Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 35.13 kDa 
• Atom Count: 2831 
• Modelled Residue Count: 311 
• Deposited Residue Count: 315 
• Unique protein chains: 1

3R4V

Structure of the phage tubulin PhuZ-GDP

• DOI: 10.2210/pdb3R4V/pdb

• Classification: UNKNOWN FUNCTION
• Organism(s): Pseudomonas phage 201phi2-1
• Mutation(s): No 


• Deposited: 2011-03-17 Released: 2012-07-04 
• Deposition Author(s): Agard, D.A., Pogliano, J., Kraemer, J.A., Erb, M.L., Waddling, C.A., Montabana, E.A., Wang, H., Nguyen, K., Pham, S.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.67 Å
• R-Value Free: 0.232 
• R-Value Work: 0.186 
• R-Value Observed: 0.188 

Literature

A phage tubulin assembles dynamic filaments by an atypical mechanism to center viral DNA within the host cell.

Kraemer, J.A., Erb, M.L., Waddling, C.A., Montabana, E.A., Zehr, E.A., Wang, H., Nguyen, K., Pham, D.S., Agard, D.A., Pogliano, J.

(2012) Cell 149: 1488-1499

• PubMed: 22726436 
• DOI: 10.1016/j.cell.2012.04.034
• Primary Citation of Related Structures:  
  3R4V, 3RB8


• PubMed Abstract: 
  

Tubulins are essential for the reproduction of many eukaryotic viruses, but historically, bacteriophage were assumed not to require a cytoskeleton. Here, we identify a tubulin-like protein, PhuZ, from bacteriophage 201φ2-1 and show that it forms filaments in vivo and in vitro. The PhuZ structure has a conserved tubulin fold, with an unusual, extended C terminus that we demonstrate to be critical for polymerization in vitro and in vivo. Longitudinal packing in the crystal lattice mimics packing observed by EM of in-vitro-formed filaments, indicating how interactions between the C terminus and the following monomer drive polymerization. PhuZ forms a filamentous array that is required for positioning phage DNA within the bacterial cell. Correct positioning to the cell center and optimal phage reproduction only occur when the PhuZ filament is dynamic. Thus, we show that PhuZ assembles a spindle-like array that functions analogously to the microtubule-based spindles of eukaryotes.

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Organizational Affiliation: 

Department of Biochemistry and Biophysics and the Howard Hughes Medical Institute, University of California, San Francisco, San Francisco, CA 94158, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Putative uncharacterized protein	A	315	Pseudomonas phage 201phi2-1	Mutation(s): 0  Gene Names: 201phi2-1p059 EC: 3.6.5
UniProt
Find proteins for B3FK34 (Pseudomonas phage 201phi2-1) Explore B3FK34  Go to UniProtKB:  B3FK34

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GDP (Subject of Investigation/LOI)	B [auth A]	GUANOSINE-5'-DIPHOSPHATE C10 H15 N5 O11 P2 QGWNDRXFNXRZMB-UUOKFMHZSA-N
MG	C [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.67 Å
• R-Value Free: 0.232 
• R-Value Work: 0.186 
• R-Value Observed: 0.188 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 47.065	α = 90
b = 75.935	β = 90
c = 92.798	γ = 90

Software Package:

Software Name	Purpose
Blu-Ice	data collection
SOLVE	phasing
PHENIX	refinement
MOSFLM	data reduction
SCALA	data scaling

Structure Validation

Ligand Structure Quality Assessment  

Entry History 

Deposition Data

• Deposited Date: 2011-03-17 
• Released Date: 2012-07-04 
Deposition Author(s): Agard, D.A., Pogliano, J., Kraemer, J.A., Erb, M.L., Waddling, C.A., Montabana, E.A., Wang, H., Nguyen, K., Pham, S.

Revision History  

• Version 1.0: 2012-07-04
  Type: Initial release
  
• Version 1.1: 2013-01-23
  Changes: Database references