Fourier shell correlation

In structural biology, the three-dimensional Fourier shell correlation (FSC) measures the normalised cross-correlation coefficient between two 3-dimensional volumes over corresponding shells in Fourier space (i.e., as a function of spatial frequency). The FSC is the three-dimensional extension of the two-dimensional Fourier ring correlation (FRC); also known as: spatial frequency correlation function.

Calculation

$FSC(r)={\frac {\displaystyle \sum _{r_{i}\in r}{F_{1}(r_{i})\cdot F_{2}(r_{i})^{\ast }}}{\displaystyle {\sqrt[{2}]{\sum _{r_{i}\in r}{\left|F_{1}(r_{i})\right|^{2}}\cdot \sum _{r_{i}\in r}{\left|F_{2}(r_{i})\right|^{2}}}}}}$

where $F_{1}$ is the complex structure Factor for volume 1, $F_{2}^{\ast }$ is the complex conjugate of the structure Factor for volume 2, and $r_{i}$ is the individual voxel element at radius $r$. In this form, the FSC takes two three-dimensional data sets and converts them into a one-dimensional array.

The FSC originated in cryo-electron microscopy and gradually proliferated to other fields. To measure the FSC, two independently determined 3D volumes are required. In cryo-electron microscopy, the two volumes are the result of two three-dimensional reconstructions, each based on half of the available data set. Typically, the even particle images form one half and the odd particles the other half of the data set. Most publications quote the FSC 0.5 resolution cutoff, which ad hoc criterion refers to when the correlation coefficient of the Fourier shells is equal to 0.5. However, determining the resolution threshold remains a controversial issue: fixed-value thresholds were argued to be based on incorrect statistical assumptions. Many other criteria using the FSC curve exist, including 3-σ criterion, 5-σ criterion, and the now generally accepted 0.143 cutoff. The half-bit criterion has been proposed to indicate at which resolution we have collected enough information to reliably interpret the 3-dimensional volume but it generally not used or thought to be reliable, and the (modified) 3-sigma criterion indicates where the FSC systematically emerges above the expected random correlations of the background noise but also is only used by a few groups not in the mainstream of cryo-EM.

See also

• Resolution (electron density)

References

• Harauz, G.; M. van Heel (1986). "Exact filters for general geometry three dimensional reconstruction". Optik. 73: 146–156.
• van Heel, M.; Keegstra, W.; Schutter, W.; van Bruggen E.F.J. (1982). Arthropod hemocyanin studies by image analysis, in: Structure and Function of Invertebrate Respiratory Proteins,EMBO Workshop 1982, E.J. Wood. Vol. Suppl. 1. pp. 69–73. ISBN 9783718601554. {{cite book}}: |journal= ignored (help)
• Saxton, W.O.; W. Baumeister (1982). "The correlation averaging of a regularly arranged bacterial cell envelope protein". J Microscopy. 127 (2): 127–138. doi:10.1111/j.1365-2818.1982.tb00405.x.
• Böttcher, B.; Wynne, S.A.; Crowther, R.A. (1997). "Determination of the fold of the core protein of hepatitis B virus by electron microscopy". Nature. 386 (6620): 88–91. doi:10.1038/386088a0. PMID 9052786.
• Frank, Joachim (2006). Three-Dimensional Electron Microscopy of Macromolecular Assemblies. New York: Oxford University Press. ISBN 0-19-518218-9.
• van Heel, M.; Schatz, M. (2005). "Fourier shell correlation threshold criteria". Journal of Structural Biology. 151 (3): 250–262. doi:10.1016/j.jsb.2005.05.009. PMID 16125414.

External links

• EMstats Trends and distributions of maps in EM Data Bank (EMDB), e.g. resolution trends