AptaDB: Result

Interaction ID: 284

Aptamer sequence: TTGCCCACAGATCTGTGGAAGCCGAACCGCGTGCTAGTCGTG

Target unique ID: P04216

Aptamer ID	Aptamer descriptor	Target chemistry	Target name	Affinity	Binding Conditions/Buffer	PubMed ID
Apta_937	XA-A9	Protein	THY1_HUMAN	15 nM	10 mL of 20 mM Tris buffer (150 mM NaCl, pH 8.0)	33242496

Aptamer Sequence:	TTGCCCACAGATCTGTGGAAGCCGAACCGCGTGCTAGTCGTG
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_937	Description	XA-A9
Aptamer chemistry	DNA	Length	42 nt
GC content	59.5%	Molecular weight	12,931.29 Da
Molarity of 1 μg/μl solution	77.33 μM	Number of G-quadruplexes	No QGRS found
G-Score	N/A	Function	Target recognition
Sequence	TTGCCCACAGATCTGTGGAAGCCGAACCGCGTGCTAGTCGTG
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	284
	Target type	Protein
	Target unique ID	P04216
	Activity	15 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	71.43%
Apta_938	DNA	TTGCCCACCTCCCTGTGCGGGCCACAGAGCAGCAGTGTCGTG	61.90%
Apta_1041	DNA	TTGGCCCCGCGTGATCATTGAGGGGAGGAGCCGAGGCGGGTCCAAGATTG	60.00%
Apta_968	DNA	TAACACGACAGACGTTCGGAGGTCGAACCCTGACAGCGTGGGC	58.14%
Apta_735	DNA	AGGCCCCCAGGCTCGGTGGATGCAAACACATGACTATGGGCCCGT	57.78%
Apta_1204	DNA	GGCACGATGTGGCTACATCGATCGCGGTACTGGTG	57.14%
Apta_1204	DNA	GGCACGATGTGGCTACATCGATCGCGGTACTGGTG	57.14%
Apta_1257	DNA	CGACGCACAGTCGCTGGTGCGTACCTGGTTGCCGTTGTGT	57.14%
Apta_142	DNA	CGCACATCAGTTTAGCAGCGCCAAAGGCGGAAGCGCA	54.76%
Apta_406	DNA	AAAGCCCACTGCATAGAGGCCGCTCAACATGCGAGCCGGT	54.76%
Apta_820	DNA	TCCCACGATCTCATTAGTCTGTGGATAAGCGTGGGACGTCTATGA	53.33%
Apta_1162	DNA	AGAGGCTACAGCGATAAGTCGACATTGCTGACCGTACCTAGTAATACGT	53.06%
Apta_405	DNA	TCTAGCCCACTGCATAGAGGTAGCCACGTATGTGGGTGTTACCCATTCGTAGCTACCGGTG	52.46%
Apta_257	DNA	GGCAGAAGAAATATCGAAACCCAGAATGGTCGGCCAGGCG	52.38%
Apta_318	DNA	CCCGTCTTCCAGACAAGAGTGCAGGG	52.38%
Apta_320	DNA	GCACTCTGTGGGGGTGGACGGGCCGGGT	52.38%
Apta_491	DNA	TTGGGGTCTGCTCGGGATTGCGGAGAACGTGAATCT	52.38%
Apta_498	DNA	GAACTCATTGGCTGGAGGCGGCAGTACCGCTTGAGTT	52.38%
Apta_649	DNA	GCACACCGATGGCGGTCCTGTTTAGGGGGTGTGCGTG	52.38%
Apta_674	DNA	GCACGATGGGGAAAGGGTCCCCCTGGGTTG	52.38%

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