Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 374
Aptamer sequence: ATCCAGAGTGACGCAGCACGGCACTCACTCTTTGTTAAGTGGTCTGCTTCTTAACCTTCATCGACACGGTGGCTTA
Target unique ID: P31948
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_920 | TOV6 | Protein | STIP1_HUMAN | N/A | 4.5 g/L glucose and 5 mM MgCl2 in Dulbecco’s phosphate-buffered saline (PBS) with CaCl2 and MgCl2 (Sigma), baker’s yeast tRNA | 24654750 |
Structure information of aptamer
| Aptamer Sequence: | ATCCAGAGTGACGCAGCACGGCACTCACTCTTTGTTAAGTGGTCTGCTTCTTAACCTTCATCGACACGGTGGCTTA |
| 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_920 | Description | TOV6 |
| Aptamer chemistry | DNA | Length | 76 nt |
| GC content | 50.0% | Molecular weight | 23,310.92 Da |
| Molarity of 1 μg/μl solution | 42.90 μM | Number of G-quadruplexes | No QGRS found |
| G-Score | N/A | Function | Target recognition |
| Sequence | ATCCAGAGTGACGCAGCACGGCACTCACTCTTTGTTAAGTGGTCTGCTTCTTAACCTTCATCGACACGGTGGCTTA | ||
| Applications | Identity of the targetmolecule of aptamer TOV6 is STIP1, and by identifying the target of TOV6, a blocking effect in the metastatic process of TOV-21G could be identified | ||
Target information
| Type | Detail | Type | Detail |
|---|---|---|---|
| Uniprot ID | P31948 | Protein name | Stress-induced-phosphoprotein 1 (STI1) (Hsc70/Hsp90-organizing protein) (Hop) (Renal carcinoma antigen NY-REN-11) (Transformation-sensitive protein IEF SSP 3521) |
| Gene name(s) | STIP1 | Organism | Stress-induced-phosphoprotein 1 (STI1) (Hsc70/Hsp90-organizing protein) (Hop) (Renal carcinoma antigen NY-REN-11) (Transformation-sensitive protein IEF SSP 3521) |
| Status | reviewed in uniprot database | Length | 543 |
| Mass | 62,639 | Activity regulation | N/A |
| Involvement in disease | N/A | Catalytic activity | N/A |
| PDB ID(s) | 1ELR;1ELW;2LNI;2NC9;3ESK;3FWV;7KW7; |
 |
Function | Acts as a co-chaperone for HSP90AA1. |
Activity data
 |
Interaction ID | 374 |
| Target type | Protein | |
| Target unique ID | P31948 | |
| Activity | N/A | |
| Binding Conditions/Buffer | 4.5 g/L glucose and 5 mM MgCl2 in Dulbecco’s phosphate-buffered saline (PBS) with CaCl2 and MgCl2 (Sigma), baker’s yeast tRNA |
|
| Assay | Effect of TOV6 on migration and invasion of TOV-21G cells. A 2 μM concentration of TOV6 has no effect on the migration ability of TOV-21G. A 2 μM concentration of aptamer TOV6 can prevent cell invasion to a degree equal to that of ～0.05 μM 17-AAG with STIP1 silencing. Error bars represent the standard deviation (n =3) |
|
| PubMed ID | 24654750 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_923 | DNA | ATCCAGAGTGACGCAGCATCGACCTCTGTGCGAGCGGGTTGCATATATATTTTGCATGGACACGGTGGCTTAGT | |
| Apta_786 | DNA | ATCCAGAGTGACGCAGCATTTGTATCCTATTTTGTTTATGTAATTGTCGTTGATCATGTGGACACGGTGGCTTAGT | |
| Apta_921 | DNA | ATCCAGAGTGACGCAGCACGAGCCAGACATCTCACACCTGTTGCATATACATTTTGCATGGACACGGTGGCTTAGT | |
| Apta_725 | DNA | ATCCAGAGTGACGCAGCATGCTCATCCACGATTCTGGCGAATTTAGTGCCTGTCTTTTTCTCTTGGACACGGTGGCTTAGT | |
| Apta_922 | DNA | ATCCAGAGTGACGCAGCACACCGTTTGTATTCTGCATTGTTTTGCATTCTACATGGACACGGTGGCTTAGT | |
| Apta_785 | DNA | ATCCAGAGTGACGCAGCATGAATCTTTTCTTTTGGTTTTGATATTTATAGTTGGTGAATGGACACGGTGGCTTAGT | |
| Apta_794 | DNA | ATCCAGAGTGACGCAGCAAGGAGATTCGAGGGGGAAGGTTTGTTATAGGGGTTAATGGACACGGTGGCTTAGT | |
| Apta_1088 | DNA | ATCCAGAGTGACGCAGCATCGAGTGGCTTGTTTGTAATGTAGGGTTCCGGTCGTGGGTTGGACACGGTGGCTTAGT | |
| Apta_1293 | DNA | ATCCAGAGTGACGCAGCATGCCCTAGTTACTACTACTCTTTTTAGCAAACGCCCTCGCTTTGGACACGGTGGCTTAGT | |
| Apta_784 | DNA | ATCCAGAGTGACGCAGCATTTTGACGCTTTATCCTTTTCTTATGGCGGGATAGTTTCGTGGACACGGTGGCTTAGT | |
| Apta_787 | DNA | ATCCAGAGTGACGCAGCATTTGTTTAATATGTTTTTTAATTCCCCTTGTGGTGTGTTGTGGACACGGTGGCTTAGT | |
| Apta_1090 | DNA | ATCCAGAGTGACGCAGCAGGGCTTGGGTTGGGAATAAGGATGTGGGAGGCGGCGAACATGGACACGGTGGCTTAGT | |
| Apta_401 | DNA | ATCCAGAGTGACGCAGCAGATAAGTAGGTATCCGTTTGAAAAACTTTTCTGACCGTCCGACTATGGACACGGTGGCTTAGT | |
| Apta_1089 | DNA | ATCCAGAGTGACGCAGCAATTACCGATGGCTTGTTTGTAATGTAGGGTTCCGTCGGATTGGACACGGTGGCTTAGT | |
| Apta_288 | DNA | ATCCAGAGTGACGCAGCATTTCATCGGGTCCAAAAGGGGCTGCTCGGGATTGCGGATATGGACACGT | |
| Apta_1112 | DNA | ATCCAGAGTGACGCAGCAGGGCACATTGTTCACACACAGATCACATTACGGAAAACACAACTACACGAAATGTCGTTGGTGGCCC | |
| Apta_897 | DNA | ATACGGGAGCCAACACCACTCTTATTTCCGGAAGTGGTTCTTCAACAGAGGAATAGAGCAGGTGTGACGGAT | |
| Apta_726 | DNA | TACCAGTGCGATGCTCAGGCCGATGTCAACTTTTTCTAACTCACTGGTTTTGCCTGACGCATTCGGTTGAC | |
| Apta_788 | DNA | TACCAGTGCGATGCTCAGTAACTTTGAAGGAAAGGCTACAAACTCTTCCTGACGCATTCGGTTGAC | |
| Apta_704 | DNA | GTACGAATTCACGAGGTTGCCAGCGGGGCCAGCCACTTCTGTCAGTGAATTCCTGCTCGTATATCTACTCGCCCGCCTGCGAGCATGGAGTCGGATCCTCTA |
DEV TOOL
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