Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 601
Aptamer sequence: CCCAGCAGCACTGGTAGTGAGGCAGTTCACCGGTGGGGCGGTGAGTTTGGCTGCTATTTAT
Target unique ID: 6857375
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_568 | Chi No. 1 (61) b | 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: | CCCAGCAGCACTGGTAGTGAGGCAGTTCACCGGTGGGGCGGTGAGTTTGGCTGCTATTTAT |
| 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_568 | Description | Chi No. 1 (61) b |
| Aptamer chemistry | DNA | Length | 61 nt |
| GC content | 57.4% | Molecular weight | 18,939.09 Da |
| Molarity of 1 μg/μl solution | 52.80 μM | Number of G-quadruplexes | 2 |
| G-Score | 20 | Function | Aptasensor |
| Sequence | CCCAGCAGCACTGGTAGTGAGGCAGTTCACCGGTGGGGCGGTGAGTTTGGCTGCTATTTAT | ||
| 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 | 601 |
| 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_1271 | DNA | ACCACAGCCAGTAAGTCCCGTAGGCCCTGGTTGGGCTGTT | |
| Apta_840 | DNA | TGAGCCCAAGCCCTGGTATGCGGATAACGAGGTATTCACGACTGGTCGTCAGGTATGGTTGGCAGGTCTACTTTGGGATC | |
| Apta_236 | DNA | AGCAGCACAGAGGTCAGATGAGATGGTTGACCGGTTGATGTGATTAAGGAGACGTCGATTCCTATGCGTGCTACCGTGAA | |
| Apta_837 | DNA | TGAGCCCAAGCCCTGGTATGTGATCGGTGACGAGGGTGCGGGGCGGGGGGTGAGGCACAGGGCAGGTCTACTTTGGGATC | |
| Apta_838 | DNA | TGAGCCCAAGCCCTGGTATGTAGTAATGGTGCGTACAGGCGACGGGGTCCAGGCTGGAGGGGCAGGTCTACTTTGGGATC | |
| Apta_839 | DNA | TGAGCCCAAGCCCTGGTATGAGCCCACGGAACACTGGTCGCGCCCACTGGTTTCTATATTGGCAGGTCTACTTTGGGATC | |
| Apta_841 | DNA | TGAGCCCAAGCCCTGGTATGGTGTGCCTGTCGTTGTATTGGTCGGTAGGGATCGGAGTGGGGCAGGTCTACTTTGGGATC | |
| Apta_670 | DNA | TTGCCTAACCGTGAAGGTAAAACGATTTAGTCAAACGTGGGAGGGCGGTGGTGTTGACTGATCGATTTTATTCCA | |
| Apta_417 | DNA | GGCAGGAAGACAAACACCAGGTGAGGGAGACGACGCGAGTGTTAGATGGTAGCTGTTGGTCTGTGGTGCTGT | |
| Apta_651 | DNA | CCTGCACCTCGTCCAGCATGCACACCGATGGCGGTCCTGTTTAGGGGGTGTGCGTG | |
| Apta_750 | DNA | ATGCGAACAGGTGGGTGGGTTGGGTGGATTGTTCGGCTTCTTGAT | |
| Apta_815 | DNA | CATCCGTCACACCTGCTCTGGCCACTAACATGGGGACCAGGTGGTGTTGGCTCCCGTATC | |
| Apta_819 | DNA | GCGCCCTCTCACGTGGCACTCAGAGTGCCGGAAGTTCTGCGTTAT | |
| Apta_1229 | DNA | CACGGGCAGAGGGATAGGTTGTTGACGGGGCTGGTGGGTGGGTGCGCTCGCGCTATCGTGG | |
| Apta_99 | DNA | AGCAGCACAGAGGTCAGATGTCGGGCGGTTCGGGACCTTGCTGCGACATATGCGTATTATCCTATGCGTGCTACCGTGAA | |
| Apta_107 | DNA | AGCAGCACAGAGGTCAGATGTTCATTTCAGTTGACCGATAGCATTGAGCAATGATCTATTCCTATGCGTGCTACCGTGAA | |
| Apta_99 | DNA | AGCAGCACAGAGGTCAGATGTCGGGCGGTTCGGGACCTTGCTGCGACATATGCGTATTATCCTATGCGTGCTACCGTGAA | |
| Apta_107 | DNA | AGCAGCACAGAGGTCAGATGTTCATTTCAGTTGACCGATAGCATTGAGCAATGATCTATTCCTATGCGTGCTACCGTGAA | |
| Apta_173 | DNA | AGCAGCACAGAGGTCAGATGGCAGGTTTCGACGTACAATGCTATGGAGGCTTTATGATCGCCTATGCGTGCTACCGTGAA | |
| Apta_836 | DNA | TGAGCCCAAGCCCTGGTATGTTACAGTATGCTACCTCTACTTGAAGGTTGGTCGACGCGGGGCAGGTCTACTTTGGGATC |
DEV TOOL
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