Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 710
Aptamer sequence: GGCGCCAAACAGGACCACCATGACAATTACCCATACCACCTCATTATGCCCCATCTCCGC
Target unique ID: 445434
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_662 AN6 Molecule Microcystin-LR 50 nM 50 mM Tris, pH 7.5, 150 mM NaCl, and 2 mM MgCl2 22958101
Structure information of aptamer
Aptamer Sequence: GGCGCCAAACAGGACCACCATGACAATTACCCATACCACCTCATTATGCCCCATCTCCGC
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_662 Description AN6
Aptamer chemistry DNA Length 60 nt
GC content 55.0% Molecular weight 18,167.68 Da
Molarity of 1 μg/μl solution 55.04 μM Number of G-quadruplexes No QGRS found
G-Score N/A Function Aptasensor
Sequence GGCGCCAAACAGGACCACCATGACAATTACCCATACCACCTCATTATGCCCCATCTCCGC
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 705
Target type Molecule
Target unique ID 6437382
Activity 158 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 710
Target type Molecule
Target unique ID 445434
Activity 50 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_1219 DNA GCGCAGAACCGACAGCAAAACGGAAGTCCACCACGACTATTGGTGCCCAATCTACCGTA 58.33%
Apta_684 DNA GGCGGACCAAGGGGACACCACAGATGAATGTACAGTACCATGTTACTGCGCCCGTAGGTG 56.67%
Apta_1232 DNA GGCCACACAAACAACATGACAACACGTCTCACATAACGCCCACGTGCTGCCGCCTCATCG 56.67%
Apta_1113 DNA CCGCCCAAATCCCTAAGAGCACAAACACCAAACACAACCACCCCAACCAGACACACTACACACGCA 56.06%
Apta_556 DNA GGCTCTCGGGACGACATGGATTTTCCATCAACGAAGTGCGTCCGTCCC 55.00%
Apta_998 DNA ATAGGAGTCGACCGACCAGACCAACCCTACGCGTACCAACCAGATGACCTACGTGCGTCTACATCTAGACTC 54.17%
Apta_1001 DNA ATAGGAGTCGACCGACCAGACAACCCTACGCGTACCAACCAGATGACCTACGTGCGTCTACATCTAGACTC 53.52%
Apta_1001 DNA ATAGGAGTCGACCGACCAGACAACCCTACGCGTACCAACCAGATGACCTACGTGCGTCTACATCTAGACTC 53.52%
Apta_685 DNA GGGGCAACAAACACGGAAGAAAATGAATCTACATACGTGGACATATATCCTGCCGCGTG 53.33%
Apta_888 DNA GGCGACCCCCGGGCTACCAGACAATGTACGCAGCAAGAGTGACGGTCGTACCTCGGAGTC 53.33%
Apta_978 DNA GGCGATGAGAACGGGAGCCTGATGATACACACGAGCGATCGCTCATAAAAGCCGTGCCCG 53.33%
Apta_1009 DNA ATAGGAGTCGACCGACCAGACCAACCCTACGCTCGTACCAACCAGATGACCTACGTGGCGTCTACATCTAGACTC 53.33%
Apta_1000 DNA ATAGGAGTCGACCGACCAGAACCGTTCCCATACTTCTCCAGCGATACTTAGTGCGTCTACATCTAGACTC 52.86%
Apta_1103 DNA TACGACTCACTATAGGGATCCACCTATGGCAGATTGAGCCCAAGGGCTGTGCAGCGAATTCCCTTTAGTGAGGGTT 52.63%
Apta_1111 DNA GTGCGTCGCATGATCGCGATTAGTGCGACCATGTACGATTCTCACGACAACGACACTGTACTTGAGGACTGTCTCC 52.63%
Apta_177 DNA AGCAGCACAGAGGTCAGATGCCATAGGTGCCTGAATTGTCCCAAACATTCGCATGATCGACCTATGCGTGCTACCGTGAA 52.50%
Apta_698 DNA AGCAGCACAGAGGTCAGATGCACTCGGACCCCATTCTCCTTCCATCCCTCATCCGTCCACCCTATGCGTGCTACCGTGAA 52.50%
Apta_1008 DNA ATAGGAGTCGACCGACCAGACCATTCCCACGCCAAGACCAATTTTCCCTGTGCGTCTACATCTAGACTC 52.17%
Apta_1010 DNA ATAGGAGTCGACCGACCAGACCGACCCTCGTCGTACCAACTGATGACCTAGTGGCGTCTACATCTAGACTC 52.11%
Apta_944 DNA ATACGACTCACTATTAGGGACAAAGCTGACAACCCTTTCATAATCTAACTACATTTATGTGCTAGACTACTGACTAC 51.95%

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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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