Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 531
Aptamer sequence: GCGGGCGATCGGCGGGGGGTGCGTGCGCTCTGTGCCAGGGGGTGGGACAGATCATATGGGGGTGCT
Target unique ID: 135440064
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_508 No.22 Molecule 8-Hydroxy-2'-deoxyguanosine 0.1 μM 50 mM Tris-HCl (pH 7.6), 300 mM NaCl, 30 mM KCl, and 5 mM MgCl2 19450981
Structure information of aptamer
Aptamer Sequence: GCGGGCGATCGGCGGGGGGTGCGTGCGCTCTGTGCCAGGGGGTGGGACAGATCATATGGGGGTGCT
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_508 Description No.22
Aptamer chemistry DNA Length 66 nt
GC content 71.2% Molecular weight 20,733.17 Da
Molarity of 1 μg/μl solution 48.23 μM Number of G-quadruplexes 3
G-Score 54 Function Targeted binding
Sequence GCGGGCGATCGGCGGGGGGTGCGTGCGCTCTGTGCCAGGGGGTGGGACAGATCATATGGGGGTGCT
Applications Binding to 8-OHdG
Target information
Type Detail Type Detail
PubChem ID 135440064 Molecular name 8-Hydroxy-2-deoxyguanosine
Molecular formula C10H13N5O5 Molecular weight 283.24
IUPAC name 2-amino-9-[(2R,4S,5R)-4-hydroxy-5-(hydroxymethyl)oxolan-2-yl]-1,7-dihydropurine-6,8-dione InChIKey HCAJQHYUCKICQH-VPENINKCSA-N
LogP -2.364 Topological polar surface area 159.25
Hydrogen bond acceptor 8 Hydrogen bond donor 5

Synonym(s):
88847-89-6; 8-Hydroxy-2'-deoxyguanosine; 8-Oxo-dG; 8-Oxo-2'-deoxyguanosine; 8-Hydroxydeoxyguanosine; 8-Oxo-7,8-dihydro-2'-deoxyguanosine; 8-OHdG; 8-Oxo-7-hydrodeoxyguanosine; 8-Oxo-2'-deoxyguanine; 2'-deoxy-8-oxoguanosine; Guanosine, 2'-deoxy-7,8-dihydro-8-oxo-; 2-Amino-9-((2R,4S,5R)-4-hydroxy-5-(hydroxymethyl)tetrahydrofuran-2-yl)-3H-purine-6,8(7H,9H)-dione; 7,8-Dihydro-2'-deoxy-8-oxoguanosine; 8-hydroxy-deoxyguanosine; CHEBI:40304; 8-oxo-2'-dG; UNII-4RGB38T3IB; CID 5287560; 4RGB38T3IB; 2-amino-9-[(2R,4S,5R)-4-hydroxy-5-(hydroxymethyl)oxolan-2-yl]-3,7-dihydropurine-6,8-dione; 8HG; 8-oxodG; 8-oxo-7,8-dihydrodeoxyguanosine; 7,8-dihydro-8-oxo-2'-deoxyguanosine; 2'-deoxy-8-hydroxyguanosine; CCRIS 8239; 7,8-Dihydro-8-oxodeoxyguanosine; oh8dG; 2'-deoxy-7,8-dihydro-8-oxoguanosine; 8 Oxo dG; 8-Hydroxydesoxyguanosin; 2a5b; 8-hydroxydeoxy-guanosine; 8 OHdG; Guanosine, 7,8-dihydro-2'-deoxy-8-oxo-; Epitope ID:151526; 8-hydroxy-2'deoxyguanosine; 8-hydroxy-2-deoxyguanosine; SCHEMBL114652; CHEMBL1230628; DTXSID60904338; HMS3649O10; 1510AH; MFCD00210311; ZINC16051666; 8-Oxo-2'-deoxyguanosine (8-Oxo-dG); CS-W012256; DB02502; HY-W011540; AC-32342; AS-74648; A848840; Q270154; SR-01000946628; SR-01000946628-1; 8-Hydroxy-2 inverted exclamation marka-deoxyguanosine; 8-Hydroxy-2''-Deoxyguanosine; 8-Hydroxydeoxyguanosine; 2-Amino-9-(2-deoxyribofuranosyl)-3,7-dihydropurine-6,8-dione; 2-amino-8-hydroxy-9-((2R,4S,5R)-4-hydroxy-5-(hydroxymethyl)tetrahydrofuran-2-yl)-1H-purin-6(9H)-one; 2-amino-8-hydroxy-9-[(2R,4S,5R)-4-hydroxy-5-(hydroxymethyl)oxolan-2-yl]-6,9-dihydro-1H-purin-6-one; 2-amino-8-hydroxy-9-[(2R,4S,5R)-4-hydroxy-5-(hydroxymethyl)tetrahydrofuran-2-yl]-1H-purin-6-one; 2-amino-9-[(2R,4S,5R)-4-hydroxy-5-(hydroxymethyl)oxolan-2-yl]-6,7,8,9-tetrahydro-3H-purine-6,8-dione; 8-Hydroxydeoxyguanosine?2-amino-8-hydroxy-9-((2S,4R,5S)-4-hydroxy-5-(hydroxymethyl)-tetrahydrofuran-2-yl)-1H-purin-6(9H)-one; 8-Hydroxydeoxyguanosine2-amino-8-hydroxy-9-((2S,4R,5S)-4-hydroxy-5-(hydroxymethyl)-tetrahydrofuran-2-yl)-1H-purin-6(9H)-one

