Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 776
Aptamer sequence: GGGCGGAUGAGACGCUUGGCGUGUGCUGUGGAGAGUCAUCCG
Target unique ID: 439155
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_703 CTH-5 Molecule S-adenosyl-L-homocysteine 0.1 nM 300 mM NaCl, 25 mM Tris (pH 7.6), 5 mM MgCl2 10852725
Structure information of aptamer
Aptamer Sequence: GGGCGGAUGAGACGCUUGGCGUGUGCUGUGGAGAGUCAUCCG
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_703 Description CTH-5
Aptamer chemistry RNA Length 42 nt
GC content 64.3% Molecular weight 13,669.12 Da
Molarity of 1 μg/μl solution 73.16 μM Number of G-quadruplexes No QGRS found
G-Score N/A Function Target detection
Sequence GGGCGGAUGAGACGCUUGGCGUGUGCUGUGGAGAGUCAUCCG
Applications Detection of S-adenosylhomocysteine
Target information
Type Detail Type Detail
PubChem ID 439155 Molecular name S-adenosyl-L-homocysteine
Molecular formula C14H20N6O5S Molecular weight 384.41
IUPAC name (2S)-2-amino-4-[[(2S,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxyoxolan-2-yl]methylsulfanyl]butanoic acid InChIKey ZJUKTBDSGOFHSH-WFMPWKQPSA-N
LogP -1.437 Topological polar surface area 182.63
Hydrogen bond acceptor 11 Hydrogen bond donor 5

Synonym(s):
S-adenosylhomocysteine; S-adenosyl-L-homocysteine; 979-92-0; AdoHcy; S-(5'-deoxyadenosin-5'-yl)-L-homocysteine; S-(5'-adenosyl)-L-homocysteine; adenosylhomocysteine; Formycinylhomocysteine; Adenosyl-L-homocysteine; 2-S-adenosyl-L-homocysteine; 5'-Deoxy-S-adenosyl-L-homocysteine; L-Homocysteine, S-(5'-deoxyadenosin-5'-yl)-; S-adenosyl-homocysteine; S-Adenosyl Homocysteine; L-S-Adenosylhomocysteine; adenosylhomo-cys; adenosyl-homo-cys; SAH; UNII-8K31Q2S66S; BRN 5166233; (S)-5'-(S)-(3-Amino-3-carboxypropyl)-5'-thioadenosine; S-(5'-Deoxyadenosine-5')-L-homocysteine; CHEMBL418052; CHEBI:16680; 8K31Q2S66S; MFCD00037388; D-Ribitol, 5-S-(3-amino-3-carboxypropyl)-1-C-(7-amino-1H-pyrazolo(4,3-d)pyrimidin-3-yl)-1,4-anhydro-5-thio-, (1S,5(S))-; S-[1-(adenin-9-yl)-1,5-dideoxy-beta-D-ribofuranos-5-yl]-L-homocysteine; (2S)-2-amino-4-({[(2S,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxyoxolan-2-yl]methyl}sulfanyl)butanoic acid; C14H20N6O5S; 1aqi; 1jqd; 1qan; 2bqz; EINECS 213-560-8; 1nw7; 1s4d; L-S-adenosyl-Homocysteine; bmse000289; SCHEMBL8836; GTPL5265; DTXSID30895860; 2h23; S-Adenosyl-L-homocysteine (SAH); S-(5''-adenosyl)-L-homocysteine; ZINC4228232; BDBM50009672; AKOS022184395; CCG-208703; DB01752; NCGC00263623-01; NCGC00263623-02; NCGC00263623-03; AS-64957; HY-19528; AB0033304; CS-0015632; FT-0771999; Homocysteine, S-adenosyl-, L- (6CI,7CI); S-(5'-Adenosyl)-L-homocysteine; S7868; X6831; S-(5'-Adenosyl)-L-homocysteine, crystalline; C00021; S-(5''-deoxyadenosin-5''-yl)-L-homocysteine; US8895245, S-Adenosyl-L-homocysteine (SAH); A858597; Q307434; 5'-S-(3-amino-3-carboxypropyl)-5'-thio-L-Adenosine; L-Homocysteine, S-(5'-deoxyadenosin-5'-yl)- (9CI); L-5'-S-(3-amino-3-carboxypropyl)-5'-thior-Adenosine; adenosine, 5'-S-[(3S)-3-amino-3-carboxypropyl]-5'-thio-; Adenosine, 5'-S-(3-amino-3-carboxypropyl)-5'-thio-, L- (8CI); S-Adenosyl-L-homocysteine, United States Pharmacopeia (USP) Reference Standard; (2S)-2-amino-4-({[(2S,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methyl}sulfanyl)butanoic acid (non-preferred name); (S)-2-amino-4-(((2S,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxytetrahydrofuran-2-yl)methylthio)butanoic acid

