Macromolecule Content

Total Structure Weight: 27.59 kDa
Atom Count: 1,851
Modelled Residue Count: 221
Deposited Residue Count: 240
Unique protein chains: 2

4E67

The structure of the polo-box domain (PBD) of polo-like kinase 1 (Plk1) in complex with hydrocinnamoyl-derivatized PLHSpTA peptide

PDB DOI: https://doi.org/10.2210/pdb4E67/pdb

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

Deposited: 2012-03-15 Released: 2012-10-10
Deposition Author(s): Sledz, P., Hyvonen, M., Tan, Y.S., Lang, S., Spring, D., Abell, C., Best, R.B.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.10 Å
R-Value Free: 0.265
R-Value Work: 0.216
R-Value Observed: 0.218

wwPDB Validation 3D Report Full Report

This is version 1.1 of the entry. See complete history.

Literature

Using ligand-mapping simulations to design a ligand selectively targeting a cryptic surface pocket of polo-like kinase 1.

Tan, Y.S., Sledz, P., Lang, S., Stubbs, C.J., Spring, D.R., Abell, C., Best, R.B.

(2012) Angew Chem Int Ed Engl 51: 10078-10081

PubMed: 22961729 Search on PubMedSearch on PubMed Central
DOI: https://doi.org/10.1002/anie.201205676
Primary Citation of Related Structures:
4E67

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

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
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P53350
Protein Feature View Expand
Reference Sequence

Find similar proteins by: Sequence | 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
hydrocinnamoyl-derivatized PLHSpTA peptide	B	8	N/A	Mutation(s): 0
Protein Feature View Expand
Reference Sequence

Small Molecules

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

Biologically Interesting Molecules (External Reference) 1 Unique

Entity ID: 2
ID	Chains	Name	Type/Class	2D Diagram	3D Interactions
PRD_000807 Query on PRD_000807	B	hydrocinnamoyl-derivatized PLHSpTA peptide	Peptide-like / Enzyme inhibitor		Ligand Interaction

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.10 Å
R-Value Free: 0.265
R-Value Work: 0.216
R-Value Observed: 0.218
Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 35.492	α = 90
b = 50.906	β = 101.01
c = 57.91	γ = 90

Software Package:

Software Name	Purpose
PROTEUM PLUS	data collection
PHASER	phasing
REFMAC	refinement
PROTEUM PLUS	data reduction
PROTEUM PLUS	data scaling

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2012-10-10

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2012-10-10
Type: Initial release
Version 1.1: 2012-12-12
Changes: Other

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.