AptaDB: Result

Interaction ID: 33

Aptamer sequence: GCGGTAAACTGCGTCCGAAGGGGCTGCAGTGACCCGAATGGGTCCGCCGCGAAGCG

Target unique ID: O14786

Aptamer ID	Aptamer descriptor	Target chemistry	Target name	Affinity	Binding Conditions/Buffer	PubMed ID
Apta_33	aptamer 4	Protein	NRP1_HUMAN	0.9 pM	1 mM KH2PO4, 3 mM Na2HPO4 and 155 mM NaCl, pH 7.4, Gibco	27387284

Aptamer Sequence:	GCGGTAAACTGCGTCCGAAGGGGCTGCAGTGACCCGAATGGGTCCGCCGCGAAGCG
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_33	Description	aptamer 4
Aptamer chemistry	DNA	Length	56 nt
GC content	67.9%	Molecular weight	17,382.10 Da
Molarity of 1 μg/μl solution	57.53 μM	Number of G-quadruplexes	No QGRS found
G-Score	N/A	Function	Targeted binding
Sequence	GCGGTAAACTGCGTCCGAAGGGGCTGCAGTGACCCGAATGGGTCCGCCGCGAAGCG
Applications	Biological experiments using cultured cells revealed that our stabilized aptamers efficiently inhibited the interaction between VEGF165 and its receptor, with the same or slightly higher efficiency than that of the pegaptanib RNA aptamer

Type	Detail	Type	Detail
Uniprot ID	O14786	Protein name	Neuropilin-1 (Vascular endothelial cell growth factor 165 receptor) (CD antigen CD304)
Gene name(s)	NRP1 NRP VEGF165R	Organism	Neuropilin-1 (Vascular endothelial cell growth factor 165 receptor) (CD antigen CD304)
Status	reviewed in uniprot database	Length	923
Mass	103,134	Activity regulation	N/A
Involvement in disease	N/A	Catalytic activity	N/A
PDB ID(s)	1KEX;2QQI;2QQM;2QQN;3I97;4DEQ;4RN5;5C7G;5IJR;5IYY;5J1X;5JGI;5JGQ;5JHK;5L73;6FMC;6FMF;6TKK;7JJC;7O1N;
Function	Cell-surface receptor involved in the development of the cardiovascular system, in angiogenesis, in the formation of certain neuronal circuits and in organogenesis outside the nervous system.

	Interaction ID	33
	Target type	Protein
	Target unique ID	O14786
	Activity	0.9 pM
	Binding Conditions/Buffer	1 mM KH2PO4, 3 mM Na2HPO4 and 155 mM NaCl, pH 7.4, Gibco
	Assay	Binding analysis of anti-VEGF165 aptamers by a BIAcore T200 at 25 ℃ or 37 ℃
	PubMed ID	27387284

Aptamer ID	Aptamer chemistry	Sequence	Similarity
Apta_32	DNA	CGGTAAACTGCGTCCGAAGGGGCTGCAGTGACCCGAATGGGTCCG	80.36%
Apta_262	DNA	ACGGACTCGCAAAAGGTGGAACAGGAGTGGGCCCCGCGGC	58.93%
Apta_667	DNA	GCGGCGGTACCAGGTCAAAGGTGGGTGAGGGGACGCCAAGAGTCCCCGCGGTTACATAGAG	57.38%
Apta_1082	DNA	GGCTGGTCCGCTGGGAACAAGGGCGGGAGGGAGGGTGTGGGTGCGACAAGCGGACCAGCC	56.67%
Apta_148	DNA	CCGTAGGTTCGGGGTCGGAGTGGTCCGGAAGGTGGCGTGG	55.36%
Apta_150	DNA	CCGTAGGTTCGGGGCGGAGTGGTCCGGAAGGTGGCGTGG	55.36%
Apta_1115	DNA	CGTACGGAATTCGCTAGCGGTGACGGACGTGGGGTGCACGAAGGGAGGGGATCCGAGCTCCACGTG	54.55%
Apta_618	DNA	GCGGCAAATCAGCATACGAGTGTACAGGGACGGGACGGGTGGGTAAAAGGTGTCGCCTCAG	54.10%
Apta_144	DNA	GGTGCGGTTCGTGCGGTTGTAGTACTCGTGGCCGATAGAGGTAG	53.57%
Apta_149	DNA	CCGTAGGTTCGGGGTCGGAGTGGTCCGGAAGATGGCGTGG	53.57%
Apta_312	RNA	GGGAAAAGAGACGGCCGGCGCCAUAGCCGAGAUCCGAGGUGUUGCCGAGAA	53.57%
Apta_1068	DNA	CGGGACAAGACAACGAACGAACAGGAAGAGAACCGGAATGCAGACGTCAGGG	53.57%
Apta_801	DNA	TGCGTGTGTAGTGTGTCTGCATGCCCCTGTAATCGCCCATGGGTAGCCTCTTAGGGATTTGGGCGG	53.03%
Apta_988	DNA	AAGGATGACTGACGACGATGGGAATGGAGAGGAAGGGGATATAGGTATGTTGGATGTAG	52.54%
Apta_994	DNA	GCAATGGTACGGTACTTCCGGACAGTGCTGAAAACTGTGACCCCCCAAAAGTGCACGCTACTTTGCTAA	52.17%
Apta_739	DNA	ATCGTCTGCTCCGTCCAATAGCGTGCATTGGTTTACTGCATCCGTGAAACTGGGCTTTGGTGTGAGGTCGTGC	52.05%
Apta_41	DNA	CGGTCGCTCCGTGTGGCTTGGGTTGGGTGTGGCAGTGAC	51.79%
Apta_145	DNA	GGTGCGGTTCGTGCGGTTGTAGTACTCGTGGCCGATAGA	51.79%
Apta_181	DNA	CCGTGTAAGGTTTCAGTGGCTTATCCGAAGTAACCCGAGA	51.79%
Apta_259	DNA	GCAAGTATGAGCGCAGGAGTTAGGTCCCGTGGCGATGGGT	51.79%

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