AptaDB: Result

Interaction ID: 146

Aptamer sequence: TTGCACTATGTTTTAGCTAGGGTTCCCTCCGGAGATAGTAAGTGCAA

Target unique ID: P19022

Aptamer ID	Aptamer descriptor	Target chemistry	Target name	Affinity	Binding Conditions/Buffer	PubMed ID
Apta_930	NC3S	Protein	CADH2_HUMAN	20.08 nM	4.5 g/L glucose and 5 mM MgCl2 in Dulbecco’s PBS without calcium and magnesium, yeast tRNA and BSA	33174555

Aptamer Sequence:	TTGCACTATGTTTTAGCTAGGGTTCCCTCCGGAGATAGTAAGTGCAA
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

Type	Detail	Type	Detail
Aptamer ID	Apta_930	Description	NC3S
Aptamer chemistry	DNA	Length	47 nt
GC content	44.7%	Molecular weight	14,499.32 Da
Molarity of 1 μg/μl solution	68.97 μM	Number of G-quadruplexes	No QGRS found
G-Score	N/A	Function	Targeted binding
Sequence	TTGCACTATGTTTTAGCTAGGGTTCCCTCCGGAGATAGTAAGTGCAA
Applications	Selected aptamers can specifically recognize a variety of cells expressing N-cadherin but do not bind to the negative cells

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.

	Interaction ID	146
	Target type	Protein
	Target unique ID	P19022
	Activity	20.08 nM
	Binding Conditions/Buffer	4.5 g/L glucose and 5 mM MgCl2 in Dulbecco’s PBS without calcium and magnesium, yeast tRNA and BSA
	Assay	Equilibrium dissociation constant (Kd) curve of NC3S for N-cadherin cells. The standard deviations were obtained from three separate trials
	PubMed ID	33174555

Aptamer ID	Aptamer chemistry	Sequence	Similarity
Apta_449	DNA	CGCACTATGTTTTACGAGCCGTTTCCTCGGCAGATAGTAAGTGCG	76.60%
Apta_884	DNA	ATACCAGCTTATTCAATTTGCACCACTTATTGTTACTAATCTGAGATAGTAAGTGCAATCT	57.38%
Apta_142	DNA	CGCACATCAGTTTAGCAGCGCCAAAGGCGGAAGCGCA	55.32%
Apta_928	DNA	GATTGAGTAGATAGTGGTTCTGTACGTAGTGAAAGAGTGG	55.32%
Apta_76	DNA	CAGCGCTAGGGCTTTTAGCGTAATGGGTAGGGTGGTGCGGTGCAGATATCGGAATTGGTG	55.00%
Apta_464	DNA	GTCAGATTCCACTATAGTAGGTTGGGTAGGGTGGTCGCAGTGGATGATATGTCGTAGGGG	55.00%
Apta_451	DNA	ATACCAGCTTATTCAATTGAGTAAGAGTGCACTATGTTTTACGAGCCGTTTCCTCGGCAGATAGTAAGTGCAATCT	53.95%
Apta_348	DNA	ACTTGCTCTGATGCGACAACCTTTTGCCCAGATAGTAAGT	53.19%
Apta_441	DNA	TGAATCTCGCGCTCGTTGGTACCCTTAAAATAAAGGCATA	53.19%
Apta_491	DNA	TTGGGGTCTGCTCGGGATTGCGGAGAACGTGAATCT	53.19%
Apta_850	DNA	CACCAGTGTGTTGAGGTTTGAGCACACTGATAGAGTGTCA	53.19%
Apta_1066	DNA	CCTACGTTGGAGTGGGGTTTGCGCAGGCCGTTCTTTCCAA	53.19%
Apta_349	DNA	ATACCAGCTTATTCAATTAGACGAGTTTTATTCATTTTCCATGTCGTAGCTTACCGTGAGATAGTAAGTGCAATCT	52.63%
Apta_973	DNA	TATGTAATGTTGACGTAATTTATCTCTGTGAGAATAAGCAGGTGGTATCC	52.00%
Apta_694	DNA	ACTCACTATGGAAGAGATGGCGACATCTCTTCTCCGAGCCGGTCGAAATAGTGAGT	51.79%
Apta_31	DNA	ATACCAGTCTATTCAATTGGGCCCGTCCGTATGGTGGGTGTGCTGGCCAGATAGTATGTGCAATCA	51.52%
Apta_450	DNA	ATACCAGCTTATTCAATTACATGTCCTGAAGGGGAATAATATACAGCTTTGGGTGGGTAGATAGTAAGTGCAATCT	51.32%
Apta_41	DNA	CGGTCGCTCCGTGTGGCTTGGGTTGGGTGTGGCAGTGAC	51.06%
Apta_181	DNA	CCGTGTAAGGTTTCAGTGGCTTATCCGAAGTAACCCGAGA	51.06%
Apta_195	DNA	AGGAAGGCTTTAGGGGTCTGAGATCTCGGAAT	51.06%

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