The Local Resolution of Cryo-EM Density Maps

We propose a definition of local resolution for three-dimensional electron cryo-microscopy (cryo-EM) density maps that uses local sinusoidal features. Our algorithm has no free parameters and is applicable to other imaging modalities, including tomography. By evaluating the local resolution of single-particle reconstructions and subtomogram averages for four example data sets, we report variable resolution across a 4- to 40-Å range.

[1]  Stephen E. Fienberg,et al.  Testing Statistical Hypotheses , 2005 .

[2]  M. Wand.  Local Regression and Likelihood , 2001 .

[3]  Conrad C. Huang,et al.  UCSF Chimera—A visualization system for exploratory research and analysis , 2004, J. Comput. Chem..

[4]  N. Grigorieff,et al.  Ab initio resolution measurement for single particle structures. , 2007, Journal of structural biology.

[5]  W. Kühlbrandt,et al.  Structure of the yeast F1Fo-ATP synthase dimer and its role in shaping the mitochondrial cristae , 2012, Proceedings of the National Academy of Sciences.

[6]  J Bernard Heymann,et al.  Bsoft: image processing and molecular modeling for electron microscopy. , 2007, Journal of structural biology.

[7]  Edward H. Adelson,et al.  The Design and Use of Steerable Filters , 1991, IEEE Trans. Pattern Anal. Mach. Intell..

[8]  Guohua Pan,et al.  Local Regression and Likelihood , 1999, Technometrics.

[9]  S. Scheres,et al.  Ribosome structures to near-atomic resolution from thirty thousand cryo-EM particles , 2013, eLife.

[10]  Guillermo Sapiro,et al.  Protein secondary structure determination by constrained single-particle cryo-electron tomography. , 2012, Structure.

[11]  Xi Jiang,et al.  Cryo-EM Structure of a Novel Calicivirus, Tulane Virus , 2013, PloS one.

[12]  Y. Benjamini,et al.  THE CONTROL OF THE FALSE DISCOVERY RATE IN MULTIPLE TESTING UNDER DEPENDENCY , 2001 .

[13]  Andres E Leschziner,et al.  Visualizing flexibility at molecular resolution: analysis of heterogeneity in single-particle electron microscopy reconstructions. , 2007, Annual review of biophysics and biomolecular structure.

[14]  Gabriel C. Lander,et al.  Complete subunit architecture of the proteasome regulatory particle , 2011, Nature.

[15]  S Jonić,et al.  Spectral signal-to-noise ratio and resolution assessment of 3D reconstructions. , 2005, Journal of structural biology.

[16]  R. Rosenfeld.  Nature , 2009, Otolaryngology--head and neck surgery : official journal of American Academy of Otolaryngology-Head and Neck Surgery.

[17]  Hstau Y Liao,et al.  Definition and estimation of resolution in single-particle reconstructions. , 2010, Structure.

[18]  Shaoxia Chen,et al.  Prevention of overfitting in cryo-EM structure determination , 2012, Nature Methods.

[19]  Victor H Hernandez,et al.  Nature Methods , 2007 .

[20]  J. Frank,et al.  High-resolution cryo-electron microscopy structure of the Trypanosoma brucei ribosome , 2013, Nature.