Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 595
Aptamer sequence: GGAUAAUAGCCGUAGGUUGCGAAAGCGACCCUGAUGAGCCUUUAGGGCCAAGUGUGGUGAAAGACACACUCGAAACGGUAGCGAGAGCUC
Target unique ID: 19236
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_562 | AR3 | Molecule | Cyclic cmp | N/A | 50 mM Tris-HCl, pH 7.5, 20 mM MgCl2 | 11283591 |
Structure information of aptamer
| Aptamer Sequence: | GGAUAAUAGCCGUAGGUUGCGAAAGCGACCCUGAUGAGCCUUUAGGGCCAAGUGUGGUGAAAGACACACUCGAAACGGUAGCGAGAGCUC |
| 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_562 | Description | AR3 |
| Aptamer chemistry | RNA | Length | 90 nt |
| GC content | 53.3% | Molecular weight | 29,205.45 Da |
| Molarity of 1 μg/μl solution | 34.24 μM | Number of G-quadruplexes | No QGRS found |
| G-Score | N/A | Function | Aptasensor |
| Sequence | GGAUAAUAGCCGUAGGUUGCGAAAGCGACCCUGAUGAGCCUUUAGGGCCAAGUGUGGUGAAAGACACACUCGAAACGGUAGCGAGAGCUC | ||
| Applications | Recognition of cAMP | ||
Target information
| Type | Detail | Type | Detail |
|---|---|---|---|
| PubChem ID | 19236 | Molecular name | Cyclic cmp |
| Molecular formula | C9H12N3O7P | Molecular weight | 305.18 |
| IUPAC name | 1-[(4aR,6R,7R,7aS)-2,7-dihydroxy-2-oxo-4a,6,7,7a-tetrahydro-4H-furo[3,2-d][1,3,2]dioxaphosphinin-6-yl]-4-aminopyrimidin-2-one | InChIKey | WCPTXJJVVDAEMW-XVFCMESISA-N |
| LogP | -1.4 | Topological polar surface area | 146.13 |
| Hydrogen bond acceptor | 9 | Hydrogen bond donor | 3 |
Synonym(s): CYCLIC CMP; cCMP; 3616-08-8; 3',5'-Cyclic CMP; Cytidine, cyclic 3',5'-(hydrogen phosphate); CHEBI:17065; Cytidine 3',5'-cyclic monophosphate; cytidine 3',5'-(hydrogen phosphate); 1-[(4aR,6R,7R,7aS)-2,7-dihydroxy-2-oxo-4a,6,7,7a-tetrahydro-4H-furo[3,2-d][1,3,2]dioxaphosphinin-6-yl]-4-aminopyrimidin-2-one; 4-Amino-1-[(2s,4ar,6r,7r,7as)-2,7-Dihydroxy-2-Oxidotetrahydro-4h-Furo[3,2-D][1,3,2]dioxaphosphinin-6-Yl]pyrimidin-2(1h)-One; CC7; Cyclic CMP, 7; CYTIDINE 3':5'-CYCLIC MONOPHOSPHATE; CHEMBL72442; C9H12N3O7P; GTPL6261; SCHEMBL1331888; BDBM31910; DTXSID10957571; Cytidine-3',5'-cyclicmonophosphate; ZINC4095499; 6570AH; Cytidine cyclic-3',5'-monophosphate; Cytidine-3',5'-cyclic monophosphate; C00941; Q27076941; 2,7-Dihydroxy-6-(2-hydroxy-4-iminopyrimidin-1(4H)-yl)tetrahydro-2H,4H-2lambda~5~-furo[3,2-d][1,3,2]dioxaphosphinin-2-one; 4-amino-1-[(1S,6R,8R,9R)-3,9-dihydroxy-3-oxo-2,4,7-trioxa-3$l^{5}-phosphabicyclo[4.3.0]nonan-8-yl]pyrimidin-2-one
Activity data
|
No relevant experimental diagram |
Interaction ID | 595 |
