6W8U | pdb_00006w8u

Cryo-EM of the Pyrobaculum arsenaticum pilus

• PDB DOI: https://doi.org/10.2210/pdb6W8U/pdb
• EM Map EMD-21578: EMDB EMDataResource

• Classification: PROTEIN FIBRIL
• Organism(s): Pyrobaculum arsenaticum
• Mutation(s): No 
• Membrane Protein: Yes  OPM


• Deposited: 2020-03-21 Released: 2020-07-08 
• Deposition Author(s): Wang, F., Baquero, D.P., Su, Z., Beltran, L.C., 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: 3.80 Å
• Aggregation State: FILAMENT 
• Reconstruction Method: HELICAL 

Literature

The structures of two archaeal type IV pili illuminate evolutionary relationships.

Wang, F., Baquero, D.P., Su, Z., Beltran, L.C., Prangishvili, D., Krupovic, M., Egelman, E.H.

(2020) Nat Commun 11: 3424-3424

• PubMed: 32647180 
• DOI: https://doi.org/10.1038/s41467-020-17268-4
• Primary Citation Related Structures: 
  6W8U, 6W8X


• PubMed Abstract: 
  

  We have determined the cryo-electron microscopic (cryo-EM) structures of two archaeal type IV pili (T4P), from Pyrobaculum arsenaticum and Saccharolobus solfataricus, at 3.8 Å and 3.4 Å resolution, respectively. This triples the number of high resolution archaeal T4P structures, and allows us to pinpoint the evolutionary divergence of bacterial T4P, archaeal T4P and archaeal flagellar filaments. We suggest that extensive glycosylation previously observed in T4P of Sulfolobus islandicus is a response to an acidic environment, as at even higher temperatures in a neutral environment much less glycosylation is present for Pyrobaculum than for Sulfolobus and Saccharolobus pili. Consequently, the Pyrobaculum filaments do not display the remarkable stability of the Sulfolobus filaments in vitro. We identify the Saccharolobus and Pyrobaculum T4P as host receptors recognized by rudivirus SSRV1 and tristromavirus PFV2, respectively. Our results illuminate the evolutionary relationships among bacterial and archaeal T4P filaments and provide insights into archaeal virus-host interactions.

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Organizational Affiliation: 
• Department of Biochemistry and Molecular Genetics, University of Virginia, Charlottesville, VA, 22908, USA.
Archaeal Virology Unit, Department of Microbiology Institut Pasteur, 25 rue du Dr. Roux, Paris, 75015, France.
Sorbonne Universités, Collège Doctoral, Paris, 75005, France.
Ivane Javakhishvili Tbilisi State University, Tbilisi, 0179, Georgia.
Archaeal Virology Unit, Department of Microbiology Institut Pasteur, 25 rue du Dr. Roux, Paris, 75015, France. [e-mail].
Department of Biochemistry and Molecular Genetics, University of Virginia, Charlottesville, VA, 22908, USA. [e-mail].

Biological Assembly 1  

Global Symmetry: Helical - H  (Explore in 3D)
Global Stoichiometry: Homo 41-mer - A41 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: microscopy

Macromolecule Content 

• Total Structure Weight: 594.12 kDa 
• Atom Count: 41,082 
• Modeled Residue Count: 5,740 
• Deposited Residue Count: 5,822 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
pilin	A, AA [auth a], B, BA [auth b], C, CA [auth c], D, DA [auth d], E, EA [auth e], F, FA [auth f], G, GA [auth g], H, HA [auth h], I, IA [auth i], J, JA [auth j], K, KA [auth k], L, LA [auth l], M, MA [auth m], N, NA [auth n], O, OA [auth o], P, Q, R, S, T, U, V, W, X, Y, Z	142	Pyrobaculum arsenaticum	Mutation(s): 0  Membrane Entity: Yes
UniProt
Find proteins for A4WH64 (Pyrobaculum arsenaticum (strain DSM 13514 / JCM 11321 / PZ6)) Explore A4WH64  Go to UniProtKB:  A4WH64

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.80 Å
• Aggregation State: FILAMENT 
• Reconstruction Method: HELICAL 

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2020-07-08 
Deposition Author(s): Wang, F., Baquero, D.P., Su, Z., Beltran, L.C., 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: 2020-07-08
  Type: Initial release
  
• Version 1.1: 2021-10-06
  Changes: Database references
• Version 1.2: 2024-10-16
  Changes: Data collection, Structure summary