4ZNK

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


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.93 Å
  • R-Value Free: 0.197 
  • R-Value Work: 0.151 
  • R-Value Observed: 0.153 

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 U S A 112: E3792-E3799

  • DOI: 10.1073/pnas.1506951112
  • Primary Citation of Related Structures:  
    4ZNI, 4ZNJ, 4ZNK, 4ZNL

  • 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 system with unique properties for studying motor structure and mechanism ...

    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; brian.kelch@umassmed.edu.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Phage terminase large subunitA274Thermus virus P74-26Mutation(s): 0 
Gene Names: P74p84
EC: 3.6.4 (UniProt), 3.1.21 (UniProt)
UniProt
Find proteins for A7XXR1 (Thermus virus P74-26)
Explore A7XXR1 
Go to UniProtKB:  A7XXR1
Protein Feature View
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  • Reference Sequence
Small Molecules
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.93 Å
  • R-Value Free: 0.197 
  • R-Value Work: 0.151 
  • R-Value Observed: 0.153 
  • Space Group: P 32 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 62.89α = 90
b = 62.89β = 90
c = 133.1γ = 120
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-3000data reduction
HKL-3000data scaling
PHENIXphasing

Structure Validation

View Full Validation Report




Entry History & Funding Information

Deposition Data


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

Revision History  (Full details and data files)

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