Local B-factor estimation – Local computational methods to improve the interpretability and analysis of cryo-EM maps
Local B-factor estimation is a computational approach to facilitate map interpretation. For this tool, the output reconstruction assigns voxel-by-voxel local B-factor values.
Inputs:
- Required: 3D reconstruction half maps
- Recommended running information:
- Use half maps not full reconstructions
- Do NOT use post-processed or masked maps
- Upload using Browser upload not Globus
- Recommended running information:
- Required: Pixel size
- Required: Threshold
- Indicate threshold to use for creating a 3D mask during map enhancement
- Required: Resolution
- Indicate global FSC resolution value
Advanced options:
- Bandwidth of the bandpass filter used in Fourier Space: If global resolution is less than 4A, use 3.5-5; If global resolution is greater than 4A, use 6-8)
- Low resolution limit: Recommended to use a value of 15-10 Angstroms
- Number of sampling points: Recommended value of 10.
- Threshold for noise significance comparison: Recommended to use 0.95
Outputs
- 3D reconstruction that provides voxel-by-voxel local B-factor estimates to be displayed by mapping it onto a 3D reconstruction.
Reference
S. Kaur, J. Gomez-Blanco, A. Khalifa, S. Adinarayanan, R. Sanchez-Garcia, D. Wrapp, J. S. McLellan, K. H. Bui, J. Vargas, Local computational methods to improve the interpretability and analysis of cryo-EM maps. bioRxiv
Github