(R)-beta,gamma-fluoromethylene-dGTP-DNA ternary complex with DNA polymerase beta.
作者信息
McKenna Charles E, Kashemirov Boris A, Upton Thomas G, Batra Vinod K, Goodman Myron F, Pedersen Lars C, Beard William A, Wilson Samuel H
机构信息
Department of Chemistry, University of Southern California, Los Angeles, California 90089, USA.
出版信息
J Am Chem Soc. 2007 Dec 19;129(50):15412-3. doi: 10.1021/ja072127v. Epub 2007 Nov 22.
Abstract
摘要
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2
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Radiat Res. 2006 Nov;166(5):693-714. doi: 10.1667/RR0706.1.
3
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Structure. 2006 Apr;14(4):757-66. doi: 10.1016/j.str.2006.01.011.
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5
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