AptaDB: Result

Interaction ID: 675

Aptamer sequence: GTCCAGGGTTCCAAGGTGCTTCGTGGAC

Target unique ID: Other-45

Aptamer ID	Aptamer descriptor	Target chemistry	Target name	Affinity	Binding Conditions/Buffer	PubMed ID
Apta_1024	CH1S-3	Other	trastuzumab	10.3 nM	1 mg/mL BSA and 0.1 mg/mL yeast tRNA into the Dulbecco's PBS (DPBS) containing 0.55 mM MgCl2	32516525

Aptamer Sequence:	GTCCAGGGTTCCAAGGTGCTTCGTGGAC
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_1024	Description	CH1S-3
Aptamer chemistry	DNA	Length	28 nt
GC content	60.7%	Molecular weight	8,636.55 Da
Molarity of 1 μg/μl solution	115.79 μM	Number of G-quadruplexes	No QGRS found
G-Score	N/A	Function	Target recognition
Sequence	GTCCAGGGTTCCAAGGTGCTTCGTGGAC
Applications	Monitoring of antibody production

Type	Detail	Type	Detail
Target ID	Other-45	Name	trastuzumab

	Interaction ID	675
	Target type	Other
	Target unique ID	Other-45
	Activity	10.3 nM
	Binding Conditions/Buffer	1 mg/mL BSA and 0.1 mg/mL yeast tRNA into the Dulbecco's PBS (DPBS) containing 0.55 mM MgCl2
	Assay	The Kd value of aptamer CH1S-3
	PubMed ID	32516525

Aptamer ID	Aptamer chemistry	Sequence	Similarity
Apta_630	DNA	GACCAGGGCAAACGGTAGGGAGTGGTC	60.71%
Apta_160	DNA	CGGTGCAGTGGATACATGCCAGCCGTAGCCATCGTGGATA	57.50%
Apta_577	DNA	ACTTCAGTGAGTTGTCCCACGGTCGGCGAGTCGGTGGTAG	57.50%
Apta_147	DNA	TGCGGTTGTAGTACTCGTGGCCG	57.14%
Apta_330	DNA	GCTGGGTAAATAGATGATTCCCGGC	57.14%
Apta_346	DNA	GTACGTTCAGGAGCAGTGCGA	57.14%
Apta_1158	DNA	CCAGTACAAGGTGCTAAACGTAAT	57.14%
Apta_497	DNA	GTTCGATTGGATTGTGCCGGAAGTGCTGGCTCGAAC	55.56%
Apta_1032	DNA	TGGCAAGAGGGTGTGCTTAAGGTGGACACGGTGGCTTAG	53.85%
Apta_199	DNA	TAGGTCTGAGATCTCGGAAT	53.57%
Apta_206	DNA	AGGAAGGGGTCTGAGATCTCGGAAT	53.57%
Apta_326	DNA	GCAACAGGGTATCCAAAGGATCAAA	53.57%
Apta_701	DNA	GTACTGGCGTTCGGGGGGTACCGCTGC	53.57%
Apta_543	DNA	GGCACGTGTTGTCTCTCTGTGTCTCGTGCC	53.33%
Apta_917	DNA	TCGATTTCCTTAGTTGTCTTCCTTAGTGAG	53.33%
Apta_1243	DNA	GGTGTTGTTGTTGGCTAGTTTGTTGTGGGC	53.33%
Apta_146	DNA	GGTGCGGTTCGTGCGGTTGTAGTACTCGTGGCCG	52.94%
Apta_858	DNA	GGCTTCAGGTTGGTCTGGTTGGGTTTGGCTCCTGTGTACG	52.50%
Apta_62	DNA	AGTCCGTGGTAGGGCAGGTTGGGGTGACT	51.72%
Apta_63	DNA	GACCCGTGGTAGGGTAGGATGGGGTGGTC	51.72%

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