| Target type | Molecule | |
| Target unique ID | 19236 | |
| Activity | N/A | |
| Binding Conditions/Buffer | 50 mM Tris-HCl, pH 7.5, 20 mM MgCl2 |
|
| Assay | N/A |
|
| PubMed ID | 11283591 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_566 | RNA | GGAUAAUAGCCGUAGGUUGCGAAAGCGACCCUGAUGAGCCCUGCGAUGCAGAAAGGUGCUGACGACACAUCGAAACGGUAGCGAGAGCUC | |
| Apta_613 | RNA | GGAUAAUAGCCGUAGGUUGCGAAAGCGACCCUGAUGAGCCUUAGGAUAUGCAUGAUGCAGAAGGACGUCGAAACGGUAGCGAGAGCUC | |
| Apta_561 | RNA | GGAUAAUAGCCGUAGGUUGCGAAAGCGACCCUGAUGAGCCUGUGGAAACAGACGUGGCACAUGACUACGUCGAAACGGUAGCGAGAGCUC | |
| Apta_710 | RNA | GGAUAAUAGCCGUAGGUUGCGAAAGCGACCCUGAUGAGUCUGGAUACCAUGCAUGAUGCACCUUGGCAGUCUUACGAAACGGUAGCGAGAGCUC | |
| Apta_563 | RNA | GGAUAAUAGCCGUAGGUUGCGAAAGCGACCCUGAUGAGAAAGCCAAAGCCGUAGCGCAGAUGAUCUCGCCAUCAGUACCGAAACGGUAGCGAGAGCUC | |
| Apta_874 | RNA | GGAUAAUAGCCGUAGGUUGCGAAAGCGACCCUGAUGAGCCUUAGGAUAUGUCUGGAUACCAUGCAUGAUGCACCUUGGCAGUCUUACAGAAGGACGUCGAAACGGUAGCGAGAGCUC | |
| Apta_559 | RNA | GGAUGUCCAGUCGCUUGCAAUGCCCUUUUAGACCCUGAUGAGGAUCAUCGGACUUUGUCCUGUGGAGUAAGAUCGCGAAACGGUGAAAGCCGUAGGUCU | |
| Apta_551 | RNA | GGAUGUCCAGUCGCUUGCAAUGCCCUUUUAGACCCUGAUGAGCGGUGCUAGUUAGUUGCAGUUUCGGUUGUUACGCGAAACGGUGAAAGCCGUAGGUCU | |
| Apta_416 | RNA | GGACCUCGGCGAAAGCCGGUAACGCCACAAGUCGGAGGGUAAGAUCUGACAGGAACUGGGUGACGGAGGUUAGGUGC | |
| Apta_38 | RNA | GGUAGAUACGAUGGAUACCCCCUGUGGCCCGUCAACACAGGGGAAGUGGCAUGACGCGCAGCCA | |
| Apta_295 | RNA | AUACCAGCUUAUUCAAUUGCCUGAAAAGCUAUCGCCCAAUUCGCAGUGAUAUCCUUUAAGAUAGUAAGUGCAAUCU | |
| Apta_460 | RNA | GGAUGGCAGCGGAGAGUUGCUUGGAAUGCGUUAUAGUCUCUUAGGUGUGUACAGCCCACACCACUCUCC | |
| Apta_576 | RNA | GGCACCAAAGCUGAAGUAGCGGGAUAACUCAAAUUACUUUAGGUGUAUGAAGGUGAAACUAGCAAUGAA | |
| Apta_766 | RNA | GGUUACCAGCCUUCACUGCGGACGGACAGAGAGUGCAACCUGCCGUGCCGCACCACGGUCGGUCACAC | |
| Apta_280 | RNA | GAUAAUACGACUCACUAUAGGGUUCACUGCAGACUUGACGAAGCUUGCAGAAAAGGGGGAAGAAGAGGGUGAUUCAGGCGAGAGAAUGGAUCCACAUCUACGAAUUC | |
| Apta_123 | RNA | GGGAGAAAGGGAAGCUUGAGCAGCAGGAGGGCCGGCGUUAGGGUUAGCGAGCCGAUUGAAAGAAGAAGGAACGAGCGUACGGAUCCGAUC | |
| Apta_296 | RNA | AUACCAGCUUAUUCAAUUGCCUGAAAACCUGGUCUCUCUGUCAGCAAAGACUAUGTUGAGAUAGUAAGUGCAAUCU | |
| Apta_301 | RNA | AUACCAGCUUAUUCAAUUGCCUGAAAAGUUGAACUCCAAAUACGCGCUGAGAUAGUAAGUGCAAUCU | |
| Apta_305 | RNA | GGGAGGACGAUGCGGAUCGCCCUGAACCGGCCCAGCAGACUGCUGACGGCACGAUCCGCAUCGUCCUCCC | |
| Apta_414 | RNA | GGGAGGACGAUGCGGCCGAUUAGAACUGGGCUGAGGCGUUCUGCAUUUCGGUGAUCAGACGACUCGCUGAGGAUCCGAGA |
DEV TOOL
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