Biological Assembly 1  

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

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

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

Macromolecule Content

• Total Structure Weight: 32.82 kDa 
• Atom Count: 2167 
• Modelled Residue Count: 257 
• Deposited Residue Count: 279 
• Unique protein chains: 1

4JBQ

Novel Aurora kinase inhibitors reveal mechanisms of HURP in nucleation of centrosomal and kinetochore microtubules

• PDB DOI: 10.2210/pdb4JBQ/pdb

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


• Deposited: 2013-02-20 Released: 2013-06-05 
• Deposition Author(s): Wu, J.S., Leou, J.S., Peng, Y.H., Hsueh, C.C., Hsieh, H.P., Wu, S.Y.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 0.282 
• R-Value Work: 0.224 
• R-Value Observed: 0.227 

Literature

Aurora kinase inhibitors reveal mechanisms of HURP in nucleation of centrosomal and kinetochore microtubules.

Wu, J.M., Chen, C.T., Coumar, M.S., Lin, W.H., Chen, Z.J., Hsu, J.T., Peng, Y.H., Shiao, H.Y., Lin, W.H., Chu, C.Y., Wu, J.S., Lin, C.T., Chen, C.P., Hsueh, C.C., Chang, K.Y., Kao, L.P., Huang, C.Y., Chao, Y.S., Wu, S.Y., Hsieh, H.P., Chi, Y.H.

(2013) Proc Natl Acad Sci U S A 110: E1779-E1787

• PubMed: 23610398 
• DOI: 10.1073/pnas.1220523110
• Primary Citation of Related Structures:  
  4JBO, 4JBP, 4JBQ


• PubMed Abstract: 
  

The overexpression of Aurora kinases in multiple tumors makes these kinases appealing targets for the development of anticancer therapies. This study identified two small molecules with a furanopyrimidine core, IBPR001 and IBPR002, that target Aurora kinases and induce a DFG conformation change at the ATP site of Aurora A. Our results demonstrate the high potency of the IBPR compounds in reducing tumorigenesis in a colorectal cancer xenograft model in athymic nude mice. Human hepatoma up-regulated protein (HURP) is a substrate of Aurora kinase A, which plays a crucial role in the stabilization of kinetochore fibers. This study used the IBPR compounds as well as MLN8237, a proven Aurora A inhibitor, as chemical probes to investigate the molecular role of HURP in mitotic spindle formation. These compounds effectively eliminated HURP phosphorylation, thereby revealing the coexistence and continuous cycling of HURP between unphosphorylated and phosphorylated forms that are associated, respectively, with microtubules emanating from centrosomes and kinetochores. Furthermore, these compounds demonstrate a spatial hierarchical preference for HURP in the attachment of microtubules extending from the mother to the daughter centrosome. The finding of inequality in the centrosomal microtubules revealed by these small molecules provides a versatile tool for the discovery of new cell-division molecules for the development of antitumor drugs.

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Organizational Affiliation: 

Institutes of Biotechnology and Pharmaceutical Research, National Health Research Institutes, Zhunan 35053, Taiwan.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Aurora Kinase A	A	279	Homo sapiens	Mutation(s): 1  Gene Names: AURKA, AIK, AIRK1, ARK1, AURA, AYK1, BTAK, IAK1, STK15, STK6 EC: 2.7.11.1
UniProt & NIH Common Fund Data Resources
Find proteins for O14965 (Homo sapiens) Explore O14965  Go to UniProtKB:  O14965
PHAROS:  O14965 GTEx:  ENSG00000087586

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
VX6	B [auth A]	CYCLOPROPANECARBOXYLIC ACID {4-[4-(4-METHYL-PIPERAZIN-1-YL)-6-(5-METHYL-2H-PYRAZOL-3-YLAMINO)-PYRIMIDIN-2-YLSULFANYL]-PHENYL}-AMIDE C23 H28 N8 O S GCIKSSRWRFVXBI-UHFFFAOYSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
VX6	BindingDB:  4JBQ	Ki: min: 6.00e-4, max: 2 (nM) from 3 assay(s)
		Kd: min: 3.9, max: 17 (nM) from 4 assay(s)
		IC50: min: 0.6, max: 4954 (nM) from 19 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 0.282 
• R-Value Work: 0.224 
• R-Value Observed: 0.227 
• Space Group: P 6₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 82.414	α = 90
b = 82.414	β = 90
c = 170.349	γ = 120

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
MOLREP	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
HKL-2000	data collection
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2013-02-20 
• Released Date: 2013-06-05 
Deposition Author(s): Wu, J.S., Leou, J.S., Peng, Y.H., Hsueh, C.C., Hsieh, H.P., Wu, S.Y.

Revision History  

• Version 1.0: 2013-06-05
  Type: Initial release