AptaDB: Result

Interaction ID: 246

Aptamer sequence: GCUUGACGGAGAUCAAGGGCGAGUCUCAUACCAAGUUGAUGGGG

Target unique ID: P07975

Aptamer ID	Aptamer descriptor	Target chemistry	Target name	Affinity	Binding Conditions/Buffer	PubMed ID
Apta_241	HA12-16	Protein	HEMA_INCJH	N/A	20 mM sodium phosphate, pH 7.5, 500 mM NaCl and 20 mM imidazole	24835440

Aptamer Sequence:	GCUUGACGGAGAUCAAGGGCGAGUCUCAUACCAAGUUGAUGGGG
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_241	Description	HA12-16
Aptamer chemistry	RNA	Length	44 nt
GC content	54.5%	Molecular weight	14,519.47 Da
Molarity of 1 μg/μl solution	68.87 μM	Number of G-quadruplexes	No QGRS found
G-Score	N/A	Function	Targeted therapy
Sequence	GCUUGACGGAGAUCAAGGGCGAGUCUCAUACCAAGUUGAUGGGG
Applications	HA12-16 RNA aptamer suppressed viral infection in host cells by enhancing cell viability

Type	Detail	Type	Detail
Uniprot ID	P07975	Protein name	Hemagglutinin-esterase-fusion glycoprotein (HEF) (EC 3.1.1.53) [Cleaved into: Hemagglutinin-esterase-fusion glycoprotein chain 1 (HEF1); Hemagglutinin-esterase-fusion glycoprotein chain 2 (HEF2)]
Gene name(s)	HE	Organism	Hemagglutinin-esterase-fusion glycoprotein (HEF) (EC 3.1.1.53) [Cleaved into: Hemagglutinin-esterase-fusion glycoprotein chain 1 (HEF1); Hemagglutinin-esterase-fusion glycoprotein chain 2 (HEF2)]
Status	reviewed in uniprot database	Length	655
Mass	72,131	Activity regulation	N/A
Involvement in disease	N/A	Catalytic activity	Reaction=H2O + N-acetyl-9-O-acetylneuraminate = acetate + H(+) + N-acetylneuraminate
PDB ID(s)	1FLC;6WKO;
Function	Binds to the N-acetyl-9-O-acetylneuraminic acid residues on the cell surface, bringing about the attachment of the virus particle to the cell.

	Interaction ID	246
	Target type	Protein
	Target unique ID	P07975
	Activity	N/A
	Binding Conditions/Buffer	20 mM sodium phosphate, pH 7.5, 500 mM NaCl and 20 mM imidazole
	Assay	The antiviral effect of selected aptamers on the viability of MDCK cells infected by the influenza virus was evaluated using the MTT method. MDCK cells were infected with influenza virus H3N2 at an MOI of 0.1 TCID50 and then treated with the selected RNA aptamers (5 pmol). The highest protective activity was observed by HA12-16, as compared with other selected RNA aptamers
	PubMed ID	24835440

Aptamer ID	Aptamer chemistry	Sequence	Similarity
Apta_244	RNA	GCUUCCGGAGAGAAGGGUCAAAGUUGUGCGGGAGUGUGUUGUGG	61.36%
Apta_243	RNA	GCUUGAAGCUAGCAGUAAGACUAGCGCUACGGAUGGGUGUGCG	56.82%
Apta_230	RNA	GGGAGGACGAUGCGGGCGUGAAUGGUGUUGUGAGG	54.55%
Apta_242	RNA	GCUUCCAGGAAGAGAAGUGUCAUGUGAUCAGUCCUGGUGGGUGG	54.55%
Apta_402	RNA	GCCUGUAAGGUGGUCGGUGUGGCGAGUGUGUUAGGAGAGAUUGC	54.55%
Apta_560	RNA	GGAAGAGAUGGCGACUAAAACGACUUGUCGC	54.55%
Apta_925	RNA	GCUCGGCCAGGUCGCGGGUGGAUGUGAGGG	52.27%
Apta_575	RNA	AGAGCUUGACGGUCCCGAGAGUCGAGCCCAAGCUGACACUGGACCUUUGCGGACCACGUGUUGAUCGUCG	51.43%
Apta_292	RNA	CUACGAACUCAUGACACAAGGAUGCAAUCUCAUCCCGCCAGCCCACCGU	51.02%
Apta_94	RNA	AUGACAGGAUGCAGAGCUCCACUGUCUAGUGUUUA	50.00%
Apta_97	RNA	UUGUCGUCUUCUCCAGUUAGUCAACGAACUUGUGU	50.00%
Apta_237	RNA	UUCAACGCUGUGAAGGGCUUAUACGAGCGGAUUACCC	50.00%
Apta_269	RNA	AACGCUCAACGUCAGAAGGCAACGUAUAGGCAAGCACACUUCGACAUGAGGC	50.00%
Apta_293	RNA	CGGCCACAGAAUGAAAAACCUCAUCGAUGUUGCAUAGUUG	50.00%
Apta_599	RNA	GUCUCUGUGUGCGCCAGAGAACACUGGGGCAGAUAUGGGCCAGCACAGAAUGAGGCCC	50.00%
Apta_603	RNA	CUUGUCUGAACAAUUUCGUCUGCCUUUGCGUUCCGACGGC	50.00%
Apta_633	RNA	GGCAUCGGAAAGUGGGUUGAUGUAAGUAACAGGCGAUGCC	50.00%
Apta_927	RNA	UUACAAUGAGGUGGGACGCGGGUUGUGGUG	50.00%
Apta_599	RNA	GUCUCUGUGUGCGCCAGAGAACACUGGGGCAGAUAUGGGCCAGCACAGAAUGAGGCCC	50.00%
Apta_520	RNA	GGGAGAUCUACGGAUCUCAGGGCUCUUACGGGAGCUACAUGGAAGGAGUCCAUGUGU	49.12%

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