Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 713
Aptamer sequence: GGACAACATAGGAAAAAGGCTCTGCTACCGGATCCCTGTTGTATGGGCATATCTGTTGAT
Target unique ID: 445434
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_661 HC1 Molecule Microcystin-LR 705 nM 50 mM Tris, pH 7.5, 150 mM NaCl, and 2 mM MgCl2 22958101
Structure information of aptamer
Aptamer Sequence: GGACAACATAGGAAAAAGGCTCTGCTACCGGATCCCTGTTGTATGGGCATATCTGTTGAT
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_661 Description HC1
Aptamer chemistry DNA Length 60 nt
GC content 46.7% Molecular weight 18,553.91 Da
Molarity of 1 μg/μl solution 53.90 μM Number of G-quadruplexes No QGRS found
G-Score N/A Function Aptasensor
Sequence GGACAACATAGGAAAAAGGCTCTGCTACCGGATCCCTGTTGTATGGGCATATCTGTTGAT
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 704
Target type Molecule
Target unique ID 6437382
Activity 808 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 713
Target type Molecule
Target unique ID 445434
Activity 705 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 714
Target type Molecule
Target unique ID 6437088
Activity 193 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_1267 DNA GGCACGGCAAAGGGGTACAGCCTACCGAACCGTGGCTGTAAGGGTGGTTGTGGTGTG 58.33%
Apta_527 DNA ATACGGGAGCCAACACCAACAACCTAGATGTTCTGATAACACGAATCGCTTCGAAGAGCAGGTGTGACGGAT 54.17%
Apta_919 DNA GGAAGAACATGTGAGCAAAAGGCCAGCAAAAGGCCAGGAACCGTAAAAAGGCCGCGTTGCTGGCG 53.85%
Apta_106 DNA AGCAGCACAGAGGTCAGATGGAGCCAGGAGTCGGCCTACAGAAGATTCTGATGTACCTCACCTATGCGTGCTACCGTGAA 53.75%
Apta_106 DNA AGCAGCACAGAGGTCAGATGGAGCCAGGAGTCGGCCTACAGAAGATTCTGATGTACCTCACCTATGCGTGCTACCGTGAA 53.75%
Apta_838 DNA TGAGCCCAAGCCCTGGTATGTAGTAATGGTGCGTACAGGCGACGGGGTCCAGGCTGGAGGGGCAGGTCTACTTTGGGATC 53.75%
Apta_903 DNA ATACGGGAGCCAACACCAGACGGTAAATAAAGTCAGTATCGATACTCTATTCGAGAGCAGGTGTGACGGAT 53.52%
Apta_987 DNA GTACTGTCAATTGGAAGTGGTGTTACGTTGTGTAGTCAAATCAGTGC 53.33%
Apta_1152 DNA GACAAGGATAAATCCTTCAATGAAGTGGGTCACTCATCTGTGA 53.33%
Apta_1271 DNA ACCACAGCCAGTAAGTCCCGTAGGCCCTGGTTGGGCTGTT 53.33%
Apta_732 DNA AAGGAGCAGCGTGGAGGATAGCTGTCATCGGCTTATGTGCTTTCCAGGGTCCGTGCTGTCCGTTGTTAGGGTGTGTCGTCGTGGT 52.94%
Apta_904 DNA ATACGGGAGCCAACACCAGACGGTAAATAAAGTCAGTATCGAGTACTCTATTCGAGAGCAGGTGTGACGGAT 52.78%
Apta_1105 DNA TACGACTCACTATAGGGATCCAATGGCACAGCGCCTGGAACGTACTCTGTACCTGGAATTCCCTTTAGTGAGGGTT 52.63%
Apta_233 DNA AGCAGCACAGAGGTCAGATGTGAAACATAGCATATTTACTTATGTCGCCTTGCCGGTTCCTATGCGTGCTACCGTGAA 52.56%
Apta_61 DNA AGCAGCACAGAGGTCAGATGGCAGGTAAGCAGGCGGCTCACAAAACCATTCGCATGCGGCCCTATGCGTGCTACCGTGAA 52.50%
Apta_104 DNA AGCAGCACAGAGGTCAGATGCAAACCACAGCCTGAGTGGTTAGCGTATGTCATTTACGGACCTATGCGTGCTACCGTGAA 52.50%
Apta_104 DNA AGCAGCACAGAGGTCAGATGCAAACCACAGCCTGAGTGGTTAGCGTATGTCATTTACGGACCTATGCGTGCTACCGTGAA 52.50%
Apta_174 DNA AGCAGCACAGAGGTCAGATGTCGGTCTTGTGTATACATACCCGTGTGTTTTCATCTCAGGCCTATGCGTGCTACCGTGAA 52.50%
Apta_404 DNA GTCTTGACTAGTTACGCCCACAAGAACCTGCTTGCCATGGTGACGCCGATCATGCTTTTTGGTCATTCAGTTGGCGCCTC 52.50%
Apta_569 DNA TGCGCATGTGAAAGGTTGCCTAACTGGACAGGGTTTAGGAGCGACTAGACACAG 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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