AptaDB: Result

Interaction ID: 35

Aptamer sequence: TGGGTGGCCTCCCGTTTATTCGAGATTTGGTTGAATTTGT

Target unique ID: O15243

Aptamer ID	Aptamer descriptor	Target chemistry	Target name	Affinity	Binding Conditions/Buffer	PubMed ID
Apta_35	Lep2	Protein	OBRG_HUMAN	0.41 μM	25 mM Tris,192 mM glycine, and 5 mM potassium phosphate (pH 8.3) (1 x TGK) buffer	23232067

Aptamer Sequence:	TGGGTGGCCTCCCGTTTATTCGAGATTTGGTTGAATTTGT
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_35	Description	Lep2
Aptamer chemistry	DNA	Length	40 nt
GC content	45.0%	Molecular weight	12,360.92 Da
Molarity of 1 μg/μl solution	80.90 μM	Number of G-quadruplexes	No QGRS found
G-Score	N/A	Function	Targeted binding
Sequence	TGGGTGGCCTCCCGTTTATTCGAGATTTGGTTGAATTTGT
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	35
	Target type	Protein
	Target unique ID	O15243
	Activity	0.41 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_1064	DNA	CGATGGAGGACCTCCGGTTTACCGTGTCGTTTTACTCTTG	57.50%
Apta_180	DNA	GGTCCCCCGTAAATTGAGAATTTGGGCGTTTTGGTTCTA	55.00%
Apta_216	DNA	TGGTTGGTTTTTGGTTTTTTTTTTTGGTTT	55.00%
Apta_491	DNA	TTGGGGTCTGCTCGGGATTGCGGAGAACGTGAATCT	55.00%
Apta_564	DNA	GGGGACTGTTGTGGTATTATTTTTGGTTGTGCAGT	55.00%
Apta_1247	DNA	GGTGGTTGCTGTTGTTTGTGGTTGGTGTGC	55.00%
Apta_835	DNA	TATGGCGTGGCAAGCTTGGCCCGCTTCTCAAGCATGGTTATCTAC	53.33%
Apta_591	DNA	CTCTCGGGACGACGGCTGGCACGTTTGGTTCAAGAATGTGGGTGTCGTCCC	52.94%
Apta_183	DNA	TAGCACTGTGCGGCGCGTATTGTTCTAATCTGATTACATT	52.50%
Apta_479	DNA	CGGCCCACCTCGGTCGGTTTGTATGGCGAGCTGGTTTTTT	52.50%
Apta_480	DNA	CGGCACACCTCGGTCGGTTTGTATGGCGAGCTGGTTTTTT	52.50%
Apta_676	DNA	TCAGTCCCGATCAGGTGTGGGTGGCATTGG	52.50%
Apta_1026	DNA	GGGGGGTGTATCGTTGACGAGTTGCGCGTGCGTCTCGTG	52.50%
Apta_1067	DNA	GCGCGGTACCGCGCTAACGGAGGTTGCGTCCGT	52.50%
Apta_1205	DNA	GGCAGGTGGTGTTGGTTGGTTGTGCGTGGAGTTGG	52.50%
Apta_1210	DNA	GGGGAGGCAGTGTGTTGTGTCGTGTGTGTGCTTGG	52.50%
Apta_1238	DNA	GGTTTTGTGTTTGTGTTTTGTGGTTGTTGT	52.50%
Apta_1241	DNA	GGTGTGGAGTGGTGTGTGTTGTTGTTTGTC	52.50%
Apta_1162	DNA	AGAGGCTACAGCGATAAGTCGACATTGCTGACCGTACCTAGTAATACGT	51.02%
Apta_922	DNA	ATCCAGAGTGACGCAGCACACCGTTTGTATTCTGCATTGTTTTGCATTCTACATGGACACGGTGGCTTAGT	50.70%

ABOUT