AptaDB: Result

Interaction ID: 1132

Aptamer sequence: CAGAACGUAUACUAUUCUG

Target unique ID: O43490

Aptamer ID	Aptamer descriptor	Target chemistry	Target name	Affinity	Binding Conditions/Buffer	PubMed ID
Apta_1078	CD133-B19	Protein	PROM1_HUMAN	145.1 nM	Dulbecco’s phosphate buffered saline containing 2.5 mM MgCl2	23196060

Aptamer Sequence:	CAGAACGUAUACUAUUCUG
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_1078	Description	CD133-B19
Aptamer chemistry	RNA	Length	19 nt
GC content	36.8%	Molecular weight	6,006.61 Da
Molarity of 1 μg/μl solution	166.48 μM	Number of G-quadruplexes	No QGRS found
G-Score	N/A	Function	Targeted therapy
Sequence	CAGAACGUAUACUAUUCUG
Applications	Aid future development of cancer stem cell targeted therapeutics and molecular imaging

Type	Detail	Type	Detail
Uniprot ID	O43490	Protein name	Prominin-1 (Antigen AC133) (Prominin-like protein 1) (CD antigen CD133)
Gene name(s)	PROM1 PROML1 MSTP061	Organism	Prominin-1 (Antigen AC133) (Prominin-like protein 1) (CD antigen CD133)
Status	reviewed in uniprot database	Length	865
Mass	97,202	Activity regulation	N/A
Involvement in disease	Retinitis pigmentosa 41 (RP41)	Catalytic activity	N/A
PDB ID(s)	N/A
Function	May play a role in cell differentiation, proliferation and apoptosis.

	Interaction ID	1132
	Target type	Protein
	Target unique ID	O43490
	Activity	145.1 nM
	Binding Conditions/Buffer	Dulbecco’s phosphate buffered saline containing 2.5 mM MgCl2
	Assay	Determination of equilibrium dissociation constants (KD) for the interaction of truncated clones of CD133 aptamers with CD133 positive or negative cell lines
	PubMed ID	23196060

Aptamer ID	Aptamer chemistry	Sequence	Similarity
Apta_560	RNA	GGAAGAGAUGGCGACUAAAACGACUUGUCGC	48.39%
Apta_957	RNA	ACGUAUCCCUUUUCUCGUA	47.37%
Apta_1292	RNA	GGCACGUGUAUUACCCUAGUGGUCGACGUGCC	46.88%
Apta_212	RNA	AGGAAGGCUUUAGGUCUGAGAUCUCGGAAU	46.67%
Apta_379	RNA	UACGACACGAUUGGGACGUGUCUAUGGGAC	46.67%
Apta_849	RNA	UCCCGAUUACUGUACAUACCUUAGCCCAUAGCUGGCUGC	46.15%
Apta_95	RNA	CCGCGACAGUCGUAAGUUUUGACUGACUGAACGUU	45.71%
Apta_926	RNA	UCGGCAGCGGUUAGAGAGGUGGUGUGCGGG	43.33%
Apta_632	RNA	GACGAGAAGGAGUGCUGGUUAUACUAGCGGUUAGGUCACUCGUC	43.18%
Apta_89	RNA	AAUAACCUUAAUGCGACGUUGGUUCGUCAACAUGG	42.86%
Apta_93	RNA	CUCCGCUAUCUAACGUAUGAUAGAAUGGAUGACUA	42.86%
Apta_94	RNA	AUGACAGGAUGCAGAGCUCCACUGUCUAGUGUUUA	42.86%
Apta_371	RNA	GGCAGACCAUACGGGAGAGAAACUUGCC	42.86%
Apta_342	RNA	GCGACUGGUUACCCGGUCG	42.11%
Apta_373	RNA	CCAUACGGGAGAGAAACU	42.11%
Apta_848	RNA	CACCACGAUCACGGUUUCCCUCGCAGGUAAGGUGUAGA	42.11%
Apta_955	RNA	ACGUAUCCCUUUUCGCGUA	42.11%
Apta_1077	RNA	CCCUCCUACAUAGGG	42.11%
Apta_319	RNA	ACCCUGAUGGUAGACGCCGGGGUG	41.67%
Apta_51	RNA	GCCUUAGUAACGUGCUUUGAUGUCGAUUCGACAGGAGGC	41.03%

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