Biological Assembly 1  

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

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content

• Total Structure Weight: 53.18 kDa 
• Atom Count: 3749 
• Modelled Residue Count: 444 
• Deposited Residue Count: 456 
• Unique protein chains: 1

4N9J

Crystal structure of the cryptic polo box domain of human Plk4

• PDB DOI: 10.2210/pdb4N9J/pdb

• Classification: CELL CYCLE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2013-10-21 Released: 2014-07-02 
• Deposition Author(s): Ku, B., Kim, J.H., Lee, K.S., Kim, S.J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free: 0.249 
• R-Value Work: 0.202 
• R-Value Observed: 0.205 

Literature

Molecular basis for unidirectional scaffold switching of human Plk4 in centriole biogenesis.

Park, S.Y., Park, J.E., Kim, T.S., Kim, J.H., Kwak, M.J., Ku, B., Tian, L., Murugan, R.N., Ahn, M., Komiya, S., Hojo, H., Kim, N.H., Kim, B.Y., Bang, J.K., Erikson, R.L., Lee, K.W., Kim, S.J., Oh, B.H., Yang, W., Lee, K.S.

(2014) Nat Struct Mol Biol 21: 696-703

• PubMed: 24997597 
• DOI: 10.1038/nsmb.2846
• Primary Citation of Related Structures:  
  4N7V, 4N7Z, 4N9J


• PubMed Abstract: 
  

Polo-like kinase 4 (Plk4) is a key regulator of centriole duplication, an event critical for the maintenance of genomic integrity. We show that Plk4 relocalizes from the inner Cep192 ring to the outer Cep152 ring as newly recruited Cep152 assembles around the Cep192-encircled daughter centriole. Crystal-structure analyses revealed that Cep192- and Cep152-derived peptides bind the cryptic polo box (CPB) of Plk4 in opposite orientations and in a mutually exclusive manner. The Cep152 peptide bound to the CPB markedly better than did the Cep192 peptide and effectively 'snatched' the CPB away from a preformed CPB-Cep192 peptide complex. A cancer-associated Cep152 mutation impairing the Plk4 interaction induced defects in procentriole assembly and chromosome segregation. Thus, Plk4 is intricately regulated in time and space through ordered interactions with two distinct scaffolds, Cep192 and Cep152, and a failure in this process may lead to human cancer.

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Organizational Affiliation: 

Laboratory of Metabolism, National Cancer Institute, National Institutes of Health, Bethesda, Maryland, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Serine/threonine-protein kinase PLK4	A, B	228	Homo sapiens	Mutation(s): 0  Gene Names: PLK4, SAK, STK18 EC: 2.7.11.21
UniProt & NIH Common Fund Data Resources
Find proteins for O00444 (Homo sapiens) Explore O00444  Go to UniProtKB:  O00444
PHAROS:  O00444

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	D [auth A], J [auth B]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
CL	C [auth A], E [auth B], F [auth B], G [auth B], H [auth B], I [auth B]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free: 0.249 
• R-Value Work: 0.202 
• R-Value Observed: 0.205 
• Space Group: P 6₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 128.063	α = 90
b = 128.063	β = 90
c = 168.357	γ = 120

Software Package:

Software Name	Purpose
HKL-2000	data collection
PHASES	phasing
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2013-10-21 
• Released Date: 2014-07-02 
Deposition Author(s): Ku, B., Kim, J.H., Lee, K.S., Kim, S.J.

Revision History  

• Version 1.0: 2014-07-02
  Type: Initial release
  
• Version 1.1: 2014-07-23
  Changes: Database references
• Version 1.2: 2014-08-20
  Changes: Database references