Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 140
Aptamer sequence: GATAAACGCCTTGATTAAAGGCCCAGTTCTTTAGGCCTACACGTGCTGCGACATTAATT
Target unique ID: P02649
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_139 ApoE 06 Protein APOE_HUMAN 938 pM DPBS with 2.5 mM MgCl2, 1 mM CaCl2, 0.05% TWEEN-20 24644057
Structure information of aptamer
Aptamer Sequence: GATAAACGCCTTGATTAAAGGCCCAGTTCTTTAGGCCTACACGTGCTGCGACATTAATT
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_139 Description ApoE 06
Aptamer chemistry DNA Length 59 nt
GC content 44.1% Molecular weight 18,359.59 Da
Molarity of 1 μg/μl solution 54.47 μM Number of G-quadruplexes No QGRS found
G-Score N/A Function Targeted binding
Sequence GATAAACGCCTTGATTAAAGGCCCAGTTCTTTAGGCCTACACGTGCTGCGACATTAATT
Applications Binds specifically to thrombin
Target information
Type Detail Type Detail
Uniprot ID P02649 Protein name Apolipoprotein E (Apo-E)
Gene name(s) APOE Organism Apolipoprotein E (Apo-E)
Status reviewed in uniprot database Length 317
Mass 36,154 Activity regulation N/A
Involvement in disease Hyperlipoproteinemia 3 (HLPP3) Catalytic activity N/A
PDB ID(s)
1B68;1BZ4;1EA8;1GS9;1H7I;1LE2;1LE4;1LPE;1NFN;1NFO;1OEF;1OEG;1OR2;1OR3;2KC3;2KNY;2L7B;6IWB;6NCN;6NCO;
Function APOE is an apolipoprotein, a protein associating with lipid particles, that mainly functions in lipoprotein-mediated lipid transport between organs via the plasma and interstitial fluids.
Activity data
Interaction ID 140
Target type Protein
Target unique ID P02649
Activity 938 pM
Binding Conditions/Buffer

DPBS with 2.5 mM MgCl2, 1 mM CaCl2, 0.05% TWEEN-20
Assay

Highest affinity aptamers obtained via particle display for four protein targets
PubMed ID 24644057
Similar aptamers
Aptamer ID Aptamer chemistry Sequence Similarity
Apta_999 DNA ATAGGAGTCGACCGACCAGAGGACCCCGCTATCTAATTTATAGGCAATAAGTGCGTCTACATCTAGACTC 55.71%
Apta_614 DNA AATCGCATTACCTTATACCAGCTTATTCAATTACGTCTGCACATACCAGCTTATTCAATT 53.33%
Apta_1007 DNA ATAGGAGTCGACCGACCAGACCCGACCTCTCTTTCATGTGACACAATGGTGCGTCTACATCTAGACTC 52.94%
Apta_1000 DNA ATAGGAGTCGACCGACCAGAACCGTTCCCATACTTCTCCAGCGATACTTAGTGCGTCTACATCTAGACTC 52.86%
Apta_1110 DNA GTTGACGGATCCCTATTGCAGTGCTTGAGAGAGACCTCGCGTATATTTCGGAAGACCACGTGTAATGCCCCTAACT 52.63%
Apta_260 DNA GACGTTAAGCTAGCAGGTGTTAGGTCCCGTGGTGATGAAT 52.54%
Apta_1025 DNA GAAGAGTAGATGAAACGTTTTTTCGCCCGATAAAAGGGACGTGCGTCAGACA 52.54%
Apta_1003 DNA ATAGGAGTCGACCGACCAGACCCCGCCTCTCCTTTCATGTGACACAATGGTGCGTCTACATCTAGACTC 52.17%
Apta_1004 DNA ATAGGAGTCGACCGACCAGACCCGACCTCTCTTTCACTGTGACACAATGGTGCGTCTACATCTAGACTC 52.17%
Apta_1005 DNA ATAGGAGTCGACCGACCAGACCCGACCTCTCCTTTCATGTGACACAATGGTGCGTCTACATCTAGACTC 52.17%
Apta_997 DNA ATAGGAGTCGACCGACCAGACCCCGCCTCTCCTTTTCATGTGACACAATGGTGCGTCTACATCTAGACTC 51.43%
Apta_529 DNA ATCCGTCACACCTGCTCTACACTCCGCACGATCTTTTTTAGAACGCGTACCCGTTGGTGTTGGCTCCCGTAT 51.39%
Apta_1101 DNA CCGTAATACGACTCACTATAGGTATGTGACGCGCGTCAATCGCTGTCCTACCAAGCTTTGCAGAGAGGATCCTT 51.35%
Apta_451 DNA ATACCAGCTTATTCAATTGAGTAAGAGTGCACTATGTTTTACGAGCCGTTTCCTCGGCAGATAGTAAGTGCAATCT 51.32%
Apta_1109 DNA GGTATGTGTCGTTGATCTGGATATCTATGCCTAATGCTCGTAGGCGACTGTTCGGATAGTAACGTTGACCGCATAC 51.32%
Apta_1111 DNA GTGCGTCGCATGATCGCGATTAGTGCGACCATGTACGATTCTCACGACAACGACACTGTACTTGAGGACTGTCTCC 51.32%
Apta_183 DNA TAGCACTGTGCGGCGCGTATTGTTCTAATCTGATTACATT 50.85%
Apta_259 DNA GCAAGTATGAGCGCAGGAGTTAGGTCCCGTGGCGATGGGT 50.85%
Apta_264 DNA GGCGTTGTCGGGCGCAGGTGTAGGCCTCGTGGTGGTGGGT 50.85%
Apta_290 DNA GAACTCACCGGGAAGAAGCCCGTTCCGTCACAGACATGTT 50.85%

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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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