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Localized Reconstruction is a general method for the localized three-dimensional reconstruction of substructures bound to a larger particle. After determining the particle orientations via conventional methods, local areas corresponding to the subunits ('subparticles') can be extracted and treated as single particles.
The method has been incorporated in Scipion (from version 1.1 onward) and the relevant protocols are available under 'opic'. Running the method from Scipion is recommended.
If you have any questions regarding the method or its command line use as described here, please don't hesitate to contact us at [email protected].
These instructions are for version 1.2.1. Note that if you would like to use the current version with Scipion, you should apply the provided patch files to make Scipion protocols compatible.
If localized reconstruction is useful in your work, please cite:
If you use partial signal subtraction as part of this method, please cite also Bai et al. 2015 eLife.
If you have used Scipion to run localized reconstruction, please cite also de la Rosa-Trevin et al. 2016 J Struct Biol.
The authors acknowledge funding from the European Research Council under the European Union’s Horizon 2020 research and innovation programme (649053) and from the Wellcome Trust PhD Programme in Structural Biology.