AptaDB: Result

Interaction ID: 301

Aptamer sequence: CUACGAACUCAUGACACAAGGAUGCAAUCUCAUCCCGCCAGCCCACCGU

Target unique ID: P10279

Aptamer ID	Aptamer descriptor	Target chemistry	Target name	Affinity	Binding Conditions/Buffer	PubMed ID
Apta_292	SAF-93	Protein	PRIO_BOVIN	23.4 nM	20 mM Hepes (pH 7.2), 100 mM NaCl, 50 mM KCl, 10 mM MgCl2	12902353

Aptamer Sequence:	CUACGAACUCAUGACACAAGGAUGCAAUCUCAUCCCGCCAGCCCACCGU
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_292	Description	SAF-93
Aptamer chemistry	RNA	Length	49 nt
GC content	55.1%	Molecular weight	15,796.28 Da
Molarity of 1 μg/μl solution	63.31 μM	Number of G-quadruplexes	No QGRS found
G-Score	N/A	Function	Targeted binding
Sequence	CUACGAACUCAUGACACAAGGAUGCAAUCUCAUCCCGCCAGCCCACCGU
Applications	Diagnostic and therapeutic approaches to TSEs

Type	Detail	Type	Detail
Uniprot ID	P10279	Protein name	Major prion protein (PrP) (Major scrapie-associated fibril protein 1) (CD antigen CD230)
Gene name(s)	PRNP PRP	Organism	Major prion protein (PrP) (Major scrapie-associated fibril protein 1) (CD antigen CD230)
Status	reviewed in uniprot database	Length	264
Mass	28,614	Activity regulation	N/A
Involvement in disease	Variations in PRNP are responsible of transmissible bovine spongiform encephalopathies (BSE)	Catalytic activity	N/A
PDB ID(s)	1DWY;1DWZ;1DX0;1DX1;1SKH;2HH0;2RSK;2RU7;4YX2;
Function	Its primary physiological function is unclear.

	Interaction ID	301
	Target type	Protein
	Target unique ID	P10279
	Activity	23.4 nM
	Binding Conditions/Buffer	20 mM Hepes (pH 7.2), 100 mM NaCl, 50 mM KCl, 10 mM MgCl2
	Assay	Affinity of aptamer SAF-93 for proteinase K-treated and untreated scrapie-associated fibrils
	PubMed ID	12902353

Aptamer ID	Aptamer chemistry	Sequence	Similarity
Apta_270	RNA	CUGUCGAACAUGCUGAGGGUAACGUACUGGCAAGCUCACCUCAGCGUAGCUAa	54.72%
Apta_658	RNA	CUGCGAUCAGGGGUAAAUUUCCGCGCAGGCUCCACGCCGC	53.06%
Apta_1211	RNA	ACUAGCCUCAUCAGCUCAUGUGCCCCUCCGCCUGGAUCAC	53.06%
Apta_766	RNA	GGUUACCAGCCUUCACUGCGGACGGACAGAGAGUGCAACCUGCCGUGCCGCACCACGGUCGGUCACAC	52.94%
Apta_447	RNA	ACGCUCAACGAGCCAGGAACAUCGACGUCAGCAAACGCGAGCGCAACCAGUAACACC	52.63%
Apta_54	RNA	GUACAACACAUCAUUACGGCUGCUAUUGGCUCCAAGCGUCUUUCUCCCUGGUCAAUAGUCCAGCCACCACG	52.11%
Apta_1113	DNA	CCGCCCAAATCCCTAAGAGCACAAACACCAAACACAACCACCCCAACCAGACACACTACACACGCA	51.52%
Apta_241	RNA	GCUUGACGGAGAUCAAGGGCGAGUCUCAUACCAAGUUGAUGGGG	51.02%
Apta_603	RNA	CUUGUCUGAACAAUUUCGUCUGCCUUUGCGUUCCGACGGC	51.02%
Apta_709	RNA	AGUGAUACCAGCAUCGUCUUGAUGCCCUUGGCAGCACU	51.02%
Apta_1123	RNA	AUUCGGGCCCAGGAACCAACUAUAUAAAUGUCCCGAAUGCUUCGACG	51.02%
Apta_314	RNA	GGUUACCAGCCUUCACUGCUCCCGGACGCGUCUGUAUCCGCUACCCGCCGCACCACGGUCGGUCACAC	50.00%
Apta_645	RNA	CUGGACGACGGGGACGCCACUGGACUAGGUAAGCCAGGACCGUACGUCGGGAGCCGUCAGAAUA	50.00%
Apta_663	DNA	CACGCACAGAAGACACCTACAGGGCCAGATCACAATCGGTTAGTGAACTCGTACGGCGCG	50.00%
Apta_1232	DNA	GGCCACACAAACAACATGACAACACGTCTCACATAACGCCCACGTGCTGCCGCCTCATCG	50.00%
Apta_271	RNA	CUGUCGAGCAUGCUCAGGGUAACGUAUAGUCAAGACACCUCAAGUGUAACU	49.02%
Apta_3	DNA	CCTGCCTTTGGCAGCCGGGCGAAGGCAACCCGACACCGACAGC	48.98%
Apta_237	RNA	UUCAACGCUGUGAAGGGCUUAUACGAGCGGAUUACCC	48.98%
Apta_262	DNA	ACGGACTCGCAAAAGGTGGAACAGGAGTGGGCCCCGCGGC	48.98%
Apta_303	RNA	CCUCCGGCUCAUACCUUUUCGAAGACAAGCUUCGACAGGAGG	48.98%

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