Frequently Used Tools in Structural Biology
FindMySequence - "A neural-network-based approach for identification of unknown proteins in X-ray crystallography and cryo-EM."
DeepTracer - "Ultra-fast, fully automated and accurate de novo macromolecular complex structure prediction and identification from 3D electron density maps using 3D deep learning."
ChimeraX recipes and Python functions and structures for scripting.
Warp - Advanced, real-time cryo-EM data pre-processing.
Links for Lab Recipes
Biochemical recipes - https://plchiulab.gitbook.io/biochemical-recipes/
Protein characterization procedures - https://plchiulab.gitbook.io/protein-characterization/
Blankenship, Robert E. Molecular Mechanisms of Photosynthesis. 2nd ed., Wiley Blackwell, 2014.
Cantor and Schimmel. Biophysical Chemistry. Freeman, 1980.
Duda, R.O., Hart, P.E., and Stork, D.G. Pattern Classification. 2nd ed., John Wiley & Sons, 2001.
Goodman, J.W. Introduction to Fourier Optics. 4th ed., W.H. Freeman, 2017.
Kirkland, E.J. Advanced Computing in Electron Microscopy. 2nd ed., Springer, 2010.
Spence, John C.H. High-Resolution Electron Microscopy. 4th ed., Oxford University Press, 2013.