AptaDB: Result

Interaction ID: 41

Aptamer sequence: CGGTCGCTCCGTGTGGCTTGGGTTGGGTGTGGCAGTGAC

Target unique ID: O60930

Aptamer ID	Aptamer descriptor	Target chemistry	Target name	Affinity	Binding Conditions/Buffer	PubMed ID
Apta_41	VI-2	Protein	RNH1_HUMAN	11 nM	30 mM Tris-HCl (pH 8.5), 40 mM ammonium sulfate, 20 mM magnesium chloride, and 0.01% 2-mercaptoethanol	14500841

Aptamer Sequence:	CGGTCGCTCCGTGTGGCTTGGGTTGGGTGTGGCAGTGAC
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_41	Description	VI-2
Aptamer chemistry	DNA	Length	39 nt
GC content	66.7%	Molecular weight	12,149.74 Da
Molarity of 1 μg/μl solution	82.31 μM	Number of G-quadruplexes	2
G-Score	20	Function	Targeted therapy
Sequence	CGGTCGCTCCGTGTGGCTTGGGTTGGGTGTGGCAGTGAC
Applications	The inhibitory aptamers were capable of completely abolishing the action of an antisense oligonucleotide in a rabbit reticulocyte lysate supplemented with human RNase H1

Type	Detail	Type	Detail
Uniprot ID	O60930	Protein name	Ribonuclease H1 (RNase H1) (EC 3.1.26.4) (Ribonuclease H type II)
Gene name(s)	RNASEH1 RNH1	Organism	Ribonuclease H1 (RNase H1) (EC 3.1.26.4) (Ribonuclease H type II)
Status	reviewed in uniprot database	Length	286
Mass	32,064	Activity regulation	In the presence of magnesium, manganese is inhibitory
Involvement in disease	Progressive external ophthalmoplegia with mitochondrial DNA deletions	Catalytic activity	Reaction=Endonucleolytic cleavage to 5'-phosphomonoester
PDB ID(s)	2QK9;2QKB;2QKK;3BSU;6VRD;
Function	Endonuclease that specifically degrades the RNA of RNA-DNA hybrids.

No relevant experimental diagram	Interaction ID	41
	Target type	Protein
	Target unique ID	O60930
	Activity	11 nM
	Binding Conditions/Buffer	30 mM Tris-HCl (pH 8.5), 40 mM ammonium sulfate, 20 mM magnesium chloride, and 0.01% 2-mercaptoethanol
	Assay	N/A
	PubMed ID	14500841

Aptamer ID	Aptamer chemistry	Sequence	Similarity
Apta_1205	DNA	GGCAGGTGGTGTTGGTTGGTTGTGCGTGGAGTTGG	61.54%
Apta_1247	DNA	GGTGGTTGCTGTTGTTTGTGGTTGGTGTGC	61.54%
Apta_1188	DNA	CGGGCGGGGCGTGGGGTGTTGGAGTGGAGGGCGGGGCGGC	60.00%
Apta_46	DNA	CGGGTGGGAGTTGTGGGGGGGGGTGGGAGGGTT	58.97%
Apta_70	DNA	AGGTCGTAGGTTGGTGTGGTTGGGGCGACCT	58.97%
Apta_75	DNA	CACTGGTAGGTTGGTGTGGTTGGGGCCAGTG	58.97%
Apta_124	DNA	GGTGGTGGGGGGGGTTGGTAGGGTGTCTTC	58.97%
Apta_423	DNA	TGGGAGCTGATGTCGCATGGGTTTTGATCACATGA	58.97%
Apta_681	DNA	CCTGACGATCGGGTGTGGGTTGGCTTGAGG	58.97%
Apta_1210	DNA	GGGGAGGCAGTGTGTTGTGTCGTGTGTGTGCTTGG	58.97%
Apta_255	DNA	TAGCGATACTGCGTGGGTTGGGGCGGGTAGGGCCAGCAGTCTCGT	57.78%
Apta_745	DNA	GGTTGCATGCCGTGGGGAGGGGGGTGGGTTTTATAGCGTACTCAG	57.78%
Apta_266	DNA	TGGATGGTAGCTCGGTCGGGGTGGGTGGGTTGGCAAGTCT	57.50%
Apta_691	DNA	CGACGCGCGTTGGTGGTGGATGGTGTGTTACACGTGTTGT	57.50%
Apta_857	DNA	GCTATGGGTGGTCTGGTTGGGATTGGCCCCGGGAGCTGGC	57.50%
Apta_858	DNA	GGCTTCAGGTTGGTCTGGTTGGGTTTGGCTCCTGTGTACG	57.50%
Apta_1091	DNA	CCATGGTAGGTATTGCTTGGTAGGGATAGTGGGCTTGATG	57.50%
Apta_1216	DNA	AGCGTCCTCTGCATAGTGATTTACGCTATGTGTACAGTGC	57.50%
Apta_782	DNA	AGGTGTGACTCGATCTGTGGGGGTTGGGGGGTGGTTTTTCGGAA	56.82%
Apta_25	DNA	TGTGGGGGTGGTTGGGCGGGGCTGC	56.41%

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