Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report

Global Symmetry: Helical - H  (3D View)
Global Stoichiometry: Hetero 46-mer - A23B23 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: microscopy

Macromolecule Content

• Total Structure Weight: 896.53 kDa 
• Atom Count: 58277 
• Modelled Residue Count: 6281 
• Deposited Residue Count: 6948 
• Unique protein chains: 2
• Unique nucleic acid chains: 2

6V7B

Cryo-EM reconstruction of Pyrobaculum filamentous virus 2 (PFV2)

• PDB DOI: 10.2210/pdb6V7B/pdb
• EM Map EMD-21094:EMDBEMDataResource

• Classification: VIRUS
• Organism(s): Pyrobaculum filamentous virus 1
• Mutation(s): No 


• Deposited: 2019-12-08 Released: 2020-04-01 
• Deposition Author(s): Wang, F., Baquero, D.P., Su, Z., Prangishvili, D., Krupovic, M., Egelman, E.H.
• Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.40 Å
• Aggregation State: FILAMENT 
• Reconstruction Method: HELICAL 

Literature

Structure of a filamentous virus uncovers familial ties within the archaeal virosphere.

Wang, F., Baquero, D.P., Su, Z., Osinski, T., Prangishvili, D., Egelman, E.H., Krupovic, M.

(2020) Virus Evol 6: veaa023-veaa023

• PubMed: 32368353 
• DOI: 10.1093/ve/veaa023
• Primary Citation of Related Structures:  
  6V7B


• PubMed Abstract: 
  

Viruses infecting hyperthermophilic archaea represent one of the most enigmatic parts of the global virome, with viruses from different families showing no genomic relatedness to each other or to viruses of bacteria and eukaryotes. Tristromaviruses, which build enveloped filamentous virions and infect hyperthermophilic neutrophiles of the order Thermoproteales, represent one such enigmatic virus families. They do not share genes with viruses from other families and have been believed to represent an evolutionarily independent virus lineage. A cryo-electron microscopic reconstruction of the tristromavirus Pyrobaculum filamentous virus 2 at 3.4 Å resolution shows that the virion is constructed from two paralogous major capsid proteins (MCP) which transform the linear dsDNA genome of the virus into A-form by tightly wrapping around it. Unexpectedly, the two MCP are homologous to the capsid proteins of other filamentous archaeal viruses, uncovering a deep evolutionary relationship within the archaeal virosphere.

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Organizational Affiliation: 

Archaeal Virology Unit, Department of Microbiology, Institut Pasteur, 25 Rue du Dr Roux, Paris 75015, France.

Macromolecules

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Structural protein VP1	C [auth A], D [auth B], E [auth C], F [auth D], G [auth E], H [auth F], I [auth G], J [auth H], K [auth I], L [auth J], M [auth K], N [auth L], O [auth M], P [auth N], Q [auth O], R [auth P], S [auth Q], T [auth R], U [auth S], V [auth T], W [auth U], X [auth V], Y [auth W]	129	Pyrobaculum filamentous virus 1	Mutation(s): 0
UniProt
Find proteins for A0A140F3K6 (Pyrobaculum filamentous virus 1) Explore A0A140F3K6  Go to UniProtKB:  A0A140F3K6

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Structural protein VP2	Z [auth a], AA [auth b], BA [auth c], CA [auth d], DA [auth e], EA [auth f], FA [auth g], GA [auth h], HA [auth i], IA [auth j], JA [auth k], KA [auth l], LA [auth m], MA [auth n], NA [auth o], OA [auth p], PA [auth q], QA [auth r], RA [auth s], SA [auth t], TA [auth u], UA [auth v], VA [auth w]	145	Pyrobaculum filamentous virus 1	Mutation(s): 0
UniProt
Find proteins for A0A140F3K7 (Pyrobaculum filamentous virus 1) Explore A0A140F3K7  Go to UniProtKB:  A0A140F3K7

Entity ID: 1
Molecule	Chains	Length	Organism	Image
A-DNA	A [auth 1]	323	Pyrobaculum filamentous virus 1

Entity ID: 2
Molecule	Chains	Length	Organism	Image
A-DNA	B [auth 2]	323	Pyrobaculum filamentous virus 1

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.40 Å
• Aggregation State: FILAMENT 
• Reconstruction Method: HELICAL 

Structure Validation

Entry History & Funding Information

Deposition Data

• Deposited Date: 2019-12-08 
• Released Date: 2020-04-01 
Deposition Author(s): Wang, F., Baquero, D.P., Su, Z., Prangishvili, D., Krupovic, M., Egelman, E.H.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	R35GM122510

Revision History  

• Version 1.0: 2020-04-01
  Type: Initial release
  
• Version 1.1: 2020-05-06
  Changes: Database references
• Version 1.2: 2020-05-20
  Changes: Database references