AptaDB: Result

Interaction ID: 372

Aptamer sequence: CGAGCGUAGAAUGUCUUCCCACUAGACGUCGUUCGGCCCC

Target unique ID: P23284

Aptamer ID	Aptamer descriptor	Target chemistry	Target name	Affinity	Binding Conditions/Buffer	PubMed ID
Apta_367	M9-6	Protein	PPIB_HUMAN	N/A	20 mM HEPES pH 7.5, 150 mM NaCl, 2mM CaCl2, and 3 mM MgCl2	22484812

Aptamer Sequence:	CGAGCGUAGAAUGUCUUCCCACUAGACGUCGUUCGGCCCC
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_367	Description	M9-6
Aptamer chemistry	RNA	Length	40 nt
GC content	60.0%	Molecular weight	12,722.57 Da
Molarity of 1 μg/μl solution	78.60 μM	Number of G-quadruplexes	No QGRS found
G-Score	N/A	Function	Targeted therapy
Sequence	CGAGCGUAGAAUGUCUUCCCACUAGACGUCGUUCGGCCCC
Applications	Discriminated between the sera of pancreatic cancer patients and healthy volunteers with high sensitivity and specificity

Type	Detail	Type	Detail
Uniprot ID	P23284	Protein name	Peptidyl-prolyl cis-trans isomerase B (PPIase B) (EC 5.2.1.8) (CYP-S1) (Cyclophilin B) (Rotamase B) (S-cyclophilin) (SCYLP)
Gene name(s)	PPIB CYPB	Organism	Peptidyl-prolyl cis-trans isomerase B (PPIase B) (EC 5.2.1.8) (CYP-S1) (Cyclophilin B) (Rotamase B) (S-cyclophilin) (SCYLP)
Status	reviewed in uniprot database	Length	216
Mass	23,743	Activity regulation	Inhibited by cyclosporin A (CsA)
Involvement in disease	Osteogenesis imperfecta 9 (OI9)	Catalytic activity	Reaction=[protein]-peptidylproline (omega=180) = [protein]-peptidylproline (omega=0)
PDB ID(s)	1CYN;3ICH;3ICI;
Function	PPIase that catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides and may therefore assist protein folding.

No relevant experimental diagram	Interaction ID	372
	Target type	Protein
	Target unique ID	P23284
	Activity	N/A
	Binding Conditions/Buffer	20 mM HEPES pH 7.5, 150 mM NaCl, 2mM CaCl2, and 3 mM MgCl2
	Assay	N/A
	PubMed ID	22484812

Aptamer ID	Aptamer chemistry	Sequence	Similarity
Apta_1292	RNA	GGCACGUGUAUUACCCUAGUGGUCGACGUGCC	57.50%
Apta_856	RNA	UGGGCCGGAGGUUAGCUUGCCCAUGGCAAGCAGGGCGCCACGGACCCA	56.25%
Apta_304	RNA	CGGCCGAUAGAAAGACUACUUGAGCCCUUAAAUGAGGUUAUGUGCGGCCG	56.00%
Apta_1288	RNA	GGCGCACUGGCGCUGCGCCUUCGGGCGCCAAUCGUAGCGUGUCGGCGCC	55.10%
Apta_560	RNA	GGAAGAGAUGGCGACUAAAACGACUUGUCGC	52.50%
Apta_1167	RNA	GGCGCGAGGAAGGAGGUCUGAGGAGGUCACUGCGCC	52.50%
Apta_632	RNA	GACGAGAAGGAGUGCUGGUUAUACUAGCGGUUAGGUCACUCGUC	52.27%
Apta_133	RNA	GGGAGGACGAUGCGGUGAGUCGUUCCCUUCGUCCCCAGACGACUCGCCCGA	50.98%
Apta_135	RNA	GGGAGGACGAUGCGGAUUCUGGUUACUGGCCGCCCCAGACGACUCGCCCGA	50.98%
Apta_315	RNA	GGGAGGACGAUGCGGUCGUAUUAUCCGCUGCACGCCAGACGACUCGCCCGA	50.98%
Apta_1143	RNA	ACGAGUUGUCGCAUGUGCGGUUCAGUCUGGUCCUUCAGCACCGUACAACAA	50.98%
Apta_1144	RNA	ACGAGUCUGGUCCUUCCUCCCUAAUUGCUGUUGAGGUAUCGGCUACAACAA	50.98%
Apta_1	RNA	ACGAAGCUUGAUCCCGUUUGCCGGUCGAUCGCUUCGA	50.00%
Apta_237	RNA	UUCAACGCUGUGAAGGGCUUAUACGAGCGGAUUACCC	50.00%
Apta_366	RNA	GGUUAGAGGCGACGUCCCGGAAUCCGCGCCCAUUGCCCCC	50.00%
Apta_374	RNA	GUCCCGUGCGCAAAAGUUCUUAGCGCUAGCAGUCCUAGUUGC	50.00%
Apta_378	RNA	UGCUCUUAGAAUGGGACUAAGACACGGGAC	50.00%
Apta_431	RNA	CAGGCAUGCCUAGCUAAGCAGCCCAUGGCUUAUGCGCGGAAUAUUGGCUUCCGUUC	50.00%
Apta_603	RNA	CUUGUCUGAACAAUUUCGUCUGCCUUUGCGUUCCGACGGC	50.00%
Apta_714	RNA	GGCGGUUCCUGCCGAAAGGCUCGUGGCAACGUC	50.00%

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