RCSB PDB Help

Electron Microscopy Software

Access additional resources of interest, submitted by community members.

CTFFIND	Software for estimating contrast transfer function (CTF)
EMAN/EMAN2	Software for cryo-EM image processing and high-resolution 3D volume reconstruction
EPU	Software for image collection
FREALIGN	Software for high-resolution refinement of 3D reconstructions from cryo-EM images of single particles
Gctf	Software for real-time CTF correction
ISOLDE	Software for building models into moderate-to-low resolution experimental maps
Leginon	System for automated collection of transmission electron microscope images
PHENIX	Software for model refinement
REFMAC	Software for model refinement
RELION	Software for cryo-EM image processing and high-resolution 3D volume reconstruction
SerialEM	Software for image collection
SPIDER	Software for 3D volume reconstruction
UCSF Chimera/ChimeraX	Software for macromolecule model building, fitting, and visualization
cisTEM	Software for cryo-EM image processing and high-resolution 3D volume reconstruction
Coot	Software for macromolecule model building and fitting
cryoSPARC	Software for cryo-EM image processing and high-resolution 3D volume reconstruction
MDFF for cryo-EM	Software for flexible fitting of atomic structures into density maps

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Last updated: 2/23/2023

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.