Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 842
Aptamer sequence: GAGGCATACCAGCTTATTATTGGGGCCGGGGCAAGGGGGGGGTACCGTGGTAGGACAGATAGTAAGTGCAATCTGCGAA
Target unique ID: TIB-180
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_759 aptamer #1-F Cell Hodgkin lymphoma (HL) tumor cells 4.24 nM 1X DPBS 26204224
Structure information of aptamer
Aptamer Sequence: GAGGCATACCAGCTTATTATTGGGGCCGGGGCAAGGGGGGGGTACCGTGGTAGGACAGATAGTAAGTGCAATCTGCGAA
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_759 Description aptamer #1-F
Aptamer chemistry DNA Length 79 nt
GC content 55.7% Molecular weight 24,729.82 Da
Molarity of 1 μg/μl solution 40.44 μM Number of G-quadruplexes 4
G-Score 82 Function Targeted therapy
Sequence GAGGCATACCAGCTTATTATTGGGGCCGGGGCAAGGGGGGGGTACCGTGGTAGGACAGATAGTAAGTGCAATCTGCGAA
Applications Targeted therapy of acute myeloid leukemia
Target information
Type Detail Type Detail
ATCC ID TIB-180 Cell name Hodgkin lymphoma (HL) tumor cells
Category Human cells Organism Homo sapiens, human
Product type N/A Cell type erythroblast
Morphology lymphoblast Tissue Bone; Marrow
Disease Erythroleukemia Product format Frozen
Antigen expression HLA A3, Aw32, Bw35; Ia+ Genes expressed Hemoglobin; globin (G gamma, A gamma, epsilon, eta and alpha chains); beta-2-microglobulin; glycophorin
Cell description N/A
Application(s) 3D cell culture; Immune system disorder research; Immunology
Activity data
Interaction ID 842
Target type Cell
Target unique ID TIB-180
Activity 4.24 nM
Binding Conditions/Buffer

1X DPBS
Assay

Cell-binding affinity of synthetic aptamers to cultured HEL cells at 4 ℃. Aptamer #1-F had the highest binding affinity with Kd 4.24 nM
PubMed ID 26204224
Similar aptamers
Aptamer ID Aptamer chemistry Sequence Similarity
Apta_31 DNA ATACCAGTCTATTCAATTGGGCCCGTCCGTATGGTGGGTGTGCTGGCCAGATAGTATGTGCAATCA 62.03%
Apta_589 DNA GGGAATTCGAGCTCGGTACCATCTGTGTAAGGGGTAAGGGGTGGGGGTGGGTACGTCTAGCTGCAGGCATGCAAGCTTGG 56.25%
Apta_589 DNA GGGAATTCGAGCTCGGTACCATCTGTGTAAGGGGTAAGGGGTGGGGGTGGGTACGTCTAGCTGCAGGCATGCAAGCTTGG 56.25%
Apta_76 DNA CAGCGCTAGGGCTTTTAGCGTAATGGGTAGGGTGGTGCGGTGCAGATATCGGAATTGGTG 55.70%
Apta_451 DNA ATACCAGCTTATTCAATTGAGTAAGAGTGCACTATGTTTTACGAGCCGTTTCCTCGGCAGATAGTAAGTGCAATCT 55.70%
Apta_618 DNA GCGGCAAATCAGCATACGAGTGTACAGGGACGGGACGGGTGGGTAAAAGGTGTCGCCTCAG 55.70%
Apta_455 DNA AGCTCCAGAAGATAAATTACAGGGGCCGGGGTGGCTCAGGCAAGGGGTTGACCTGTCGTAGGGATTGTTTTAACAACTAGGATACTATGACCCC 55.32%
Apta_465 DNA AGCTGACACAGCAGGTTGGTGGGGGTGGCTTCCAGTTGGGTTGACAATACGTAGGGACACGAAGTCCAACCACGAGTCGAGCAATCTCGAAAT 54.84%
Apta_1016 DNA ATACCAGCTTATTCAATTTCTTCGCCAGTGCCAGGATCTCAGTTGGCGGTTCATTAGCTGGGTTGGTCGAAGATAGTAAGTGCAATCT 54.55%
Apta_450 DNA ATACCAGCTTATTCAATTACATGTCCTGAAGGGGAATAATATACAGCTTTGGGTGGGTAGATAGTAAGTGCAATCT 54.43%
Apta_452 DNA ATACCAGCTTATTCAATTGAAGAGTATAAAAAGAGTGATTATCTTTTGTAGGTTTTTTAGATAGTAAGTGCAATCT 54.43%
Apta_884 DNA ATACCAGCTTATTCAATTTGCACCACTTATTGTTACTAATCTGAGATAGTAAGTGCAATCT 54.43%
Apta_625 DNA ATACCAGCTTATTCAATTCAGGGCGGTATGAGGCTCGATCAAGGTCGGAGCGAGAATTTTTTCGCGGAGTCGGCTGGATCAGATAGTAAGTGCAATCT 54.08%
Apta_625 DNA ATACCAGCTTATTCAATTCAGGGCGGTATGAGGCTCGATCAAGGTCGGAGCGAGAATTTTTTCGCGGAGTCGGCTGGATCAGATAGTAAGTGCAATCT 54.08%
Apta_823 DNA GGGATACCAGCTTATTCAATTTGATTCCATCTTCCTGGACTGTCGAAAATTCAGTATCGGGAGGTTACGTATTTGGTTTATAGATAGTAAGTGCAATCT 53.54%
Apta_1131 DNA GCCGAGATTGCACTTACTATCTCAAGAAGGGTAGTAAGAGGAGTGGGTGATTATGGGTAAGTTGTATGAGGTAATTGAATAAGCTGGTATGCGC 53.19%
Apta_67 DNA AGATGCCTGTCGAGCATGCTGTTGTGGTAGGGTTAGGGATGGTAGCGGTTGTAGCTAAACTGCTTTGTCGACGGG 53.16%
Apta_464 DNA GTCAGATTCCACTATAGTAGGTTGGGTAGGGTGGTCGCAGTGGATGATATGTCGTAGGGG 53.16%
Apta_805 DNA ATACCAGCTTATTCAATTAGGCGGTGCATTGTGGTTGGTAGTATACATGAGGTTTGGTTGAGACTAGTCGCAAGATATAGATAGTAAGTGCAATCT 53.12%
Apta_837 DNA TGAGCCCAAGCCCTGGTATGTGATCGGTGACGAGGGTGCGGGGCGGGGGGTGAGGCACAGGGCAGGTCTACTTTGGGATC 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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