6N45

Crystal structure of the cryptic polo box domain of human activated Plk4 variant 1


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.64 Å
  • R-Value Free: 0.314 
  • R-Value Work: 0.234 
  • R-Value Observed: 0.238 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Phase separation of Polo-like kinase 4 by autoactivation and clustering drives centriole biogenesis.

Park, J.E.Zhang, L.Bang, J.K.Andresson, T.DiMaio, F.Lee, K.S.

(2019) Nat Commun 10: 4959-4959

  • DOI: 10.1038/s41467-019-12619-2
  • Primary Citation of Related Structures:  
    6N45, 6N46

  • PubMed Abstract: 
  • Tight control of centriole duplication is critical for normal chromosome segregation and the maintenance of genomic stability. Polo-like kinase 4 (Plk4) is a key regulator of centriole biogenesis. How Plk4 dynamically promotes its symmetry-breaking reloc ...

    Tight control of centriole duplication is critical for normal chromosome segregation and the maintenance of genomic stability. Polo-like kinase 4 (Plk4) is a key regulator of centriole biogenesis. How Plk4 dynamically promotes its symmetry-breaking relocalization and achieves its procentriole-assembly state remains unknown. Here we show that Plk4 is a unique kinase that utilizes its autophosphorylated noncatalytic cryptic polo-box (CPB) to phase separate and generate a nanoscale spherical condensate. Analyses of the crystal structure of a phospho-mimicking, condensation-proficient CPB mutant reveal that a disordered loop at the CPB PB2-tip region is critically required for Plk4 to generate condensates and induce procentriole assembly. CPB phosphorylation also promotes Plk4's dissociation from the Cep152 tether while binding to downstream STIL, thus allowing Plk4 condensate to serve as an assembling body for centriole biogenesis. This study uncovers the mechanism underlying Plk4 activation and may offer strategies for anti-Plk4 intervention against genomic instability and cancer.


    Organizational Affiliation

    Laboratory of Metabolism, National Cancer Institute, National Institutes of Health, 9000 Rockville Pike, Bethesda, MD, 20892, USA. kyunglee@mail.nih.gov.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Chimera protein of Serine/threonine-protein kinase PLK4 and DDB1- and CUL4-associated factor 1 AB266Homo sapiensMutation(s): 0 
Gene Names: PLK4SAKSTK18DCAF1KIAA0800RIPVPRBP
EC: 2.7.11.21 (PDB Primary Data), 2.7.11.1 (PDB Primary Data)
Find proteins for Q9Y4B6 (Homo sapiens)
Explore Q9Y4B6 
Go to UniProtKB:  Q9Y4B6
NIH Common Fund Data Resources
PHAROS:  Q9Y4B6
Find proteins for O00444 (Homo sapiens)
Explore O00444 
Go to UniProtKB:  O00444
NIH Common Fund Data Resources
PHAROS:  O00444
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.64 Å
  • R-Value Free: 0.314 
  • R-Value Work: 0.234 
  • R-Value Observed: 0.238 
  • Space Group: P 32
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 61.659α = 90
b = 61.659β = 90
c = 137.276γ = 120
Software Package:
Software NamePurpose
REFMACrefinement
HKL-2000data collection
HKL-2000data reduction
HKL-2000data scaling
PHASERphasing
Cootmodel building

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Cancer Institute (NIH/NCI)United StatesIntramural grant

Revision History 

  • Version 1.0: 2019-09-04
    Type: Initial release
  • Version 1.1: 2019-11-20
    Changes: Database references
  • Version 1.2: 2019-12-04
    Changes: Author supporting evidence