Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 545
Aptamer sequence: GGGCGACCCUGAUGAGCACACGAGGGGGAAACCCCGGACAAUCAGACACGGUGUUCGAAACGGUGAAAGCCGUAGGUUGCCCUUU
Target unique ID: 6022
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_522 Undefined Molecule Adenosine-5'-diphosphate 5 μM 50 mM HEPES [pH 7.4], 25 mM MgCl2, 150 mM NaCl 15123244
Structure information of aptamer
Aptamer Sequence: GGGCGACCCUGAUGAGCACACGAGGGGGAAACCCCGGACAAUCAGACACGGUGUUCGAAACGGUGAAAGCCGUAGGUUGCCCUUU
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_522 Description Undefined
Aptamer chemistry RNA Length 85 nt
GC content 58.8% Molecular weight 27,540.47 Da
Molarity of 1 μg/μl solution 36.31 μM Number of G-quadruplexes No QGRS found
G-Score N/A Function Aptasensor
Sequence GGGCGACCCUGAUGAGCACACGAGGGGGAAACCCCGGACAAUCAGACACGGUGUUCGAAACGGUGAAAGCCGUAGGUUGCCCUUU
Applications Assay of Protein Kinase Activity
Target information
Type Detail Type Detail
PubChem ID 6022 Molecular name Adenosine-5-diphosphate
Molecular formula C10H15N5O10P2 Molecular weight 427.2
IUPAC name [(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxyoxolan-2-yl]methyl phosphono hydrogen phosphate InChIKey XTWYTFMLZFPYCI-KQYNXXCUSA-N
LogP -1.746 Topological polar surface area 232.6
Hydrogen bond acceptor 12 Hydrogen bond donor 6

Synonym(s):
Adenosine 5'-diphosphate; Adenosine diphosphate; 58-64-0; adenosine-5'-diphosphate; Adenosine 5'-(trihydrogen diphosphate); ADP; adenosine pyrophosphate; adenosine 5'-pyrophosphate; ADP (nucleotide); 5'-Adenylphosphoric acid; 5'-Adp; Adenosindiphosphorsaeure; adenosine-diphosphate; Adenosine 5'-pyrophosphoric acid; Adenosine-5'-diphosphat; Adenosine 5'-diphosphoric acid; Adenosine diphosphoric acid; Ado-5'-P-P; UNII-61D2G4IYVH; H3adp; BRN 0067722; CHEBI:16761; adenosine-5-diphosphate; adenosine 5' diphosphate; 61D2G4IYVH; CHEMBL14830; ADENOSINE, 5'-(TRIHYDROGEN PYROPHOSPHATE); 1,4-Cyclohexadiene-3,3,6,6-d4; MFCD00066473; [(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxyoxolan-2-yl]methyl phosphono hydrogen phosphate; 20398-34-9; Dynorphin A (1-13), ala(2)-trp(4)-; ((2R,3S,4R,5R)-5-(6-Amino-9H-purin-9-yl)-3,4-dihydroxytetrahydrofuran-2-yl)methyl trihydrogen diphosphate; 104746-05-6; 110123-09-6; 11062-03-6; 112360-08-4; 17791-27-4; poly(4-vinylphenol-co-2-hydroxyethyl methacrylate); 4-(3-Carboxytrimethyleneoxy)-4/'/'-octylazobenzene; 18389-49-6; EINECS 200-392-5; Adenosine Diphosphate (ADP); 1amw; 1lkx; 1ucn; 1xxi; 1yrs; 2bfr; C10H15N5O10P2; a-ADP; 1ao0; 1e8h; 1hi5; 1o0h; 1oz4; 1t3t; 1y8o; ADP.H2; bmse000004; bmse000935; bmse000991; Epitope ID:137351; adenosine 5 inverted exclamation marka-diphosphate; SCHEMBL24103; Adenosine diphosphate (6CI); 4-26-00-03629 (Beilstein Handbook Reference); GTPL1712; SCHEMBL18076199; BDBM31995; DTXSID60883210; 1m74; 2c02; Adenosine-5'-Diphosphate, free acid; BDBM50368125; PDSP1_001088; PDSP2_001072; s9368; ZINC12360703; AKOS022179933; CCG-268971; CS-W011634; HY-W010918; s10970; Adenosine, 5'-(trihydrogen diphosphate); NCGC00163322-01; AC-32145; AS-11755; DB-022410; Adenosine 5'-diphosphate, >=95% (HPLC); 58A640; Adenosine 5'-(trihydrogen diphosphate) (9CI); C00008; Adenosine 5'-(trihydrogen pyrophosphate) (8CI); Adenosine 5 inverted exclamation mark -diphosphate; Q185253; J-700143; 9-{5-O-[hydroxy(phosphonooxy)phosphoryl]-b-D-glycero-pentofuranosyl}-9H-purin-6-amine; 9H-Purin-6-amine, 9-[5-O-[hydroxy(phosphonooxy)phosphinyl]-.beta.-D-ribofuranosyl]-; 9H-purin-6-amine, 9-[5-O-[hydroxy(phosphonooxy)phosphinyl]-beta-D-glycero-pentofuranosyl]-; [({[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxyoxolan-2-yl]methoxy}(hydroxy)phosphoryl)oxy]phosphonic acid; [(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxy-tetrahydrofuran-2-yl]methyl phosphono hydrogen phosphate

