AptaDB: Result

Interaction ID: 491

Aptamer sequence: GGGAGGGATTGGGTGGGCACAGCTCGCTGATAGGTCCTGGTCTCAC.

Target unique ID: Q7AP54

Aptamer ID	Aptamer descriptor	Target chemistry	Target name	Affinity	Binding Conditions/Buffer	PubMed ID
Apta_486	B7	Protein	HBP2_LISMO	47 nM	20 mM Tris-AcOH (pH 8.0), 100 mM NaCl, 200 mM KCl, 5 mM MgCl2, 0.5% Triton X-100, and 5% DMSO	22954361

Aptamer Sequence:	GGGAGGGATTGGGTGGGCACAGCTCGCTGATAGGTCCTGGTCTCAC.
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_486	Description	B7
Aptamer chemistry	DNA	Length	47 nt
GC content	63.0%	Molecular weight	14,319.15 Da
Molarity of 1 μg/μl solution	69.84 μM	Number of G-quadruplexes	3
G-Score	62	Function	Aptasensor
Sequence	GGGAGGGATTGGGTGGGCACAGCTCGCTGATAGGTCCTGGTCTCAC.
Applications	Peroxidase activity and strong binding affinity to hemin

Type	Detail	Type	Detail
Uniprot ID	Q7AP54	Protein name	Hemin/hemoglobin-binding protein 2 (Hn/Hb-binding protein 2) (P64) (Surface virulence-associated protein A)
Gene name(s)	hbp2 svpA lmo2185	Organism	Hemin/hemoglobin-binding protein 2 (Hn/Hb-binding protein 2) (P64) (Surface virulence-associated protein A)
Status	reviewed in uniprot database	Length	569
Mass	63,380	Activity regulation	Is overexpressed in mecA, clpC and clpP mutants
Involvement in disease	N/A	Catalytic activity	N/A
PDB ID(s)	4MYP;4NLA;
Function	Acts as an extracellular and cell wall-bound hemophore; scavenges host heme and hemoglobin from the environment and also serves as a cell wall receptor for both.

	Interaction ID	491
	Target type	Protein
	Target unique ID	Q7AP54
	Activity	47 nM
	Binding Conditions/Buffer	20 mM Tris-AcOH (pH 8.0), 100 mM NaCl, 200 mM KCl, 5 mM MgCl2, 0.5% Triton X-100, and 5% DMSO
	Assay	CD spectra of truncated aptamers (4 μM) in PB buffer without (black line) and with (red line) K+
	PubMed ID	22954361

Aptamer ID	Aptamer chemistry	Sequence	Similarity
Apta_1014	DNA	TGGGGGTTGGGTGGATAGGCTGGCGTCGGGGCAGGTCAGT	61.70%
Apta_484	DNA	CAGGGAGGGACAGGGCGGGAATTTGTATGATGGTTCGTTTGCTCG	57.45%
Apta_609	DNA	GCTGCGAGGTGGGTGGGTGGGAGCAATTGGTCCTCGCTTAGCTTCTACGGTGGGCTATCT	56.67%
Apta_610	DNA	GCTGTGAGGTGGGTGGGTGGGAGCAATTGGTCCTCGCTTAGCTTCTACGGTGGGCTATCT	56.67%
Apta_611	DNA	GCTGCGAGGTGGGTGGGTGGGAGCAATTGGTCCTTGCTTAGCTTCTACGGTGGGCTATCT	56.67%
Apta_393	DNA	AGGAGGATAGTTCGGTGGCTGTTCAGGGTCTCCTCCT	55.32%
Apta_602	DNA	GGGCGAGAACAGTGTCCCAGTCGCTAGTTTTCTCTGCCC	55.32%
Apta_1127	DNA	TCGGGCGAGTCGTCTGCGAGGCAACAAGCTCGTAATCCGCATCGTCCTCCC	54.90%
Apta_1116	DNA	CGTACGGAATTCGCTAGCCGGGGTGGGAACCAGTCTTGCGCGGGTGACGGATCCGAGCTCCACGTG	54.55%
Apta_558	DNA	CCGGTGGGTGGTCAGGTGGGATAGCGTTCCGCGTATGGCCCAGCGCATCACGGGTTCGCACCA	53.97%
Apta_981	DNA	TATGGAGAGTCAATGAGTACAGTCTCGTCTCAATAACGGAGCCTCGTCCGTGCCCCCG	53.45%
Apta_1230	DNA	GGCGATAGGCAGTGTTGCGGGGTCGGAGAGCGAGGTAATAGCGTGTATGGGTGCTGTGTG	53.33%
Apta_124	DNA	GGTGGTGGGGGGGGTTGGTAGGGTGTCTTC	53.19%
Apta_263	DNA	AGAGGGGAGGGTCGGGTATCGGCGTGTTCGGGGGATCTGC	53.19%
Apta_392	DNA	GGATAGTTCGGTGGCTGTTCAGGGTCTCCTCCT	53.19%
Apta_482	DNA	AGCAAGGTTTGGTGTTGGTTGGTTGCTGGTTTTGGTTTC	53.19%
Apta_497	DNA	GTTCGATTGGATTGTGCCGGAAGTGCTGGCTCGAAC	53.19%
Apta_565	DNA	GCGGGGTTGGGCGGGTGGGTTCGCTGGGCAGGGGGCGAGTG	53.19%
Apta_960	DNA	CCCGAGGCACGAGGGGGAACGTATCGTCATGTGCCGGCCA	53.19%
Apta_1013	DNA	ATCACGTATGGGGGGCCGGCATGAGGGCCGCGCGTGACA	53.19%

ABOUT