Computational selection of RNA aptamer against angiopoietin-2 and experimental evaluation

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题名:	Computational selection of RNA aptamer against angiopoietin-2 and experimental evaluation
作者:	黃俊仁;Chen, Wen-Yih;Huang, Chun-Jen;Kumar, Jangam Vikram;Hu, Wen-Pin
贡献者:	工學院化學工程與材料工程學系
关键词:	Algorithms;Amino acids;Angiogenesis;Angiopoietin-2 - antagonists & inhibitors;Angiopoietin-2 - chemistry;Aptamers, Nucleotide - chemistry;Computer Simulation;Crystal structure;Deoxyribonucleic acid;DNA;Humans;Kinases;Ligands;Medical research;Neovascularization;Phosphorylation;Physiological aspects;RNA;SELEX Aptamer Technique;Simulation;Software;Studies;Surface Plasmon Resonance;Tumors
日期:	2015-01-01
上传时间:	2026-04-21 14:31:00 (UTC+8)
出版者:	Hindawi Publishing Corporation;Cairo, Egypt: Hindawi Publishing Corporation
摘要:	摘要： Angiogenesis plays a decisive role in the growth and spread of cancer and angiopoietin-2 (Ang2) is in the spotlight of studies for its unique role in modulating angiogenesis. The aim of this study was to introduce a computational simulation approach to screen aptamers with high binding ability for Ang2. We carried out computational simulations of aptamer-protein interactions by using ZDOCK and ZRANK functions in Discovery Studio 3.5 starting from the available information of aptamers generated through the systematic evolution of ligands by exponential enrichment (SELEX) in the literature. From the best of three aptamers on the basis of ZRANK scores, 189 sequences with two-point mutations were created and simulated with Ang2. Then, we used a surface plasmon resonance (SPR) biosensor to test 3 mutant sequences of high ZRANK scores along with a high and a low affinity binding sequence as reported in the literature. We found a selected RNA aptamer has a higher binding affinity and SPR response than a reported sequence with the highest affinity. This is the first study of in silico selection of aptamers against Ang2 by using the ZRANK scoring function, which should help to increase the efficiency of selecting aptamers with high target-binding ability. 其他題名： Biomed Res Int 出版者： Cairo, Egypt: Hindawi Publishing Corporation 出版日期： 2015-01-01 出處： BioMed research international, 2015-01, Vol.2015 (2015), p.1-8 資源來源： Publicly Available Content Database 版權： Copyright © 2015 Wen-Pin Hu et al. 版權： COPYRIGHT 2015 John Wiley & Sons, Inc. 版權： Copyright © 2015 Wen-Pin Hu et al. Wen-Pin Hu et al. This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. 版權： Copyright © 2015 Wen-Pin Hu et al. 2015 識別號： ISSN: 2314-6133 識別號： ISSN: 2314-6141 識別號： EISSN: 2314-6141 識別號： DOI: 10.1155/2015/658712 識別號： PMID: 25866800
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