4ZNK

Thermus Phage P74-26 Large Terminase ATPase domain from (P 32 2 1 space group)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.931 Å
  • R-Value Free: 0.197 
  • R-Value Work: 0.151 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Structure and mechanism of the ATPase that powers viral genome packaging.

Hilbert, B.J.Hayes, J.A.Stone, N.P.Duffy, C.M.Sankaran, B.Kelch, B.A.

(2015) Proc.Natl.Acad.Sci.USA 112: E3792-E3799

  • DOI: 10.1073/pnas.1506951112
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Many viruses package their genomes into procapsids using an ATPase machine that is among the most powerful known biological motors. However, how this motor couples ATP hydrolysis to DNA translocation is still unknown. Here, we introduce a model syste ...

    Many viruses package their genomes into procapsids using an ATPase machine that is among the most powerful known biological motors. However, how this motor couples ATP hydrolysis to DNA translocation is still unknown. Here, we introduce a model system with unique properties for studying motor structure and mechanism. We describe crystal structures of the packaging motor ATPase domain that exhibit nucleotide-dependent conformational changes involving a large rotation of an entire subdomain. We also identify the arginine finger residue that catalyzes ATP hydrolysis in a neighboring motor subunit, illustrating that previous models for motor structure need revision. Our findings allow us to derive a structural model for the motor ring, which we validate using small-angle X-ray scattering and comparisons with previously published data. We illustrate the model's predictive power by identifying the motor's DNA-binding and assembly motifs. Finally, we integrate our results to propose a mechanistic model for DNA translocation by this molecular machine.


    Organizational Affiliation

    Department of Biochemistry and Molecular Pharmacology, University of Massachusetts Medical School, Worcester, MA 01605;




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Phage terminase large subunit
A
274Thermus virus P74-26Mutation(s): 0 
Find proteins for A7XXR1 (Thermus virus P74-26)
Go to UniProtKB:  A7XXR1
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4

Download SDF File 
Download CCD File 
A
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.931 Å
  • R-Value Free: 0.197 
  • R-Value Work: 0.151 
  • Space Group: P 32 2 1
Unit Cell:
Length (Å)Angle (°)
a = 62.890α = 90.00
b = 62.890β = 90.00
c = 133.100γ = 120.00
Software Package:
Software NamePurpose
HKL-3000data reduction
HKL-3000data scaling
PHENIXphasing
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Hudson Hoagland SocietyUnited States--
Pew Charitable TrustsUnited States--

Revision History 

  • Version 1.0: 2015-07-08
    Type: Initial release
  • Version 1.1: 2015-08-05
    Type: Database references