Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 603
Aptamer sequence: GGCAAGATGTGCCCAGAACAGTTGCTTGTATGGTGGGGAGCGTCCATATTGGCTTAAAC
Target unique ID: 6857375
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_570 | Chi No. 28 (59) | Molecule | N-[(2R)-2,4,5-trihydroxy-6-(hydroxymethyl)oxan-3-yl]acetamide | N/A | 100 mM NaCl, 100 mM KCl, 5 mM MgCl2, 50 mM Tris-acetate (pH 8.0) | 10743940 |
Structure information of aptamer
| Aptamer Sequence: | GGCAAGATGTGCCCAGAACAGTTGCTTGTATGGTGGGGAGCGTCCATATTGGCTTAAAC |
| 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_570 | Description | Chi No. 28 (59) |
| Aptamer chemistry | DNA | Length | 59 nt |
| GC content | 50.8% | Molecular weight | 18,321.74 Da |
| Molarity of 1 μg/μl solution | 54.58 μM | Number of G-quadruplexes | No QGRS found |
| G-Score | N/A | Function | Aptasensor |
| Sequence | GGCAAGATGTGCCCAGAACAGTTGCTTGTATGGTGGGGAGCGTCCATATTGGCTTAAAC | ||
| Applications | Recognition of chitin | ||
Target information
| Type | Detail | Type | Detail |
|---|---|---|---|
| PubChem ID | 6857375 | Molecular name | N-[(2R)-2,4,5-trihydroxy-6-(hydroxymethyl)oxan-3-yl]acetamide |
| Molecular formula | C8H15NO6 | Molecular weight | 221.21 |
| IUPAC name | N-[(2R)-2,4,5-trihydroxy-6-(hydroxymethyl)oxan-3-yl]acetamide | InChIKey | OVRNDRQMDRJTHS-WTZNIHQSSA-N |
| LogP | -3.078 | Topological polar surface area | 119.25 |
| Hydrogen bond acceptor | 6 | Hydrogen bond donor | 5 |
Synonym(s): Chitin, Practical Grade; N-[(2R)-2,4,5-trihydroxy-6-(hydroxymethyl)oxan-3-yl]acetamide; 1398-61-4; Chitin from shrimp shells; SCHEMBL8656145; Chitin from shrimp shells, practical grade, powder; Chitin from shrimp shells, Vetec(TM) reagent grade; Chitin from shrimp shells, practical grade, coarse flakes; Chitin from shrimp shells, BioReagent, suitable for analysis of chitinase, purified powder
Activity data
|
No relevant experimental diagram |
Interaction ID | 603 |
| Target type | Molecule | |
| Target unique ID | 6857375 | |
| Activity | N/A | |
| Binding Conditions/Buffer | 100 mM NaCl, 100 mM KCl, 5 mM MgCl2, 50 mM Tris-acetate (pH 8.0) |
|
| Assay | N/A |
|
| PubMed ID | 10743940 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_1042 | DNA | ATCACGATATGCCCGGCTCATCGGGGTTCAGTTGGGCGGTCACATGGAAA | |
| Apta_510 | DNA | TGTAATTTGTCTGCAGCGGTTCTTGATCGCTGACACCATATTATGAAGA | |
| Apta_1090 | DNA | ATCCAGAGTGACGCAGCAGGGCTTGGGTTGGGAATAAGGATGTGGGAGGCGGCGAACATGGACACGGTGGCTTAGT | |
| Apta_1107 | DNA | GCGCGATGGACTGTACCTTCGGCGTAACTGATATTCCTGATGATTCTGGCGAGACGTAGCACAAACCCGGTGTATA | |
| Apta_464 | DNA | GTCAGATTCCACTATAGTAGGTTGGGTAGGGTGGTCGCAGTGGATGATATGTCGTAGGGG | |
| Apta_1119 | DNA | GGGAATGGATCCACATCTACGAATTCGGTTGTGAAGATTGGGAGCGTCGTGGCTACTTCACTGCAGACTTGACGAAGCTT | |
| Apta_238 | DNA | CACACATTCCCGTCCTCGATACGTCTAGGCTTAGTGCCACTTGCTTAATC | |
| Apta_751 | DNA | GGTCGCAGATGGATTAAGTATGTGGGTGGGGGGGTGGAAGTTAAT | |
| Apta_1044 | DNA | TTTAACGTAACCTGCAAGGCGGGGAGGTGCGAGCCCCGTGTGTGGCTTGC | |
| Apta_1089 | DNA | ATCCAGAGTGACGCAGCAATTACCGATGGCTTGTTTGTAATGTAGGGTTCCGTCGGATTGGACACGGTGGCTTAGT | |
| Apta_236 | DNA | AGCAGCACAGAGGTCAGATGAGATGGTTGACCGGTTGATGTGATTAAGGAGACGTCGATTCCTATGCGTGCTACCGTGAA | |
| Apta_404 | DNA | GTCTTGACTAGTTACGCCCACAAGAACCTGCTTGCCATGGTGACGCCGATCATGCTTTTTGGTCATTCAGTTGGCGCCTC | |
| Apta_656 | DNA | GCACACCGATGGCGGTCCTGTTTTACGGTAGCTTATATGCAGGGGGTGTGCGTGGGGAGGTGCGGTTGC | |
| Apta_1088 | DNA | ATCCAGAGTGACGCAGCATCGAGTGGCTTGTTTGTAATGTAGGGTTCCGGTCGTGGGTTGGACACGGTGGCTTAGT | |
| Apta_261 | DNA | TAAACCCCAAAACAGTGCAACTAGGTGTAGGTCCCGTGGT | |
| Apta_309 | DNA | TAGCCAAGGTAACCAGTACAAGGTGCTAAACGTAATGGCTTCGGCTTAC | |
| Apta_482 | DNA | AGCAAGGTTTGGTGTTGGTTGGTTGCTGGTTTTGGTTTC | |
| Apta_782 | DNA | AGGTGTGACTCGATCTGTGGGGGTTGGGGGGTGGTTTTTCGGAA | |
| Apta_1032 | DNA | TGGCAAGAGGGTGTGCTTAAGGTGGACACGGTGGCTTAG | |
| Apta_1043 | DNA | TTCAAGGCGGCGAGATTTAGTGGTTGGGAGGCTGTACGCCCTACGTGAAC |
DEV TOOL
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