AptaDB: Result

Interaction ID: 42

Aptamer sequence: GCTGGTCTCTGCGGGTTGTTGCGCCGCGGCACCCTTGGCA

Target unique ID: O60930

Aptamer ID	Aptamer descriptor	Target chemistry	Target name	Affinity	Binding Conditions/Buffer	PubMed ID
Apta_42	V-2	Protein	RNH1_HUMAN	26.5 nM	30 mM Tris-HCl (pH 8.5), 40 mM ammonium sulfate, 20 mM magnesium chloride, and 0.01% 2-mercaptoethanol	14500841

Aptamer Sequence:	GCTGGTCTCTGCGGGTTGTTGCGCCGCGGCACCCTTGGCA
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_42	Description	V-2
Aptamer chemistry	DNA	Length	40 nt
GC content	70.0%	Molecular weight	12,303.84 Da
Molarity of 1 μg/μl solution	81.28 μM	Number of G-quadruplexes	No QGRS found
G-Score	N/A	Function	Targeted therapy
Sequence	GCTGGTCTCTGCGGGTTGTTGCGCCGCGGCACCCTTGGCA
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	42
	Target type	Protein
	Target unique ID	O60930
	Activity	26.5 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_145	DNA	GGTGCGGTTCGTGCGGTTGTAGTACTCGTGGCCGATAGA	57.50%
Apta_966	DNA	GGCCTGGTCTGTTAGCCGGGTAGCAGCCCCGGCACCTATT	57.50%
Apta_1205	DNA	GGCAGGTGGTGTTGGTTGGTTGTGCGTGGAGTTGG	57.50%
Apta_144	DNA	GGTGCGGTTCGTGCGGTTGTAGTACTCGTGGCCGATAGAGGTAG	56.82%
Apta_882	DNA	AATAGTCTGGTTCGGTGCTTGGTGCGATGTGTTAGTCAGACTCTTGTGTG	56.00%
Apta_320	DNA	GCACTCTGTGGGGGTGGACGGGCCGGGT	55.00%
Apta_673	DNA	GCAGTCCTAGATCGGGTGTGGCTGGCTTGG	55.00%
Apta_675	DNA	ACTGTCCGTCGGGTTTAGGGTGGCGTTCGG	55.00%
Apta_857	DNA	GCTATGGGTGGTCTGGTTGGGATTGGCCCCGGGAGCTGGC	55.00%
Apta_880	DNA	GCCGCACAATCGGGTTGGGCAGGGAGGGCACGTGTGGCGC	55.00%
Apta_239	DNA	CCCAGATTACTGTGGAGTGGTTGTCTGCGAATCCTTCGTCCACCCAATAG	54.00%
Apta_565	DNA	GCGGGGTTGGGCGGGTGGGTTCGCTGGGCAGGGGGCGAGTG	53.66%
Apta_510	DNA	TGTAATTTGTCTGCAGCGGTTCTTGATCGCTGACACCATATTATGAAGA	53.06%
Apta_25	DNA	TGTGGGGGTGGTTGGGCGGGGCTGC	52.50%
Apta_41	DNA	CGGTCGCTCCGTGTGGCTTGGGTTGGGTGTGGCAGTGAC	52.50%
Apta_124	DNA	GGTGGTGGGGGGGGTTGGTAGGGTGTCTTC	52.50%
Apta_146	DNA	GGTGCGGTTCGTGCGGTTGTAGTACTCGTGGCCG	52.50%
Apta_676	DNA	TCAGTCCCGATCAGGTGTGGGTGGCATTGG	52.50%
Apta_679	DNA	CAGGTGGCAGATCGGGTGTGGGTGGCCTGG	52.50%
Apta_1066	DNA	CCTACGTTGGAGTGGGGTTTGCGCAGGCCGTTCTTTCCAA	52.50%

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