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ZDOCK server: interactive docking prediction of protein–protein complexes and symmetric multimers

2014; Oxford University Press; Volume: 30; Issue: 12 Linguagem: Inglês

10.1093/bioinformatics/btu097

1367-4811

Brian G. Pierce, Kevin Wiehe, Howook Hwang, Bong‐Hyun Kim, Thom Vreven, Zhiping Weng,

RNA and protein synthesis mechanisms

Abstract Summary: Protein–protein interactions are essential to cellular and immune function, and in many cases, because of the absence of an experimentally determined structure of the complex, these interactions must be modeled to obtain an understanding of their molecular basis. We present a user-friendly protein docking server, based on the rigid-body docking programs ZDOCK and M-ZDOCK, to predict structures of protein–protein complexes and symmetric multimers. With a goal of providing an accessible and intuitive interface, we provide options for users to guide the scoring and the selection of output models, in addition to dynamic visualization of input structures and output docking models. This server enables the research community to easily and quickly produce structural models of protein–protein complexes and symmetric multimers for their own analysis. Availability: The ZDOCK server is freely available to all academic and non-profit users at: http://zdock.umassmed.edu. No registration is required. Contact: brian.pierce@umassmed.edu or zhiping.weng@umassmed.edu