Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 648
Aptamer sequence: GGGCGACCCUGAUGAGCCUUAGGAUAUGCUUCGGCAGAAGGACGUCGAAACGGUGAAAGCCGUAGGUUGCCC
Target unique ID: 44229199
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_612 switch Molecule Flavin mononucleotide(3-) N/A 50 mM Tris-HCl (pH 7.5) and 20 mM MgCl2 10097080
Structure information of aptamer
Aptamer Sequence: GGGCGACCCUGAUGAGCCUUAGGAUAUGCUUCGGCAGAAGGACGUCGAAACGGUGAAAGCCGUAGGUUGCCC
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_612 Description switch
Aptamer chemistry RNA Length 72 nt
GC content 58.3% Molecular weight 23,332.92 Da
Molarity of 1 μg/μl solution 42.86 μM Number of G-quadruplexes No QGRS found
G-Score N/A Function Targeted binding
Sequence GGGCGACCCUGAUGAGCCUUAGGAUAUGCUUCGGCAGAAGGACGUCGAAACGGUGAAAGCCGUAGGUUGCCC
Applications Genetic control elements
Target information
Type Detail Type Detail
PubChem ID 44229199 Molecular name Flavin mononucleotide(3-)
Molecular formula C17H18N4O9P-3 Molecular weight 453.3
IUPAC name [(2R,3S,4S)-5-(7,8-dimethyl-2-oxido-4-oxobenzo[g]pteridin-10-yl)-2,3,4-trihydroxypentyl] phosphate InChIKey FVTCRASFADXXNN-SCRDCRAPSA-K
LogP -3.09 Topological polar surface area 216.84
Hydrogen bond acceptor 13 Hydrogen bond donor 3

Synonym(s):
flavin mononucleotide(3-); flavin mononucleotide; 146-17-8; FMN trianion; flavin mononucleotide trianion; riboflavin 5'-phosphate(3-); CHEBI:58210; riboflavin 5'-phosphate trianion; riboflavin 5'-monophosphate(3-); riboflavin 5'-monophosphate trianion; A922344; Q28529692; 1-deoxy-1-(7,8-dimethyl-2,4-dioxo-2H-benzo[g]pteridin-3-id-10(4H)-yl)-5-O-phosphonato-D-ribitol; 7,8-dimethyl-2,4-dioxo-10-[(2S,3S,4R)-2,3,4-trihydroxy-5-(phosphonatooxy)pentyl]-2H,3H,4H,10H-benzo[g]pteridin-3-ide

Activity data
Interaction ID 648
Target type Molecule
Target unique ID 44229199
Activity N/A
Binding Conditions/Buffer

