Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 354
Aptamer sequence: ATACCAGCTTATTCAATTAGACGAGTTTTATTCATTTTCCATGTCGTAGCTTACCGTGAGATAGTAAGTGCAATCT
Target unique ID: P19022
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_349 NC23 Protein CADH2_HUMAN 174 nM 1X PBS 33146506
Structure information of aptamer
Aptamer Sequence: ATACCAGCTTATTCAATTAGACGAGTTTTATTCATTTTCCATGTCGTAGCTTACCGTGAGATAGTAAGTGCAATCT
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_349 Description NC23
Aptamer chemistry DNA Length 76 nt
GC content 35.5% Molecular weight 23,600.95 Da
Molarity of 1 μg/μl solution 42.37 μM Number of G-quadruplexes No QGRS found
G-Score N/A Function Target detection
Sequence ATACCAGCTTATTCAATTAGACGAGTTTTATTCATTTTCCATGTCGTAGCTTACCGTGAGATAGTAAGTGCAATCT
Applications Detection of N-cadherin protein
Target information
Type Detail Type Detail
Uniprot ID P19022 Protein name Cadherin-2 (CDw325) (Neural cadherin) (N-cadherin) (CD antigen CD325)
Gene name(s) CDH2 CDHN NCAD Organism Cadherin-2 (CDw325) (Neural cadherin) (N-cadherin) (CD antigen CD325)
Status reviewed in uniprot database Length 906
Mass 99,809 Activity regulation N/A
Involvement in disease Arrhythmogenic right ventricular dysplasia, familial, 14 (ARVD14) Catalytic activity N/A
PDB ID(s)
N/A
Function Calcium-dependent cell adhesion protein; preferentially mediates homotypic cell-cell adhesion by dimerization with a CDH2 chain from another cell. Cadherins may thus contribute to the sorting of heterogeneous cell types.
Activity data
Interaction ID 354
Target type Protein
Target unique ID P19022
Activity 174 nM
Binding Conditions/Buffer

1X PBS
Assay

Dissociation constant (Kd) curve of NS13 and NC23 for N-cadherin. The standard deviations were obtained from three separate trials
PubMed ID 33146506
Similar aptamers
Aptamer ID Aptamer chemistry Sequence Similarity
Apta_451 DNA ATACCAGCTTATTCAATTGAGTAAGAGTGCACTATGTTTTACGAGCCGTTTCCTCGGCAGATAGTAAGTGCAATCT 72.37%
Apta_884 DNA ATACCAGCTTATTCAATTTGCACCACTTATTGTTACTAATCTGAGATAGTAAGTGCAATCT 72.37%
Apta_452 DNA ATACCAGCTTATTCAATTGAAGAGTATAAAAAGAGTGATTATCTTTTGTAGGTTTTTTAGATAGTAAGTGCAATCT 71.05%
Apta_627 DNA ATACCAGCTTATTCAATTATGCGGGGATGAGGCTTGATCTGTGGCTCTGATCCATGATCAGTCGTCTTACGTGCGGTCCAGATAGTAAGTGCAATCT 70.10%
Apta_627 DNA ATACCAGCTTATTCAATTATGCGGGGATGAGGCTTGATCTGTGGCTCTGATCCATGATCAGTCGTCTTACGTGCGGTCCAGATAGTAAGTGCAATCT 70.10%
Apta_727 DNA ATACCAGCTTATTCAATTAGTCACACTTAGAGTTCTAACTGCTGCGCCGCCGGGAAAATACTGTACGGTTAGATAGTAAGTGCAATCT 69.32%
Apta_354 DNA ATACCAGCTTATTCAATTCTATACTCCACTTTGCTATTTCTCGGTTCCTTCACGCGCCGATCGCAGGCTGATGAATTGAGATAGTAAGTGCAATCT 67.71%
Apta_1015 DNA ATACCAGCTTATTCAATTGACCCGTTTCGTTCCCTCTGGGAAGTTTAGCCCAGTTGCCTGGGCGATACCAAGATAGTAAGTGCAATCT 67.05%
Apta_1016 DNA ATACCAGCTTATTCAATTTCTTCGCCAGTGCCAGGATCTCAGTTGGCGGTTCATTAGCTGGGTTGGTCGAAGATAGTAAGTGCAATCT 67.05%
Apta_628 DNA ATACCAGCTTATTCAATTAGCCCGGTATTGAGGTCGATCTCTTATCCTATGGCTTGTCCCCCATGGCTCGGTTATATCCAGATAGTAAGTGCAATCT 67.01%
Apta_628 DNA ATACCAGCTTATTCAATTAGCCCGGTATTGAGGTCGATCTCTTATCCTATGGCTTGTCCCCCATGGCTCGGTTATATCCAGATAGTAAGTGCAATCT 67.01%
Apta_805 DNA ATACCAGCTTATTCAATTAGGCGGTGCATTGTGGTTGGTAGTATACATGAGGTTTGGTTGAGACTAGTCGCAAGATATAGATAGTAAGTGCAATCT 66.67%
Apta_792 DNA ATACCAGCTTATTCAATTCCCAAATTGCCACCACTTACAGCATGATAACATACTACATCTTTTCATCAAGATAGTAAGTGCAATCT 66.28%
Apta_626 DNA ATACCAGCTTATTCAATTGGTGGTAGGATGGGCTCGATCGAGGTCTTCAGTCGGCTCGGTTTAGTTTATGTTCTCCTGTAGATAGTAAGTGCAATCT 65.98%
Apta_626 DNA ATACCAGCTTATTCAATTGGTGGTAGGATGGGCTCGATCGAGGTCTTCAGTCGGCTCGGTTTAGTTTATGTTCTCCTGTAGATAGTAAGTGCAATCT 65.98%
Apta_450 DNA ATACCAGCTTATTCAATTACATGTCCTGAAGGGGAATAATATACAGCTTTGGGTGGGTAGATAGTAAGTGCAATCT 65.79%
Apta_31 DNA ATACCAGTCTATTCAATTGGGCCCGTCCGTATGGTGGGTGTGCTGGCCAGATAGTATGTGCAATCA 64.47%
Apta_823 DNA GGGATACCAGCTTATTCAATTTGATTCCATCTTCCTGGACTGTCGAAAATTCAGTATCGGGAGGTTACGTATTTGGTTTATAGATAGTAAGTGCAATCT 63.64%
Apta_1217 DNA ATACGAGCTTGTTCAATACGAAGGGATGCCGTTTGGGCCCAAGTTCGGCATAGTGTGGTGATAGTAAGAGCAATC 63.16%
Apta_625 DNA ATACCAGCTTATTCAATTCAGGGCGGTATGAGGCTCGATCAAGGTCGGAGCGAGAATTTTTTCGCGGAGTCGGCTGGATCAGATAGTAAGTGCAATCT 62.24%

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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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