Aptamer-target interaction descriptor
Aptamer-target interaction information
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_669 | ST1 | Molecule | N-Methylmesoporphyrin IX | 0.7 μM | 100 mM Tris-acetate (pH 7.4), 200 mM sodium acetate, 25 mM potassium acetate, 10 mM magnesium acetate, 0.5% Triton X-100, and 5% dimethyl sulfoxide | 8639643 |
Structure information of aptamer
| Aptamer Sequence: | AACGTGGGAGGGCGGTGGTGTTGAA |
| 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_669 | Description | ST1 |
| Aptamer chemistry | DNA | Length | 25 nt |
| GC content | 60.0% | Molecular weight | 7,883.08 Da |
| Molarity of 1 μg/μl solution | 126.85 μM | Number of G-quadruplexes | 2 |
| G-Score | 20 | Function | Aptasensor |
| Sequence | AACGTGGGAGGGCGGTGGTGTTGAA | ||
| Applications | Recognition of Anionic Porphyrins | ||
Target information
| Type | Detail | Type | Detail |
|---|---|---|---|
| PubChem ID | 164304 | Molecular name | N-Methylmesoporphyrin IX |
| Molecular formula | C35H40N4O4 | Molecular weight | 580.7 |
| IUPAC name | 3-[18-(2-carboxyethyl)-7,12-diethyl-3,8,13,17,21-pentamethyl-23H-porphyrin-2-yl]propanoic acid | InChIKey | CDCQNAISRYFNPX-UHFFFAOYSA-N |
| LogP | 7.658 | Topological polar surface area | 121.1 |
| Hydrogen bond acceptor | 5 | Hydrogen bond donor | 3 |
Synonym(s): N-Methylmesoporphyrin IX; 130641-26-8; 21H,23H-Porphine-2,18-dipropanoic acid, 7,12-diethyl-3,8,13,17,21-pentamethyl-; 3-[18-(2-carboxyethyl)-7,12-diethyl-3,8,13,17,21-pentamethyl-23H-porphyrin-2-yl]propanoic acid
Activity data
|
No relevant experimental diagram |
Interaction ID | 727 |
| Target type | Molecule | |
| Target unique ID | 164304 | |
| Activity | 0.7 μM | |
| Binding Conditions/Buffer | 100 mM Tris-acetate (pH 7.4), 200 mM sodium acetate, 25 mM potassium acetate, 10 mM magnesium acetate, 0.5% Triton X-100, and 5% dimethyl sulfoxide |
|
| Assay | N/A |
|
| PubMed ID | 8639643 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_66 | DNA | TACCGTGGTAGGGAAGGTTGGAGTGTA | |
| Apta_62 | DNA | AGTCCGTGGTAGGGCAGGTTGGGGTGACT | |
| Apta_1094 | DNA | GGAATCGTGGGTGGTAGGGTAGGGGATGCA | |
| Apta_63 | DNA | GACCCGTGGTAGGGTAGGATGGGGTGGTC | |
| Apta_65 | DNA | CTACCGTGGTAGGGAAGGTTGGAGTGTAG | |
| Apta_14 | DNA | AGCGGGGGGGGCTGGGCTGGGTGGG | |
| Apta_483 | DNA | ATTGGGAGGGATTGGGTGGG | |
| Apta_1149 | DNA | ATCATGGTGGGTATCGGCACTCGTTGGTTGAT | |
| Apta_72 | DNA | AGTCAGTAGGTTGGTGTGGTTGGGGCTGACT | |
| Apta_1193 | DNA | GGGTTGGAGGTGGAGGGGAGTTGAGG | |
| Apta_245 | DNA | ACAGGGGTGTGGGGACAGGGGTGTGGGG | |
| Apta_683 | DNA | GCAGTACGATCGGGGGTGGGTGGATGTAGG | |
| Apta_1240 | DNA | GGAGTAGTGGGGATTGTGGTGTATGTTGTC | |
| Apta_1241 | DNA | GGTGTGGAGTGGTGTGTGTTGTTGTTTGTC | |
| Apta_1245 | DNA | AGTGTGAAGTGGTGTGTGTTGTTGTTTGTC | |
| Apta_11 | DNA | AGAGGGGGGGGTCGGGGTGGGTCGC | |
| Apta_13 | DNA | AGGGGGGGGGGAGGGGTCGGGGTGG | |
| Apta_17 | DNA | AGGGGGGGGGGTGGGGGTGGGTCCC | |
| Apta_20 | DNA | AGAGGGGGGGGTGGGGGTGGCCTGC | |
| Apta_21 | DNA | TGTGGGGGAGGACGGGCGGGGATGC |
DEV TOOL
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