AptaDB: Result

Interaction ID: 336

Aptamer sequence: GCAACAGGGTATCCAAAGGATCAAA

Target unique ID: P15941

Aptamer ID	Aptamer descriptor	Target chemistry	Target name	Affinity	Binding Conditions/Buffer	PubMed ID
Apta_326	S1.6	Protein	MUC1_HUMAN	0.2131 nM	0.2 M NaHCO3 and 0.5 M NaCl (pH 7.4)	17033199

Aptamer Sequence:	GCAACAGGGTATCCAAAGGATCAAA
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_326	Description	S1.6
Aptamer chemistry	DNA	Length	25 nt
GC content	44.0%	Molecular weight	7,956.97 Da
Molarity of 1 μg/μl solution	125.68 μM	Number of G-quadruplexes	No QGRS found
G-Score	N/A	Function	Targeted binding
Sequence	GCAACAGGGTATCCAAAGGATCAAA
Applications	Bind to MUC1 Tumour Marker

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	336
	Target type	Protein
	Target unique ID	P15941
	Activity	0.2131 nM
	Binding Conditions/Buffer	0.2 M NaHCO3 and 0.5 M NaCl (pH 7.4)
	Assay	N/A
	PubMed ID	17033199

Aptamer ID	Aptamer chemistry	Sequence	Similarity
Apta_1158	DNA	CCAGTACAAGGTGCTAAACGTAAT	56.00%
Apta_1024	DNA	GTCCAGGGTTCCAAGGTGCTTCGTGGAC	53.57%
Apta_1150	DNA	CTAAGCAGGAAGGTATGGATTGGTTGCATTAG	53.12%
Apta_586	DNA	GGGAGACAAGGAAAATCCTTCAATGAAGTGGGTCGACA	52.63%
Apta_142	DNA	CGCACATCAGTTTAGCAGCGCCAAAGGCGGAAGCGCA	51.35%
Apta_181	DNA	CCGTGTAAGGTTTCAGTGGCTTATCCGAAGTAACCCGAGA	50.00%
Apta_213	DNA	AGGAAGGCAAAAGGAAAAAAAAAAAGGAAA	50.00%
Apta_260	DNA	GACGTTAAGCTAGCAGGTGTTAGGTCCCGTGGTGATGAAT	50.00%
Apta_438	DNA	AGCCATGACGATGTCGTTACGTAGATGCAGAGACTCCTAA	50.00%
Apta_438	DNA	AGCCATGACGATGTCGTTACGTAGATGCAGAGACTCCTAA	50.00%
Apta_443	DNA	GGCCATGACGATGTCGTTACGTAGATGCAGAGACTCCTAA	50.00%
Apta_444	DNA	AGCCATTACGATGTCGTTACGTAGATGCAGAGACTCCTAA	50.00%
Apta_445	DNA	AGCCATGACGATGTCGTTACGTAGATGTAGAGACTCCTAA	50.00%
Apta_446	DNA	AGCCATGACGATGTCGTTACGTAGATGCATAGACTCCTAA	50.00%
Apta_964	DNA	CACGAGAGGGGTGAGGTGTCGTATTAGAGGGAAGCTCCAA	50.00%
Apta_967	DNA	GGGTAGCAGCCCCGCGGAGGGTCGGCTATAAGAACCAAGA	50.00%
Apta_1256	DNA	GATCGGGTGTGGGTGGCGTAAAGGGAGCATCGGACA	50.00%
Apta_1032	DNA	TGGCAAGAGGGTGTGCTTAAGGTGGACACGGTGGCTTAG	48.72%
Apta_85	RNA	UGCGACUGUUAUAACCUAACAGCGACGUAAAGAUA	48.57%
Apta_92	RNA	ACAACUUAAUGCGACGUUGGUAAAGCAUAUCAAAC	48.57%

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