Biological Assembly 1  

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

Global Symmetry: Cyclic - C12  (3D View)
Global Stoichiometry: Homo 12-mer - A12 

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

Macromolecule Content

• Total Structure Weight: 43.38 kDa 
• Atom Count: 3315 
• Modelled Residue Count: 359 
• Deposited Residue Count: 376 
• Unique protein chains: 1

3TXS

Crystal Structure of phage 44RR small terminase gp16

• PDB DOI: 10.2210/pdb3TXS/pdb

• Classification: VIRAL PROTEIN
• Organism(s): Aeromonas virus 44RR2
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2011-09-23 Released: 2011-12-28 
• Deposition Author(s): Sun, S., Xiang, Y., Rossmann, M.G.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.81 Å
• R-Value Free: 0.220 
• R-Value Work: 0.187 
• R-Value Observed: 0.189 

Literature

Structure and function of the small terminase component of the DNA packaging machine in T4-like bacteriophages.

Sun, S., Gao, S., Kondabagil, K., Xiang, Y., Rossmann, M.G., Rao, V.B.

(2012) Proc Natl Acad Sci U S A 109: 817-822

• PubMed: 22207623 
• DOI: 10.1073/pnas.1110224109
• Primary Citation of Related Structures:  
  3TXQ, 3TXS


• PubMed Abstract: 
  

Tailed DNA bacteriophages assemble empty procapsids that are subsequently filled with the viral genome by means of a DNA packaging machine situated at a special fivefold vertex. The packaging machine consists of a "small terminase" and a "large terminase" component. One of the functions of the small terminase is to initiate packaging of the viral genome, whereas the large terminase is responsible for the ATP-powered translocation of DNA. The small terminase subunit has three domains, an N-terminal DNA-binding domain, a central oligomerization domain, and a C-terminal domain for interacting with the large terminase. Here we report structures of the central domain in two different oligomerization states for a small terminase from the T4 family of phages. In addition, we report biochemical studies that establish the function for each of the small terminase domains. On the basis of the structural and biochemical information, we propose a model for DNA packaging initiation.

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Organizational Affiliation: 

Department of Biological Sciences, Purdue University, 240 S. Martin Jischke Drive, West Lafayette, IN 47907-2032, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Terminase DNA packaging enzyme small subunit	A, B, C, D	94	Aeromonas virus 44RR2	Mutation(s): 0  Gene Names: 16, gene 16
UniProt
Find proteins for Q6U9F0 (Aeromonas virus 44RR2) Explore Q6U9F0  Go to UniProtKB:  Q6U9F0

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.81 Å
• R-Value Free: 0.220 
• R-Value Work: 0.187 
• R-Value Observed: 0.189 
• Space Group: H 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 140.605	α = 90
b = 140.605	β = 90
c = 53.639	γ = 120

Software Package:

Software Name	Purpose
HKL-2000	data collection
PHASER	phasing
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2011-09-23 
• Released Date: 2011-12-28 
Deposition Author(s): Sun, S., Xiang, Y., Rossmann, M.G.

Revision History  

• Version 1.0: 2011-12-28
  Type: Initial release
  
• Version 1.1: 2012-01-25
  Changes: Database references
• Version 1.2: 2012-02-22
  Changes: Database references