Macromolecule Content

Total Structure Weight: 32.90 kDa
Atom Count: 2327
Modelled Residue Count: 266
Deposited Residue Count: 279
Unique protein chains: 1

4DEA

Aurora A in complex with YL1-038-18

PDB DOI: 10.2210/pdb4DEA/pdb

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

Deposited: 2012-01-20 Released: 2012-08-22
Deposition Author(s): Martin, M.P., Zhu, J.-Y., Schonbrunn, E.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.45 Å
R-Value Free: 0.262
R-Value Work: 0.218
R-Value Observed: 0.218

wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

This is version 1.2 of the entry. See complete history.

Literature

Development of o-Chlorophenyl Substituted Pyrimidines as Exceptionally Potent Aurora Kinase Inhibitors.

Lawrence, H.R., Martin, M.P., Luo, Y., Pireddu, R., Yang, H., Gevariya, H., Ozcan, S., Zhu, J.Y., Kendig, R., Rodriguez, M., Elias, R., Cheng, J.Q., Sebti, S.M., Schonbrunn, E., Lawrence, N.J.

(2012) J Med Chem 55: 7392-7416

PubMed: 22803810 Search on PubMedSearch on PubMed Central
DOI: 10.1021/jm300334d
Primary Citation of Related Structures:
3UP7, 4DEA, 4DEB, 4DED, 4DEE

PubMed Abstract:

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Aurora kinase A	A	279	Homo sapiens	Mutation(s): 1 Gene Names: AIK, AIRK1, ARK1, AURA, AURKA, 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
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	O14965
Protein Feature View Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
NHI Query on NHI Download Ideal Coordinates CCD File SDF format, chain E [auth A] MOL2 format, chain E [auth A]	E [auth A]	4,4'-(pyrimidine-2,4-diyldiimino)dibenzoic acid C₁₈ H₁₄ N₄ O₄ PZRUXYWYONKHDD-UHFFFAOYSA-N		Ligand Interaction
EDO Query on EDO Download Ideal Coordinates CCD File SDF format, chain C [auth A] SDF format, chain D [auth A] SDF format, chain B [auth A] MOL2 format, chain C [auth A] MOL2 format, chain D [auth A] MOL2 format, chain B [auth A]	B [auth A], C [auth A], D [auth A]	1,2-ETHANEDIOL C₂ H₆ O₂ LYCAIKOWRPUZTN-UHFFFAOYSA-N		Ligand Interaction

Binding Affinity Annotations
ID	Source	Binding Affinity
NHI	PDBBind: 4DEA	IC50: 256 (nM) from 1 assay(s)
	BindingDB: 4DEA	IC50: 256 (nM) from 1 assay(s)
	Binding MOAD: 4DEA	IC50: 256 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.45 Å
R-Value Free: 0.262
R-Value Work: 0.218
R-Value Observed: 0.218
Space Group: P 6₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 82.42	α = 90
b = 82.42	β = 90
c = 174.1	γ = 120

Software Package:

Software Name	Purpose
StructureStudio	data collection
MOLREP	phasing
CNS	refinement
XDS	data reduction
XDS	data scaling

Structure Validation

View Full Validation Report

Ligand Structure Quality Assessment

Entry History

Deposition Data

Deposited Date: 2012-01-20
Released Date: 2012-08-22

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2012-08-22
Type: Initial release
Version 1.1: 2012-09-12
Changes: Database references
Version 1.2: 2012-09-26
Changes: Database references

RCSB PDB is 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.