AptaDB: Result

Interaction ID: 339

Aptamer sequence: GCTGGGTAAATAGATGATTCCCGGC

Target unique ID: P15941

Aptamer ID	Aptamer descriptor	Target chemistry	Target name	Affinity	Binding Conditions/Buffer	PubMed ID
Apta_330	5TRG4	Protein	MUC1_HUMAN	34.4 nM	150 nM NaCl, 5nM MgCl2, pH 7.4	19103663

Aptamer Sequence:	GCTGGGTAAATAGATGATTCCCGGC
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_330	Description	5TRG4
Aptamer chemistry	DNA	Length	25 nt
GC content	52.0%	Molecular weight	7,961.93 Da
Molarity of 1 μg/μl solution	125.60 μM	Number of G-quadruplexes	No QGRS found
G-Score	N/A	Function	Targeted therapy
Sequence	GCTGGGTAAATAGATGATTCCCGGC
Applications	Internalized by epithelial cancer cells and can be precisely activated by light to kill such cells

Type	Detail	Type	Detail
Uniprot ID	P15941	Protein name	Mucin-1 (MUC-1) (Breast carcinoma-associated antigen DF3) (Cancer antigen 15-3) (CA 15-3) (Carcinoma-associated mucin) (Episialin) (H23AG) (Krebs von den Lungen-6) (KL-6) (PEMT) (Peanut-reactive urinary mucin) (PUM) (Polymorphic epithelial mucin) (PEM) (Tumor-associated epithelial membrane antigen) (EMA) (Tumor-associated mucin) (CD antigen CD227) [Cleaved into: Mucin-1 subunit alpha (MUC1-NT) (MUC1-alpha); Mucin-1 subunit beta (MUC1-beta) (MUC1-CT)]
Gene name(s)	MUC1 PUM	Organism	Mucin-1 (MUC-1) (Breast carcinoma-associated antigen DF3) (Cancer antigen 15-3) (CA 15-3) (Carcinoma-associated mucin) (Episialin) (H23AG) (Krebs von den Lungen-6) (KL-6) (PEMT) (Peanut-reactive urinary mucin) (PUM) (Polymorphic epithelial mucin) (PEM) (Tumor-associated epithelial membrane antigen) (EMA) (Tumor-associated mucin) (CD antigen CD227) [Cleaved into: Mucin-1 subunit alpha (MUC1-NT) (MUC1-alpha); Mucin-1 subunit beta (MUC1-beta) (MUC1-CT)]
Status	reviewed in uniprot database	Length	1255
Mass	122,102	Activity regulation	N/A
Involvement in disease	MUC1/CA 15-3 is used as a serological clinical marker of breast cancer to monitor response to breast cancer treatment and disease recurrence	Catalytic activity	N/A
PDB ID(s)	1SM3;2ACM;2FO4;5T6P;5T78;6FZQ;6FZR;6KX1;6TGG;7Q4I;
Function	The alpha subunit has cell adhesive properties.

No relevant experimental diagram	Interaction ID	339
	Target type	Protein
	Target unique ID	P15941
	Activity	34.4 nM
	Binding Conditions/Buffer	150 nM NaCl, 5nM MgCl2, pH 7.4
	Assay	N/A
	PubMed ID	19103663

Aptamer ID	Aptamer chemistry	Sequence	Similarity
Apta_1024	DNA	GTCCAGGGTTCCAAGGTGCTTCGTGGAC	57.14%
Apta_672	DNA	GGGGTGAAACGGGTCCCG	56.00%
Apta_1147	DNA	GGGGACTAGAGGACTTGTGCGGCC	56.00%
Apta_507	DNA	GGCGGGGCTACGAAGTAGTGATTTTTTCCGATGGCCCGTG	52.50%
Apta_544	DNA	GCGGGCGGTTGTATAGCGG	52.00%
Apta_1145	DNA	ACTGCTAGAGATTTTCCACAT	52.00%
Apta_700	DNA	GCAGGGGCGTTCGGGGGGTACCGCTGC	51.85%
Apta_781	DNA	GTACGCCGCAAGACGAGTTGTGTATAAGCCGGC	51.52%
Apta_1204	DNA	GGCACGATGTGGCTACATCGATCGCGGTACTGGTG	51.43%
Apta_1204	DNA	GGCACGATGTGGCTACATCGATCGCGGTACTGGTG	51.43%
Apta_146	DNA	GGTGCGGTTCGTGCGGTTGTAGTACTCGTGGCCG	50.00%
Apta_257	DNA	GGCAGAAGAAATATCGAAACCCAGAATGGTCGGCCAGGCG	50.00%
Apta_262	DNA	ACGGACTCGCAAAAGGTGGAACAGGAGTGGGCCCCGCGGC	50.00%
Apta_339	DNA	CACAGGCTACGGCACGTAGAGCATCACCATGATCCTGTGT	50.00%
Apta_419	DNA	ATCAGGGCTAAAGAGTGCAGAGTTACTTAG	50.00%
Apta_542	DNA	GCACGTGTTGTCTCTCTGTGTCTCGTGC	50.00%
Apta_552	DNA	CACCTGGGGGAGTATTGCGGAGGAAGGTTCCAGGTG	50.00%
Apta_857	DNA	GCTATGGGTGGTCTGGTTGGGATTGGCCCCGGGAGCTGGC	50.00%
Apta_947	DNA	CATGGCTAGGTGTTTATTAATCCTGTAGGATTTGCGGAAT	50.00%
Apta_1083	DNA	TGCTGTTGTCACCTGCCTCGTCTCCCTCGT	50.00%

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