Identification of ssDNA aptamers specific for anti-neuroexcitation peptide III and molecular modeling studies: insights into structural interactions.
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.
Zhu
Jun
J
School of Life Science and Bio-pharmaceutics, Shenyang Pharmaceutical University, Shenyang, People's Republic of China.
Wang
Jian
J
Su
Zhen-Cheng
ZC
Li
Qin
Q
Cheng
Mao-Sheng
MS
Zhang
Jing-Hai
JH
D052157:Aptamers, Nucleotide / Q000737:chemistry* / Q000494:pharmacology*; D003001:Cloning, Molecular; D004277:DNA, Single-Stranded / Q000187:drug effects*; D024202:Electrophoretic Mobility Shift Assay; D004797:Enzyme-Linked Immunosorbent Assay; D008958:Models, Molecular; D009690:Nucleic Acid Conformation; D011994:Recombinant Proteins / Q000737:chemistry / Q000494:pharmacology; D012604:Scorpion Venoms / Q000737:chemistry* / Q000494:pharmacology*; D012710:Serum Albumin, Bovine / Q000737:chemistry
D052157:Aptamers, Nucleotide; D004277:DNA, Single-Stranded; D011994:Recombinant Proteins; D012604:Scorpion Venoms; C058792:anti-epilepsy peptide, Buthrus martensii; D012710:Serum Albumin, Bovine