AptaDB: Result

Interaction ID: 1051

Aptamer sequence: TAACACGACAGACGTTCGGAGGTCGAACCCTGACAGCGTGGGC

Target unique ID: P08962

Aptamer ID	Aptamer descriptor	Target chemistry	Target name	Affinity	Binding Conditions/Buffer	PubMed ID
Apta_968	CD63-1	Protein	CD63_HUMAN	38.71 nM	pH 7.4 PBS containing 2.0 mM MgCl2, 0.02% Tween 20, and 100 µg/mL Salmon Sperm DNA	33261145

Aptamer Sequence:	TAACACGACAGACGTTCGGAGGTCGAACCCTGACAGCGTGGGC
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_968	Description	CD63-1
Aptamer chemistry	DNA	Length	43 nt
GC content	60.5%	Molecular weight	13,287.54 Da
Molarity of 1 μg/μl solution	75.26 μM	Number of G-quadruplexes	No QGRS found
G-Score	N/A	Function	Targeted therapy
Sequence	TAACACGACAGACGTTCGGAGGTCGAACCCTGACAGCGTGGGC
Applications	CD63-1 was found to be efficient in binding CD63 positive cells, including breast cancer MDA-MB-231 cells and CD63-overexpressed HEK293T cells, with a medium binding affinity (Kd ~ 100 nM) as assessed by flow cytometry

Type	Detail	Type	Detail
Uniprot ID	P08962	Protein name	CD63 antigen (Granulophysin) (Lysosomal-associated membrane protein 3) (LAMP-3) (Lysosome integral membrane protein 1) (Limp1) (Melanoma-associated antigen ME491) (OMA81H) (Ocular melanoma-associated antigen) (Tetraspanin-30) (Tspan-30) (CD antigen CD63)
Gene name(s)	CD63 MLA1 TSPAN30	Organism	CD63 antigen (Granulophysin) (Lysosomal-associated membrane protein 3) (LAMP-3) (Lysosome integral membrane protein 1) (Limp1) (Melanoma-associated antigen ME491) (OMA81H) (Ocular melanoma-associated antigen) (Tetraspanin-30) (Tspan-30) (CD antigen CD63)
Status	reviewed in uniprot database	Length	238
Mass	25,637	Activity regulation	N/A
Involvement in disease	N/A	Catalytic activity	N/A
PDB ID(s)	N/A
Function	Functions as cell surface receptor for TIMP1 and plays a role in the activation of cellular signaling cascades.

	Interaction ID	1051
	Target type	Protein
	Target unique ID	P08962
	Activity	38.71 nM
	Binding Conditions/Buffer	pH 7.4 PBS containing 2.0 mM MgCl2, 0.02% Tween 20, and 100 µg/mL Salmon Sperm DNA
	Assay	Analysing equilibrium dissociation constants (Kd) of CD63-1 aptamer to CD63 molecule by ELISA
	PubMed ID	33261145

Aptamer ID	Aptamer chemistry	Sequence	Similarity
Apta_937	DNA	TTGCCCACAGATCTGTGGAAGCCGAACCGCGTGCTAGTCGTG	58.14%
Apta_939	DNA	TTGCCCACCGTACTGTGCAGGTCGAACTACAGGCACGTCGTG	58.14%
Apta_3	DNA	CCTGCCTTTGGCAGCCGGGCGAAGGCAACCCGACACCGACAGC	55.81%
Apta_222	DNA	AGCGACTGACGATCTTGAGTAAACCGCTCATCCACGTAGT	55.81%
Apta_343	DNA	AACAGAGGGACAAACGGGGGAAGATTTGACGTCGACGAC	55.81%
Apta_702	DNA	TACCCGGCGTTCGGGGGGTACCGCTGC	55.81%
Apta_1257	DNA	CGACGCACAGTCGCTGGTGCGTACCTGGTTGCCGTTGTGT	55.81%
Apta_1068	DNA	CGGGACAAGACAACGAACGAACAGGAAGAGAACCGGAATGCAGACGTCAGGG	55.77%
Apta_464	DNA	GTCAGATTCCACTATAGTAGGTTGGGTAGGGTGGTCGCAGTGGATGATATGTCGTAGGGG	55.00%
Apta_686	DNA	GGTCACCAACAACAGGGAGCGCTACGCGAAGGGTCAATGTGACGTCATGCGGATGTGTGG	55.00%
Apta_1268	DNA	CACACACGCAGCAAGGTCGTCGATACAAAACGTATCGACCCGTCACAGACTGCCCCGGGT	55.00%
Apta_788	DNA	TACCAGTGCGATGCTCAGTAACTTTGAAGGAAAGGCTACAAACTCTTCCTGACGCATTCGGTTGAC	54.55%
Apta_1044	DNA	TTTAACGTAACCTGCAAGGCGGGGAGGTGCGAGCCCCGTGTGTGGCTTGC	54.00%
Apta_164	DNA	TATAGACCACAGCCTGAGATTAACCACCAACCCAGGACT	53.49%
Apta_498	DNA	GAACTCATTGGCTGGAGGCGGCAGTACCGCTTGAGTT	53.49%
Apta_850	DNA	CACCAGTGTGTTGAGGTTTGAGCACACTGATAGAGTGTCA	53.49%
Apta_1260	DNA	GAAAGGGACGTTCCAAGTTCGTATAAGCAGTCCTGTGCGT	53.49%
Apta_910	DNA	TCACGTGCATGATAGACGGCGAAGCCGTCGAGTTGCTGTGTGCCGATGCACGTGA	52.73%
Apta_344	DNA	CACTACAGAGGTTGCGTCTGTCCCACGTTGTCATGGGGGGTTGGCCTG	52.08%
Apta_971	DNA	TAGTCTAGGAACGGTACGATCGTATTCCAAGGACTTTGCTGGTGGTATCC	52.00%

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