6RYK

Crystal structure of the ParB-like protein PadC


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.70 Å
  • R-Value Free: 0.227 
  • R-Value Work: 0.185 
  • R-Value Observed: 0.187 

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Literature

ParB-type DNA Segregation Proteins Are CTP-Dependent Molecular Switches.

Osorio-Valeriano, M.Altegoer, F.Steinchen, W.Urban, S.Liu, Y.Bange, G.Thanbichler, M.

(2019) Cell 179: 1512-1524.e15

  • DOI: https://doi.org/10.1016/j.cell.2019.11.015
  • Primary Citation of Related Structures:  
    6RYK

  • PubMed Abstract: 

    During cell division, newly replicated DNA is actively segregated to the daughter cells. In most bacteria, this process involves the DNA-binding protein ParB, which condenses the centromeric regions of sister DNA molecules into kinetochore-like structures that recruit the DNA partition ATPase ParA and the prokaroytic SMC/condensin complex. Here, we report the crystal structure of a ParB-like protein (PadC) that emerges to tightly bind the ribonucleotide CTP. The CTP-binding pocket of PadC is conserved in ParB and composed of signature motifs known to be essential for ParB function. We find that ParB indeed interacts with CTP and requires nucleotide binding for DNA condensation in vivo. We further show that CTP-binding modulates the affinity of ParB for centromeric parS sites, whereas parS recognition stimulates its CTPase activity. ParB proteins thus emerge as a new class of CTP-dependent molecular switches that act in concert with ATPases and GTPases to control fundamental cellular functions.


  • Organizational Affiliation

    Department of Biology, University of Marburg, 35043 Marburg, Germany; Max Planck Institute for Terrestrial Microbiology, 35043 Marburg, Germany.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
ParB-like nuclease domain protein
A, B
229Myxococcus xanthus DK 1622Mutation(s): 0 
Gene Names: MXAN_4634
UniProt
Find proteins for Q1D3H3 (Myxococcus xanthus (strain DK1622))
Explore Q1D3H3 
Go to UniProtKB:  Q1D3H3
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ1D3H3
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.70 Å
  • R-Value Free: 0.227 
  • R-Value Work: 0.185 
  • R-Value Observed: 0.187 
  • Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 36.85α = 108.54
b = 42.44β = 99.15
c = 49.53γ = 89.28
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XSCALEdata scaling
AutoSolphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2020-01-22
    Type: Initial release