Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 716
Aptamer sequence: CACGCAACAACACAACATGCCCAGCGCCTGGAACATATCCTATGAGTTAGTCCGCCCACA
Target unique ID: 6437088
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_664 | RC6 | Molecule | Microcystin YR | 28 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 | 6437088 | Molecular name | Microcystin YR |
| Molecular formula | C52H72N10O13 | Molecular weight | 1045.2 |
| IUPAC name | (5R,8S,11R,12S,15S,18S,19S,22R)-15-[3-(diaminomethylideneamino)propyl]-8-[(4-hydroxyphenyl)methyl]-18-[(1E,3E,5S,6S)-6-methoxy-3,5-dimethyl-7-phenylhepta-1,3-dienyl]-1,5,12,19-tetramethyl-2-methylidene-3,6,9,13,16,20,25-heptaoxo-1,4,7,10,14,17,21-heptazacyclopentacosane-11,22-dicarboxylic acid | InChIKey | OWHASZQTEFAUJC-GJRPNUFSSA-N |
| LogP | 0.521 | Topological polar surface area | 363.37 |
| Hydrogen bond acceptor | 12 | Hydrogen bond donor | 11 |
Synonym(s): Microcystin YR; 101064-48-6; Microcystin-YR; UNII-4G08121T5U; CHEMBL4633668; 4G08121T5U; Cyanoginosin-YR; Cyanoginosin LA, 3-tyrosyl-5-arginine-; cyanoginosin LA, 3-L-tyrosyl-5-L-arginine; MCYR; Cyanoginosin LA, 3-L-tyrosine-5-L-arginine; DTXSID00880086; BDBM50542676; (5R,8S,11R,12S,15S,18S,19S,22R)-15-[3-(diaminomethylideneamino)propyl]-8-[(4-hydroxyphenyl)methyl]-18-[(1E,3E,5S,6S)-6-methoxy-3,5-dimethyl-7-phenylhepta-1,3-dienyl]-1,5,12,19-tetramethyl-2-methylidene-3,6,9,13,16,20,25-heptaoxo-1,4,7,10,14,17,21-heptazacyclopentacosane-11,22-dicarboxylic acid; C19997; Q27259546
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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