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TitlegoCTF: Geometrically optimized CTF determination for single-particle cryo-EM.
Journal, issue, pagesJ Struct Biol, Vol. 205, Issue 1, Page 22-29, Year 2019
Publish dateJan 1, 2019
AuthorsMin Su /
PubMed AbstractPreferred particle orientation represents a recurring problem in single-particle cryogenic electron microcopy (cryo-EM). A specimen-independent approach through tilting has been attempted to increase ...Preferred particle orientation represents a recurring problem in single-particle cryogenic electron microcopy (cryo-EM). A specimen-independent approach through tilting has been attempted to increase particle orientation coverage, thus minimizing anisotropic three-dimensional (3D) reconstruction. However, focus gradient is a critical issue hindering tilt applications from being a general practice in single-particle cryo-EM. The present study describes a newly developed geometrically optimized approach, goCTF, to reliably determine the global focus gradient. A novel strategy of determining contrast transfer function (CTF) parameters from a sector of the signal preserved power spectrum is applied to increase reliability. Subsequently, per-particle based local focus refinement is conducted in an iterative manner to further improve the defocus accuracy. Novel diagnosis methods using a standard deviation defocus plot and goodness of fit heatmap have also been proposed to evaluate CTF fitting quality prior to 3D refinement. In a benchmark study, goCTF processed a published single-particle cryo-EM dataset for influenza hemagglutinin trimer collected at a 40-degree specimen tilt. The resulting 3D reconstruction map was improved from 4.1 Å to 3.7 Å resolution. The goCTF program is built on the open-source code of CTFFIND4, which adopts a consistent user interface for ease of use.
External linksJ Struct Biol / PubMed:30496818 / PubMed Central
MethodsEM (single particle)
Resolution3.7 - 4.1 Å
Structure data

EMDB-8965:
Influenza hemagglutinin (HA) trimer reconstruction at 4.1 Angstrom resolution using particles from micrographs tilted at 40 degrees
Method: EM (single particle) / Resolution: 4.1 Å

EMDB-8966:
Influenza hemagglutinin (HA) trimer reconstruction at 3.7 Angstrom resolution using particles from micrographs tilted at 40 degrees
Method: EM (single particle) / Resolution: 3.7 Å

Source
  • Homo sapiens (human)

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