AptaDB: Result

Interaction ID: 335

Aptamer sequence: TACTGCATGCACACCACTTCAACTA

Target unique ID: P15941

Aptamer ID	Aptamer descriptor	Target chemistry	Target name	Affinity	Binding Conditions/Buffer	PubMed ID
Apta_325	MUC1-5TR-4	Protein	MUC1_HUMAN	69 nM	100 mM NaCl, 5 mM MgCl2, pH 7.4	17694298

Aptamer Sequence:	TACTGCATGCACACCACTTCAACTA
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_325	Description	MUC1-5TR-4
Aptamer chemistry	DNA	Length	25 nt
GC content	44.0%	Molecular weight	7,769.84 Da
Molarity of 1 μg/μl solution	128.70 μM	Number of G-quadruplexes	No QGRS found
G-Score	N/A	Function	Aptasensor
Sequence	TACTGCATGCACACCACTTCAACTA
Applications	New diagnostic assays against this tumour marker for the early diagnosis of primary or metastatic disease in breast, bladder and other epithelial tumours

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.

	Interaction ID	335
	Target type	Protein
	Target unique ID	P15941
	Activity	69 nM
	Binding Conditions/Buffer	100 mM NaCl, 5 mM MgCl2, pH 7.4
	Assay	Displacement ELISA of the C595 anti-MUC1 antibody from the MUC1-5TR protein using the four aptamer species selected. A scrambled aptamer has been previously shown not to interfere with this interaction
	PubMed ID	17694298

Aptamer ID	Aptamer chemistry	Sequence	Similarity
Apta_325	DNA	TACTGCATGCACACCACTTCAACTA	100.00%
Apta_946	DNA	TACCGGGTAATATGCACACATGCTGATAGCAAGCAATGCA	52.50%
Apta_125	DNA	TGGTGGATGGCGCAGTCGGCGACAA	52.00%
Apta_322	DNA	GAAGTGAAAATGACAGAACACAACA	52.00%
Apta_322	DNA	GAAGTGAAAATGACAGAACACAACA	52.00%
Apta_505	DNA	CTAAAGTGCCTCACGCTGTTAACTC	52.00%
Apta_1145	DNA	ACTGCTAGAGATTTTCCACAT	52.00%
Apta_1160	DNA	TTCAGTATCCCACGGGTGGAATCA	52.00%
Apta_1282	DNA	TCCTCTCACACATCTTATCCCCTAGGG	51.85%
Apta_363	DNA	ATTGACCGCTGTGTGACGCAACACTCAAT	51.72%
Apta_159	DNA	GCGTGCAGCATGACCACCGATGTCACACTTAATGAGAAT	51.28%
Apta_308	DNA	TGGCGGTACGGGCCGTGCACCCACTTACCTGGGAAGTGA	51.28%
Apta_1192	DNA	CTTTCTGTCCTTCCGTCACATCCCACGCATTCTCCACAT	51.28%
Apta_49	DNA	CTTCCATGTTGAGGCGTTTATACCAGTTATCATCGGACTA	50.00%
Apta_220	DNA	ATCAACTCACCGTAGGTCTAGTGAGAACTTCAAGTCTACT	50.00%
Apta_222	DNA	AGCGACTGACGATCTTGAGTAAACCGCTCATCCACGTAGT	50.00%
Apta_273	DNA	ATAAGCTGAGCATCTTAGATCCCCGTCAAGGGCAGCGTAA	50.00%
Apta_274	DNA	GATACTGAGCATCGTACATGATCCCGCAACGGGCAGTATT	50.00%
Apta_348	DNA	ACTTGCTCTGATGCGACAACCTTTTGCCCAGATAGTAAGT	50.00%
Apta_473	DNA	CCCTGCACTCGCAATGGCCCCTCTACACCACAAACGGACA	50.00%

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