Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 712
Aptamer sequence: CGCCAATCTCAAAGCCCGCCACCTGCCCCTCACTGCCCACCTGTGGAATCCATGTCGCTC
Target unique ID: 445434
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_665 RC22 Molecule Microcystin-LR 84 nM 50 mM Tris, pH 7.5, 150 mM NaCl, and 2 mM MgCl2 22958101
Structure information of aptamer
Aptamer Sequence: CGCCAATCTCAAAGCCCGCCACCTGCCCCTCACTGCCCACCTGTGGAATCCATGTCGCTC
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_665 Description RC22
Aptamer chemistry DNA Length 60 nt
GC content 63.3% Molecular weight 18,118.59 Da
Molarity of 1 μg/μl solution 55.19 μM Number of G-quadruplexes No QGRS found
G-Score N/A Function Aptasensor
Sequence CGCCAATCTCAAAGCCCGCCACCTGCCCCTCACTGCCCACCTGTGGAATCCATGTCGCTC
Applications Application in microcystin detection
Target information
Type Detail Type Detail
PubChem ID 445434 Molecular name Microcystin-LR
Molecular formula C49H74N10O12 Molecular weight 995.2
IUPAC name (5R,8S,11R,12S,15S,18S,19S,22R)-15-[3-(diaminomethylideneamino)propyl]-18-[(1E,3E,5S,6S)-6-methoxy-3,5-dimethyl-7-phenylhepta-1,3-dienyl]-1,5,12,19-tetramethyl-2-methylidene-8-(2-methylpropyl)-3,6,9,13,16,20,25-heptaoxo-1,4,7,10,14,17,21-heptazacyclopentacosane-11,22-dicarboxylic acid InChIKey ZYZCGGRZINLQBL-GWRQVWKTSA-N
LogP 0.618 Topological polar surface area 343.14
Hydrogen bond acceptor 11 Hydrogen bond donor 10

Synonym(s):
Microcystin-LR; Microcystin LR; 101043-37-2; Cyanoginosin LR; Toxin-LR; Microcystis aeruginosa toxin; Toxin I (Microcystis aeruginosa); UNII-EQ8332842Y; Cyanoginosin LA, 5-L-arginine-; CHEBI:6925; CHEMBL444092; MCYST-LR; C49H74N10O12; EQ8332842Y; Cyanoginosin-LR; (5R,8S,11R,12S,15S,18S,19S,22R)-15-[3-(diaminomethylideneamino)propyl]-18-[(1E,3E,5S,6S)-6-methoxy-3,5-dimethyl-7-phenylhepta-1,3-dienyl]-1,5,12,19-tetramethyl-2-methylidene-8-(2-methylpropyl)-3,6,9,13,16,20,25-heptaoxo-1,4,7,10,14,17,21-heptazacyclopentacosane-11,22-dicarboxylic acid; Akerstox; toxin I, cyanobacterium; Microcystin-a; 1,7-anhydro[D-alanyl-L-leucyl-(3S)-3-methyl-D-beta-aspartyl-L-arginyl-(2S,3S,4E,6E,8S,9S)-3-amino-4,5,6,7-tetradehydro-9-methoxy-2,6,8-trimethyl-10-phenyldecanoyl-D-gamma-glutamyl-2,3-didehydro-N-methylalanine]; cyclo[2,3-didehydro-N-methylalanyl-D-alanyl-L-leucyl-erythro-3-methyl-D-beta-aspartyl-L-arginyl-(2S,3S,4E,6E,8S,9S)-3-amino-4,5,6,7-tetradehydro-9-methoxy-2,6,8-trimethyl-10-phenyldecanoyl-D-gamma-glutamyl]; cyclo[D-alanyl-L-leucyl-(3S)-3-methyl-D-beta-aspartyl-L-arginyl-(2S,3S,4E,6E,8S,9S)-3-amino-4,5,6,7-tetradehydro-9-methoxy-2,6,8-trimethyl-10-phenyldecanoyl-D-gamma-glutamyl-2,3-didehydro-N-methylalanyl]; 5-L-Argininecyanoginosin LA; 5-L-Arginine-microcystin LA; cyclo(Ala-Leu-MAsp-Arg-Adda-isoGlu-Mdha); HSDB 7751; Toxin T 17 (Microcystis aeruginosa); BRN 4779759; Toxin, blue green alga, Microcystis aeruginosa; GTPL4735; SCHEMBL21245230; HY-P0072; 1859AH; 2545AH; BDBM50061067; NSC733608; ZINC169715525; CS-5404; NSC 733608; NSC-733608; M2912; C05371; Q6839436; Microcystin-LR solution, 10 mug/mL in methanol, analytical standard; 15-(3-Guanidino-propyl)-8-isobutyl-18-((1E,3E)-6-methoxy-3,5-dimethyl-7-phenyl-hepta-1,3-dienyl)-1,5,12,19-tetramethyl-2-methylene-3,6,9,13,16,20,25-heptaoxo-1,4,7,10,14,17,21heptaaza-cyclopentacosane-11,22-dicarboxylic acid; 15-(3-Guanidino-propyl)-8-isobutyl-18-(6-methoxy-3,5-dimethyl-7-phenyl-hepta-1,3-dienyl)-1,5,12,19-tetramethyl-2-methylene-3,6,9,13,16,20,25-heptaoxo-1,4,7,10,14,17,21heptaaza-cyclopentacosane-11,22-dicarboxylic acid; 8-[3-amino(imino)methylaminopropyl]-15-isobutyl-5-[6-methoxy-3,5-dimethyl-7-phenyl-(1E,3E)-1,3-heptadienyl]-4,11,18,22-tetramethyl-21-methylene-3,7,10,14,17,20,23-heptaoxo-2,6,9,13,16,19,22-heptaazacyclopentacosane-1,12-dicarboxylic acid

