Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 606
Aptamer sequence: CGTACAGTGGGCTATATTGCTGACGTAAGAGCTGCTTTCAATGCATTGGCATAGATGTCA
Target unique ID: 6857375
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_573 | Chi No. 57 (60) | 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: | CGTACAGTGGGCTATATTGCTGACGTAAGAGCTGCTTTCAATGCATTGGCATAGATGTCA |
| 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_573 | Description | Chi No. 57 (60) |
| Aptamer chemistry | DNA | Length | 60 nt |
| GC content | 45.0% | Molecular weight | 18,559.91 Da |
| Molarity of 1 μg/μl solution | 53.88 μM | Number of G-quadruplexes | No QGRS found |
| G-Score | N/A | Function | Aptasensor |
| Sequence | CGTACAGTGGGCTATATTGCTGACGTAAGAGCTGCTTTCAATGCATTGGCATAGATGTCA | ||
| 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 | 606 |
| 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_1101 | DNA | CCGTAATACGACTCACTATAGGTATGTGACGCGCGTCAATCGCTGTCCTACCAAGCTTTGCAGAGAGGATCCTT | |
| Apta_165 | DNA | TGGACGAACTGCCCTCAGCTACTTTCATGTTGCTGACGCA | |
| Apta_339 | DNA | CACAGGCTACGGCACGTAGAGCATCACCATGATCCTGTGT | |
| Apta_340 | DNA | TACTCAGGGCACTGCAAGCAATTGTGGTCCCAATGGGCTGAGTA | |
| Apta_846 | DNA | GTGCAGACAGCTAGTAGTGGTGACTTTCTGTCCAAATCAAGATAA | |
| Apta_883 | DNA | CGTACCGGCCAGTGATTACGACGAGACGAGCTTATGCGTATTGATGCCTAACTATCTACA | |
| Apta_158 | DNA | CACAGGCTACGGCACGTAGAGCATCACCATGATCCTGTG | |
| Apta_223 | DNA | CATTGAGATAGCTAGTTGTAGCTGCGTCATAGGCTGGGTTGGGTCTAGTGGTTGGGTGTG | |
| Apta_834 | DNA | CGCAATACCAAAGTGGCGAGAGCGCTGTCTTGAGTGAGTGGTTGG | |
| Apta_946 | DNA | TACCGGGTAATATGCACACATGCTGATAGCAAGCAATGCA | |
| Apta_961 | DNA | CTAGTGGGGACCTTCCAGGGTAACTGCTCGCATTCTCCAT | |
| Apta_962 | DNA | CCACACCGAGATGTTGTGACGGTTCCGATTGGCAAACTGA | |
| Apta_975 | DNA | AGACATAGTACATAACCGATCAATGAACATTTAATTAAATGGTGGTATCC | |
| Apta_987 | DNA | GTACTGTCAATTGGAAGTGGTGTTACGTTGTGTAGTCAAATCAGTGC | |
| Apta_1045 | DNA | GGTGCTCAGGGAACTGTCTGAGGGATCAGGCTTAAGCCTGTCGAGCAGTT | |
| Apta_1214 | DNA | GTCCATTATTCTGGTAGCGTTGAACAACATTCAACACGCC | |
| Apta_1179 | DNA | GAATTCAGTCGGACAGCGAAGTAGTTTTCCTTCTAACCTAAGAACCCGCGGCAGTTTAATGTAGATGGACGAATACGTCTCCC | |
| Apta_1111 | DNA | GTGCGTCGCATGATCGCGATTAGTGCGACCATGTACGATTCTCACGACAACGACACTGTACTTGAGGACTGTCTCC | |
| Apta_61 | DNA | AGCAGCACAGAGGTCAGATGGCAGGTAAGCAGGCGGCTCACAAAACCATTCGCATGCGGCCCTATGCGTGCTACCGTGAA | |
| Apta_107 | DNA | AGCAGCACAGAGGTCAGATGTTCATTTCAGTTGACCGATAGCATTGAGCAATGATCTATTCCTATGCGTGCTACCGTGAA |
DEV TOOL
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