Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 543
Aptamer sequence: GGGAGAUCUACGGAUCUCAGGGCUCUUACGGGAGCUACAUGGAAGGAGUCCAUGUGU
Target unique ID: 5957
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_520 1-1min Molecule Adenosine-5'-triphosphate 4.8 μM 300 mM NaCl, 10 mM MgCl2; 30 mM MgCl2, 0.1 mM EDTA, and 25 mM Tris (pH 7.8) 15237981
Structure information of aptamer
Aptamer Sequence: GGGAGAUCUACGGAUCUCAGGGCUCUUACGGGAGCUACAUGGAAGGAGUCCAUGUGU
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_520 Description 1-1min
Aptamer chemistry RNA Length 57 nt
GC content 54.4% Molecular weight 18,458.98 Da
Molarity of 1 μg/μl solution 54.17 μM Number of G-quadruplexes 2
G-Score 20 Function Targeted binding
Sequence GGGAGAUCUACGGAUCUCAGGGCUCUUACGGGAGCUACAUGGAAGGAGUCCAUGUGU
Applications Binding to ATP
Target information
Type Detail Type Detail
PubChem ID 5957 Molecular name Adenosine-5-triphosphate
Molecular formula C10H16N5O13P3 Molecular weight 507.18
IUPAC name [[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxyoxolan-2-yl]methoxy-hydroxyphosphoryl] phosphono hydrogen phosphate InChIKey ZKHQWZAMYRWXGA-KQYNXXCUSA-N
LogP -1.629 Topological polar surface area 279.13
Hydrogen bond acceptor 14 Hydrogen bond donor 7

Synonym(s):
Adenosine triphosphate; 56-65-5; Adenosine 5'-triphosphate; ATP; Triphosphaden; adenosine-5'-triphosphate; Myotriphos; Striadyne; Triadenyl; Adephos; Atriphos; Atipi; Adenosine 5'-(tetrahydrogen triphosphate); Glucobasin; Adetol; Adynol; 5'-Atp; Triphosaden; Adenylpyrophosphoric acid; Triphosphoric acid adenosine ester; ATP (nucleotide); Adenosine 5'-triphosphoric acid; Cardenosine; Fosfobion; Adenosintriphosphorsaeure; adenosine-triphosphate; Ado-5'-P-P-P; Ara-ATP; H4atp; UNII-8L70Q75FXE; 9-beta-D-Arabinofuranosyladenine 5'-triphosphate; CHEBI:15422; adenylpyrophosphate; Adenosine, 5'-(tetrahydrogen triphosphate); adenosine 5' triphosphate; 3-Methylbenzo[d]thiazol-3-iuM chloride; CHEMBL14249; 8L70Q75FXE; 11016-17-4; adenosine-5'-triphosphoric acid; [[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxyoxolan-2-yl]methoxy-hydroxyphosphoryl] phosphono hydrogen phosphate; 119439-06-4; NCGC00163309-01; ((2R,3S,4R,5R)-5-(6-Amino-9H-purin-9-yl)-3,4-dihydroxytetrahydrofuran-2-yl)methyl tetrahydrogen triphosphate; 126339-06-8; 126827-79-0; Phosphobion; C10H16N5O13P3; 51963-61-2; EINECS 200-283-2; MFCD00065467; 1kxp; 1mau; 1maw; 1vjc; 1vjd; 1xsc; 1yid; 2cbz; 2fgh; Adenylpyrophosphorate; Adenosine triphosphat-; Triphosadenine (DCF); 1gz3; 1gz4; 1r0x; 1y8p; BDBM2; 3h-adenosine triphosphate; Adenosine 5 inverted exclamation mark -triphosphate; DSSTox_CID_2559; 5'-Adenyldiphosphoric acid; bmse000006; bmse000854; bmse000993; Epitope ID:135612; Adenosine 5'-triphosphorate; SCHEMBL8979; DSSTox_RID_76629; DSSTox_GSID_22559; GTPL1713; DTXSID6022559; 1b38; 1b39; 1m83; 1r10; 1t44; Bio1_000406; Bio1_000895; Bio1_001384; ACT02649; AMY22292; HY-B2176; ZINC4261765; Tox21_112044; BDBM50366480; s5260; AKOS022179934; CS-7674; DB00171; CAS-56-65-5; Adenosine 5'-triphosphate; Triphosphaden; [[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxy-tetrahydrofuran-2-yl]methoxy-hydroxy-phosphoryl] phosphono hydrogen phosphate; 5'-(tetrahydrogen triphosphate) Adenosine; AC-32151; Adenosine-5'-(tetrahydrogen triphosphate); AS-19204; DB-022415; X5319; C00002; D08646; D70159; Q80863; 065A467; A831137; W-105506; A9788C43-4BC5-46E2-8560-41C5FA7D3AA3; 9H-purin-6-amine, 9-[5-O-[hydroxy[[hydroxy(phosphonooxy)phosphinyl]oxy]phosphinyl]; ({[({[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxyoxolan-2-yl]methoxy}(hydroxy)phosphoryl)oxy](hydroxy)phosphoryl}oxy)phosphonic acid; [(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxyoxolan-2-yl]methyl (hydroxy-phosphonooxyphosphoryl) hydrogen phosphate; [(2R,3S,4R,5R)-5-(6-Aminopurin-9-yl)-3,4-dihydroxyoxolan-2-yl]methyl (hydroxy-phosphonooxyphosphoryl) hydrogen phosphate;((2R,3S,4R,5R)-5-(6-Amino-9H-purin-9-yl)-3,4-dihydroxytetrahydrofuran-2-yl)methyl tetrahydrogen triphosphate; [[[(2R,3S,4R,5R)-5-(6-Aminopurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methoxy-hydroxy-phosphoryl]oxy-hydroxy-phosphoryl]oxyphosphonic acid; 9H-Purin-6-amine, 9-[5-O-[hydroxy[[hydroxy(phosphonooxy)phosphinyl]oxy]phosphinyl]-.beta.-D-ribofuranosyl]-

