Aptamer-target interaction descriptor
Aptamer-target interaction information
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_483 | [B7]-3-0 | Protein | HBP2_LISMO | 29 nM | 20 mM Tris-AcOH (pH 8.0), 100 mM NaCl, 200 mM KCl, 5 mM MgCl2, 0.5% Triton X-100, and 5% DMSO | 22954361 |
Structure information of aptamer
| Aptamer Sequence: | ATTGGGAGGGATTGGGTGGG |
| 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_483 | Description | [B7]-3-0 |
| Aptamer chemistry | DNA | Length | 20 nt |
| GC content | 60.0% | Molecular weight | 6,349.09 Da |
| Molarity of 1 μg/μl solution | 157.50 μM | Number of G-quadruplexes | 3 |
| G-Score | 62 | Function | Aptasensor |
| Sequence | ATTGGGAGGGATTGGGTGGG | ||
| Applications | Peroxidase activity and strong binding affinity to hemin | ||
Target information
| Type | Detail | Type | Detail |
|---|---|---|---|
| Uniprot ID | Q7AP54 | Protein name | Hemin/hemoglobin-binding protein 2 (Hn/Hb-binding protein 2) (P64) (Surface virulence-associated protein A) |
| Gene name(s) | hbp2 svpA lmo2185 | Organism | Hemin/hemoglobin-binding protein 2 (Hn/Hb-binding protein 2) (P64) (Surface virulence-associated protein A) |
| Status | reviewed in uniprot database | Length | 569 |
| Mass | 63,380 | Activity regulation | Is overexpressed in mecA, clpC and clpP mutants |
| Involvement in disease | N/A | Catalytic activity | N/A |
| PDB ID(s) | 4MYP;4NLA; |
 |
Function | Acts as an extracellular and cell wall-bound hemophore; scavenges host heme and hemoglobin from the environment and also serves as a cell wall receptor for both. |
Activity data
 |
Interaction ID | 488 |
| Target type | Protein | |
| Target unique ID | Q7AP54 | |
| Activity | 29 nM | |
| Binding Conditions/Buffer | 20 mM Tris-AcOH (pH 8.0), 100 mM NaCl, 200 mM KCl, 5 mM MgCl2, 0.5% Triton X-100, and 5% DMSO |
|
| Assay | CD spectra of truncated aptamers (4 μM) in PB buffer without (black line) and with (red line) K+ |
|
| PubMed ID | 22954361 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_390 | DNA | GGTGCGGCGGGACTAGTGGGTGTG | |
| Apta_14 | DNA | AGCGGGGGGGGCTGGGCTGGGTGGG | |
| Apta_22 | DNA | TGTGGGGGTGGACTGGGTGGGTACC | |
| Apta_757 | DNA | GGTGGTGGTGGTTGTGGTGGTGG | |
| Apta_11 | DNA | AGAGGGGGGGGTCGGGGTGGGTCGC | |
| Apta_17 | DNA | AGGGGGGGGGGTGGGGGTGGGTCCC | |
| Apta_20 | DNA | AGAGGGGGGGGTGGGGGTGGCCTGC | |
| Apta_26 | DNA | AGGGGGGGGGGTAAGGGTGGGTAGA | |
| Apta_27 | DNA | AGGGGGAGGGGTGGGGCCGGGCAGA | |
| Apta_515 | DNA | CCTGGGGGAGTATTGCGGAGGAAGG | |
| Apta_545 | DNA | TTAGTTGGGGTTCAGTTGG | |
| Apta_669 | DNA | AACGTGGGAGGGCGGTGGTGTTGAA | |
| Apta_806 | DNA | GGTTGGATGTAAGGTTGGAGGGGGG | |
| Apta_1098 | DNA | ATGGCCAGGGGGGAGGGG | |
| Apta_1196 | DNA | GGGGGATGGGGG | |
| Apta_1197 | DNA | GGGGGCATGGGGG | |
| Apta_66 | DNA | TACCGTGGTAGGGAAGGTTGGAGTGTA | |
| Apta_62 | DNA | AGTCCGTGGTAGGGCAGGTTGGGGTGACT | |
| Apta_65 | DNA | CTACCGTGGTAGGGAAGGTTGGAGTGTAG | |
| Apta_350 | DNA | GGTGGTGGTGGTTGTGGTGGTGGTGG |
DEV TOOL
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