AptaDB: Result

Interaction ID: 381

Aptamer sequence: TTGGGGAGGGGCACTGGGCAGTGTAATTTACGAAAGCGAG

Target unique ID: P26678

Aptamer ID	Aptamer descriptor	Target chemistry	Target name	Affinity	Binding Conditions/Buffer	PubMed ID
Apta_375	Apt-9	Protein	PPLA_HUMAN	20 nM	10 mL of PBS (0.5% Tween 20) containing bead-bound PDZ-Myc-His6 (5 uL) and 1 ug/mL BSA was incubated for 30 minutes with library	21839787

Aptamer Sequence:	TTGGGGAGGGGCACTGGGCAGTGTAATTTACGAAAGCGAG
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_375	Description	Apt-9
Aptamer chemistry	DNA	Length	40 nt
GC content	55.0%	Molecular weight	12,546.06 Da
Molarity of 1 μg/μl solution	79.71 μM	Number of G-quadruplexes	2
G-Score	18	Function	Targeted binding
Sequence	TTGGGGAGGGGCACTGGGCAGTGTAATTTACGAAAGCGAG
Applications	Specifific Cam recognition

Type	Detail	Type	Detail
Uniprot ID	P26678	Protein name	Cardiac phospholamban (PLB)
Gene name(s)	PLN PLB	Organism	Cardiac phospholamban (PLB)
Status	reviewed in uniprot database	Length	52
Mass	6,109	Activity regulation	N/A
Involvement in disease	Cardiomyopathy, dilated 1P (CMD1P)	Catalytic activity	N/A
PDB ID(s)	1PLP;1ZLL;2HYN;6Y40;
Function	Reversibly inhibits the activity of ATP2A2 in cardiac sarcoplasmic reticulum by decreasing the apparent affinity of the ATPase for Ca(2+).

	Interaction ID	381
	Target type	Protein
	Target unique ID	P26678
	Activity	20 nM
	Binding Conditions/Buffer	10 mL of PBS (0.5% Tween 20) containing bead-bound PDZ-Myc-His6 (5 uL) and 1 ug/mL BSA was incubated for 30 minutes with library
	Assay	Saturation curves and determination of dissociation constants (Kd) of the aptamers. Binding reactions were performed using a fixed amount of Cam-coated magnetic beads (2 × 10**7) with a concentration series (0 to 600 nM) of the fluorescently labelled aptamers. Based on the amounts of aptamers eluted by heat treatment, saturation curves were obtained by plotting the amount of eluted aptamer verses the amount of total incubated aptamer and the Kd were calculated by nonlinear regression analysis
	PubMed ID	21839787

Aptamer ID	Aptamer chemistry	Sequence	Similarity
Apta_485	DNA	TGTCGTTGGGGGGGTAGGGAAGGGTGAAACGACAAGCCAGAAGTT	55.56%
Apta_939	DNA	TTGCCCACCGTACTGTGCAGGTCGAACTACAGGCACGTCGTG	54.76%
Apta_940	DNA	TGTGCGGGGGAGGGGAGTGGCGCTGTTGGTGCGGGTATAGCGCGTGGTGT	54.00%
Apta_484	DNA	CAGGGAGGGACAGGGCGGGAATTTGTATGATGGTTCGTTTGCTCG	53.33%
Apta_641	DNA	TTCAAGACGATGCCTGGCGCGAGTTACACACTTGCATGGAGCTGG	53.33%
Apta_597	DNA	TACTGGGCTGGGCTTGGATTAGATCACAGTGGAACATACAGGACACACG	53.06%
Apta_755	DNA	GGGGAGGGAGACACAGTCATGGAGCAGTTATTAGGGTGTACCGGGTGTAGT	52.94%
Apta_77	DNA	GGTGTGGGCGACATGGGGGTTGGTGGTGTAGGAGCGCCAT	52.50%
Apta_308	DNA	TGGCGGTACGGGCCGTGCACCCACTTACCTGGGAAGTGA	52.50%
Apta_423	DNA	TGGGAGCTGATGTCGCATGGGTTTTGATCACATGA	52.50%
Apta_507	DNA	GGCGGGGCTACGAAGTAGTGATTTTTTCCGATGGCCCGTG	52.50%
Apta_813	DNA	TAGAGATATGACAGCGGGGAAGGTTAAGAGGCGCTAGGAG	52.50%
Apta_1189	DNA	GCGGGCGGGGGGAGGGCGGCCGTGGGCTGCGAGTGGGAGG	52.50%
Apta_1210	DNA	GGGGAGGCAGTGTGTTGTGTCGTGTGTGTGCTTGG	52.50%
Apta_341	DNA	TCGGGGTTTGGGGGTTCGGGGTCGGTTCGGTTTCTTCTAATGGA	52.27%
Apta_596	DNA	GGTGGCTGTTGGTCGAGGCTTATTAGTGTAGTCAATGGAGGCAGGCGACG	52.00%
Apta_756	DNA	GGGGGACACGGAGGTGGTGGAAAGGCTAAGATTTGATGATGAGTAGTGTGGT	51.92%
Apta_569	DNA	TGCGCATGTGAAAGGTTGCCTAACTGGACAGGGTTTAGGAGCGACTAGACACAG	51.85%
Apta_638	DNA	TAGCCGGATCGCGCTGGCCAGATGATATAAAGGGTCAACCCCCCG	51.11%
Apta_745	DNA	GGTTGCATGCCGTGGGGAGGGGGGTGGGTTTTATAGCGTACTCAG	51.11%

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