Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 469
Aptamer sequence: GTCAGATTCCACTATAGTAGGTTGGGTAGGGTGGTCGCAGTGGATGATATGTCGTAGGGG
Target unique ID: Q4W8J3
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_464 4-1BB 07 Protein Q4W8J3_RAT 2.32 nM DPBS with 2.5 mM MgCl2, 1 mM CaCl2, 0.05% TWEEN-20 24644057
Structure information of aptamer
Aptamer Sequence: GTCAGATTCCACTATAGTAGGTTGGGTAGGGTGGTCGCAGTGGATGATATGTCGTAGGGG
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_464 Description 4-1BB 07
Aptamer chemistry DNA Length 60 nt
GC content 51.7% Molecular weight 18,793.02 Da
Molarity of 1 μg/μl solution 53.21 μM Number of G-quadruplexes 2
G-Score 20 Function Targeted binding
Sequence GTCAGATTCCACTATAGTAGGTTGGGTAGGGTGGTCGCAGTGGATGATATGTCGTAGGGG
Applications Binds specifically to thrombin
Target information
Type Detail Type Detail
Uniprot ID Q4W8J3 Protein name 4-1BB homolog
Gene name(s) 4-1BB Organism 4-1BB homolog
Status unreviewed in uniprot database Length 258
Mass 28,297 Activity regulation N/A
Involvement in disease N/A Catalytic activity N/A
PDB ID(s)
N/A
Function N/A
Activity data
Interaction ID 469
Target type Protein
Target unique ID Q4W8J3
Activity 2.32 nM
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_76 DNA CAGCGCTAGGGCTTTTAGCGTAATGGGTAGGGTGGTGCGGTGCAGATATCGGAATTGGTG 58.33%
Apta_1071 DNA TTGAAGTGACTCCGCACTGGGTGGGTGGGAGGGTCGTGCGGCTGGTCATAGCAGGGT 58.33%
Apta_1278 DNA CCATGATTCAACTTTACTGGTCTTGTCTTGGCTAGTCGTGTGTCATTCCCTAAGG 58.33%
Apta_67 DNA AGATGCCTGTCGAGCATGCTGTTGTGGTAGGGTTAGGGATGGTAGCGGTTGTAGCTAAACTGCTTTGTCGACGGG 57.33%
Apta_748 DNA AGCTTGAGGGTGGGCGGGTGGACGCGGTAGTGGTATATAGGTCGG 56.67%
Apta_1033 DNA CACAGGTTCCAGGTAATACCTAAGGGTATGCTCTCGCCTATTATATGGAGCAC 56.67%
Apta_1081 DNA CTTACGACTGTGGTCGGGTGGTGGGCCTCTAGAGGGGTGTCGTAAG 56.67%
Apta_887 DNA ACGCTCGGATGCCACTACAGGGGGGTGGTCCTGAGGGTGGTGTGGTTGGTTTGGTTTCCTCATGGACGTGCTGGTGAC 56.41%
Apta_68 DNA AGATGCCTGTCGAGCATGCTGTGAATAGGTAGGGTCGGATGGGCTACGGTGTAGCTAAACTGCTTTGTCGACGGG 56.00%
Apta_570 DNA GGCAAGATGTGCCCAGAACAGTTGCTTGTATGGTGGGGAGCGTCCATATTGGCTTAAAC 55.00%
Apta_751 DNA GGTCGCAGATGGATTAAGTATGTGGGTGGGGGGGTGGAAGTTAAT 55.00%
Apta_930 DNA TTGCACTATGTTTTAGCTAGGGTTCCCTCCGGAGATAGTAAGTGCAA 55.00%
Apta_941 DNA CGGGTGCCTTAAAGTGTAGGTGGGAGGGGGATGATTATGTACGATCAAGT 55.00%
Apta_968 DNA TAACACGACAGACGTTCGGAGGTCGAACCCTGACAGCGTGGGC 55.00%
Apta_1099 DNA ATCCATTGCCACTGACTACCAGCCGGGTGGGTGGGGGGGTTTGCTGGTATCGCATTGTGCGAAGTCAGTCGGTCGTTAGT 55.00%
Apta_1280 DNA TCATATCCTTCTTGGTATCATTGCGTCATTTAGTCATTCATGTTATTCCCGAGGG 55.00%
Apta_1136 DNA GCCGAGATTGCACTTACTATCTAAAGAAAGGTAGTAAGAGTGGGTGATTATGGGTAAGTTGTATGAGGTAATTGAATAAGCTGGTATGCGC 54.95%
Apta_1134 DNA GCCGAGATTGCACTTACTATCTGTTGAGGGAAGAAGTGGTGTAATGTGGAATAATTGTTGTAATAGTAATTGATAAGCTGGTATGCGC 54.55%
Apta_1130 DNA GCCGAGATTGCACTTACTATCTATTAGGAATAAGGTATGAATAGAGATGTATAAGTTGTGTGGACGGTGTAATTGAATAAGCTGGTATGCGC 54.35%
Apta_1137 DNA GCCGAGATTGCACTTACTATCTCAAGAAGAGTAGTAAGAGGAGTGGGTGGTTATGAGTAAGTTGTATGTGGTAATTGAATAAGCTGGTATGCGC 54.26%

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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