AptaDB: Result

Interaction ID: 512

Aptamer sequence: ACTTTTGAATGTGGCAACAAATTCGACAGG

Target unique ID: Q9Y251

Aptamer ID	Aptamer descriptor	Target chemistry	Target name	Affinity	Binding Conditions/Buffer	PubMed ID
Apta_503	1.5 M Short	Protein	HPSE_HUMAN	N/A	50% DMEM, 50% Ham's F-12 Cell culture medium supplemented with: 50 mg/ml ascorbic acid, 250 ng/ml amphotericin B, 5mg/ml insulin (bovine pancreas), 0.4 ng/ml hydrocortisone and 10% heat-inactivated fetal bovine serum	25295847

Aptamer Sequence:	ACTTTTGAATGTGGCAACAAATTCGACAGG
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_503	Description	1.5 M Short
Aptamer chemistry	DNA	Length	30 nt
GC content	40.0%	Molecular weight	9,254.00 Da
Molarity of 1 μg/μl solution	108.06 μM	Number of G-quadruplexes	No QGRS found
G-Score	N/A	Function	Targeted therapy
Sequence	ACTTTTGAATGTGGCAACAAATTCGACAGG
Applications	Inhibit the enzymatic action of heparanase

Type	Detail	Type	Detail
Uniprot ID	Q9Y251	Protein name	Heparanase (EC 3.2.1.166) (Endo-glucoronidase) (Heparanase-1) (Hpa1) [Cleaved into: Heparanase 8 kDa subunit; Heparanase 50 kDa subunit]
Gene name(s)	HPSE HEP HPA HPA1 HPR1 HPSE1 HSE1	Organism	Heparanase (EC 3.2.1.166) (Endo-glucoronidase) (Heparanase-1) (Hpa1) [Cleaved into: Heparanase 8 kDa subunit; Heparanase 50 kDa subunit]
Status	reviewed in uniprot database	Length	543
Mass	61,149	Activity regulation	Inhibited by EDTA, laminarin sulfate and, to a lower extent, by heparin and sulfamin and activated by calcium and magnesium
Involvement in disease	N/A	Catalytic activity	Reaction=endohydrolysis of (1->4)-beta-D-glycosidic bonds of heparan sulfate chains in heparan sulfate proteoglycan
PDB ID(s)	5E8M;5E97;5E98;5E9B;5E9C;5L9Y;5L9Z;5LA4;5LA7;6ZDM;7RG8;
Function	Endoglycosidase that cleaves heparan sulfate proteoglycans (HSPGs) into heparan sulfate side chains and core proteoglycans.

No relevant experimental diagram	Interaction ID	512
	Target type	Protein
	Target unique ID	Q9Y251
	Activity	N/A
	Binding Conditions/Buffer	50% DMEM, 50% Ham's F-12 Cell culture medium supplemented with: 50 mg/ml ascorbic acid, 250 ng/ml amphotericin B, 5mg/ml insulin (bovine pancreas), 0.4 ng/ml hydrocortisone and 10% heat-inactivated fetal bovine serum
	Assay	N/A
	PubMed ID	25295847

Aptamer ID	Aptamer chemistry	Sequence	Similarity
Apta_348	DNA	ACTTGCTCTGATGCGACAACCTTTTGCCCAGATAGTAAGT	55.00%
Apta_1214	DNA	GTCCATTATTCTGGTAGCGTTGAACAACATTCAACACGCC	55.00%
Apta_1061	DNA	TATTTATTGAATGCTGTAATTTCGCCACGCGAAAGTAGG	53.85%
Apta_789	DNA	TAACTTTGAAGGAAAGGCTACAAACTCTTC	53.33%
Apta_163	DNA	GCGCATGACCATTGATGTCTGCACCATCAGAGGCAGAG	52.63%
Apta_808	DNA	GGGTCTTCCTGGACTGTCGAAAATTCAGTATCGGGAGG	52.63%
Apta_257	DNA	GGCAGAAGAAATATCGAAACCCAGAATGGTCGGCCAGGCG	52.50%
Apta_283	DNA	ACTCCGTCATCTTTAGTGGCCCCAATGTCGTTATCACCGA	52.50%
Apta_406	DNA	AAAGCCCACTGCATAGAGGCCGCTCAACATGCGAGCCGGT	52.50%
Apta_1216	DNA	AGCGTCCTCTGCATAGTGATTTACGCTATGTGTACAGTGC	52.50%
Apta_3	DNA	CCTGCCTTTGGCAGCCGGGCGAAGGCAACCCGACACCGACAGC	51.16%
Apta_56	DNA	GCAGCTAAGCAGGCGGCTCACAAAACCATTCGCATGCGGC	50.00%
Apta_222	DNA	AGCGACTGACGATCTTGAGTAAACCGCTCATCCACGTAGT	50.00%
Apta_240	DNA	TTTTTAATTAAAGCTCGCCATCAAATAGCTTT	50.00%
Apta_286	DNA	TACTCCGTCACTTTAGTGGATATAACAACCTCCCTATGGG	50.00%
Apta_323	DNA	GGCTATAGCACATGGGTAAAACGAC	50.00%
Apta_325	DNA	TACTGCATGCACACCACTTCAACTA	50.00%
Apta_323	DNA	GGCTATAGCACATGGGTAAAACGAC	50.00%
Apta_323	DNA	GGCTATAGCACATGGGTAAAACGAC	50.00%
Apta_325	DNA	TACTGCATGCACACCACTTCAACTA	50.00%

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