Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 99
Aptamer sequence: CGAUGCGGUCUCAUGCGUCGAGUGUGAGUUUACCUUCG
Target unique ID: P01031
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_98 | C5C6 | Protein | CO5_HUMAN | 100 nM | Phosphate-buffered saline with 1 mM MgCl2 | 10408383 |
Structure information of aptamer
| Aptamer Sequence: | CGAUGCGGUCUCAUGCGUCGAGUGUGAGUUUACCUUCG |
| 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_98 | Description | C5C6 |
| Aptamer chemistry | RNA | Length | 38 nt |
| GC content | 55.3% | Molecular weight | 12,387.10 Da |
| Molarity of 1 μg/μl solution | 80.73 μM | Number of G-quadruplexes | No QGRS found |
| G-Score | N/A | Function | Targeted therapy |
| Sequence | CGAUGCGGUCUCAUGCGUCGAGUGUGAGUUUACCUUCG | ||
| Applications | Inhibited zymosan-induced generation of C5a | ||
Target information
| Type | Detail | Type | Detail |
|---|---|---|---|
| Uniprot ID | P01031 | Protein name | Complement C5 (C3 and PZP-like alpha-2-macroglobulin domain-containing protein 4) [Cleaved into: Complement C5 beta chain; Complement C5 alpha chain; C5a anaphylatoxin; Complement C5 alpha' chain] |
| Gene name(s) | C5 CPAMD4 | Organism | Complement C5 (C3 and PZP-like alpha-2-macroglobulin domain-containing protein 4) [Cleaved into: Complement C5 beta chain; Complement C5 alpha chain; C5a anaphylatoxin; Complement C5 alpha' chain] |
| Status | reviewed in uniprot database | Length | 1676 |
| Mass | 188,305 | Activity regulation | N/A |
| Involvement in disease | Complement component 5 deficiency (C5D) | Catalytic activity | N/A |
| PDB ID(s) | 1CFA;1KJS;1XWE;3CU7;3HQA;3HQB;3KLS;3KM9;3PRX;3PVM;4A5W;4E0S;4P39;4UU9;5B4P;5B71;5HCC;5HCD;5HCE;5I5K;6H03;6H04;6RPT;6RQJ;7AD6;7AD7;7NYC;7NYD; |
 |
Function | Activation of C5 by a C5 convertase initiates the spontaneous assembly of the late complement components, C5-C9, into the membrane attack complex. |
Activity data
 |
Interaction ID | 99 |
| Target type | Protein | |
| Target unique ID | P01031 | |
| Activity | 100 nM | |
| Binding Conditions/Buffer | Phosphate-buffered saline with 1 mM MgCl2 |
|
| Assay | Aptamers from the biased .SELEX experiment were assayed and representative binding curves are shown. Most aptamers bound with Kd between 10 and 20 nM. The best aptamer, YL-13, bound with K between 2-5 nM, which is 10-fold better than the template aptamer C5C6 |
|
| PubMed ID | 10408383 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_716 | RNA | GGCGCUUCAUGCCGAAAGGCCCGUUGUAACGUC | |
| Apta_703 | RNA | GGGCGGAUGAGACGCUUGGCGUGUGCUGUGGAGAGUCAUCCG | |
| Apta_370 | RNA | GGGAGGACGCGUCGCCGUAAUGGAUGUUUUGCUCCCUG | |
| Apta_925 | RNA | GCUCGGCCAGGUCGCGGGUGGAUGUGAGGG | |
| Apta_402 | RNA | GCCUGUAAGGUGGUCGGUGUGGCGAGUGUGUUAGGAGAGAUUGC | |
| Apta_1143 | RNA | ACGAGUUGUCGCAUGUGCGGUUCAGUCUGGUCCUUCAGCACCGUACAACAA | |
| Apta_1 | RNA | ACGAAGCUUGAUCCCGUUUGCCGGUCGAUCGCUUCGA | |
| Apta_88 | RNA | AAUAACCUUAAUGCGACGUUGGUUUGUCAACAACG | |
| Apta_89 | RNA | AAUAACCUUAAUGCGACGUUGGUUCGUCAACAUGG | |
| Apta_96 | RNA | UCGCUAAUUAUAGGCGGAGUGCGACGUUAUAAAUA | |
| Apta_136 | RNA | CGUGUCGUCCUGGUACGAUUUGGUAUAUAACCGUGGCUUUUCGACA | |
| Apta_231 | RNA | GGGAGGACGAUGCGGGUGUGGGGCG | |
| Apta_289 | RNA | GGGGGCUUAUCAUUCCAUUUAGUGUUAUGAUAACC | |
| Apta_371 | RNA | GGCAGACCAUACGGGAGAGAAACUUGCC | |
| Apta_713 | RNA | GGCGGUGCUGGCCGAAAGGCGCUUGGAAACGUC | |
| Apta_714 | RNA | GGCGGUUCCUGCCGAAAGGCUCGUGGCAACGUC | |
| Apta_926 | RNA | UCGGCAGCGGUUAGAGAGGUGGUGUGCGGG | |
| Apta_1141 | RNA | ACGAGUCUGGUCCUUCCUUUGACGACUAUUGUUUGGUAUCGAUCAACAACAA | |
| Apta_1168 | RNA | GCGACUACGGUGAGGGUCGGGUCCAGUAGCUUCGGCUACUGUUGAGUAGAGUGUGGGCUCCGUAGUCGC | |
| Apta_129 | RNA | GGGAGGACGAUGCGGACACCGUUAAUCUGAGGCCCUGUCCUAUUCCUUCACGCCUCAGA |
DEV TOOL
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