Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 707
Aptamer sequence: CACGCAACAACACAACATGCCCAGCGCCTGGAACATATCCTATGAGTTAGTCCGCCCACA
Target unique ID: 6437382
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_664 | RC6 | Molecule | Cyanoginosin LA | 43 nM | 50 mM Tris, pH 7.5, 150 mM NaCl, and 2 mM MgCl2 | 22958101 |
Structure information of aptamer
| Aptamer Sequence: | CACGCAACAACACAACATGCCCAGCGCCTGGAACATATCCTATGAGTTAGTCCGCCCACA |
| 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_664 | Description | RC6 |
| Aptamer chemistry | DNA | Length | 60 nt |
| GC content | 53.3% | Molecular weight | 18,280.76 Da |
| Molarity of 1 μg/μl solution | 54.70 μM | Number of G-quadruplexes | No QGRS found |
| G-Score | N/A | Function | Aptasensor |
| Sequence | CACGCAACAACACAACATGCCCAGCGCCTGGAACATATCCTATGAGTTAGTCCGCCCACA | ||
| Applications | Application in microcystin detection | ||
Target information
| Type | Detail | Type | Detail |
|---|---|---|---|
| PubChem ID | 6437382 | Molecular name | Cyanoginosin LA |
| Molecular formula | C46H67N7O12 | Molecular weight | 910.1 |
| IUPAC name | (5R,8S,11R,12S,15S,18S,19S,22R)-18-[(1E,3E,5S,6S)-6-methoxy-3,5-dimethyl-7-phenylhepta-1,3-dienyl]-1,5,12,15,19-pentamethyl-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 | DIAQQISRBBDJIM-DRSCAGMXSA-N |
| LogP | 1.585 | Topological polar surface area | 278.74 |
| Hydrogen bond acceptor | 10 | Hydrogen bond donor | 8 |
Synonym(s): Microcystin-LA; Cyanoginosin LA; Microcystin LA; 96180-79-9; UNII-3E7C54U3SY; 3E7C54U3SY; CHEMBL421377; Cyanoginosin-LA; (5R,8S,11R,12S,15S,18S,19S,22R)-18-[(1E,3E,5S,6S)-6-methoxy-3,5-dimethyl-7-phenylhepta-1,3-dienyl]-1,5,12,15,19-pentamethyl-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; Toxin BE 4; MC-LA; Toxin BE 4 (Microcystis aeruginosa); Microcystin-leucine-alanine; Cyanogynosin-LA; HY-P0219; BDBM50135699; ZINC169365917; CS-0021541; Q27894661; (10S,13S,18S,19S,22R)-8-Isobutyl-18-((1E,3E)-(5S,6S)-6-methoxy-3,5-dimethyl-7-phenyl-hepta-1,3-dienyl)-1,5,12,15-tetramethyl-19-(R)-methyl-2-methylene-3,6,9,13,16,20,25-heptaoxo-1,4,7,10,14,17,21heptaaza-cyclopentacosane-11,22-dicarboxylic acid; (5R,8S,11R,12S,15S,18S,19S,22R)-8-Isobutyl-18-((1E,3E)-(5S,6S)-6-methoxy-3,5-dimethyl-7-phenyl-hepta-1,3-dienyl)-1,5,12,15,19-pentamethyl-2-methylene-3,6,9,13,16,20,25-heptaoxo-1,4,7,10,14,17,21heptaaza-cyclopentacosane-11,22-dicarboxylic acid
Activity data
 |
Interaction ID | 707 |
| Target type | Molecule | |
| Target unique ID | 6437382 | |
| Activity | 43 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 | 709 |
| Target type | Molecule | |
| Target unique ID | 445434 | |
| Activity | 61 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 | 716 |
| Target type | Molecule | |
| Target unique ID | 6437088 | |
| Activity | 28 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_1232 | DNA | GGCCACACAAACAACATGACAACACGTCTCACATAACGCCCACGTGCTGCCGCCTCATCG | |
| Apta_663 | DNA | CACGCACAGAAGACACCTACAGGGCCAGATCACAATCGGTTAGTGAACTCGTACGGCGCG | |
| Apta_1265 | DNA | CACGCACACAACAGCCAATAATGTATAACGCTGTCCACTGTGTGGTGTCCCCCGCGTCG | |
| Apta_472 | DNA | CCCCCACATTCAAATGGCCCCCCTACTCAATTACTGCACA | |
| Apta_1069 | DNA | CCGGAGAAAAAAAACTTGATGAGCCAGGAAAACGAGGGTTGGAACGCGACTG | |
| Apta_1172 | DNA | GACGCCACTGACTACCCCAGTATCTCTTCAACGCGTATTGAAGTCAGTCGGTCGTCA | |
| Apta_1173 | DNA | TTGACTTGCCACTGACTACCCCAGTATCTCTTCAACGCTATGGTGCATGTACTACGTATTGAAGTCAGTCGGTCGTCATC | |
| Apta_1008 | DNA | ATAGGAGTCGACCGACCAGACCATTCCCACGCCAAGACCAATTTTCCCTGTGCGTCTACATCTAGACTC | |
| Apta_421 | DNA | ATCTACGAATTCATCAGGGCTAAAGAGTGCAGAGTTACTTAGCCCGTGA | |
| Apta_636 | DNA | TAGCCGGATCGCGCTGGCCAGATGATATAAAGGGTCAGCCCCCCA | |
| Apta_728 | DNA | CGACCCGGCACAAACCCAGAACCATATACACGATCATTAGTCTCCTGGGCCG | |
| Apta_834 | DNA | CGCAATACCAAAGTGGCGAGAGCGCTGTCTTGAGTGAGTGGTTGG | |
| Apta_1227 | DNA | CACACCAAACACACAAGTGGACCCTGACGCATGGATAGGGTGACGGTATACGCGGGCATG | |
| Apta_527 | DNA | ATACGGGAGCCAACACCAACAACCTAGATGTTCTGATAACACGAATCGCTTCGAAGAGCAGGTGTGACGGAT | |
| Apta_1105 | DNA | TACGACTCACTATAGGGATCCAATGGCACAGCGCCTGGAACGTACTCTGTACCTGGAATTCCCTTTAGTGAGGGTT | |
| Apta_618 | DNA | GCGGCAAATCAGCATACGAGTGTACAGGGACGGGACGGGTGGGTAAAAGGTGTCGCCTCAG | |
| Apta_792 | DNA | ATACCAGCTTATTCAATTCCCAAATTGCCACCACTTACAGCATGATAACATACTACATCTTTTCATCAAGATAGTAAGTGCAATCT | |
| Apta_931 | DNA | ATACGACTCACTATTAGGGACCACATAAACATGCATCGCTCAATAACGGGATATTGTTGTGCTAGACTACTGACTACAA | |
| Apta_591 | DNA | CTCTCGGGACGACGGCTGGCACGTTTGGTTCAAGAATGTGGGTGTCGTCCC | |
| Apta_635 | DNA | TAGCCGGATCGCGCTGGCCAGATGATATAAAGGGTCAACCCCCCA |
DEV TOOL
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