AptaDB: Result

Interaction ID: 931

Aptamer sequence: CCAAACGCGCTGGTTTGGAATGCTTAGAGTTTGATCGATGCCTAA

Target unique ID: 30932

Aptamer ID	Aptamer descriptor	Target chemistry	Target name	Affinity	Binding Conditions/Buffer	PubMed ID
Apta_845	Malaria.1	Cell	Plasmodium falciparum	66 nM	RPMI-1640 (pH 7.2) supplemented with BSA (1 mg/mL, Sigma, St Louis, MO), yeast tRNA (0.1 mg/mL, Invitrogen)	32546848

Aptamer Sequence:	CCAAACGCGCTGGTTTGGAATGCTTAGAGTTTGATCGATGCCTAA
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_845	Description	Malaria.1
Aptamer chemistry	DNA	Length	45 nt
GC content	46.7%	Molecular weight	13,890.93 Da
Molarity of 1 μg/μl solution	71.99 μM	Number of G-quadruplexes	No QGRS found
G-Score	N/A	Function	Targeted binding
Sequence	CCAAACGCGCTGGTTTGGAATGCTTAGAGTTTGATCGATGCCTAA
Applications	Malaria diagnosis and surveillance

Type	Detail	Type	Detail
ATCC ID	30932	Cell name	Plasmodium falciparum
Category	Protists	Organism	N/A
Product type	Parasitic protozoan	Cell type	N/A
Morphology	N/A	Tissue	N/A
Disease	N/A	Product format	Frozen
Antigen expression	N/A	Genes expressed	N/A
Cell description	N/A
Application(s)	Infectious disease research; Vector-borne disease research

	Interaction ID	931
	Target type	Cell
	Target unique ID	30932
	Activity	66 nM
	Binding Conditions/Buffer	RPMI-1640 (pH 7.2) supplemented with BSA (1 mg/mL, Sigma, St Louis, MO), yeast tRNA (0.1 mg/mL, Invitrogen)
	Assay	Binding isotherm: Putative aptamer sequences were labeled at the 5′ end with [32P]. Five million cells per well were incubated with increasing concentrations of labeled sequences in bufer. Afer three washes, the amount of 32P-labeled aptamer associated with cells was determined by liquid scintillation counting. Data were normalized by fraction bound. Malaria.1, Malaria.2 and Malaria.3 bind to IEs with high afnity but the randomly generated control sequence of the same length (RDM1) shows no binding to IEs
	PubMed ID	32546848

Aptamer ID	Aptamer chemistry	Sequence	Similarity
Apta_691	DNA	CGACGCGCGTTGGTGGTGGATGGTGTGTTACACGTGTTGT	57.78%
Apta_915	DNA	ACTTCGGCTAGTTAGGGGGTAGTTTAGATCGTCTCTACAT	55.56%
Apta_883	DNA	CGTACCGGCCAGTGATTACGACGAGACGAGCTTATGCGTATTGATGCCTAACTATCTACA	55.00%
Apta_910	DNA	TCACGTGCATGATAGACGGCGAAGCCGTCGAGTTGCTGTGTGCCGATGCACGTGA	54.55%
Apta_1278	DNA	CCATGATTCAACTTTACTGGTCTTGTCTTGGCTAGTCGTGTGTCATTCCCTAAGG	54.55%
Apta_756	DNA	GGGGGACACGGAGGTGGTGGAAAGGCTAAGATTTGATGATGAGTAGTGTGGT	53.85%
Apta_65	DNA	CTACCGTGGTAGGGAAGGTTGGAGTGTAG	53.33%
Apta_185	DNA	ACCAAGGCTTTAGGTCTGAGATCTCCCAAT	53.33%
Apta_204	DNA	CCAAGGCTTTAGGTCTGAGATCTCCC	53.33%
Apta_440	DNA	AAAGACCGTTTTTTAAAACGCTCAATATACACGACATAAA	53.33%
Apta_441	DNA	TGAATCTCGCGCTCGTTGGTACCCTTAAAATAAAGGCATA	53.33%
Apta_578	DNA	CACCAAGCGCAGGGAATTACATTGAAGTGTGGGATTGGCT	53.33%
Apta_646	DNA	TGGAGCTTGGATTGATGTGGTGTGTGAGTGCGGTGCCC	53.33%
Apta_649	DNA	GCACACCGATGGCGGTCCTGTTTAGGGGGTGTGCGTG	53.33%
Apta_779	DNA	TACGGGCTGGATCCACTGTTACGGCGTGTATCCGCTATCAA	53.33%
Apta_962	DNA	CCACACCGAGATGTTGTGACGGTTCCGATTGGCAAACTGA	53.33%
Apta_965	DNA	CACGGCATGTGTGGCCGGATGCCTATATCGGTCGACTGCA	53.33%
Apta_1150	DNA	CTAAGCAGGAAGGTATGGATTGGTTGCATTAG	53.33%
Apta_310	DNA	GCGCCAGCTTTGCTGATGGGTGGCCACCCTTGCCCTGGGTTTGAATTTCGATCCTATCG	52.54%
Apta_173	DNA	AGCAGCACAGAGGTCAGATGGCAGGTTTCGACGTACAATGCTATGGAGGCTTTATGATCGCCTATGCGTGCTACCGTGAA	52.50%

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