AptaDB: Result

Interaction ID: 36

Aptamer sequence: GTTAATGGGGGATCTCGCGGCCGTTCTTGTTGCTTATACA

Target unique ID: O15243

Aptamer ID	Aptamer descriptor	Target chemistry	Target name	Affinity	Binding Conditions/Buffer	PubMed ID
Apta_36	Lep3	Protein	OBRG_HUMAN	0.32 μM	25 mM Tris,192 mM glycine, and 5 mM potassium phosphate (pH 8.3) (1 x TGK) buffer	23232067

Aptamer Sequence:	GTTAATGGGGGATCTCGCGGCCGTTCTTGTTGCTTATACA
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_36	Description	Lep3
Aptamer chemistry	DNA	Length	40 nt
GC content	50.0%	Molecular weight	12,339.91 Da
Molarity of 1 μg/μl solution	81.04 μM	Number of G-quadruplexes	No QGRS found
G-Score	N/A	Function	Targeted binding
Sequence	GTTAATGGGGGATCTCGCGGCCGTTCTTGTTGCTTATACA
Applications	Binding to target proteins

Type	Detail	Type	Detail
Uniprot ID	O15243	Protein name	Leptin receptor gene-related protein (Endospanin-1) (Leptin receptor overlapping transcript protein) (OB-R gene-related protein) (OB-RGRP)
Gene name(s)	LEPROT LEPR OBR	Organism	Leptin receptor gene-related protein (Endospanin-1) (Leptin receptor overlapping transcript protein) (OB-R gene-related protein) (OB-RGRP)
Status	reviewed in uniprot database	Length	131
Mass	14,254	Activity regulation	N/A
Involvement in disease	N/A	Catalytic activity	N/A
PDB ID(s)	N/A
Function	Negatively regulates leptin receptor (LEPR) cell surface expression, and thus decreases response to leptin.

	Interaction ID	36
	Target type	Protein
	Target unique ID	O15243
	Activity	0.32 μM
	Binding Conditions/Buffer	25 mM Tris,192 mM glycine, and 5 mM potassium phosphate (pH 8.3) (1 x TGK) buffer
	Assay	Determination of binding affinities using fluorescence intensity. A constant concentration of protein was immobilized onto a 96-well plate and blocked with 5% BSA. Each well was incubated with a different concentration of aptamer (0–5000 nM). After several washing steps, the fluorescence intensity of the DNA was measured in each well surface and the corrected signal was normalized using the BSA-only control. Fluorescence intensities (in relative fluorescence units, RFU) were plotted against the aptamer concentration (in lM), and the binding affinity KD was calculated using nonlinear regression on GraphPad Prism 5. Experiments were performed in triplicate
	PubMed ID	23232067

Aptamer ID	Aptamer chemistry	Sequence	Similarity
Apta_1149	DNA	ATCATGGTGGGTATCGGCACTCGTTGGTTGAT	55.00%
Apta_341	DNA	TCGGGGTTTGGGGGTTCGGGGTCGGTTCGGTTTCTTCTAATGGA	54.55%
Apta_1213	DNA	GGACTTGAAGAAAAGGGCGACACGCGAAGTCGATGTCGCGTCTGCCTGAAGTCA	53.70%
Apta_835	DNA	TATGGCGTGGCAAGCTTGGCCCGCTTCTCAAGCATGGTTATCTAC	53.33%
Apta_79	DNA	ATCTCGAGTCATAGGGGGCGCGAACATACGCGGTTGGTGTGGTTGGCTGACTCGT	52.73%
Apta_145	DNA	GGTGCGGTTCGTGCGGTTGTAGTACTCGTGGCCGATAGA	52.50%
Apta_165	DNA	TGGACGAACTGCCCTCAGCTACTTTCATGTTGCTGACGCA	52.50%
Apta_497	DNA	GTTCGATTGGATTGTGCCGGAAGTGCTGGCTCGAAC	52.50%
Apta_858	DNA	GGCTTCAGGTTGGTCTGGTTGGGTTTGGCTCCTGTGTACG	52.50%
Apta_945	DNA	GTTAGACGCTGGACCGCGTGTGATCGGGTCAGCTGCAATT	52.50%
Apta_961	DNA	CTAGTGGGGACCTTCCAGGGTAACTGCTCGCATTCTCCAT	52.50%
Apta_1176	DNA	AGTATGATATCGGTGTTTATGGTGTCTGTCTTCATACT	52.50%
Apta_1239	DNA	GGTGGATGGGGATGCTTTGTTAGTTTGTGC	52.50%
Apta_1240	DNA	GGAGTAGTGGGGATTGTGGTGTATGTTGTC	52.50%
Apta_1241	DNA	GGTGTGGAGTGGTGTGTGTTGTTGTTTGTC	52.50%
Apta_1242	DNA	GGAGCGATTAGTAGTGGTCTTGTCTTTTGC	52.50%
Apta_1246	DNA	GGAGATGTATGAGCGGGTGTTTGTGTTTGC	52.50%
Apta_573	DNA	CGTACAGTGGGCTATATTGCTGACGTAAGAGCTGCTTTCAATGCATTGGCATAGATGTCA	51.67%
Apta_883	DNA	CGTACCGGCCAGTGATTACGACGAGACGAGCTTATGCGTATTGATGCCTAACTATCTACA	51.67%
Apta_745	DNA	GGTTGCATGCCGTGGGGAGGGGGGTGGGTTTTATAGCGTACTCAG	51.11%

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