Activity data
Interaction ID 708
Target type Molecule
Target unique ID 6437382
Activity 75 nM
Binding Conditions/Buffer

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

Determination of the dissociation constants (KD) for aptamers. On the basis of the fluorescence recovered, saturation curves were obtained and the dissociation constants were calculated by nonlinear regression analysis
PubMed ID 22958101
Interaction ID 712
Target type Molecule
Target unique ID 445434
Activity 84 nM
Binding Conditions/Buffer

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

Determination of the dissociation constants (KD) for aptamers. On the basis of the fluorescence recovered, saturation curves were obtained and the dissociation constants were calculated by nonlinear regression analysis
PubMed ID 22958101
Interaction ID 717
Target type Molecule
Target unique ID 6437088
Activity 155 nM
Binding Conditions/Buffer

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

Determination of the dissociation constants (KD) for aptamers. On the basis of the fluorescence recovered, saturation curves were obtained and the dissociation constants were calculated by nonlinear regression analysis
PubMed ID 22958101
Similar aptamers
Aptamer ID Aptamer chemistry Sequence Similarity
Apta_1291 DNA CGTACGGAATTCGCTAGCCCCCCGGCAGGCCACGGCTTGGGTTGGTCCCACTGCGCGTGGATCCGAGCTCCACGTG 53.95%
Apta_866 DNA CTCCTCTGACTGTAACCACGACCGCCTTCCACCGTTCTCCACCACCCCTCAAACAACCCTGCATAGGTAGTCCAGAAGCC 53.75%
Apta_867 DNA CTCCTCTGACTGTAACCACGCCACCGAGCCTACCACATGTGACATCCCAGGACATAGCTGGCATAGGTAGTCCAGAAGCC 53.75%
Apta_1004 DNA ATAGGAGTCGACCGACCAGACCCGACCTCTCTTTCACTGTGACACAATGGTGCGTCTACATCTAGACTC 53.62%
Apta_1010 DNA ATAGGAGTCGACCGACCAGACCGACCCTCGTCGTACCAACTGATGACCTAGTGGCGTCTACATCTAGACTC 53.52%
Apta_221 DNA GTCCTAGCAGACACTCGGCCATCACGCCCATTGGTTTGCA 53.33%
Apta_1264 DNA CAACGATCGTACCACAGTACCCACCCACCAGCCCCAACATCATGCCCATGCGTCGGTGTG 53.33%
Apta_881 DNA AGCGTCGAATACCACTACAGCCCGCACTCAACCACCGTTCCTTTGTTTAATTTTGCACATCTAATGGAGCTCGTGGTCAG 52.50%
Apta_952 DNA TCACCTCATACGACTCACTATAGCGGACCCCACTCACTGCTCGGACTCTCCCCCTCCCCGCCTGGCTCGAACAAGCTTGC 52.50%
Apta_1003 DNA ATAGGAGTCGACCGACCAGACCCCGCCTCTCCTTTCATGTGACACAATGGTGCGTCTACATCTAGACTC 52.17%
Apta_1005 DNA ATAGGAGTCGACCGACCAGACCCGACCTCTCCTTTCATGTGACACAATGGTGCGTCTACATCTAGACTC 52.17%
Apta_1009 DNA ATAGGAGTCGACCGACCAGACCAACCCTACGCTCGTACCAACCAGATGACCTACGTGGCGTCTACATCTAGACTC 52.00%
Apta_863 DNA CTCCTCTGACTGTAACCACGCCCAGAAACAGCACCCTTACATCGACTGGACCTTCCGCGGCATAGGTAGTCCAGAAGCC 51.90%
Apta_817 DNA TGCGTGAGCGGTAGGCCCCTACGACCCACTGTGGTTGGGC 51.67%
Apta_873 DNA CCACCGAGCCTACCACATGTGACATCCCAGGACATAGCTG 51.67%
Apta_1072 DNA TTGAAGTGACTCCCACCCCGCCCCACCGTCCTTGCCACCGTTCCGCCATAGCAGGT 51.67%
Apta_1228 DNA GGCCACCAAACCACACCGTCGCAACCGCGAGAACCGAAGTAGTGATCATGTCCCTGCGTG 51.67%
Apta_1265 DNA CACGCACACAACAGCCAATAATGTATAACGCTGTCCACTGTGTGGTGTCCCCCGCGTCG 51.67%
Apta_1113 DNA CCGCCCAAATCCCTAAGAGCACAAACACCAAACACAACCACCCCAACCAGACACACTACACACGCA 51.52%
Apta_1007 DNA ATAGGAGTCGACCGACCAGACCCGACCTCTCTTTCATGTGACACAATGGTGCGTCTACATCTAGACTC 51.47%

ABOUT

AptaDB is an online database we developed to integrate comprehensive information about aptamer.
The detail of this database is described here:

HELP CENTER

>Contact us
>LMMD Group
>School of Pharmacy

DEV TOOL
Page last updated at 2022-05-25 10:01:57 (Asia/Shanghai) | You are visitor No. 43973
Copyright © 2019-2020 Laboratory of Molecular Modeling and Design, School of Pharmacy, East China University of Science and Technology. All rights reserved.