Activity data

No relevant experimental diagram

 Interaction ID 545
Target type Molecule
Target unique ID 6022
Activity 5 μM
Binding Conditions/Buffer

50 mM HEPES [pH 7.4], 25 mM MgCl2, 150 mM NaCl
Assay

N/A
PubMed ID 15123244
Similar aptamers
Aptamer ID Aptamer chemistry Sequence Similarity
Apta_612 RNA GGGCGACCCUGAUGAGCCUUAGGAUAUGCUUCGGCAGAAGGACGUCGAAACGGUGAAAGCCGUAGGUUGCCC 71.76%
Apta_383 RNA GGCGUGACCUGAUGAGUCACGCUAAGGAGGAUUUCCGAAAGCGGCUACGGUCCGCCAGUGUUACGAAACGUUCCC 57.65%
Apta_576 RNA GGCACCAAAGCUGAAGUAGCGGGAUAACUCAAAUUACUUUAGGUGUAUGAAGGUGAAACUAGCAAUGAA 52.94%
Apta_551 RNA GGAUGUCCAGUCGCUUGCAAUGCCCUUUUAGACCCUGAUGAGCGGUGCUAGUUAGUUGCAGUUUCGGUUGUUACGCGAAACGGUGAAAGCCGUAGGUCU 52.53%
Apta_566 RNA GGAUAAUAGCCGUAGGUUGCGAAAGCGACCCUGAUGAGCCCUGCGAUGCAGAAAGGUGCUGACGACACAUCGAAACGGUAGCGAGAGCUC 52.22%
Apta_305 RNA GGGAGGACGAUGCGGAUCGCCCUGAACCGGCCCAGCAGACUGCUGACGGCACGAUCCGCAUCGUCCUCCC 51.76%
Apta_690 RNA GGGCGAAUUCCCGAGGACCAAAUAGUACCACCCGGGAAAACAGCUAAUGCCGAAACGGAGAUUUUUUCUGCAGAAGCU 51.76%
Apta_382 RNA GGCGUGACCUGAUGAGUCACGCAGACGCUAGCGAAUUGGUUCCUCGAAAGGGGAAAGCGUUAUUAAGAAACCAAAAUGUGUUACGAAACGUUCCC 51.58%
Apta_559 RNA GGAUGUCCAGUCGCUUGCAAUGCCCUUUUAGACCCUGAUGAGGAUCAUCGGACUUUGUCCUGUGGAGUAAGAUCGCGAAACGGUGAAAGCCGUAGGUCU 51.52%
Apta_1222 RNA GGAGGCGCCAACUGAAUGAAACCGUGCUAAGGAGUUGGACUCCGCUGCUUCGGCAGAGCGAUAUAGUGCCAGCUGAUACAUCCGUAACUAGUCGCGUCAC 51.00%
Apta_130 RNA GGGAGGACGAUGCGGUGGUAGCGCGAUAUAGCGCUGGUAGGGUUGCCGGUGAUCAGACGACUCGCCCGA 50.59%
Apta_256 RNA GGGCGCUAAGUCCUCGCUCAUGCGCGUCCCAUGGGGUAUAGAGGGGUCGAAGUGGACGCGCGACUCGGAUCCU 50.59%
Apta_400 RNA GGGAGGACGAUGCGGAUACCAGCGAAUAACUCGCUGAGGAACCCGACUCACAAACAGACGACUCGCUGAGGAUCCGAGA 50.59%
Apta_428 RNA GAAGCUUACAAGAAGGACAGCACGAAUAAAACCUGCGUAAAUCCGCCCCAUUUGUGUAAGGGUAGUGGGUCGAAUUCCGCUCA 50.59%
Apta_696 RNA GAGUGCGCCCAUUGAUAAGAGCGUAGGUUCAACGGAGUCGUAGUCGUUCUCAAGUUGACGGUGCAUUAGAGUCCU 50.59%
Apta_430 RNA GGGAUAUCCUCGAGCAUAAGAAACAAGAUAGAUCCUGAAACUGUUUUAAGGUUGGCCGAUCUUCUGCUCGAGAAUGCAUGAAGCGUUCCAUAUUUUU 50.52%
Apta_549 RNA GGAGCUCAGCCUUCACUGCAUGAUAAACCGAUGCUGGGCGAUUCUCCUGAAGUAGGGGAAGAGUUGUCAUGUAUGGGGGCACCACGGUCGGAUCCUG 50.52%
Apta_874 RNA GGAUAAUAGCCGUAGGUUGCGAAAGCGACCCUGAUGAGCCUUAGGAUAUGUCUGGAUACCAUGCAUGAUGCACCUUGGCAGUCUUACAGAAGGACGUCGAAACGGUAGCGAGAGCUC 50.43%
Apta_123 RNA GGGAGAAAGGGAAGCUUGAGCAGCAGGAGGGCCGGCGUUAGGGUUAGCGAGCCGAUUGAAAGAAGAAGGAACGAGCGUACGGAUCCGAUC 50.00%
Apta_1224 RNA GGAGGCGCCAACUGAAUGAAUGUUCUGGAUCUGCUAGAGACUAUCUGCUUCGGCAGCACUCUCCGUUAACAACACGUACAUCCGUAACUAGUCGCGUCAC 50.00%

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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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