AptaDB: Result

Interaction ID: 1025

Aptamer sequence: TTGCCCACCGTACTGTGCAGGTCGAACTACAGGCACGTCGTG

Target unique ID: P04216

Aptamer ID	Aptamer descriptor	Target chemistry	Target name	Affinity	Binding Conditions/Buffer	PubMed ID
Apta_939	XA-B217	Protein	THY1_HUMAN	2 nM	10 mL of 20 mM Tris buffer (150 mM NaCl, pH 8.0)	33242496

Aptamer Sequence:	TTGCCCACCGTACTGTGCAGGTCGAACTACAGGCACGTCGTG
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_939	Description	XA-B217
Aptamer chemistry	DNA	Length	42 nt
GC content	59.5%	Molecular weight	12,891.26 Da
Molarity of 1 μg/μl solution	77.57 μM	Number of G-quadruplexes	No QGRS found
G-Score	N/A	Function	Target recognition
Sequence	TTGCCCACCGTACTGTGCAGGTCGAACTACAGGCACGTCGTG
Applications	Demonstrated a high binding affinity and specificity to THY1 protein and the THY1 expressing cell lines

Type	Detail	Type	Detail
Uniprot ID	P04216	Protein name	Thy-1 membrane glycoprotein (CDw90) (Thy-1 antigen) (CD antigen CD90)
Gene name(s)	THY1	Organism	Thy-1 membrane glycoprotein (CDw90) (Thy-1 antigen) (CD antigen CD90)
Status	reviewed in uniprot database	Length	161
Mass	17,935	Activity regulation	N/A
Involvement in disease	N/A	Catalytic activity	N/A
PDB ID(s)	N/A
Function	May play a role in cell-cell or cell-ligand interactions during synaptogenesis and other events in the brain.

	Interaction ID	1025
	Target type	Protein
	Target unique ID	P04216
	Activity	2 nM
	Binding Conditions/Buffer	10 mL of 20 mM Tris buffer (150 mM NaCl, pH 8.0)
	Assay	Binding affinity of selected XAs and their equilibrium dissociation constant. Filter-binding assays were performed with the biotinylated XAs and purified THY1 protein.Saturation binding curves were generated and the equilibrium dissociation constants, Kd, were calculated from the equation Y ? Bmax X/(Kd t X), assuming a single binding site
	PubMed ID	33242496

Aptamer ID	Aptamer chemistry	Sequence	Similarity
Apta_937	DNA	TTGCCCACAGATCTGTGGAAGCCGAACCGCGTGCTAGTCGTG	71.43%
Apta_938	DNA	TTGCCCACCTCCCTGTGCGGGCCACAGAGCAGCAGTGTCGTG	69.05%
Apta_1125	DNA	TCGGGCGAGTCGTCTGGGGAGGTCAGAACGAAAGGCCCGCATCGTCCTCCC	58.82%
Apta_968	DNA	TAACACGACAGACGTTCGGAGGTCGAACCCTGACAGCGTGGGC	58.14%
Apta_309	DNA	TAGCCAAGGTAACCAGTACAAGGTGCTAAACGTAATGGCTTCGGCTTAC	57.14%
Apta_648	DNA	GCACACCGATGGCGGTCCTGTTTAGGGGGTGTGC	57.14%
Apta_649	DNA	GCACACCGATGGCGGTCCTGTTTAGGGGGTGTGCGTG	57.14%
Apta_1059	DNA	TCGTGACGCCGTGCAGTTACCGATACGAGCCTCGTTTTG	57.14%
Apta_309	DNA	TAGCCAAGGTAACCAGTACAAGGTGCTAAACGTAATGGCTTCGGCTTAC	57.14%
Apta_1204	DNA	GGCACGATGTGGCTACATCGATCGCGGTACTGGTG	57.14%
Apta_1204	DNA	GGCACGATGTGGCTACATCGATCGCGGTACTGGTG	57.14%
Apta_1018	DNA	ATCCCTGCAGTTTGGTAGGGTGCGAGCAACATCAGGCACCTGCAGG	56.52%
Apta_638	DNA	TAGCCGGATCGCGCTGGCCAGATGATATAAAGGGTCAACCCCCCG	55.56%
Apta_1126	DNA	TCGGGCGAGTCGTCTGCGGGCGGATAGACTACGACACCGCATCGTCCTCCC	54.90%
Apta_47	DNA	GACCTAGCAGTGGACATGTGGCAGGGTGAAGTGGCATCGTC	54.76%
Apta_320	DNA	GCACTCTGTGGGGGTGGACGGGCCGGGT	54.76%
Apta_375	DNA	TTGGGGAGGGGCACTGGGCAGTGTAATTTACGAAAGCGAG	54.76%
Apta_406	DNA	AAAGCCCACTGCATAGAGGCCGCTCAACATGCGAGCCGGT	54.76%
Apta_1200	DNA	GGCACACAGGACTATACAGTGTTGCAGTGTTGCTG	54.76%
Apta_1214	DNA	GTCCATTATTCTGGTAGCGTTGAACAACATTCAACACGCC	54.76%

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