Visualizing density maps with UCSF Chimera
Visualizing density maps with UCSF Chimera
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DOI：
10.1016/j.jsb.2006.06.010
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发表时间：
2007-01-01
影响因子：
3
通讯作者：
Ferrin, Thomas E.
中科院分区：
文献类型：
--
作者：
Goddard, Thomas D.;Huang, Conrad C.;Ferrin, Thomas E.
我们描述了UCSF Chimera分子建模包中可用的密度图的交互式可视化和分析方法。该方法可实现密度图的分割、拟合、粗建模、测量和着色，用于阐明诸如病毒颗粒、核糖体、微管和染色体等大分子组合的结构。该方法适用于电子显微镜单粒子重建和层析成像范围内分辨率的密度图。所描述的所有工具都是简单、健壮和交互式的，涉及的计算只需几秒钟。UCSF Chimera软件包的一个优势是它集成了大量的交互方法。交互式工具足以执行简单的分析，也可用于为更复杂的、专门的和算法非交互式的分析软件准备输入和检查结果。虽然交互式和非交互式分析都很有用，但我们在这里只讨论交互式方法。(c) 2006爱思唯尔公司版权所有。
We describe methods for interactive visualization and analysis of density maps available in the UCSF Chimera molecular modeling package. The methods enable segmentation, fitting, coarse modeling, measuring and coloring of density maps for elucidating structures of large molecular assemblies such as virus particles, ribosomes, microtubules, and chromosomes. The methods are suitable for density maps with resolutions in the range spanned by electron microscope single particle reconstructions and tomography. All of the tools described are simple, robust and interactive, involving computations taking only seconds. An advantage of the UCSF Chimera package is its integration of a large collection of interactive methods. Interactive tools are sufficient for performing simple analyses and also serve to prepare input for and examine results from more complex, specialized, and algorithmic non-interactive analysis software. While both interactive and non-interactive analyses are useful, we discuss only interactive methods here. (c) 2006 Elsevier Inc. All rights reserved.