Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 394
Aptamer sequence: GCGGAAGCGUGCUGGGCUAGAAUAAUAAUAAGAAAACCAGUACUUUCGU
Target unique ID: P31809
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_388 | YJ-1 | Protein | CEAM1_MOUSE | 0.77 nM | 30 mM Tris-HCL, 150 mM NaCK, 1.5 mM MgCl2, 2 mM dithiothreitol, 1% bovine serum albumin, pH 7.5 | 22465431 |
Structure information of aptamer
| Aptamer Sequence: | GCGGAAGCGUGCUGGGCUAGAAUAAUAAUAAGAAAACCAGUACUUUCGU |
| 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_388 | Description | YJ-1 |
| Aptamer chemistry | RNA | Length | 49 nt |
| GC content | 42.9% | Molecular weight | 15,831.49 Da |
| Molarity of 1 μg/μl solution | 63.17 μM | Number of G-quadruplexes | No QGRS found |
| G-Score | N/A | Function | Targeted binding |
| Sequence | GCGGAAGCGUGCUGGGCUAGAAUAAUAAUAAGAAAACCAGUACUUUCGU | ||
| Applications | The isolated aptamer bound specifically to CEA-positive cells and inhibited interactions between CEA and heterogeneous nuclear ribonucleoprotein M4 | ||
Target information
| Type | Detail | Type | Detail |
|---|---|---|---|
| Uniprot ID | P31809 | Protein name | Carcinoembryonic antigen-related cell adhesion molecule 1 (Biliary glycoprotein 1) (BGP-1) (Biliary glycoprotein D) (MHVR1) (Murine hepatitis virus receptor) (MHV-R) (CD antigen CD66a) |
| Gene name(s) | Ceacam1 Bgp Bgp1 | Organism | Carcinoembryonic antigen-related cell adhesion molecule 1 (Biliary glycoprotein 1) (BGP-1) (Biliary glycoprotein D) (MHVR1) (Murine hepatitis virus receptor) (MHV-R) (CD antigen CD66a) |
| Status | reviewed in uniprot database | Length | 521 |
| Mass | 57,016 | Activity regulation | N/A |
| Involvement in disease | N/A | Catalytic activity | N/A |
| PDB ID(s) | 1L6Z;3R4D;5VST;6VSJ; |
 |
Function | Cell adhesion protein that mediates homophilic cell adhesion in a calcium-independent manner. |
Activity data
|
No relevant experimental diagram |
Interaction ID | 394 |
| Target type | Protein | |
| Target unique ID | P31809 | |
| Activity | 0.77 nM | |
| Binding Conditions/Buffer | 30 mM Tris-HCL, 150 mM NaCK, 1.5 mM MgCl2, 2 mM dithiothreitol, 1% bovine serum albumin, pH 7.5 |
|
| Assay | N/A |
|
| PubMed ID | 22465431 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_268 | RNA | CUUAUAGGGGAGGCUGUGGUGAGGGAAUAUUAAGAGAAUUAACGGUCUAGUUCACCUCGA | |
| Apta_80 | RNA | GCAAUGGUACGGUACUUCCUUUGGAAGAUAGCUGGAGAACUAACCAAAAGUGCACGCUACUUUGCUAA | |
| Apta_271 | RNA | CUGUCGAGCAUGCUCAGGGUAACGUAUAGUCAAGACACCUCAAGUGUAACU | |
| Apta_6 | RNA | GGAAAGACGCUAGCGAAUUGGUUCCUCGAAAGGGGAAAGCGUUAUUAAGAAACCAAAAUUUCC | |
| Apta_136 | RNA | CGUGUCGUCCUGGUACGAUUUGGUAUAUAACCGUGGCUUUUCGACA | |
| Apta_560 | RNA | GGAAGAGAUGGCGACUAAAACGACUUGUCGC | |
| Apta_632 | RNA | GACGAGAAGGAGUGCUGGUUAUACUAGCGGUUAGGUCACUCGUC | |
| Apta_601 | RNA | GGGAAUUCCGCGUGUGCGCCGCGGAAGAGGGAAUAUAGAGGCCAGCACAUAGUGAGGCCCUCCUCCC | |
| Apta_394 | RNA | GGGCGAAUUCAACUGCCAUCUAGGCAGUAACCAGGAGUUAGUAGGACAAGUUUCGUCC | |
| Apta_315 | RNA | GGGAGGACGAUGCGGUCGUAUUAUCCGCUGCACGCCAGACGACUCGCCCGA | |
| Apta_426 | RNA | UGCCGCUAUAAUGCACGGAUUUAAUCGCCGUAGAAAAGCAUGUCAAAGCCG | |
| Apta_1121 | RNA | GACAGCGUGCCUAGAAGUCCAAGCUUAAAUAACCACGCUCGACAAGC | |
| Apta_431 | RNA | CAGGCAUGCCUAGCUAAGCAGCCCAUGGCUUAUGCGCGGAAUAUUGGCUUCCGUUC | |
| Apta_885 | RNA | GGGAGAGCGGAAGCGUGCUGGGCCUGGUUGCUGUAAAAAUAGACACGAAUCUGCCGACCAUAACCCAGAGGUCGAUGGAUCCCCCC | |
| Apta_520 | RNA | GGGAGAUCUACGGAUCUCAGGGCUCUUACGGGAGCUACAUGGAAGGAGUCCAUGUGU | |
| Apta_612 | RNA | GGGCGACCCUGAUGAGCCUUAGGAUAUGCUUCGGCAGAAGGACGUCGAAACGGUGAAAGCCGUAGGUUGCCC | |
| Apta_270 | RNA | CUGUCGAACAUGCUGAGGGUAACGUACUGGCAAGCUCACCUCAGCGUAGCUAa | |
| Apta_305 | RNA | GGGAGGACGAUGCGGAUCGCCCUGAACCGGCCCAGCAGACUGCUGACGGCACGAUCCGCAUCGUCCUCCC | |
| Apta_575 | RNA | AGAGCUUGACGGUCCCGAGAGUCGAGCCCAAGCUGACACUGGACCUUUGCGGACCACGUGUUGAUCGUCG | |
| Apta_81 | RNA | GCAAUGGUACGGUACUUCCAAGUGCGGGGGGGAGGUGGUGGUUCCAAAAGUGCACGCUACUUUGCUAA |
DEV TOOL
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