AptaDB: Result

Interaction ID: 494

Aptamer sequence: GGGGTTAAATATTCCCACATTGCCTGCGCCAGTACAAATAG

Target unique ID: Q7TNV0

Aptamer ID	Aptamer descriptor	Target chemistry	Target name	Affinity	Binding Conditions/Buffer	PubMed ID
Apta_489	DTA-64	Protein	DEK_MOUSE	N/A	20 mM Tris pH 7.6; 100 mM NaCl; 5 mM MgCl2); Room Temperature (30 min-1 hr, depending on round of testing)	28165452

Aptamer Sequence:	GGGGTTAAATATTCCCACATTGCCTGCGCCAGTACAAATAG
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_489	Description	DTA-64
Aptamer chemistry	DNA	Length	41 nt
GC content	46.3%	Molecular weight	12,593.12 Da
Molarity of 1 μg/μl solution	79.41 μM	Number of G-quadruplexes	No QGRS found
G-Score	N/A	Function	Targeted therapy
Sequence	GGGGTTAAATATTCCCACATTGCCTGCGCCAGTACAAATAG
Applications	Treatment of JIA and other types of arthritis

Type	Detail	Type	Detail
Uniprot ID	Q7TNV0	Protein name	Protein DEK
Gene name(s)	Dek	Organism	Protein DEK
Status	reviewed in uniprot database	Length	380
Mass	43,159	Activity regulation	N/A
Involvement in disease	N/A	Catalytic activity	N/A
PDB ID(s)	N/A
Function	Involved in chromatin organization.

	Interaction ID	494
	Target type	Protein
	Target unique ID	Q7TNV0
	Activity	N/A
	Binding Conditions/Buffer	20 mM Tris pH 7.6; 100 mM NaCl; 5 mM MgCl2); Room Temperature (30 min-1 hr, depending on round of testing)
	Assay	Peripheral blood human neutrophils were obtained from healthy donors and plated on glass coverslips. Control or anti-DEK aptamers (DTA-64) were added to neutrophil cultures 15 min prior to PMA stimulation (10 ng ml-1). Neutrophils were incubated for 1 h at 37 ℃, then fixed and stained for NETs with anti-MPO (green), DAPI for DNA (blue) and DEK (red) as shown in representative confocal images from experiments using 5 ng ml -1 of control aptamer or DTA-64 (60 magnification, scale bar 20 mm). The inserts zoom in on the NETs marked by the arrows in the upper panel
	PubMed ID	28165452

Aptamer ID	Aptamer chemistry	Sequence	Similarity
Apta_1162	DNA	AGAGGCTACAGCGATAAGTCGACATTGCTGACCGTACCTAGTAATACGT	57.14%
Apta_796	DNA	GTGCTGGATGTCACCTCCACTCACCACCTCTTCTCCGCTCCTCGTCATGACACATCCAG	54.24%
Apta_161	DNA	GTGTGCAGATCTGATTGCCTGCGTCAACCTACATACAAC	53.66%
Apta_328	DNA	GGGTTATATTACTCGGCCGGTGTAA	53.66%
Apta_449	DNA	CGCACTATGTTTTACGAGCCGTTTCCTCGGCAGATAGTAAGTGCG	53.33%
Apta_622	DNA	AAGCTTTTTTGACTGACTGCAGCGATTCTTGATCGCCACGGTCTGGAAAAAGAG	51.85%
Apta_34	DNA	TGTCACAATTTCCCCCCTCGCACATTTTGCAAGTAACTGA	51.22%
Apta_776	DNA	AGTGGTCGAACTACACATCCTTGAACTGCGGAATTATCTAC	51.22%
Apta_946	DNA	TACCGGGTAATATGCACACATGCTGATAGCAAGCAATGCA	51.22%
Apta_1204	DNA	GGCACGATGTGGCTACATCGATCGCGGTACTGGTG	51.22%
Apta_1204	DNA	GGCACGATGTGGCTACATCGATCGCGGTACTGGTG	51.22%
Apta_571	DNA	ACCTGCGATAGGTAGTTTGTTTCTGTTGCCCTAGCGTCCGTCGTAACAAGTCA	50.94%
Apta_569	DNA	TGCGCATGTGAAAGGTTGCCTAACTGGACAGGGTTTAGGAGCGACTAGACACAG	50.00%
Apta_1033	DNA	CACAGGTTCCAGGTAATACCTAAGGGTATGCTCTCGCCTATTATATGGAGCAC	49.06%
Apta_60	DNA	GGAATGAGTGCCCTGCAAGCGAGGGCTAGC	48.78%
Apta_162	DNA	CCGTACATACTACGTACGTACGTGAACAGAGGCAGAG	48.78%
Apta_163	DNA	GCGCATGACCATTGATGTCTGCACCATCAGAGGCAGAG	48.78%
Apta_240	DNA	TTTTTAATTAAAGCTCGCCATCAAATAGCTTT	48.78%
Apta_462	DNA	GGTATAGACCCCTGAGTCCTACCGAGGGCACGGCA	48.78%
Apta_876	DNA	GTTGCGAAAGACAACGAATGCTTTGCCTGCCATAATTTGC	48.78%

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