Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 522
Aptamer sequence: TTTAACGTAACCTGCAAGGCGGGGAGGTGCGAGCCCCGTGTGTGGCTTGC
Target unique ID: P62805
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_1044 | 4.58 | Protein | H4_HUMAN | 3.8 nM | 100 mM NaCl, 5 mM MgCl2, and 10 mM HEPES (pH 7.5); High-salt conditions: 500 mM NaCl, 10 mM MgCl2, and 10 mM HEPES (pH 7.5) | 22021204 |
Structure information of aptamer
| Aptamer Sequence: | TTTAACGTAACCTGCAAGGCGGGGAGGTGCGAGCCCCGTGTGTGGCTTGC |
| 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_1044 | Description | 4.58 |
| Aptamer chemistry | DNA | Length | 50 nt |
| GC content | 62.0% | Molecular weight | 15,514.91 Da |
| Molarity of 1 μg/μl solution | 64.45 μM | Number of G-quadruplexes | 2 |
| G-Score | 20 | Function | Targeted binding |
| Sequence | TTTAACGTAACCTGCAAGGCGGGGAGGTGCGAGCCCCGTGTGTGGCTTGC | ||
| Applications | Binding to histone H4 protein | ||
Target information
| Type | Detail | Type | Detail |
|---|---|---|---|
| Uniprot ID | P62805 | Protein name | Histone H4 |
| Gene name(s) | H4C1 H4/A H4FA HIST1H4A; H4C2 H4/I H4FI HIST1H4B; H4C3 H4/G H4FG HIST1H4C; H4C4 H4/B H4FB HIST1H4D; H4C5 H4/J H4FJ HIST1H4E; H4C6 H4/C H4FC HIST1H4F; H4C8 H4/H H4FH HIST1H4H; H4C9 H4/M H4FM HIST1H4I; H4C11 H4/E H4FE HIST1H4J; H4C12 H4/D H4FD HIST1H4K; H4C13 H4/K H4FK HIST1H4L; H4C14 H4/N H4F2 H4FN HIST2H4 HIST2H4A; H4C15 H4/O H4FO HIST2H4B; H4-16 HIST4H4 | Organism | Histone H4 |
| Status | reviewed in uniprot database | Length | 103 |
| Mass | 11,367 | Activity regulation | N/A |
| Involvement in disease | Chromosomal aberrations involving HISTONE H4 is a cause of B-cell non-Hodgkin lymphomas (B-cell NHL) | Catalytic activity | N/A |
| PDB ID(s) | 1ZKK;2BQZ;2CV5;2IG0;2KWN;2KWO;2LVM;2QQS;2RJE;2RNY;2RS9;3A6N;3AFA;3AN2;3AV1;3AV2;3AYW;3AZE;3AZF;3AZG;3AZH;3AZI;3AZJ;3AZK;3AZL;3AZM;3AZN;3CFS;3CFV;3F9W;3F9X;3F9Y;3F9Z;3IJ1;3JPX;3NQJ;3NQU;3O36;3QBY;3QZS;3QZT;3QZV;3R45;3UVW;3UVX;3UVY;3UW9;3W96;3W97;3W98;3W99;3WA9;3WAA;3WKJ;3WTP;3X1S;3X1T;3X1U;3X1V;4GQB;4H9N;4H9O;4H9P;4H9Q;4H9R;4H9S;4HGA;4M38;4N3W;4N4F;4QUT;4QUU;4QYD;4U9W;4YM5;4YM6;4YY6;4YYD;4YYG;4YYH;4YYI;4YYJ;4YYK;4YYM;4YYN;4Z2M;4Z5T;5AV5;5AV6;5AV8;5AV9;5AVB;5AVC;5AY8;5B0Y;5B0Z;5B24;5B2I;5B2J;5B31;5B32;5B33;5B40;5BNV;5BNX;5BO0;5C3I;5CPI;5CPJ;5CPK;5FA5;5FFW;5FWE;5GSE;5GSU;5GT0;5GT3;5GTC;5GXQ;5JA4;5JRG;5KDM;5TEG;5X7X;5XF3;5XF4;5XF5;5Y0C;5Y0D;5YE3;5YE4;5Z23;5Z30;5ZBX;5ZGC;6A5L;6A5O;6A5P;6A5R;6A5T;6A5U;6ACP;6BUZ;6C0W;6E0C;6E0P;6FML;6HKT;6HTS;6INQ;6IR9;6J4W;6J4X;6J4Y;6J4Z;6J50;6J51;6JOU;6JR0