Journal: Nat Commun / Year: 2017 Title: Unique architecture of thermophilic archaeal virus APBV1 and its genome packaging. Authors: Denis Ptchelkine / Ashley Gillum / Tomohiro Mochizuki / Soizick Lucas-Staat / Ying Liu / Mart Krupovic / Simon E V Phillips / David Prangishvili / Juha T Huiskonen / Abstract: Archaeal viruses have evolved to infect hosts often thriving in extreme conditions such as high temperatures. However, there is a paucity of information on archaeal virion structures, genome ...Archaeal viruses have evolved to infect hosts often thriving in extreme conditions such as high temperatures. However, there is a paucity of information on archaeal virion structures, genome packaging, and determinants of temperature resistance. The rod-shaped virus APBV1 (Aeropyrum pernix bacilliform virus 1) is among the most thermostable viruses known; it infects a hyperthermophile Aeropyrum pernix, which grows optimally at 90 °C. Here we report the structure of APBV1, determined by cryo-electron microscopy at near-atomic resolution. Tight packing of the major virion glycoprotein (VP1) is ensured by extended hydrophobic interfaces, and likely contributes to the extreme thermostability of the helical capsid. The double-stranded DNA is tightly packed in the capsid as a left-handed superhelix and held in place by the interactions with positively charged residues of VP1. The assembly is closed by specific capping structures at either end, which we propose to play a role in DNA packing and delivery.
History
Deposition
Sep 6, 2017
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Header (metadata) release
Nov 22, 2017
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Map release
Nov 22, 2017
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Update
Jan 31, 2018
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Current status
Jan 31, 2018
Processing site: PDBe / Status: Released
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Structure visualization
Movie
Surface view with section colored by density value
Model: Tecnai Polara / Image courtesy: FEI Company
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Image processing
Particle selection
Number selected: 6290 / Details: Pointy ends extracted from helical particles
CTF correction
Software - Name: CTFFIND (ver. 3)
Startup model
Type of model: OTHER / Details: Cylindrical average of pointy ends
Final reconstruction
Applied symmetry - Point group: C5 (5 fold cyclic) / Algorithm: FOURIER SPACE / Resolution.type: BY AUTHOR / Resolution: 7.2 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: RELION (ver. 1.4) / Number images used: 2572
Initial angle assignment
Type: RANDOM ASSIGNMENT Details: In-plane angle was calculated from the images. Out-of-plane angle was set to 90 degrees. The third angle was randomized.
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