Activity data
Interaction ID 776
Target type Molecule
Target unique ID 439155
Activity 0.1 nM
Binding Conditions/Buffer

300 mM NaCl, 25 mM Tris (pH 7.6), 5 mM MgCl2
Assay

Binding specificity in the biosensor
PubMed ID 10852725
Similar aptamers
Aptamer ID Aptamer chemistry Sequence Similarity
Apta_131 RNA GGGAGGACGAUGCGGUCCUGUCGUCUGUUCGUCCCCAGACGACUCGCCCGA 58.82%
Apta_134 RNA GGGAGGACGAUGCGGGCCGUUGUUGUGUGCCGCCCCAGACGACUCGCCCGA 58.82%
Apta_304 RNA CGGCCGAUAGAAAGACUACUUGAGCCCUUAAAUGAGGUUAUGUGCGGCCG 58.00%
Apta_230 RNA GGGAGGACGAUGCGGGCGUGAAUGGUGUUGUGAGG 57.14%
Apta_231 RNA GGGAGGACGAUGCGGGUGUGGGGCG 57.14%
Apta_1167 RNA GGCGCGAGGAAGGAGGUCUGAGGAGGUCACUGCGCC 57.14%
Apta_394 RNA GGGCGAAUUCAACUGCCAUCUAGGCAGUAACCAGGAGUUAGUAGGACAAGUUUCGUCC 55.17%
Apta_132 RNA GGGAGGACGAUGCGGCGUUUCCUCUGGUUCGUCCCCAGACGACUCGCCCGA 54.90%
Apta_133 RNA GGGAGGACGAUGCGGUGAGUCGUUCCCUUCGUCCCCAGACGACUCGCCCGA 54.90%
Apta_315 RNA GGGAGGACGAUGCGGUCGUAUUAUCCGCUGCACGCCAGACGACUCGCCCGA 54.90%
Apta_98 RNA CGAUGCGGUCUCAUGCGUCGAGUGUGAGUUUACCUUCG 54.76%
Apta_370 RNA GGGAGGACGCGUCGCCGUAAUGGAUGUUUUGCUCCCUG 54.76%
Apta_521 RNA GGGUUGGGAAGAAACUGUGGCACUUCGGUGCCAGCAACCC 54.76%
Apta_606 RNA CGGUUGGAUGGGUGUUGGUGGUUUGUUGAGUCCAGGCGGC 54.76%
Apta_634 RNA GGUCUUACGUCGUUCGCGACUAUUGGGAGACC 54.76%
Apta_402 RNA GCCUGUAAGGUGGUCGGUGUGGCGAGUGUGUUAGGAGAGAUUGC 54.55%
Apta_520 RNA GGGAGAUCUACGGAUCUCAGGGCUCUUACGGGAGCUACAUGGAAGGAGUCCAUGUGU 54.39%
Apta_135 RNA GGGAGGACGAUGCGGAUUCUGGUUACUGGCCGCCCCAGACGACUCGCCCGA 52.94%
Apta_172 RNA GGAGACAUCCCUCUUGUUGGUGGUGCCGUGUGGAUGUCUC 52.38%
Apta_289 RNA GGGGGCUUAUCAUUCCAUUUAGUGUUAUGAUAACC 52.38%

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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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