Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 1079
Aptamer sequence: GCAATGGTACGGTACTTCCGGACAGTGCTGAAAACTGTGACCCCCCAAAAGTGCACGCTACTTTGCTAA
Target unique ID: 33152
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_994 | R10C5 | Cell | Legionella pneumophila | 116 nM | 1X PBS with 0.1 mg/ml salmon sperm DNA, 1% bovine serum albumin, and 0.05% Tween 20 | 32499557 |
Structure information of aptamer
| Aptamer Sequence: | GCAATGGTACGGTACTTCCGGACAGTGCTGAAAACTGTGACCCCCCAAAAGTGCACGCTACTTTGCTAA |
| 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_994 | Description | R10C5 |
| Aptamer chemistry | DNA | Length | 69 nt |
| GC content | 50.7% | Molecular weight | 21,213.61 Da |
| Molarity of 1 μg/μl solution | 47.14 μM | Number of G-quadruplexes | No QGRS found |
| G-Score | N/A | Function | Aptasensor |
| Sequence | GCAATGGTACGGTACTTCCGGACAGTGCTGAAAACTGTGACCCCCCAAAAGTGCACGCTACTTTGCTAA | ||
| Applications | Biosensor to detect Lp in real time and in situ | ||
Target information
| Type | Detail | Type | Detail |
|---|---|---|---|
| ATCC ID | 33152 | Cell name | Legionella pneumophila |
| Category | Bacteria | Organism | N/A |
| Product type | Preceptrol culture | Cell type | N/A |
| Morphology | N/A | Tissue | N/A |
| Disease | N/A | Product format | Freeze-dried |
| Antigen expression | N/A | Genes expressed | N/A |
| Cell description | Type strain. Genome sequencing strain. Fluorescent antibody serogroup 1. Used in media testing. |
|
|
| Application(s) | Bioinformatics; Infectious disease research; Media testing; Respiratory disease research | ||
Activity data
 |
Interaction ID | 1079 |
| Target type | Cell | |
| Target unique ID | 33152 | |
| Activity | 116 nM | |
| Binding Conditions/Buffer | 1X PBS with 0.1 mg/ml salmon sperm DNA, 1% bovine serum albumin, and 0.05% Tween 20 |
|
| Assay | Determination of the KD of the aptamers R10C5 (a) and R10C1 (b). Lp (lp120292) was incubated with 10-fold dilutions of the FITC-tagged aptamers and the fuorescence was measured by fow cytometry. Te number of cells displaying fuorescence above the autofuorescence were counted as bound cells, as described in Fig.?2. Te graphs show individual values of three experiments. Te equilibrium dissociation constant, KD was calculated using GraphPad Prism 7.03. Te non-linear regression (solid line) with 95% confdence interval error envelopes (dotted lines) is shown |
|
| PubMed ID | 32499557 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_995 | DNA | GCAATGGTACGGTACTTCCCCACCCCACGCTGCTCCCAAAAGTGCACGCTACTTTGCTAA | |
| Apta_408 | DNA | GCAATGGTACGGTACTTCCGTCATCAGCTTGTGATGTGGATGCGAACTGCAAAAGTGCACGCTACTTTGCTAA | |
| Apta_409 | DNA | GCAATGGTACGGTACTTCCGGATGCGGAAACTGGCTAATTGGTGAGGCTGGGGCGGTCGTGCAGCAAAAGTGCACGCTACTTTGCTAA | |
| Apta_151 | DNA | GCAATGGTACGGTACTTCCGCGGTCCGGGGTGGGTGGGTGGTGGGGGGTGCGGGGGGGCGGCCGCAAAAGTGCACGCTACTTTGCTAA | |
| Apta_80 | RNA | GCAAUGGUACGGUACUUCCUUUGGAAGAUAGCUGGAGAACUAACCAAAAGUGCACGCUACUUUGCUAA | |
| Apta_81 | RNA | GCAAUGGUACGGUACUUCCAAGUGCGGGGGGGAGGUGGUGGUUCCAAAAGUGCACGCUACUUUGCUAA | |
| Apta_1107 | DNA | GCGCGATGGACTGTACCTTCGGCGTAACTGATATTCCTGATGATTCTGGCGAGACGTAGCACAAACCCGGTGTATA | |
| Apta_843 | DNA | TGAGCCCAAGCCCTGGTATGTCACATCCGGGTTCTTTGCGAACGCGTTTCCGCAGTCTCAGGCAGGTCTACTTTGGGATC | |
| Apta_33 | DNA | GCGGTAAACTGCGTCCGAAGGGGCTGCAGTGACCCGAATGGGTCCGCCGCGAAGCG | |
| Apta_42 | DNA | GCTGGTCTCTGCGGGTTGTTGCGCCGCGGCACCCTTGGCA | |
| Apta_640 | DNA | CAATGGACCTATTCGAGTACTGAATAGAACAGTCGGCGCTCTGGG | |
| Apta_667 | DNA | GCGGCGGTACCAGGTCAAAGGTGGGTGAGGGGACGCCAAGAGTCCCCGCGGTTACATAGAG | |
| Apta_811 | DNA | ATAGGAGTCACGACGACCAGAATCTAAAAATGGGCAAAGAAACAGTGACTCGTTGAGATACTTATGTGCGTCTACCTCTTGACTAAT | |
| Apta_106 | DNA | AGCAGCACAGAGGTCAGATGGAGCCAGGAGTCGGCCTACAGAAGATTCTGATGTACCTCACCTATGCGTGCTACCGTGAA | |
| Apta_106 | DNA | AGCAGCACAGAGGTCAGATGGAGCCAGGAGTCGGCCTACAGAAGATTCTGATGTACCTCACCTATGCGTGCTACCGTGAA | |
| Apta_838 | DNA | TGAGCCCAAGCCCTGGTATGTAGTAATGGTGCGTACAGGCGACGGGGTCCAGGCTGGAGGGGCAGGTCTACTTTGGGATC | |
| Apta_1120 | DNA | GGGAATGGATCCACATCTACGAATTCGGAATGAGTGCCCTGCAAGCGAGGGCTAGCTTCACTGCAGACTTGACGAAGCTT | |
| Apta_357 | DNA | ACAATGTCGCTCTCCGCCGCAGGAGCATTGTCTGTCTTTATGCTTCTCTTTTTTGTTGC | |
| Apta_395 | DNA | AATCCACGTATCGACTAGCTCAAACCAGCCTGATAGAGCCATTCGCTTTA | |
| Apta_514 | DNA | ACTCAGCACGCGTGTAGGGAAAACCAACCGCCCACAAGCTGCATGCAACG |
DEV TOOL
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