3P36

Polo-like kinase I Polo-box domain in complex with DPPLHSpTA phosphopeptide from PBIP1

• PDB DOI: https://doi.org/10.2210/pdb3P36/pdb

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


• Deposited: 2010-10-04 Released: 2011-04-27 
• Deposition Author(s): Sledz, P., Stubbs, C.J., Hyvonen, M., Abell, C.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.59 Å
• R-Value Free: 0.252 
• R-Value Work: 0.195 
• R-Value Observed: 0.198 

Starting Model: experimental

Literature

From crystal packing to molecular recognition: prediction and discovery of a binding site on the surface of polo-like kinase 1

Sledz, P., Stubbs, C.J., Lang, S., Yang, Y.Q., McKenzie, G.J., Venkitaraman, A.R., Hyvonen, M., Abell, C.

(2011) Angew Chem Int Ed Engl 50: 4003-4006

• PubMed: 21472932 
• DOI: https://doi.org/10.1002/anie.201008019
• Primary Citation of Related Structures:  
  3P2W, 3P2Z, 3P34, 3P35, 3P36, 3P37, 3Q1I

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Organizational Affiliation: 

University Chemical Laboratory, University of Cambridge, Lensfield Road, CB2 1EW, Cambridge, UK.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

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

Macromolecule Content

• Total Structure Weight: 27.88 kDa 
• Atom Count: 2,067 
• Modelled Residue Count: 225 
• Deposited Residue Count: 242 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Serine/threonine-protein kinase PLK1	A	232	Homo sapiens	Mutation(s): 0  Gene Names: PLK1, PLK EC: 2.7.11.21
UniProt & NIH Common Fund Data Resources
Find proteins for P53350 (Homo sapiens) Explore P53350  Go to UniProtKB:  P53350
PHAROS:  P53350 GTEx:  ENSG00000166851

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
phosphopeptide	B	10	N/A	Mutation(s): 0

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PO4	D [auth A]	PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K
GOL	C [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
TPO	B	L-PEPTIDE LINKING	C4 H10 N O6 P		THR

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.59 Å
• R-Value Free: 0.252 
• R-Value Work: 0.195 
• R-Value Observed: 0.198 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 35.931	α = 90
b = 50.116	β = 99.31
c = 58.73	γ = 90

Software Package:

Software Name	Purpose
MOLREP	phasing
REFMAC	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-04-27 
Deposition Author(s): Sledz, P., Stubbs, C.J., Hyvonen, M., Abell, C.

Revision History  

• Version 1.0: 2011-04-27
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2023-11-01
  Changes: Data collection, Database references, Derived calculations, Refinement description
• Version 1.3: 2024-10-30
  Changes: Structure summary