4XB0

Structure of the Plk2 polo-box domain

  • Classification: TRANSFERASE
  • Organism(s): Homo sapiens
  • Expression System: Escherichia coli

  • Deposited: 2014-12-16 Released: 2015-05-06 
  • Deposition Author(s): Kim, J.H., Ku, B., Kim, S.J.
  • Funding Organization(s): National Research Foundation of Korea; Korea Research Institute of Bioscience and Biotechnology Research Initiative Program 

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.701 Å
  • R-Value Free: 0.263 
  • R-Value Work: 0.225 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Structural analysis of the polo-box domain of human Polo-like kinase 2

Kim, J.H.Ku, B.Lee, K.S.Kim, S.J.

(2015) Proteins 83: 1201-1208

  • DOI: 10.1002/prot.24804

  • PubMed Abstract: 
  • Polo-like kinases (Plks) are the key regulators of cell cycle progression, the members of which share a kinase domain and a polo-box domain (PBD) that serves as a protein-binding module. While Plk1 is a promising target for antitumor therapy, Plk2 is ...

    Polo-like kinases (Plks) are the key regulators of cell cycle progression, the members of which share a kinase domain and a polo-box domain (PBD) that serves as a protein-binding module. While Plk1 is a promising target for antitumor therapy, Plk2 is regarded as a tumor suppressor even though the two Plks commonly recognize the S-pS/T-P motif through their PBD. Herein, we report the crystal structure of the PBD of Plk2 at 2.7 Å. Despite the overall structural similarity with that of Plk1 reflecting their high sequence homology, the crystal structure also contains its own features including the highly ordered loop connecting two subdomains and the absence of 310 -helices in the N-terminal region unlike the PBD of Plk1. Based on the three-dimensional structure, we furthermore could model its interaction with two types of phosphopeptides, one of which was previously screened as the optimal peptide for the PBD of Plk2.


    Organizational Affiliation

    Functional Genomics Research Center, Korea Research Institute of Bioscience and Biotechnology, Daejeon, 305-806, Korea.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Serine/threonine-protein kinase PLK2
A, B
218Homo sapiensMutation(s): 0 
Gene Names: PLK2 (SNK)
EC: 2.7.11.21
Find proteins for Q9NYY3 (Homo sapiens)
Go to Gene View: PLK2
Go to UniProtKB:  Q9NYY3
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
PO4
Query on PO4

Download SDF File 
Download CCD File 
B
PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
 Ligand Interaction
CL
Query on CL

Download SDF File 
Download CCD File 
B
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.701 Å
  • R-Value Free: 0.263 
  • R-Value Work: 0.225 
  • Space Group: I 2 3
Unit Cell:
Length (Å)Angle (°)
a = 152.292α = 90.00
b = 152.292β = 90.00
c = 152.292γ = 90.00
Software Package:
Software NamePurpose
HKL-2000data scaling
PHENIXrefinement
HKL-2000data reduction
PHENIXphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Research Foundation of KoreaKorea, Republic Of2011-0030027
Korea Research Institute of Bioscience and Biotechnology Research Initiative ProgramKorea, Republic Of--

Revision History 

  • Version 1.0: 2015-05-06
    Type: Initial release
  • Version 1.1: 2016-02-24
    Type: Database references