Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 307
Aptamer sequence: AUACCAGCUUAUUCAAUUGCCUGAAAACUGGUGUACCUCUUUGCCCUAUCUUAUCUGGAGAUAGUAAGUGCAAUCU
Target unique ID: P10696
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_298 | SQ-5 | Protein | PPBN_HUMAN | 49 nM | 4.5 g/L glucose, 5 mmol/L MgCl2, 0.1 mg/mL yeast tRNA, and 1 mg/mL bovine serum albumin (BSA) in Dulbecco's PBS | 23467613 |
Structure information of aptamer
| Aptamer Sequence: | AUACCAGCUUAUUCAAUUGCCUGAAAACUGGUGUACCUCUUUGCCCUAUCUUAUCUGGAGAUAGUAAGUGCAAUCU |
| 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_298 | Description | SQ-5 |
| Aptamer chemistry | RNA | Length | 76 nt |
| GC content | 39.5% | Molecular weight | 24,398.17 Da |
| Molarity of 1 μg/μl solution | 40.99 μM | Number of G-quadruplexes | No QGRS found |
| G-Score | N/A | Function | Targeted binding |
| Sequence | AUACCAGCUUAUUCAAUUGCCUGAAAACUGGUGUACCUCUUUGCCCUAUCUUAUCUGGAGAUAGUAAGUGCAAUCU | ||
| Applications | The aptamer-mediated identification of ALPPL-2 on the cell surface and cell secretions of pancreatic cancer cells supports its potential use in the serum and membrane-based diagnosis of PDAC | ||
Target information
| Type | Detail | Type | Detail |
|---|---|---|---|
| Uniprot ID | P10696 | Protein name | Alkaline phosphatase, germ cell type (EC 3.1.3.1) (ALP-1) (Alkaline phosphatase Nagao isozyme) (Alkaline phosphatase, placental-like) (Germ cell alkaline phosphatase) (GCAP) (Placental alkaline phosphatase-like) (PLAP-like) |
| Gene name(s) | ALPG ALPPL ALPPL2 | Organism | Alkaline phosphatase, germ cell type (EC 3.1.3.1) (ALP-1) (Alkaline phosphatase Nagao isozyme) (Alkaline phosphatase, placental-like) (Germ cell alkaline phosphatase) (GCAP) (Placental alkaline phosphatase-like) (PLAP-like) |
| Status | reviewed in uniprot database | Length | 532 |
| Mass | 57,377 | Activity regulation | Inhibited by L-leucine, EDTA and heat |
| Involvement in disease | N/A | Catalytic activity | Reaction=a phosphate monoester + H2O = an alcohol + phosphate |
| PDB ID(s) | N/A |
 |
Function | Alkaline phosphatase that can hydrolyze various phosphate compounds. |
Activity data
|
No relevant experimental diagram |
Interaction ID | 307 |
| Target type | Protein | |
| Target unique ID | P10696 | |
| Activity | 49 nM | |
| Binding Conditions/Buffer | 4.5 g/L glucose, 5 mmol/L MgCl2, 0.1 mg/mL yeast tRNA, and 1 mg/mL bovine serum albumin (BSA) in Dulbecco's PBS |
|
| Assay | N/A |
|
| PubMed ID | 23467613 | |
 |
Interaction ID | 547 |
| Target type | Molecule | |
| Target unique ID | 5327 | |
