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KMID : 0043320080310091120
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Archives of Pharmacal Research
2008 Volume.31 No. 9 p.1120 ~ p.1128
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Identification of ssDNA Aptamers Specific for Anti-neuroexcitation Peptide III and Molecular Modeling Studies: Insights into Structural Interactions
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Zhu Jun
Zhang Jing Hai
Cheng Mao Sheng
Li Qin
Su Zhen-Cheng
Wang Jian
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Abstract
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Twelve ssDNA aptamers specific for a novel recombinant anti-neuroexcitation peptide (ANEPIII) were identified using the SELEX method from a 79-nucleotide ssDNA pool to purify ANEPIII in a more efficient way. To further understand the binding modes between ssDNA and ANEPIII, fully flexible dinucleotides were docked onto the homology-modeled ANEPIII structure. AutoDocking identified favorable binding sites on ANEPIII for nucleotides, which was valuable for designing more potent ligands.
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KEYWORD
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SELEX, ssDNA aptamers, Homology modeling, AutoDock
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