Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 1123
Aptamer sequence: CCGGAGAAAAAAAACTTGATGAGCCAGGAAAACGAGGGTTGGAACGCGACTG
Target unique ID: Q12797
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_1069 | AP-Cell 2 | Protein | ASPH_HUMAN | 39.38 nM | 5 mM MgCl2, 4.5 g of glucose, 1 g BSA, and 100 mg yeast tRNA in 1 L Dulbecco’s PBS | 34056254 |
Structure information of aptamer
| Aptamer Sequence: | CCGGAGAAAAAAAACTTGATGAGCCAGGAAAACGAGGGTTGGAACGCGACTG |
| 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_1069 | Description | AP-Cell 2 |
| Aptamer chemistry | DNA | Length | 52 nt |
| GC content | 50.0% | Molecular weight | 16,226.47 Da |
| Molarity of 1 μg/μl solution | 61.63 μM | Number of G-quadruplexes | No QGRS found |
| G-Score | N/A | Function | Target detection |
| Sequence | CCGGAGAAAAAAAACTTGATGAGCCAGGAAAACGAGGGTTGGAACGCGACTG | ||
| Applications | Recognizing aspartate β?Hydroxylase | ||
Target information
| Type | Detail | Type | Detail |
|---|---|---|---|
| Uniprot ID | Q12797 | Protein name | Aspartyl/asparaginyl beta-hydroxylase (EC 1.14.11.16) (Aspartate beta-hydroxylase) (ASP beta-hydroxylase) (Peptide-aspartate beta-dioxygenase) |
| Gene name(s) | ASPH BAH | Organism | Aspartyl/asparaginyl beta-hydroxylase (EC 1.14.11.16) (Aspartate beta-hydroxylase) (ASP beta-hydroxylase) (Peptide-aspartate beta-dioxygenase) |
| Status | reviewed in uniprot database | Length | 758 |
| Mass | 85,863 | Activity regulation | N/A |
| Involvement in disease | Facial dysmorphism, lens dislocation, anterior segment abnormalities, and spontaneous filtering blebs (FDLAB) | Catalytic activity | Reaction=2-oxoglutarate + L-aspartyl-[protein] + O2 = 3-hydroxy-L-aspartyl-[protein] + CO2 + succinate |
| PDB ID(s) | 5APA;5JQY;5JTC;5JZ6;5JZ8;5JZA;5JZU;6Q9F;6Q9I;6QA5;6RK9;6YYU;6YYV;6YYW;6YYX;6YYY;6Z6Q;6Z6R;7BMI;7BMJ;7E6J; |
 |
Function | Specifically hydroxylates an Asp or Asn residue in certain epidermal growth factor-like (EGF) domains of a number of proteins. |
Activity data
 |
Interaction ID | 1123 |
| Target type | Protein | |
| Target unique ID | Q12797 | |
| Activity | 39.38 nM | |
| Binding Conditions/Buffer | 5 mM MgCl2, 4.5 g of glucose, 1 g BSA, and 100 mg yeast tRNA in 1 L Dulbecco’s PBS |
|
| Assay | Affinity assay of selected aptamers using flow cytometry |
|
| PubMed ID | 34056254 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_663 | DNA | CACGCACAGAAGACACCTACAGGGCCAGATCACAATCGGTTAGTGAACTCGTACGGCGCG | |
| Apta_664 | DNA | CACGCAACAACACAACATGCCCAGCGCCTGGAACATATCCTATGAGTTAGTCCGCCCACA | |
| Apta_257 | DNA | GGCAGAAGAAATATCGAAACCCAGAATGGTCGGCCAGGCG | |
| Apta_1068 | DNA | CGGGACAAGACAACGAACGAACAGGAAGAGAACCGGAATGCAGACGTCAGGG | |
| Apta_1227 | DNA | CACACCAAACACACAAGTGGACCCTGACGCATGGATAGGGTGACGGTATACGCGGGCATG | |
| Apta_528 | DNA | ATACGGGAGCCAACACCACTTGGTTAACCAATCAAACCGGACAACGAAGGGTCCAGAGCAGGTGTGACGGAT | |
| Apta_1229 | DNA | CACGGGCAGAGGGATAGGTTGTTGACGGGGCTGGTGGGTGGGTGCGCTCGCGCTATCGTGG | |
| Apta_4 | DNA | CCTGCCTTTGGAACCGACCGCCAGGCCGAGGAAAGGCACCGACAGC | |
| Apta_304 | RNA | CGGCCGAUAGAAAGACUACUUGAGCCCUUAAAUGAGGUUAUGUGCGGCCG | |
| Apta_385 | DNA | ACAGATACGGAACTACAGAGGTCAATTACGGTGGCCACGC | |
| Apta_747 | DNA | TGGGGTTATTAATTTTGGGTGGGGGGGAAGATGTAGCATCCGACG | |
| Apta_978 | DNA | GGCGATGAGAACGGGAGCCTGATGATACACACGAGCGATCGCTCATAAAAGCCGTGCCCG | |
| Apta_417 | DNA | GGCAGGAAGACAAACACCAGGTGAGGGAGACGACGCGAGTGTTAGATGGTAGCTGTTGGTCTGTGGTGCTGT | |
| Apta_527 | DNA | ATACGGGAGCCAACACCAACAACCTAGATGTTCTGATAACACGAATCGCTTCGAAGAGCAGGTGTGACGGAT | |
| Apta_790 | DNA | GGGAGACAAGAATAAACGCTCAAGAAGTGAAAATGACAGAACACAACATTCGACAGGAGGCTCACAACAGGC | |
| Apta_898 | DNA | ATACGGGAGCCAACACCAACAAAACTAGCAAATTAGAGCCGTATCGGAGCCTATAGAGCAGGTGTGACGGAT | |
| Apta_618 | DNA | GCGGCAAATCAGCATACGAGTGTACAGGGACGGGACGGGTGGGTAAAAGGTGTCGCCTCAG | |
| Apta_533 | DNA | ATACGGGAGCCAACACCAAAGTAAGATCATCACCCGGACGCGGACATAATAGGAGAGCAGGTGTGACGGAT | |
| Apta_533 | DNA | ATACGGGAGCCAACACCAAAGTAAGATCATCACCCGGACGCGGACATAATAGGAGAGCAGGTGTGACGGAT | |
| Apta_142 | DNA | CGCACATCAGTTTAGCAGCGCCAAAGGCGGAAGCGCA |
DEV TOOL
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