;6JR1;6K1I;6K1J;6K1K;6KE9;6KVD;6KXV;6L49;6L4A;6L9H;6L9Z;6LA2;6LA8;6LA9;6LAB;6LE9;6LER;6M3V;6M44;6M4D;6M4G;6M4H;6MLC;6MUO;6MUP;6O1D;6R0C;6R8Y;6R8Z;6R90;6R91;6R92;6R93;6R94;6RNY;6RXS;6SE0;6SE6;6SEE;6SEF;6SEG;6T79;6T7A;6T7B;6T7C;6T7D;6T90;6T93;6UPK;6UPL;6USJ;6V2K;6V92;6VO5;6X59;6X5A;6XJD;6Y5D;6YOV;7A08;7BWD;7BXT;7BY0;7C0M;7CCQ;7CCR;7CIZ;7CJ0;7COW;7D1Z;7D20;7DBP;7E8D;7EIC;7JO9;7JOA;7JZV;7K5X;7K5Y;7K60;7K61;7K63;7LMK;7LMM;7LYA;7LYB;7LYC;7M98;7NL0;7SCY;7SCZ;7U46;7U47;7U4D;7V6Q; |
 |
Function | Core component of nucleosome. Nucleosomes wrap and compact DNA into chromatin, limiting DNA accessibility to the cellular machineries which require DNA as a template. |
Activity data
|
No relevant experimental diagram |
Interaction ID | 522 |
| Target type | Protein | |
| Target unique ID | P62805 | |
| Activity | 3.8 nM | |
| Binding Conditions/Buffer | 100 mM NaCl, 5 mM MgCl2, and 10 mM HEPES (pH 7.5); High-salt conditions: 500 mM NaCl, 10 mM MgCl2, and 10 mM HEPES (pH 7.5) |
|
| Assay | N/A |
|
| PubMed ID | 22021204 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_1071 | DNA | TTGAAGTGACTCCGCACTGGGTGGGTGGGAGGGTCGTGCGGCTGGTCATAGCAGGGT | |
| Apta_570 | DNA | GGCAAGATGTGCCCAGAACAGTTGCTTGTATGGTGGGGAGCGTCCATATTGGCTTAAAC | |
| Apta_306 | DNA | CAAGGTAACCAGTACAAGGTGCTAAACGTAATGGCTTCG | |
| Apta_641 | DNA | TTCAAGACGATGCCTGGCGCGAGTTACACACTTGCATGGAGCTGG | |
| Apta_666 | DNA | TCGACCTCGCGCGAGGAGGGTGGAGGGTCGTAGAGCGCGTA | |
| Apta_968 | DNA | TAACACGACAGACGTTCGGAGGTCGAACCCTGACAGCGTGGGC | |
| Apta_1035 | DNA | ATGCGGATCCCGCGCGGGTCTGAGGAGTGCGCGGTGCCAGTGAGTGCGCGAAGCTTGCGC | |
| Apta_910 | DNA | TCACGTGCATGATAGACGGCGAAGCCGTCGAGTTGCTGTGTGCCGATGCACGTGA | |
| Apta_667 | DNA | GCGGCGGTACCAGGTCAAAGGTGGGTGAGGGGACGCCAAGAGTCCCCGCGGTTACATAGAG | |
| Apta_50 | DNA | AGTGGCGAGGGGGGTAGGTAAAGTATCCTTAGTGTGTTG | |
| Apta_150 | DNA | CCGTAGGTTCGGGGCGGAGTGGTCCGGAAGGTGGCGTGG | |
| Apta_259 | DNA | GCAAGTATGAGCGCAGGAGTTAGGTCCCGTGGCGATGGGT | |
| Apta_264 | DNA | GGCGTTGTCGGGCGCAGGTGTAGGCCTCGTGGTGGTGGGT | |
| Apta_478 | DNA | CTTCACTTTCGTGGACGGTGGCGTCGGGGCGGTTTGTATG | |
| Apta_744 | DNA | GTGGCCAGTCACTCAATTGGGTGTAGGGGTGGGGATTGTGGGTTG | |
| Apta_834 | DNA | CGCAATACCAAAGTGGCGAGAGCGCTGTCTTGAGTGAGTGGTTGG | |
| Apta_857 | DNA | GCTATGGGTGGTCTGGTTGGGATTGGCCCCGGGAGCTGGC | |
| Apta_869 | DNA | ACTAGGACGCTTGGGAGGGGGGGTGGGGTGTCCGGTCGCG | |
| Apta_880 | DNA | GCCGCACAATCGGGTTGGGCAGGGAGGGCACGTGTGGCGC | |
| Apta_1013 | DNA | ATCACGTATGGGGGGCCGGCATGAGGGCCGCGCGTGACA |
DEV TOOL
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