Activity data
Interaction ID 543
Target type Molecule
Target unique ID 5957
Activity 4.8 μM
Binding Conditions/Buffer

300 mM NaCl, 10 mM MgCl2; 30 mM MgCl2, 0.1 mM EDTA, and 25 mM Tris (pH 7.8)
Assay

Binding of the 1-1min aptamer to ATP
PubMed ID 15237981
Similar aptamers
Aptamer ID Aptamer chemistry Sequence Similarity
Apta_415 RNA GGGAGGACGAUGCGGAAACUCAUCGGUAGCCUUCCUGCGGUCAGUCUAUUAGGACCAGACGACUCGCUGAGGAUCCGAGA 55.00%
Apta_703 RNA GGGCGGAUGAGACGCUUGGCGUGUGCUGUGGAGAGUCAUCCG 54.39%
Apta_1288 RNA GGCGCACUGGCGCUGCGCCUUCGGGCGCCAAUCGUAGCGUGUCGGCGCC 54.39%
Apta_394 RNA GGGCGAAUUCAACUGCCAUCUAGGCAGUAACCAGGAGUUAGUAGGACAAGUUUCGUCC 53.45%
Apta_224 RNA GGGGCCACCAACGACAUUGAACCACGUAGGCUCGUUUCUGAGCCGAUCUCGAUGUUGAUAUAAAUAGUGCCCAUGGAUC 53.16%
Apta_225 RNA GGGGCCACCAACGACAUUUAUCGAAUUGAUAACCUUACGCGAGAGCGUAGUUCGUUGAUAUAAAUAGUGCCCAUGGAUC 53.16%
Apta_793 RNA GGGAGAGAACAAUGACCUGCGGUGCCAAGCCGUCGGGUUAUGUUGAUCUCCUCAAGGACGAGUGCAUUGCAUCACGUCAGUAG 53.01%
Apta_135 RNA GGGAGGACGAUGCGGAUUCUGGUUACUGGCCGCCCCAGACGACUCGCCCGA 52.63%
Apta_381 RNA AUUCUGUUGGCGAACUGUACGCAAGUACUGGAUGACAGCCUAUCUAU 52.63%
Apta_623 RNA GGGAAUGGAUCCACAUCUACGAAUUCACCGCGGGGUUGCGGACCGGGAGCUCCAGCUUCACUGCAGACUUGACGAAGCUU 52.50%
Apta_400 RNA GGGAGGACGAUGCGGAUACCAGCGAAUAACUCGCUGAGGAACCCGACUCACAAACAGACGACUCGCUGAGGAUCCGAGA 51.90%
Apta_38 RNA GGUAGAUACGAUGGAUACCCCCUGUGGCCCGUCAACACAGGGGAAGUGGCAUGACGCGCAGCCA 51.56%
Apta_305 RNA GGGAGGACGAUGCGGAUCGCCCUGAACCGGCCCAGCAGACUGCUGACGGCACGAUCCGCAUCGUCCUCCC 51.43%
Apta_612 RNA GGGCGACCCUGAUGAGCCUUAGGAUAUGCUUCGGCAGAAGGACGUCGAAACGGUGAAAGCCGUAGGUUGCCC 51.39%
Apta_414 RNA GGGAGGACGAUGCGGCCGAUUAGAACUGGGCUGAGGCGUUCUGCAUUUCGGUGAUCAGACGACUCGCUGAGGAUCCGAGA 51.25%
Apta_243 RNA GCUUGAAGCUAGCAGUAAGACUAGCGCUACGGAUGGGUGUGCG 50.88%
Apta_859 RNA GGGAGUCUGAAGUCGGACUUGUUAUCAAUUCACUUCAGACU 50.88%
Apta_718 RNA GGGUUGUGAGCUCCCGGCUCGCAUUGUGAGGUGGAGGGGGACGUGCUGCAGGUCGACGCAUGCGCCG 50.75%
Apta_1168 RNA GCGACUACGGUGAGGGUCGGGUCCAGUAGCUUCGGCUACUGUUGAGUAGAGUGUGGGCUCCGUAGUCGC 50.72%
Apta_256 RNA GGGCGCUAAGUCCUCGCUCAUGCGCGUCCCAUGGGGUAUAGAGGGGUCGAAGUGGACGCGCGACUCGGAUCCU 50.68%

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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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