AptaDB: Result

Interaction ID: 34

Aptamer sequence: TGTCACAATTTCCCCCCTCGCACATTTTGCAAGTAACTGA

Target unique ID: O15243

Aptamer ID	Aptamer descriptor	Target chemistry	Target name	Affinity	Binding Conditions/Buffer	PubMed ID
Apta_34	Lep1	Protein	OBRG_HUMAN	0.87 μM	25 mM Tris,192 mM glycine, and 5 mM potassium phosphate (pH 8.3) (1 x TGK) buffer	23232067

Aptamer Sequence:	TGTCACAATTTCCCCCCTCGCACATTTTGCAAGTAACTGA
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_34	Description	Lep1
Aptamer chemistry	DNA	Length	40 nt
GC content	45.0%	Molecular weight	12,125.82 Da
Molarity of 1 μg/μl solution	82.47 μM	Number of G-quadruplexes	No QGRS found
G-Score	N/A	Function	Targeted binding
Sequence	TGTCACAATTTCCCCCCTCGCACATTTTGCAAGTAACTGA
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	34
	Target type	Protein
	Target unique ID	O15243
	Activity	0.87 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_165	DNA	TGGACGAACTGCCCTCAGCTACTTTCATGTTGCTGACGCA	52.50%
Apta_240	DNA	TTTTTAATTAAAGCTCGCCATCAAATAGCTTT	52.50%
Apta_1215	DNA	GTCGAATCAGCACCTCTGCATAGGTTACGTTTATACTGCG	52.50%
Apta_1042	DNA	ATCACGATATGCCCGGCTCATCGGGGTTCAGTTGGGCGGTCACATGGAAA	52.00%
Apta_489	DNA	GGGGTTAAATATTCCCACATTGCCTGCGCCAGTACAAATAG	51.22%
Apta_777	DNA	GAGCCCTATCTCACACCGCACCCGCAAACTATCATCCTACATG	51.16%
Apta_641	DNA	TTCAAGACGATGCCTGGCGCGAGTTACACACTTGCATGGAGCTGG	51.11%
Apta_884	DNA	ATACCAGCTTATTCAATTTGCACCACTTATTGTTACTAATCTGAGATAGTAAGTGCAATCT	50.82%
Apta_189	DNA	AGGAACCCTTTACCTCTGAGATCTCGGAAT	50.00%
Apta_238	DNA	CACACATTCCCGTCCTCGATACGTCTAGGCTTAGTGCCACTTGCTTAATC	50.00%
Apta_249	DNA	CCCTGTTCCCCCTCCGCCGCTTGACTCTCC	50.00%
Apta_254	DNA	CCCGCTGTTCTCCCCCCCCCGCTGAGATCCCTGT	50.00%
Apta_307	DNA	CATTCACCATGGCCCCTTCCTACGTATGTTCTGCGGGTG	50.00%
Apta_423	DNA	TGGGAGCTGATGTCGCATGGGTTTTGATCACATGA	50.00%
Apta_946	DNA	TACCGGGTAATATGCACACATGCTGATAGCAAGCAATGCA	50.00%
Apta_1060	DNA	AGCAATATTGCCCGCGCGGGGCCAACTGTCCTCACATGA	50.00%
Apta_1200	DNA	GGCACACAGGACTATACAGTGTTGCAGTGTTGCTG	50.00%
Apta_796	DNA	GTGCTGGATGTCACCTCCACTCACCACCTCTTCTCCGCTCCTCGTCATGACACATCCAG	49.15%
Apta_1172	DNA	GACGCCACTGACTACCCCAGTATCTCTTCAACGCGTATTGAAGTCAGTCGGTCGTCA	49.12%
Apta_421	DNA	ATCTACGAATTCATCAGGGCTAAAGAGTGCAGAGTTACTTAGCCCGTGA	48.98%

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