Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 1240
Aptamer sequence: AGCGTCGAATACCACTACAGGGGATGCGAAGTTCCGCGGTCGAGTATATGATACATCCATCTAATGGAGCTCGTGGTCAG
Target unique ID: Q9Y6Q9
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_1178 AY-3 Protein NCOA3_HUMAN 47.83 nM Tris-HCl 20 mmol/L pH 7.5, NaCl 150 mM, EDTA 1 mM, EGTA 1 mM, TritonX-100 1 % 26458993
Structure information of aptamer
Aptamer Sequence: AGCGTCGAATACCACTACAGGGGATGCGAAGTTCCGCGGTCGAGTATATGATACATCCATCTAATGGAGCTCGTGGTCAG
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_1178 Description AY-3
Aptamer chemistry DNA Length 80 nt
GC content 51.3% Molecular weight 24,767.87 Da
Molarity of 1 μg/μl solution 40.37 μM Number of G-quadruplexes No QGRS found
G-Score N/A Function Targeted therapy
Sequence AGCGTCGAATACCACTACAGGGGATGCGAAGTTCCGCGGTCGAGTATATGATACATCCATCTAATGGAGCTCGTGGTCAG
Applications Inhibiting the coactivation of AIB1
Target information
Type Detail Type Detail
Uniprot ID Q9Y6Q9 Protein name Nuclear receptor coactivator 3 (NCoA-3) (EC 2.3.1.48) (ACTR) (Amplified in breast cancer 1 protein) (AIB-1) (CBP-interacting protein) (pCIP) (Class E basic helix-loop-helix protein 42) (bHLHe42) (Receptor-associated coactivator 3) (RAC-3) (Steroid receptor coactivator protein 3) (SRC-3) (Thyroid hormone receptor activator molecule 1) (TRAM-1)
Gene name(s) NCOA3 AIB1 BHLHE42 RAC3 TRAM1 Organism Nuclear receptor coactivator 3 (NCoA-3) (EC 2.3.1.48) (ACTR) (Amplified in breast cancer 1 protein) (AIB-1) (CBP-interacting protein) (pCIP) (Class E basic helix-loop-helix protein 42) (bHLHe42) (Receptor-associated coactivator 3) (RAC-3) (Steroid receptor coactivator protein 3) (SRC-3) (Thyroid hormone receptor activator molecule 1) (TRAM-1)
Status reviewed in uniprot database Length 1424
Mass 155,293 Activity regulation Coactivator activity on nuclear receptors and NF-kappa-B pathways is enhanced by various hormones, and the TNF cytokine, respectively
Involvement in disease N/A Catalytic activity Reaction=acetyl-CoA + L-lysyl-[protein] = CoA + H(+) + N(6)-acetyl-L-lysyl-[protein]
PDB ID(s)
1KBH;3L3X;3L3Z;6ES7;6SQC;
Function Nuclear receptor coactivator that directly binds nuclear receptors and stimulates the transcriptional activities in a hormone-dependent fashion.
Activity data
Interaction ID 1240
Target type Protein
Target unique ID Q9Y6Q9
Activity 47.83 nM
Binding Conditions/Buffer

Tris-HCl 20 mmol/L pH 7.5, NaCl 150 mM, EDTA 1 mM, EGTA 1 mM, TritonX-100 1 %
Assay

Determination of the dissociation constant of the enriched pool to flag-AIB1-CID beads
PubMed ID 26458993
Similar aptamers
Aptamer ID Aptamer chemistry Sequence Similarity
Apta_881 DNA AGCGTCGAATACCACTACAGCCCGCACTCAACCACCGTTCCTTTGTTTAATTTTGCACATCTAATGGAGCTCGTGGTCAG 71.25%
Apta_887 DNA ACGCTCGGATGCCACTACAGGGGGGTGGTCCTGAGGGTGGTGTGGTTGGTTTGGTTTCCTCATGGACGTGCTGGTGAC 58.75%
Apta_457 DNA AGCTCCAGAAGATAAATTACAGGGGATCAGTAAGGTTGAGACGGCCTGAATCTATCGTGGAGACCACGCGACGCAACTAGGATACTATGACCCC 56.38%
Apta_78 DNA ATCTCGACTAGTCATAGGGGGCGCGAACATACGCGGTTGGTGTGGTTGGCTGACAATACTCGT 56.25%
Apta_417 DNA GGCAGGAAGACAAACACCAGGTGAGGGAGACGACGCGAGTGTTAGATGGTAGCTGTTGGTCTGTGGTGCTGT 55.00%
Apta_511 DNA ATCCGTCACACCTGCTCTCAGGGGATCACATTCTTGACGGTGTGATACAGTGCCTGGTGTTGGCTCCCGTAT 55.00%
Apta_686 DNA GGTCACCAACAACAGGGAGCGCTACGCGAAGGGTCAATGTGACGTCATGCGGATGTGTGG 55.00%
Apta_794 DNA ATCCAGAGTGACGCAGCAAGGAGATTCGAGGGGGAAGGTTTGTTATAGGGGTTAATGGACACGGTGGCTTAGT 55.00%
Apta_79 DNA ATCTCGAGTCATAGGGGGCGCGAACATACGCGGTTGGTGTGGTTGGCTGACTCGT 53.75%
Apta_684 DNA GGCGGACCAAGGGGACACCACAGATGAATGTACAGTACCATGTTACTGCGCCCGTAGGTG 53.75%
Apta_810 DNA ACAGCATCCCCATGTGAACAATCGCATTGTGATTGTTACGGTTTCCGCCTCATGGACGTGCTG 53.75%
Apta_993 DNA AATCCGACCACGAGAGCAGACCGACCACAGCATTATCTAAACCCATTAGTCTAGTCCTGG 53.75%
Apta_1230 DNA GGCGATAGGCAGTGTTGCGGGGTCGGAGAGCGAGGTAATAGCGTGTATGGGTGCTGTGTG 53.75%
Apta_1280 DNA TCATATCCTTCTTGGTATCATTGCGTCATTTAGTCATTCATGTTATTCCCGAGGG 53.75%
Apta_582 DNA GTACCAGCTTATTCAATTGGGCGAAGGAACATACGGCAGTTTATGGCCGCTATCGAGATAGACTATCATCTCAACGTCTTCTAGATAGTATGTTCATCAG 53.00%
Apta_140 DNA GGCAGGAAGACAAACACGATGGGGGGGTATGATTTGATGTGGTTGTTGCATGATCGTGGTCTGTGGTGCTGT 52.50%
Apta_175 DNA AGCAGCACAGAGGTCAGATGAGGACTGTCGATAAGTATAATGGCAAGTAGCTCGATACATCCTATGCGTGCTACCGTGAA 52.50%
Apta_405 DNA TCTAGCCCACTGCATAGAGGTAGCCACGTATGTGGGTGTTACCCATTCGTAGCTACCGGTG 52.50%
Apta_461 DNA CGCTCGGCTTCACGAGATTCGTGTCGTTGTGTCCTGTACCCGCCTTGACCAGTCACTCTAGAGCATCCGGACTG 52.50%
Apta_464 DNA GTCAGATTCCACTATAGTAGGTTGGGTAGGGTGGTCGCAGTGGATGATATGTCGTAGGGG 52.50%

ABOUT

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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