50 mM Tris-HCl (pH 7.5) and 20 mM MgCl2
Assay

Qualitative assessment of the specificity of ligand-induced ribozyme self-cleavage. Internally 32P-labeled constructs were incubated at 23°C for 15 min in the absence (2) or presence of FMN (F; 200 mM), theophylline (T; 1 mM), or ATP (A; 1 mM)
PubMed ID 10097080
Similar aptamers
Aptamer ID Aptamer chemistry Sequence Similarity
Apta_522 RNA GGGCGACCCUGAUGAGCACACGAGGGGGAAACCCCGGACAAUCAGACACGGUGUUCGAAACGGUGAAAGCCGUAGGUUGCCCUUU 71.76%
Apta_613 RNA GGAUAAUAGCCGUAGGUUGCGAAAGCGACCCUGAUGAGCCUUAGGAUAUGCAUGAUGCAGAAGGACGUCGAAACGGUAGCGAGAGCUC 60.23%
Apta_559 RNA GGAUGUCCAGUCGCUUGCAAUGCCCUUUUAGACCCUGAUGAGGAUCAUCGGACUUUGUCCUGUGGAGUAAGAUCGCGAAACGGUGAAAGCCGUAGGUCU 58.59%
Apta_1222 RNA GGAGGCGCCAACUGAAUGAAACCGUGCUAAGGAGUUGGACUCCGCUGCUUCGGCAGAGCGAUAUAGUGCCAGCUGAUACAUCCGUAACUAGUCGCGUCAC 57.00%
Apta_1224 RNA GGAGGCGCCAACUGAAUGAAUGUUCUGGAUCUGCUAGAGACUAUCUGCUUCGGCAGCACUCUCCGUUAACAACACGUACAUCCGUAACUAGUCGCGUCAC 57.00%
Apta_383 RNA GGCGUGACCUGAUGAGUCACGCUAAGGAGGAUUUCCGAAAGCGGCUACGGUCCGCCAGUGUUACGAAACGUUCCC 56.00%
Apta_551 RNA GGAUGUCCAGUCGCUUGCAAUGCCCUUUUAGACCCUGAUGAGCGGUGCUAGUUAGUUGCAGUUUCGGUUGUUACGCGAAACGGUGAAAGCCGUAGGUCU 55.56%
Apta_447 RNA ACGCUCAACGAGCCAGGAACAUCGACGUCAGCAAACGCGAGCGCAACCAGUAACACC 54.17%
Apta_1248 RNA GGGUGACUUUUCCCUCAGGCUCCUGUGAAGCAACCGAAUGGACUGAAAUGAAACCGCCC 54.17%
Apta_1221 RNA GGAGGCGCCAACUGAAUGAACGAGUUGAAAUGCGGAUCAAGUUACUGCUUCGGCAGUACCUAGUGGGAAAAGUUCUUGGGUCCGUAACUAGUCGCGUCAC 54.00%
Apta_1225 RNA GGAGGCGCCAACUGAAUGAAAGAGGUAACGAAAGAUGAUUGUGCCUGCUUCGGCAGUACAACUUCUCGGAUAAAUGAUUAUCCGUAACUAGUCGCGUCAC 54.00%
Apta_566 RNA GGAUAAUAGCCGUAGGUUGCGAAAGCGACCCUGAUGAGCCCUGCGAUGCAGAAAGGUGCUGACGACACAUCGAAACGGUAGCGAGAGCUC 53.33%
Apta_696 RNA GAGUGCGCCCAUUGAUAAGAGCGUAGGUUCAACGGAGUCGUAGUCGUUCUCAAGUUGACGGUGCAUUAGAGUCCU 53.33%
Apta_874 RNA GGAUAAUAGCCGUAGGUUGCGAAAGCGACCCUGAUGAGCCUUAGGAUAUGUCUGGAUACCAUGCAUGAUGCACCUUGGCAGUCUUACAGAAGGACGUCGAAACGGUAGCGAGAGCUC 52.99%
Apta_410 RNA GGGAGAGCGGAAGCGUGCUGGGCCUGUCGUUCGCUGUGUCUUGCUACGUUACGUUACACGGUUGGCAUAACCCAGAGGUCGAUGG 52.94%
Apta_2 RNA GGGCUUCUCUGGUUAGACCAGAUUUGAGCCUGGGAGCUCUCUGGCUAACUAGGGAACCC 52.78%
Apta_6 RNA GGAAAGACGCUAGCGAAUUGGUUCCUCGAAAGGGGAAAGCGUUAUUAAGAAACCAAAAUUUCC 52.78%
Apta_453 RNA GGGCUAGCUGAUCGUACCAGUAGCGUGGCCUGGGGGGCCUAGUCGUGCGAUACUAACAGCUAACACCC 52.78%
Apta_414 RNA GGGAGGACGAUGCGGCCGAUUAGAACUGGGCUGAGGCGUUCUGCAUUUCGGUGAUCAGACGACUCGCUGAGGAUCCGAGA 52.50%
Apta_500 RNA GGGAGAAAGGGAAGCUUGAGGUGCUAUGGAGUGGAGGAGUUGAAGGUGUCGGGGUUGGCAGAAGAAGGCGAGCGUACGGAUCCAUC 52.33%

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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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