Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 1122
Aptamer sequence: CGGGACAAGACAACGAACGAACAGGAAGAGAACCGGAATGCAGACGTCAGGG
Target unique ID: Q12797
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_1068 AP-Cell 1 Protein ASPH_HUMAN 47.51 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: CGGGACAAGACAACGAACGAACAGGAAGAGAACCGGAATGCAGACGTCAGGG
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_1068 Description AP-Cell 1
Aptamer chemistry DNA Length 52 nt
GC content 55.8% Molecular weight 16,230.47 Da
Molarity of 1 μg/μl solution 61.61 μM Number of G-quadruplexes No QGRS found
G-Score N/A Function Target detection
Sequence CGGGACAAGACAACGAACGAACAGGAAGAGAACCGGAATGCAGACGTCAGGG
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 1122
Target type Protein
Target unique ID Q12797
Activity 47.51 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_1220 DNA TGGCGACAAGAAGACGTACAAACACGCACCAGGCCGGAGTGGAGTATTCTGAGGTCGG 62.07%
Apta_663 DNA CACGCACAGAAGACACCTACAGGGCCAGATCACAATCGGTTAGTGAACTCGTACGGCGCG 56.67%
Apta_645 RNA CUGGACGACGGGGACGCCACUGGACUAGGUAAGCCAGGACCGUACGUCGGGAGCCGUCAGAAUA 56.25%
Apta_685 DNA GGGGCAACAAACACGGAAGAAAATGAATCTACATACGTGGACATATATCCTGCCGCGTG 55.93%
Apta_32 DNA CGGTAAACTGCGTCCGAAGGGGCTGCAGTGACCCGAATGGGTCCG 55.77%
Apta_162 DNA CCGTACATACTACGTACGTACGTGAACAGAGGCAGAG 55.77%
Apta_257 DNA GGCAGAAGAAATATCGAAACCCAGAATGGTCGGCCAGGCG 55.77%
Apta_968 DNA TAACACGACAGACGTTCGGAGGTCGAACCCTGACAGCGTGGGC 55.77%
Apta_790 DNA GGGAGACAAGAATAAACGCTCAAGAAGTGAAAATGACAGAACACAACATTCGACAGGAGGCTCACAACAGGC 55.56%
Apta_919 DNA GGAAGAACATGTGAGCAAAAGGCCAGCAAAAGGCCAGGAACCGTAAAAAGGCCGCGTTGCTGGCG 55.38%
Apta_684 DNA GGCGGACCAAGGGGACACCACAGATGAATGTACAGTACCATGTTACTGCGCCCGTAGGTG 55.00%
Apta_1232 DNA GGCCACACAAACAACATGACAACACGTCTCACATAACGCCCACGTGCTGCCGCCTCATCG 55.00%
Apta_988 DNA AAGGATGACTGACGACGATGGGAATGGAGAGGAAGGGGATATAGGTATGTTGGATGTAG 54.24%
Apta_527 DNA ATACGGGAGCCAACACCAACAACCTAGATGTTCTGATAACACGAATCGCTTCGAAGAGCAGGTGTGACGGAT 54.17%
Apta_896 DNA ATACGGGAGCCAACACCATAAGTCTAAAAAACTGGGAGTAAACACAATGTGTATAGAGCAGGTGTGACGGAT 54.17%
Apta_898 DNA ATACGGGAGCCAACACCAACAAAACTAGCAAATTAGAGCCGTATCGGAGCCTATAGAGCAGGTGTGACGGAT 54.17%
Apta_904 DNA ATACGGGAGCCAACACCAGACGGTAAATAAAGTCAGTATCGAGTACTCTATTCGAGAGCAGGTGTGACGGAT 54.17%
Apta_1048 DNA ATACGGGAGCCAACACCACCTGCGGAAAATCAACAACGACACACGCCACGATTCAGAGCAGGTGTGACGGAT 54.17%
Apta_579 DNA ACTGAGGGCACGGACAGGAGGGGGAGAGATGGCGTGAGGT 53.85%
Apta_640 DNA CAATGGACCTATTCGAGTACTGAATAGAACAGTCGGCGCTCTGGG 53.85%

ABOUT

AptaDB is an online database we developed to integrate comprehensive information about aptamer.
The detail of this database is described here:

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