Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 749
Aptamer sequence: GCCATGACAACCAGAGGTACCCCCGCCCACCAGCCCCGAAGTCTGTCAGCCTAGTTGTTG
Target unique ID: 446512
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_688 OA 32 Molecule Okadaic acid 380 nM 50 mM Tris, pH 7.5, 150 mM NaCl, 2 mM MgCl2 24164310
Structure information of aptamer
Aptamer Sequence: GCCATGACAACCAGAGGTACCCCCGCCCACCAGCCCCGAAGTCTGTCAGCCTAGTTGTTG
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_688 Description OA 32
Aptamer chemistry DNA Length 60 nt
GC content 61.7% Molecular weight 18,311.72 Da
Molarity of 1 μg/μl solution 54.61 μM Number of G-quadruplexes No QGRS found
G-Score N/A Function Aptasensor
Sequence GCCATGACAACCAGAGGTACCCCCGCCCACCAGCCCCGAAGTCTGTCAGCCTAGTTGTTG
Applications Detection of okadaic acid (OA)
Target information
Type Detail Type Detail
PubChem ID 446512 Molecular name Okadaic acid
Molecular formula C44H68O13 Molecular weight 805
IUPAC name (2R)-3-[(2S,6R,8S,11R)-2-[(E,2R)-4-[(2S,2R,4R,4aS,6R,8aR)-4-hydroxy-2-[(1S,3S)-1-hydroxy-3-[(2S,3R,6S)-3-methyl-1,7-dioxaspiro[5.5]undecan-2-yl]butyl]-3-methylidenespiro[4a,7,8,8a-tetrahydro-4H-pyrano[3,2-b]pyran-6,5-oxolane]-2-yl]but-3-en-2-yl]-11-hydroxy-4-methyl-1,7-dioxaspiro[5.5]undec-4-en-8-yl]-2-hydroxy-2-methylpropanoic acid InChIKey QNDVLZJODHBUFM-WFXQOWMNSA-N
LogP 5.214 Topological polar surface area 182.83
Hydrogen bond acceptor 12 Hydrogen bond donor 5

Synonym(s):
okadaic acid; 78111-17-8; C44H68O13; 9,10-Deepithio-9,10-didehydroacanthifolicin; CHEMBL280487; CHEBI:44658; MFCD00083455; UNII-1W21G5Q4N2; (2R)-3-[(2S,5R,6R,8S)-8-[(2R,3E)-4-[(2R,4'aR,5R,6'S,8'R,8'aS)-8'-hydroxy-6'-[(1S,3S)-1-hydroxy-3-[(2S,3R,6S)-3-methyl-1,7-dioxaspiro[5.5]undecan-2-yl]butyl]-7'-methylidene-hexahydro-3'H-spiro[oxolane-2,2'-pyrano[3,2-b]pyran]-5-yl]but-3-en-2-yl]-5-hydroxy-10-methyl-1,7-dioxaspiro[5.5]undec-10-en-2-yl]-2-hydroxy-2-methylpropanoic acid; OKA; 1W21G5Q4N2; Okadaic acid (+Na); Okadaic acid from Prorocentrum concavum; 1jk7; Probes1_000180; SCHEMBL131485; CHEMBL158524; GTPL5349; DTXSID60880002; 1u32; HY-N6785; BDBM50097634; BDBM50110676; ZINC85601542; DB02169; CS-0014219; Q414042; Okadaic acid from Prorocentrum concavum, 92-100% (HPLC); Okadaic acid from Prorocentrum concavum, >=90% (HPLC), translucent film; (2R)-2-hydroxy-3-[(2S,5R,6R,8S)-5-hydroxy-8-{(1R,2E)-3-[(2R,4a'R,5R,6'S,8'R,8a'S)-8'-hydroxy-6'-{(1S,3S)-1-hydroxy-3-[(2S,3R,6S)-3-methyl-1,7-dioxaspiro[5.5]undec-2-yl]butyl}-7'-methylideneoctahydro-3H,3'H-spiro[furan-2,2'-pyrano[3,2-b]pyran]-5-yl]-1-methylprop-2-en-1-yl}-10-methyl-1,7-dioxaspiro[5.5]undec-10-en-2-yl]-2-methylpropanoic acid

