Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 728
Aptamer sequence: TTGCCTAACCGTGAAGGTAAAACGATTTAGTCAAACGTGGGAGGGCGGTGGTGTTGACTGATCGATTTTATTCCA
Target unique ID: 164304
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_670 | PS2 | Molecule | N-Methylmesoporphyrin IX | N/A | 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: | TTGCCTAACCGTGAAGGTAAAACGATTTAGTCAAACGTGGGAGGGCGGTGGTGTTGACTGATCGATTTTATTCCA |
| 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_670 | Description | PS2 |
| Aptamer chemistry | DNA | Length | 75 nt |
| GC content | 45.3% | Molecular weight | 23,293.93 Da |
| Molarity of 1 μg/μl solution | 42.93 μM | Number of G-quadruplexes | 2 |
| G-Score | 20 | Function | Aptasensor |
| Sequence | TTGCCTAACCGTGAAGGTAAAACGATTTAGTCAAACGTGGGAGGGCGGTGGTGTTGACTGATCGATTTTATTCCA | ||
| 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 | 728 |
| Target type | Molecule | |
| Target unique ID | 164304 | |
| Activity | N/A | |
| 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_840 | DNA | TGAGCCCAAGCCCTGGTATGCGGATAACGAGGTATTCACGACTGGTCGTCAGGTATGGTTGGCAGGTCTACTTTGGGATC | |
| Apta_568 | DNA | CCCAGCAGCACTGGTAGTGAGGCAGTTCACCGGTGGGGCGGTGAGTTTGGCTGCTATTTAT | |
| Apta_864 | DNA | CTCCTCTGACTGTAACCACGACTAGGACGCTTGGGAGGGGGGGTGGGGTGTCCGGTCGCGGCATAGGTAGTCCAGAAGCC | |
| Apta_1011 | DNA | GCTGTGTGACTCCTGCAATGGTAGCGGGTAGGGGAGGGAGGGTGAATGGAGGATGTTCATGGCAGCTGTATCTTGTCTCC | |
| Apta_807 | DNA | GGGTCTTCCTGGACTGTCGAAAATTCAGTATCGGGAGGTTACGTATTTGGTTTATAGATAGTAA | |
| Apta_971 | DNA | TAGTCTAGGAACGGTACGATCGTATTCCAAGGACTTTGCTGGTGGTATCC | |
| Apta_979 | DNA | ATGAGTAGTGCGGAGGGATGTGAATACTGACGCGGTCATAGTCGCTGTTGTACCATTGA | |
| Apta_838 | DNA | TGAGCCCAAGCCCTGGTATGTAGTAATGGTGCGTACAGGCGACGGGGTCCAGGCTGGAGGGGCAGGTCTACTTTGGGATC | |
| Apta_1132 | DNA | GCCGAGATTGCACTTACTATCTGAAAGGGTGGAGATTGATAGGTATAGAGAAACGATAAGGGGGTGTAGAGTAATTGAATAAGCTGGTATGCGC | |
| Apta_583 | DNA | GTACCAGCTTATTCAATTGCGAGCAGGGTCAATGGAATTAATGATCAATTGACAGACGCAAGTCTCCTGCGGTCCTGTGTTGAGATAGTATGTTCATCAG | |
| Apta_78 | DNA | ATCTCGACTAGTCATAGGGGGCGCGAACATACGCGGTTGGTGTGGTTGGCTGACAATACTCGT | |
| Apta_569 | DNA | TGCGCATGTGAAAGGTTGCCTAACTGGACAGGGTTTAGGAGCGACTAGACACAG | |
| Apta_661 | DNA | GGACAACATAGGAAAAAGGCTCTGCTACCGGATCCCTGTTGTATGGGCATATCTGTTGAT | |
| Apta_815 | DNA | CATCCGTCACACCTGCTCTGGCCACTAACATGGGGACCAGGTGGTGTTGGCTCCCGTATC | |
| Apta_883 | DNA | CGTACCGGCCAGTGATTACGACGAGACGAGCTTATGCGTATTGATGCCTAACTATCTACA | |
| Apta_836 | DNA | TGAGCCCAAGCCCTGGTATGTTACAGTATGCTACCTCTACTTGAAGGTTGGTCGACGCGGGGCAGGTCTACTTTGGGATC | |
| Apta_837 | DNA | TGAGCCCAAGCCCTGGTATGTGATCGGTGACGAGGGTGCGGGGCGGGGGGTGAGGCACAGGGCAGGTCTACTTTGGGATC | |
| Apta_841 | DNA | TGAGCCCAAGCCCTGGTATGGTGTGCCTGTCGTTGTATTGGTCGGTAGGGATCGGAGTGGGGCAGGTCTACTTTGGGATC | |
| Apta_865 | DNA | CTCCTCTGACTGTAACCACGTGTGCCAAAGAGAGTGGTGGGGGGGTGGGCGGAACTCGCGGCATAGGTAGTCCAGAAGCC | |
| Apta_1130 | DNA | GCCGAGATTGCACTTACTATCTATTAGGAATAAGGTATGAATAGAGATGTATAAGTTGTGTGGACGGTGTAATTGAATAAGCTGGTATGCGC |
DEV TOOL
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