3COK | pdb_00003cok

Crystal structure of PLK4 kinase

• PDB DOI: https://doi.org/10.2210/pdb3COK/pdb

• Classification: TRANSFERASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2008-03-28 Released: 2008-04-15 
• Deposition Author(s): Atwell, S., Burley, S.K., Houle, A., Leon, B., Pelletier, L.A., Sauder, J.M., New York SGX Research Center for Structural Genomics (NYSGXRC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.25 Å
• R-Value Free: 
  0.261 (Depositor) 
• R-Value Work: 
  0.211 (Depositor), 0.208 (DCC) 
• R-Value Observed: 
  0.211 (Depositor) 

Starting Model: other

Literature

Crystal structure of PLK4 kinase.

Atwell, S., Burley, S.K., Houle, A., Leon, B., Pelletier, L.A., Sauder, J.M.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

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

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 64.84 kDa 
• Atom Count: 3,857 
• Modeled Residue Count: 468 
• Deposited Residue Count: 556 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Serine/threonine-protein kinase PLK4	A, B	278	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 GTEx:  ENSG00000142731

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ANP	E [auth A], H [auth B]	PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER C10 H17 N6 O12 P3 PVKSNHVPLWYQGJ-KQYNXXCUSA-N
SO4	C [auth A], D [auth A], F [auth B], G [auth B]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.25 Å
• R-Value Free:  0.261 (Depositor) 
• R-Value Work:  0.211 (Depositor), 0.208 (DCC) 
• R-Value Observed: 0.211 (Depositor) 

Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 84.516	α = 90
b = 102.151	β = 90
c = 63.058	γ = 90

Software Package:

Software Name	Purpose
MAR345	data collection
MOLREP	phasing
REFMAC	refinement
MOSFLM	data reduction
SCALA	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-04-15 
Deposition Author(s): Atwell, S., Burley, S.K., Houle, A., Leon, B., Pelletier, L.A., Sauder, J.M., New York SGX Research Center for Structural Genomics (NYSGXRC)

Revision History  

• Version 1.0: 2008-04-15
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2017-10-25
  Changes: Refinement description
• Version 1.3: 2018-11-14
  Changes: Data collection, Structure summary
• Version 1.4: 2021-02-03
  Changes: Database references, Derived calculations, Structure summary
• Version 1.5: 2024-02-21
  Changes: Data collection, Database references
• Version 1.6: 2024-04-03
  Changes: Refinement description