Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 501
Aptamer sequence: GGGAATGGATCCACATCTACGTATTACTGCTGGTGACGAGGGCTAGACGACGTACCTTCACTGCAGACTTGACGAAGCTT
Target unique ID: Q92729
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_495 | N30yc5 | Protein | PTPRU_HUMAN | 28 nM | 20 mM Tris (pH 7.6), 150 mM NaCl, 5 mM MgCl2, 1 mM dithiothreitol; 100 μL final volume | 9603938 |
Structure information of aptamer
| Aptamer Sequence: | GGGAATGGATCCACATCTACGTATTACTGCTGGTGACGAGGGCTAGACGACGTACCTTCACTGCAGACTTGACGAAGCTT |
| 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_495 | Description | N30yc5 |
| Aptamer chemistry | DNA | Length | 80 nt |
| GC content | 51.3% | Molecular weight | 24,718.83 Da |
| Molarity of 1 μg/μl solution | 40.45 μM | Number of G-quadruplexes | No QGRS found |
| G-Score | N/A | Function | Targeted binding |
| Sequence | GGGAATGGATCCACATCTACGTATTACTGCTGGTGACGAGGGCTAGACGACGTACCTTCACTGCAGACTTGACGAAGCTT | ||
| Applications | Defining the interactions between PTPases and their targets | ||
Target information
| Type | Detail | Type | Detail |
|---|---|---|---|
| Uniprot ID | Q92729 | Protein name | Receptor-type tyrosine-protein phosphatase U (R-PTP-U) (EC 3.1.3.48) (Pancreatic carcinoma phosphatase 2) (PCP-2) (Protein-tyrosine phosphatase J) (PTP-J) (hPTP-J) (Protein-tyrosine phosphatase pi) (PTP pi) (Protein-tyrosine phosphatase receptor omicron) (PTP-RO) (Receptor-type protein-tyrosine phosphatase psi) (R-PTP-psi) |
| Gene name(s) | PTPRU FMI PCP2 PTPRO | Organism | Receptor-type tyrosine-protein phosphatase U (R-PTP-U) (EC 3.1.3.48) (Pancreatic carcinoma phosphatase 2) (PCP-2) (Protein-tyrosine phosphatase J) (PTP-J) (hPTP-J) (Protein-tyrosine phosphatase pi) (PTP pi) (Protein-tyrosine phosphatase receptor omicron) (PTP-RO) (Receptor-type protein-tyrosine phosphatase psi) (R-PTP-psi) |
| Status | reviewed in uniprot database | Length | 1446 |
| Mass | 162,423 | Activity regulation | N/A |
| Involvement in disease | N/A | Catalytic activity | Reaction=H2O + O-phospho-L-tyrosyl-[protein] = L-tyrosyl-[protein] + phosphate |
| PDB ID(s) | 6SUB;6SUC; |
 |
Function | Tyrosine-protein phosphatase which dephosphorylates CTNNB1. |
Activity data
 |
Interaction ID | 501 |
| Target type | Protein | |
| Target unique ID | Q92729 | |
| Activity | 28 nM | |
| Binding Conditions/Buffer | 20 mM Tris (pH 7.6), 150 mM NaCl, 5 mM MgCl2, 1 mM dithiothreitol; 100 μL final volume |
|
| Assay | Binding curves for anti-Yop51* aptamers with Yop51*D162 |
|
| PubMed ID | 9603938 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_1119 | DNA | GGGAATGGATCCACATCTACGAATTCGGTTGTGAAGATTGGGAGCGTCGTGGCTACTTCACTGCAGACTTGACGAAGCTT | |
| Apta_1118 | DNA | GGGAATGGATCCACATCTACGAATTCATCAGGGCTAAAGAGTGCAGAGTTACTTAGTTCACTGCAGACTTGACGAAGCTT | |
| Apta_1120 | DNA | GGGAATGGATCCACATCTACGAATTCGGAATGAGTGCCCTGCAAGCGAGGGCTAGCTTCACTGCAGACTTGACGAAGCTT | |
| Apta_587 | DNA | GGAATGGATCCACATCCATGGATGGGCAATGCGGGGTGGAGAATGGTTGCCGCACTTCGGCTTCACTGCAGACTTGACGAAGCTT | |
| Apta_623 | RNA | GGGAAUGGAUCCACAUCUACGAAUUCACCGCGGGGUUGCGGACCGGGAGCUCCAGCUUCACUGCAGACUUGACGAAGCUU | |
| Apta_624 | RNA | GGGAAUGGAUCCACAUCUACGAAUUCGAAUUGCCGUAAUUUCCCGUGGAGCGAUGCUUCACUGCAGACUUGACGAAGCUU | |
| Apta_567 | DNA | CCTAAGGGGGGACTCAGCATTTTGTGCGGGCGGCGCTAACACAATCAGATAGAGCGGGGTT | |
| Apta_589 | DNA | GGGAATTCGAGCTCGGTACCATCTGTGTAAGGGGTAAGGGGTGGGGGTGGGTACGTCTAGCTGCAGGCATGCAAGCTTGG | |
| Apta_901 | DNA | ATACGGGAGCCAACACCACAAGTTGACTTGGAGGAGGGTCTAACTAGTTCGAGGAGAGCAGGTGTGACGGAT | |
| Apta_1101 | DNA | CCGTAATACGACTCACTATAGGTATGTGACGCGCGTCAATCGCTGTCCTACCAAGCTTTGCAGAGAGGATCCTT | |
| Apta_589 | DNA | GGGAATTCGAGCTCGGTACCATCTGTGTAAGGGGTAAGGGGTGGGGGTGGGTACGTCTAGCTGCAGGCATGCAAGCTTGG | |
| Apta_948 | DNA | TAGGGAAGAGAAGGACATATGATACTGGCCTTGACACCCTGTTGTGGCTTGATGACAATAACATTGACTAGTACATGACCACTTGA | |
| Apta_355 | DNA | GATGCAGCCACCTACATTGCAGGTTTTATAATACAACTACGCGCCGTTCGCAGGCTAGTT | |
| Apta_68 | DNA | AGATGCCTGTCGAGCATGCTGTGAATAGGTAGGGTCGGATGGGCTACGGTGTAGCTAAACTGCTTTGTCGACGGG | |
| Apta_408 | DNA | GCAATGGTACGGTACTTCCGTCATCAGCTTGTGATGTGGATGCGAACTGCAAAAGTGCACGCTACTTTGCTAA | |
| Apta_464 | DNA | GTCAGATTCCACTATAGTAGGTTGGGTAGGGTGGTCGCAGTGGATGATATGTCGTAGGGG | |
| Apta_570 | DNA | GGCAAGATGTGCCCAGAACAGTTGCTTGTATGGTGGGGAGCGTCCATATTGGCTTAAAC | |
| Apta_790 | DNA | GGGAGACAAGAATAAACGCTCAAGAAGTGAAAATGACAGAACACAACATTCGACAGGAGGCTCACAACAGGC | |
| Apta_824 | DNA | ATACGGGAGCCAACACCATCCCTCTTAGGATACAAAGCCAAACTGAGCCCGTGCAGAGCAGGTGTGACGGAT | |
| Apta_1034 | DNA | ATGCGGATCCCGCGCGCGACCGTGTCAGCGGGGACTAGCGGTGTAGCGCGAAGCTTGCGC |
DEV TOOL
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