Activity data

No relevant experimental diagram

 Interaction ID 749
Target type Molecule
Target unique ID 446512
Activity 380 nM
Binding Conditions/Buffer

50 mM Tris, pH 7.5, 150 mM NaCl, 2 mM MgCl2
Assay

N/A
PubMed ID 24164310
Similar aptamers
Aptamer ID Aptamer chemistry Sequence Similarity
Apta_1264 DNA CAACGATCGTACCACAGTACCCACCCACCAGCCCCAACATCATGCCCATGCGTCGGTGTG 63.33%
Apta_1267 DNA GGCACGGCAAAGGGGTACAGCCTACCGAACCGTGGCTGTAAGGGTGGTTGTGGTGTG 58.33%
Apta_687 DNA GGGACAGCGGAGGTCTCCCACCCACCGGCCCCTGCGGCACACCAACCTGTATGGATGCG 56.67%
Apta_1220 DNA TGGCGACAAGAAGACGTACAAACACGCACCAGGCCGGAGTGGAGTATTCTGAGGTCGG 56.67%
Apta_995 DNA GCAATGGTACGGTACTTCCCCACCCCACGCTGCTCCCAAAAGTGCACGCTACTTTGCTAA 55.00%
Apta_1228 DNA GGCCACCAAACCACACCGTCGCAACCGCGAGAACCGAAGTAGTGATCATGTCCCTGCGTG 55.00%
Apta_1233 DNA TCACGAGAGAGCGAGAGCGCCCCCCCACCACAGCCGTCACCACCCTATTCCTCTGCCGTTG 54.10%
Apta_866 DNA CTCCTCTGACTGTAACCACGACCGCCTTCCACCGTTCTCCACCACCCCTCAAACAACCCTGCATAGGTAGTCCAGAAGCC 53.75%
Apta_689 DNA CCACACAACAGCCTACGTGGATACACCACATACATCCCATAACCCCGTGTCATGTGTCG 53.33%
Apta_1232 DNA GGCCACACAAACAACATGACAACACGTCTCACATAACGCCCACGTGCTGCCGCCTCATCG 53.33%
Apta_336 DNA CATGCTTCCCCAGGGAGATGACCGGGGCGTACACCGTCGCGGCACATGTCTGAATGCGTTTAGTCTCTGTGG 52.78%
Apta_998 DNA ATAGGAGTCGACCGACCAGACCAACCCTACGCGTACCAACCAGATGACCTACGTGCGTCTACATCTAGACTC 52.78%
Apta_1001 DNA ATAGGAGTCGACCGACCAGACAACCCTACGCGTACCAACCAGATGACCTACGTGCGTCTACATCTAGACTC 52.11%
Apta_1001 DNA ATAGGAGTCGACCGACCAGACAACCCTACGCGTACCAACCAGATGACCTACGTGCGTCTACATCTAGACTC 52.11%
Apta_1009 DNA ATAGGAGTCGACCGACCAGACCAACCCTACGCTCGTACCAACCAGATGACCTACGTGGCGTCTACATCTAGACTC 52.00%
Apta_257 DNA GGCAGAAGAAATATCGAAACCCAGAATGGTCGGCCAGGCG 51.67%
Apta_730 DNA ACCAAACACAGATGCAACCTGACTTCTAACGTCATTTGGTG 51.67%
Apta_777 DNA GAGCCCTATCTCACACCGCACCCGCAAACTATCATCCTACATG 51.67%
Apta_875 DNA GCCGCGACCATACAACGCAAACAACACGCCTGTACGCTTG 51.67%
Apta_993 DNA AATCCGACCACGAGAGCAGACCGACCACAGCATTATCTAAACCCATTAGTCTAGTCCTGG 51.67%

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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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