Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 1155
Aptamer sequence: ATCCATTGCCACTGACTACCAGCCGGGTGGGTGGGGGGGTTTGCTGGTATCGCATTGTGCGAAGTCAGTCGGTCGTTAGT
Target unique ID: HB-8064
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_1099 aptamer SW1 Cell Hep 3B2.1-7 [Hep 3B, Hep-3B, Hep3B] 123.62 nM 0.01 M DPBS, 5 mmol/L MgCl2, and 4.5 mg/mL glucose 33960774
Structure information of aptamer
Aptamer Sequence: ATCCATTGCCACTGACTACCAGCCGGGTGGGTGGGGGGGTTTGCTGGTATCGCATTGTGCGAAGTCAGTCGGTCGTTAGT
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_1099 Description aptamer SW1
Aptamer chemistry DNA Length 80 nt
GC content 57.5% Molecular weight 24,851.83 Da
Molarity of 1 μg/μl solution 40.24 μM Number of G-quadruplexes 3
G-Score 64 Function Aptasensor
Sequence ATCCATTGCCACTGACTACCAGCCGGGTGGGTGGGGGGGTTTGCTGGTATCGCATTGTGCGAAGTCAGTCGGTCGTTAGT
Applications Cancer recognition and imaging
Target information
Type Detail Type Detail
ATCC ID HB-8064 Cell name Hep 3B2.1-7 [Hep 3B, Hep-3B, Hep3B]
Category Human cells Organism Homo sapiens, human
Product type N/A Cell type N/A
Morphology epithelial Tissue Liver
Disease Carcinoma; Hepatocellular Product format Frozen
Antigen expression N/A Genes expressed alpha-fetoprotein (AFP, alpha fetoprotein)
Cell description Hep 3B2.1-7[Hep 3B, Hep-3B, Hep3B] is a cell line exhibiting epithelial morphology that was isolated from liver tissue derived from an 8-year-old, Black youth with liver cancer. This cell line contains an integrated hepatitis B virus genome.
Application(s) 3D cell culture; Cancer research; High-throughput screening; Infectious disease research; Sexually transmitted disease research; Toxicology
Activity data
Interaction ID 1155
Target type Cell
Target unique ID HB-8064
Activity 123.62 nM
Binding Conditions/Buffer

0.01 M DPBS, 5 mmol/L MgCl2, and 4.5 mg/mL glucose
Assay

Kd of SW1 for SMMC-7721 cells
PubMed ID 33960774
Similar aptamers
Aptamer ID Aptamer chemistry Sequence Similarity
Apta_1173 DNA TTGACTTGCCACTGACTACCCCAGTATCTCTTCAACGCTATGGTGCATGTACTACGTATTGAAGTCAGTCGGTCGTCATC 58.75%
Apta_794 DNA ATCCAGAGTGACGCAGCAAGGAGATTCGAGGGGGAAGGTTTGTTATAGGGGTTAATGGACACGGTGGCTTAGT 57.50%
Apta_923 DNA ATCCAGAGTGACGCAGCATCGACCTCTGTGCGAGCGGGTTGCATATATATTTTGCATGGACACGGTGGCTTAGT 57.50%
Apta_1071 DNA TTGAAGTGACTCCGCACTGGGTGGGTGGGAGGGTCGTGCGGCTGGTCATAGCAGGGT 56.25%
Apta_1090 DNA ATCCAGAGTGACGCAGCAGGGCTTGGGTTGGGAATAAGGATGTGGGAGGCGGCGAACATGGACACGGTGGCTTAGT 56.25%
Apta_1172 DNA GACGCCACTGACTACCCCAGTATCTCTTCAACGCGTATTGAAGTCAGTCGGTCGTCA 56.25%
Apta_731 DNA AAGGAGCAGCGTGGAGGATACTCTAATTGCCGTATAAGGTCAGGGGGTTGGTTGGTTCCTAGTGCTTAGGGTGTGTCGTCGTGGT 55.29%
Apta_67 DNA AGATGCCTGTCGAGCATGCTGTTGTGGTAGGGTTAGGGATGGTAGCGGTTGTAGCTAAACTGCTTTGTCGACGGG 55.00%
Apta_140 DNA GGCAGGAAGACAAACACGATGGGGGGGTATGATTTGATGTGGTTGTTGCATGATCGTGGTCTGTGGTGCTGT 55.00%
Apta_464 DNA GTCAGATTCCACTATAGTAGGTTGGGTAGGGTGGTCGCAGTGGATGATATGTCGTAGGGG 55.00%
Apta_922 DNA ATCCAGAGTGACGCAGCACACCGTTTGTATTCTGCATTGTTTTGCATTCTACATGGACACGGTGGCTTAGT 55.00%
Apta_1088 DNA ATCCAGAGTGACGCAGCATCGAGTGGCTTGTTTGTAATGTAGGGTTCCGGTCGTGGGTTGGACACGGTGGCTTAGT 55.00%
Apta_456 DNA AGCTCCAGAAGATAAATTACAGGTGGGTGGGTGGGCGGTGGAATTTAGCGGCGGAGCTCTGTGTGTGTTAGGGCAACTAGGATACTATGACCCC 54.26%
Apta_1131 DNA GCCGAGATTGCACTTACTATCTCAAGAAGGGTAGTAAGAGGAGTGGGTGATTATGGGTAAGTTGTATGAGGTAATTGAATAAGCTGGTATGCGC 54.26%
Apta_1137 DNA GCCGAGATTGCACTTACTATCTCAAGAAGAGTAGTAAGAGGAGTGGGTGGTTATGAGTAAGTTGTATGTGGTAATTGAATAAGCTGGTATGCGC 54.26%
Apta_901 DNA ATACGGGAGCCAACACCACAAGTTGACTTGGAGGAGGGTCTAACTAGTTCGAGGAGAGCAGGTGTGACGGAT 53.75%
Apta_921 DNA ATCCAGAGTGACGCAGCACGAGCCAGACATCTCACACCTGTTGCATATACATTTTGCATGGACACGGTGGCTTAGT 53.75%
Apta_951 DNA CACCTAATACGACTCACTATAGCGGATCCGAGGGGGTAGCGGGTGGGCCGGTGGATGCGGGGCGCCGGCGCCTGGCTCGAACAAGCTTGC 53.33%
Apta_459 DNA AGCTCCAGAAGATAAATTACAGGGGCGGGGGGGCGGGGGAGGCGGAAGGCCTGCTAAAGTCGTTGTGAGCGAACCAACTAGGATACTATGACCCC 52.63%
Apta_417 DNA GGCAGGAAGACAAACACCAGGTGAGGGAGACGACGCGAGTGTTAGATGGTAGCTGTTGGTCTGTGGTGCTGT 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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