemistry Sequence Similarity
Apta_625 DNA ATACCAGCTTATTCAATTCAGGGCGGTATGAGGCTCGATCAAGGTCGGAGCGAGAATTTTTTCGCGGAGTCGGCTGGATCAGATAGTAAGTGCAATCT 69.39%
Apta_625 DNA ATACCAGCTTATTCAATTCAGGGCGGTATGAGGCTCGATCAAGGTCGGAGCGAGAATTTTTTCGCGGAGTCGGCTGGATCAGATAGTAAGTGCAATCT 69.39%
Apta_450 DNA ATACCAGCTTATTCAATTACATGTCCTGAAGGGGAATAATATACAGCTTTGGGTGGGTAGATAGTAAGTGCAATCT 68.18%
Apta_626 DNA ATACCAGCTTATTCAATTGGTGGTAGGATGGGCTCGATCGAGGTCTTCAGTCGGCTCGGTTTAGTTTATGTTCTCCTGTAGATAGTAAGTGCAATCT 68.04%
Apta_626 DNA ATACCAGCTTATTCAATTGGTGGTAGGATGGGCTCGATCGAGGTCTTCAGTCGGCTCGGTTTAGTTTATGTTCTCCTGTAGATAGTAAGTGCAATCT 68.04%
Apta_349 DNA ATACCAGCTTATTCAATTAGACGAGTTTTATTCATTTTCCATGTCGTAGCTTACCGTGAGATAGTAAGTGCAATCT 67.05%
Apta_451 DNA ATACCAGCTTATTCAATTGAGTAAGAGTGCACTATGTTTTACGAGCCGTTTCCTCGGCAGATAGTAAGTGCAATCT 67.05%
Apta_627 DNA ATACCAGCTTATTCAATTATGCGGGGATGAGGCTTGATCTGTGGCTCTGATCCATGATCAGTCGTCTTACGTGCGGTCCAGATAGTAAGTGCAATCT 67.01%
Apta_628 DNA ATACCAGCTTATTCAATTAGCCCGGTATTGAGGTCGATCTCTTATCCTATGGCTTGTCCCCCATGGCTCGGTTATATCCAGATAGTAAGTGCAATCT 67.01%
Apta_628 DNA ATACCAGCTTATTCAATTAGCCCGGTATTGAGGTCGATCTCTTATCCTATGGCTTGTCCCCCATGGCTCGGTTATATCCAGATAGTAAGTGCAATCT 67.01%
Apta_627 DNA ATACCAGCTTATTCAATTATGCGGGGATGAGGCTTGATCTGTGGCTCTGATCCATGATCAGTCGTCTTACGTGCGGTCCAGATAGTAAGTGCAATCT 67.01%
Apta_354 DNA ATACCAGCTTATTCAATTCTATACTCCACTTTGCTATTTCTCGGTTCCTTCACGCGCCGATCGCAGGCTGATGAATTGAGATAGTAAGTGCAATCT 66.67%
Apta_452 DNA ATACCAGCTTATTCAATTGAAGAGTATAAAAAGAGTGATTATCTTTTGTAGGTTTTTTAGATAGTAAGTGCAATCT 65.91%
Apta_792 DNA ATACCAGCTTATTCAATTCCCAAATTGCCACCACTTACAGCATGATAACATACTACATCTTTTCATCAAGATAGTAAGTGCAATCT 65.91%
Apta_1015 DNA ATACCAGCTTATTCAATTGACCCGTTTCGTTCCCTCTGGGAAGTTTAGCCCAGTTGCCTGGGCGATACCAAGATAGTAAGTGCAATCT 65.91%
Apta_823 DNA GGGATACCAGCTTATTCAATTTGATTCCATCTTCCTGGACTGTCGAAAATTCAGTATCGGGAGGTTACGTATTTGGTTTATAGATAGTAAGTGCAATCT 65.66%
Apta_884 DNA ATACCAGCTTATTCAATTTGCACCACTTATTGTTACTAATCTGAGATAGTAAGTGCAATCT 64.77%
Apta_805 DNA ATACCAGCTTATTCAATTAGGCGGTGCATTGTGGTTGGTAGTATACATGAGGTTTGGTTGAGACTAGTCGCAAGATATAGATAGTAAGTGCAATCT 64.58%
Apta_727 DNA ATACCAGCTTATTCAATTAGTCACACTTAGAGTTCTAACTGCTGCGCCGCCGGGAAAATACTGTACGGTTAGATAGTAAGTGCAATCT 63.64%
Apta_31 DNA ATACCAGTCTATTCAATTGGGCCCGTCCGTATGGTGGGTGTGCTGGCCAGATAGTATGTGCAATCA 62.50%

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AptaDB is an online database we developed to integrate comprehensive information about aptamer.
The detail of this database is described here:

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