Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 153
Aptamer sequence: CCGTAGGTTCGGGGTCGGAGTGGTCCGGAAGATGGCGTGG
Target unique ID: P02879
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_149 | C1 | Protein | RICI_RICCO | 80 nM | 20 mM HEPES pH 7.35, 120 mM NaCl, 5 mM KCl, 1 mM CaCl2,1 mM MgCl2 | 16518777 |
Structure information of aptamer
| Aptamer Sequence: | CCGTAGGTTCGGGGTCGGAGTGGTCCGGAAGATGGCGTGG |
| 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_149 | Description | C1 |
| Aptamer chemistry | DNA | Length | 40 nt |
| GC content | 67.5% | Molecular weight | 12,785.95 Da |
| Molarity of 1 μg/μl solution | 78.21 μM | Number of G-quadruplexes | 2 |
| G-Score | 21 | Function | Targeted binding |
| Sequence | CCGTAGGTTCGGGGTCGGAGTGGTCCGGAAGATGGCGTGG | ||
| Applications | Specificity to ricin toxin | ||
Target information
| Type | Detail | Type | Detail |
|---|---|---|---|
| Uniprot ID | P02879 | Protein name | Ricin [Cleaved into: Ricin A chain (EC 3.2.2.22) (rRNA N-glycosidase); Ricin B chain] |
| Gene name(s) | N/A | Organism | Ricin [Cleaved into: Ricin A chain (EC 3.2.2.22) (rRNA N-glycosidase); Ricin B chain] |
| Status | reviewed in uniprot database | Length | 576 |
| Mass | 64,091 | Activity regulation | N/A |
| Involvement in disease | N/A | Catalytic activity | Reaction=Endohydrolysis of the N-glycosidic bond at one specific adenosine on the 28S rRNA |
| PDB ID(s) | 1BR5;1BR6;1IFS;1IFT;1IFU;1IL3;1IL4;1IL5;1IL9;1J1M;1OBS;1OBT;1RTC;1UQ4;1UQ5;2AAI;2P8N;2PJO;2R2X;2R3D;2VC3;2VC4;3EJ5;3HIO;3LC9;3MK9;3PX8;3PX9;3RTI;3RTJ;3SRP;4ESI;4HUO;4HUP;4HV3;4HV7;4IMV;4KUC;4LGP;4LGR;4LGS;4LHJ;4LHQ;4MX1;4MX5;4Q2V;4Z9K;5BOZ;5DDZ;5E1H;5GU4;5J56;5J57;5SV3;5U4L;5U4M;6CWG;6OBC;6OBE;6OBG;6OBM;6OBO;6OCA;6OCD;6URW;6URX;6URY;7KBI;7KBK;7KC9;7KD0;7KD2;7KDM;7KDU;7MLN;7MLO;7MLP;7MLT; |
 |
Function | Ricin is highly toxic to animal cells, and to a lesser extent to plant cells. |
Activity data
|
No relevant experimental diagram |
Interaction ID | 153 |
| Target type | Protein | |
| Target unique ID | P02879 | |
| Activity | 80 nM | |
| Binding Conditions/Buffer | 20 mM HEPES pH 7.35, 120 mM NaCl, 5 mM KCl, 1 mM CaCl2,1 mM MgCl2 |
|
| Assay | N/A |
|
| PubMed ID | 16518777 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_148 | DNA | CCGTAGGTTCGGGGTCGGAGTGGTCCGGAAGGTGGCGTGG | |
| Apta_150 | DNA | CCGTAGGTTCGGGGCGGAGTGGTCCGGAAGGTGGCGTGG | |
| Apta_1195 | DNA | GGGGTTGGGGGGAGGCGGGGAATGGGGG | |
| Apta_679 | DNA | CAGGTGGCAGATCGGGTGTGGGTGGCCTGG | |
| Apta_144 | DNA | GGTGCGGTTCGTGCGGTTGTAGTACTCGTGGCCGATAGAGGTAG | |
| Apta_565 | DNA | GCGGGGTTGGGCGGGTGGGTTCGCTGGGCAGGGGGCGAGTG | |
| Apta_748 | DNA | AGCTTGAGGGTGGGCGGGTGGACGCGGTAGTGGTATATAGGTCGG | |
| Apta_579 | DNA | ACTGAGGGCACGGACAGGAGGGGGAGAGATGGCGTGAGGT | |
| Apta_673 | DNA | GCAGTCCTAGATCGGGTGTGGCTGGCTTGG | |
| Apta_682 | DNA | CCTTGTAGATCGGGTGTGGTTTGGCGTAGG | |
| Apta_1205 | DNA | GGCAGGTGGTGTTGGTTGGTTGTGCGTGGAGTTGG | |
| Apta_341 | DNA | TCGGGGTTTGGGGGTTCGGGGTCGGTTCGGTTTCTTCTAATGGA | |
| Apta_595 | DNA | AGCGAGGGCGGTGTCCAACAGCGGTTTTTTCACGAGGAGGTTGGCGGTGG | |
| Apta_32 | DNA | CGGTAAACTGCGTCCGAAGGGGCTGCAGTGACCCGAATGGGTCCG | |
| Apta_643 | DNA | ACCGATCCATCGAGTTTCTGAGAAAGGCCCGGAGAAACCGCGAGA | |
| Apta_749 | DNA | GATCGGTGGGTGGGGGGGTTGGAGATCATCCTCAGGGATTACGTC | |
| Apta_143 | DNA | GGTGCGGTTCGTGCGGTTGTAGTACTCGTGGCCGATAGAGGTAGTTTCG | |
| Apta_12 | DNA | TGAGGGGGTGGGTGGGACGGGTTGG | |
| Apta_13 | DNA | AGGGGGGGGGGAGGGGTCGGGGTGG | |
| Apta_15 | DNA | TGAGGGGGGGGGAGGGCGGGGCTGC |
DEV TOOL
 |
 |
 |
 |