- EMDB-5696: Electron cryo-microscopy of human cytomegalovirus virion -
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Basic information
Entry
Database: EMDB / ID: EMD-5696
Title
Electron cryo-microscopy of human cytomegalovirus virion
Map data
Reconstruction of human cytomegalovirus (HCMV) virion. Only the icosahedral capsid and orderly bound tegument proteins are visible in the density map. Other tegument proteins and the envelope are amorphous and thus not visible.
Sample
Sample: Human cytomegalovirus (HCMV) virion
Virus: Human herpesvirus 5
Keywords
herpesvirus / betaherpesvirus / human cytomegalovirus
Biological species
Human herpesvirus 5
Method
single particle reconstruction / cryo EM / Resolution: 8.3 Å
Journal: PLoS Pathog / Year: 2013 Title: The smallest capsid protein mediates binding of the essential tegument protein pp150 to stabilize DNA-containing capsids in human cytomegalovirus. Authors: Xinghong Dai / Xuekui Yu / Hao Gong / Xiaohong Jiang / Gerrado Abenes / Hongrong Liu / Sakar Shivakoti / William J Britt / Hua Zhu / Fenyong Liu / Z Hong Zhou / Abstract: Human cytomegalovirus (HCMV) is a ubiquitous herpesvirus that causes birth defects in newborns and life-threatening complications in immunocompromised individuals. Among all human herpesviruses, HCMV ...Human cytomegalovirus (HCMV) is a ubiquitous herpesvirus that causes birth defects in newborns and life-threatening complications in immunocompromised individuals. Among all human herpesviruses, HCMV contains a much larger dsDNA genome within a similarly-sized capsid compared to the others, and it was proposed to require pp150, a tegument protein only found in cytomegaloviruses, to stabilize its genome-containing capsid. However, little is known about how pp150 interacts with the underlying capsid. Moreover, the smallest capsid protein (SCP), while dispensable in herpes simplex virus type 1, was shown to play essential, yet undefined, role in HCMV infection. Here, by cryo electron microscopy (cryoEM), we determine three-dimensional structures of HCMV capsid (no pp150) and virion (with pp150) at sub-nanometer resolution. Comparison of these two structures reveals that each pp150 tegument density is composed of two helix bundles connected by a long central helix. Correlation between the resolved helices and sequence-based secondary structure prediction maps the tegument density to the N-terminal half of pp150. The structures also show that SCP mediates interactions between the capsid and pp150 at the upper helix bundle of pp150. Consistent with this structural observation, ribozyme inhibition of SCP expression in HCMV-infected cells impairs the formation of DNA-containing viral particles and reduces viral yield by 10,000 fold. By cryoEM reconstruction of the resulting "SCP-deficient" viral particles, we further demonstrate that SCP is required for pp150 functionally binding to the capsid. Together, our structural and biochemical results point to a mechanism whereby SCP recruits pp150 to stabilize genome-containing capsid for the production of infectious HCMV virion.
History
Deposition
Jun 22, 2013
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Header (metadata) release
Oct 16, 2013
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Map release
Oct 16, 2013
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Update
Oct 16, 2013
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Current status
Oct 16, 2013
Processing site: RCSB / Status: Released
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Structure visualization
Movie
Surface view with section colored by density value
Download / File: emd_5696.map.gz / Format: CCP4 / Size: 976.6 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Annotation
Reconstruction of human cytomegalovirus (HCMV) virion. Only the icosahedral capsid and orderly bound tegument proteins are visible in the density map. Other tegument proteins and the envelope are amorphous and thus not visible.
Cryogen name: ETHANE / Chamber humidity: 100 % / Instrument: FEI VITROBOT MARK IV / Method: Blot force = 0, blot time = 20s
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Electron microscopy
Microscope
FEI TITAN KRIOS
Temperature
Average: 80 K
Alignment procedure
Legacy - Astigmatism: Objective lens astigmatism was corrected at 135,000 times magnification. Astigmatism correction was also carried out for each particle during the data processing.
Details
Parallel beam illumination
Date
Oct 1, 2010
Image recording
Category: CCD / Film or detector model: GATAN ULTRASCAN 4000 (4k x 4k) / Digitization - Sampling interval: 15 µm / Number real images: 8000 / Average electron dose: 25 e/Å2
Electron beam
Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
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