AptaDB: Result

Interaction ID: 1024

Aptamer sequence: TTGCCCACCTCCCTGTGCGGGCCACAGAGCAGCAGTGTCGTG

Target unique ID: P04216

Aptamer ID	Aptamer descriptor	Target chemistry	Target name	Affinity	Binding Conditions/Buffer	PubMed ID
Apta_938	XA-B216	Protein	THY1_HUMAN	36 nM	10 mL of 20 mM Tris buffer (150 mM NaCl, pH 8.0)	33242496

Aptamer Sequence:	TTGCCCACCTCCCTGTGCGGGCCACAGAGCAGCAGTGTCGTG
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_938	Description	XA-B216
Aptamer chemistry	DNA	Length	42 nt
GC content	66.7%	Molecular weight	12,868.23 Da
Molarity of 1 μg/μl solution	77.71 μM	Number of G-quadruplexes	No QGRS found
G-Score	N/A	Function	Target recognition
Sequence	TTGCCCACCTCCCTGTGCGGGCCACAGAGCAGCAGTGTCGTG
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	1024
	Target type	Protein
	Target unique ID	P04216
	Activity	36 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_939	DNA	TTGCCCACCGTACTGTGCAGGTCGAACTACAGGCACGTCGTG	69.05%
Apta_937	DNA	TTGCCCACAGATCTGTGGAAGCCGAACCGCGTGCTAGTCGTG	61.90%
Apta_255	DNA	TAGCGATACTGCGTGGGTTGGGGCGGGTAGGGCCAGCAGTCTCGT	57.78%
Apta_437	DNA	TCACAGTCCCGGTGCCGCACTAAAACCCATTGTTGTGCGA	54.76%
Apta_649	DNA	GCACACCGATGGCGGTCCTGTTTAGGGGGTGTGCGTG	54.76%
Apta_880	DNA	GCCGCACAATCGGGTTGGGCAGGGAGGGCACGTGTGGCGC	54.76%
Apta_963	DNA	TGGCGCTGCCCCTAGTCTCCGGCTGATAGCTGCTTCTTGG	54.76%
Apta_652	DNA	CCTGCACCTCGTCCAGCATGCACACCGATGGCGGTCCTGGCAGGGGGTGTGCGTG	54.55%
Apta_1081	DNA	CTTACGACTGTGGTCGGGTGGTGGGCCTCTAGAGGGGTGTCGTAAG	54.35%
Apta_653	DNA	CCTGCACCTCGTCCAGCATCCGATGGCGGTCCTGTTTTACGGTAGCTTATATGCAGGGGGGTG	53.97%
Apta_654	DNA	GCACACCGATGGCGGTCCTGTTTTACGGTAGCTTATATGCAGGGGGTGTGCGTG	53.70%
Apta_641	DNA	TTCAAGACGATGCCTGGCGCGAGTTACACACTTGCATGGAGCTGG	53.33%
Apta_819	DNA	GCGCCCTCTCACGTGGCACTCAGAGTGCCGGAAGTTCTGCGTTAT	53.33%
Apta_142	DNA	CGCACATCAGTTTAGCAGCGCCAAAGGCGGAAGCGCA	52.38%
Apta_320	DNA	GCACTCTGTGGGGGTGGACGGGCCGGGT	52.38%
Apta_406	DNA	AAAGCCCACTGCATAGAGGCCGCTCAACATGCGAGCCGGT	52.38%
Apta_479	DNA	CGGCCCACCTCGGTCGGTTTGTATGGCGAGCTGGTTTTTT	52.38%
Apta_481	DNA	CGGCCCACCTCGGTCGGTTTGTATGGCGAGCTGGTTTTTA	52.38%
Apta_648	DNA	GCACACCGATGGCGGTCCTGTTTAGGGGGTGTGC	52.38%
Apta_831	DNA	CCGCCCAGCGGGGGTAGGGCCGGACGTAGGAGGAGCTGCG	52.38%

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