| Activity | 167.8 nM | |
| Binding Conditions/Buffer | 20 mM Tris-HCl, 100 mM NaCl, 2 mM MgCl2, 5 mM KCl, 1 mM CaCl2, pH 7.4 |
|
| Assay | N/A |
|
| PubMed ID | 33184760 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_299 | RNA | AUACCAGCUUAUUCAAUUGCCUGAAGACUGGAUAUACUCUUAAGCAUUUCUAUAAUCGAGAUAGUAAGUGCAAUCU | |
| Apta_296 | RNA | AUACCAGCUUAUUCAAUUGCCUGAAAACCUGGUCUCUCUGUCAGCAAAGACUAUGTUGAGAUAGUAAGUGCAAUCU | |
| Apta_300 | RNA | AUACCAGCUUAUUCAAUUGCCUGAAACUGCUGCAUCGUCUCCCACGUAUUACACAUGAAGAUAGUAAGUGCAAUCU | |
| Apta_294 | RNA | AUACCAGCUUAUUCAAUUGCCUGAUUAGCGGUAUCACGAUUACUUACCUUCGUUGCUGAGAUAGUAAGUGCAAUCU | |
| Apta_295 | RNA | AUACCAGCUUAUUCAAUUGCCUGAAAAGCUAUCGCCCAAUUCGCAGUGAUAUCCUUUAAGAUAGUAAGUGCAAUCU | |
| Apta_297 | RNA | AUACCAGCUUAUUCAAUUGCCUGAGUAGCUGGGUCCGUCCCCACACAUUACCAUUUGUAGAUAGUAAGUGCAAUCU | |
| Apta_301 | RNA | AUACCAGCUUAUUCAAUUGCCUGAAAAGUUGAACUCCAAAUACGCGCUGAGAUAGUAAGUGCAAUCU | |
| Apta_494 | RNA | GGGAGAUACCAGCUUAUUCAAUUCUGGCAAUGGGCUAUCCCAAGUGCUAGGCUUCAGGGAGCGAGGACCAGACGACGUACCUAACCCUAAGGUGAGAUAGUAAGUGCAAUCU | |
| Apta_430 | RNA | GGGAUAUCCUCGAGCAUAAGAAACAAGAUAGAUCCUGAAACUGUUUUAAGGUUGGCCGAUCUUCUGCUCGAGAAUGCAUGAAGCGUUCCAUAUUUUU | |
| Apta_710 | RNA | GGAUAAUAGCCGUAGGUUGCGAAAGCGACCCUGAUGAGUCUGGAUACCAUGCAUGAUGCACCUUGGCAGUCUUACGAAACGGUAGCGAGAGCUC | |
| Apta_551 | RNA | GGAUGUCCAGUCGCUUGCAAUGCCCUUUUAGACCCUGAUGAGCGGUGCUAGUUAGUUGCAGUUUCGGUUGUUACGCGAAACGGUGAAAGCCGUAGGUCU | |
| Apta_874 | RNA | GGAUAAUAGCCGUAGGUUGCGAAAGCGACCCUGAUGAGCCUUAGGAUAUGUCUGGAUACCAUGCAUGAUGCACCUUGGCAGUCUUACAGAAGGACGUCGAAACGGUAGCGAGAGCUC | |
| Apta_559 | RNA | GGAUGUCCAGUCGCUUGCAAUGCCCUUUUAGACCCUGAUGAGGAUCAUCGGACUUUGUCCUGUGGAGUAAGAUCGCGAAACGGUGAAAGCCGUAGGUCU | |
| Apta_893 | RNA | ACCGAGUCCAGAAGCUUGUAGUACUUAUGUCCCAUCGAACGCAGUGUAUCUUGCACCGACUCUCUGCCUAGAUGGAGUUGAAUUCUCCCUAUAGUGAGUCGUAUUAC | |
| Apta_613 | RNA | GGAUAAUAGCCGUAGGUUGCGAAAGCGACCCUGAUGAGCCUUAGGAUAUGCAUGAUGCAGAAGGACGUCGAAACGGUAGCGAGAGCUC | |
| Apta_561 | RNA | GGAUAAUAGCCGUAGGUUGCGAAAGCGACCCUGAUGAGCCUGUGGAAACAGACGUGGCACAUGACUACGUCGAAACGGUAGCGAGAGCUC | |
| Apta_563 | RNA | GGAUAAUAGCCGUAGGUUGCGAAAGCGACCCUGAUGAGAAAGCCAAAGCCGUAGCGCAGAUGAUCUCGCCAUCAGUACCGAAACGGUAGCGAGAGCUC | |
| Apta_909 | RNA | GGGAAUUCGAGCUCGGUACCUUUACCGUAAGGCCUGUCUUCGUUUGACAGCGGCUUGUUGACCCUCCACUUUGUACCUGCUGCCAACUGCAGGCAUGCAAGCUUGG | |
| Apta_1223 | RNA | GGAGGCGCCAACUGAAUGAAAGGUUACGCUUCAACGCCGUGCAGCUGCUUCGGCAGGCUUGUGAGUACAUGGCCCAUUGAUCCGUAACUAGUCGCGUCAC | |
| Apta_1224 | RNA | GGAGGCGCCAACUGAAUGAAUGUUCUGGAUCUGCUAGAGACUAUCUGCUUCGGCAGCACUCUCCGUUAACAACACGUACAUCCGUAACUAGUCGCGUCAC |
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