Activity data
Interaction ID 531
Target type Molecule
Target unique ID 135440064
Activity 0.1 μM
Binding Conditions/Buffer

50 mM Tris-HCl (pH 7.6), 300 mM NaCl, 30 mM KCl, and 5 mM MgCl2
Assay

Binding affifinities of the aptamers for 8-OHdG
PubMed ID 19450981
Similar aptamers
Aptamer ID Aptamer chemistry Sequence Similarity
Apta_617 DNA CAATGGGGTCGGGCGGGCCGGGTGTCATGGTGGACGGAGATGGGACGTAGAGGGCGGT 57.58%
Apta_832 DNA CCGGAGGTGGGTGAGGTCTGCGGCAGGCTGTGTGGGTGGACCGGAGGGGGGTGAGGTCTGCGGCAGGCTGTGTGGGTGGA 56.25%
Apta_1046 DNA TCGCATGGAGGGCAGAGCCGCCTGCCGGGATCCGGCCCTCTTGGGCGGGC 56.06%
Apta_223 DNA CATTGAGATAGCTAGTTGTAGCTGCGTCATAGGCTGGGTTGGGTCTAGTGGTTGGGTGTG 54.55%
Apta_565 DNA GCGGGGTTGGGCGGGTGGGTTCGCTGGGCAGGGGGCGAGTG 54.55%
Apta_609 DNA GCTGCGAGGTGGGTGGGTGGGAGCAATTGGTCCTCGCTTAGCTTCTACGGTGGGCTATCT 54.55%
Apta_611 DNA GCTGCGAGGTGGGTGGGTGGGAGCAATTGGTCCTTGCTTAGCTTCTACGGTGGGCTATCT 54.55%
Apta_615 DNA ACGAAGAAACAGGGCGCTTCGAACGAACATGGGCAGGGTGGGAAGTTTTAAAGTGGTAC 54.55%
Apta_746 DNA AGAGTGGGGGGGTGGGTGGATTTGACAGGTGGCATGCTGGAGAGT 54.55%
Apta_754 DNA GGGCGGGGAGTAGGGAGAGGGGTTTCCATCGGCGACAGAGGAGTTATGTGTGT 54.55%
Apta_756 DNA GGGGGACACGGAGGTGGTGGAAAGGCTAAGATTTGATGATGAGTAGTGTGGT 54.55%
Apta_940 DNA TGTGCGGGGGAGGGGAGTGGCGCTGTTGGTGCGGGTATAGCGCGTGGTGT 54.55%
Apta_1035 DNA ATGCGGATCCCGCGCGGGTCTGAGGAGTGCGCGGTGCCAGTGAGTGCGCGAAGCTTGCGC 54.55%
Apta_1189 DNA GCGGGCGGGGGGAGGGCGGCCGTGGGCTGCGAGTGGGAGG 54.55%
Apta_1230 DNA GGCGATAGGCAGTGTTGCGGGGTCGGAGAGCGAGGTAATAGCGTGTATGGGTGCTGTGTG 54.55%
Apta_656 DNA GCACACCGATGGCGGTCCTGTTTTACGGTAGCTTATATGCAGGGGGTGTGCGTGGGGAGGTGCGGTTGC 53.62%
Apta_567 DNA CCTAAGGGGGGACTCAGCATTTTGTGCGGGCGGCGCTAACACAATCAGATAGAGCGGGGTT 53.03%
Apta_610 DNA GCTGTGAGGTGGGTGGGTGGGAGCAATTGGTCCTCGCTTAGCTTCTACGGTGGGCTATCT 53.03%
Apta_650 DNA GCACACCGATGGCGGTCCTGTTTAGGGGGTGTGCGTGGGGAGGTGCGGTTGC 53.03%
Apta_1071 DNA TTGAAGTGACTCCGCACTGGGTGGGTGGGAGGGTCGTGCGGCTGGTCATAGCAGGGT 53.03%

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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