3W2C | pdb_00003w2c

Structure of Aurora kinase A complexed to benzoimidazole-indazole inhibitor XV

PDB DOI: https://doi.org/10.2210/pdb3W2C/pdb

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

Deposited: 2012-11-28 Released: 2014-02-05
Deposition Author(s): Oliveira, T.M., Kairies, N.A., Engh, R.A.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.45 Å
R-Value Free:
0.320 (Depositor), 0.326 (DCC)
R-Value Work:
0.253 (Depositor)
R-Value Observed:
0.256 (Depositor)

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Ligand Structure Quality Assessment

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Literature

Flexibility and multiple conformations of the activation and glycine rich loops of aurora A accompanying inhibitor binding

Oliveira, T.M., Kairies, N., Engh, R.A.

To be published.

Macromolecule Content

Total Structure Weight: 122.95 kDa
Atom Count: 6,857
Modeled Residue Count: 809
Deposited Residue Count: 1,044
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Aurora kinase A	A, B [auth C], C [auth E], D [auth G]	261	Homo sapiens	Mutation(s): 0 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
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	O14965
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
N15 Query on N15 Download:Ideal Coordinates CCD File SDF format, chain F [auth C] SDF format, chain H [auth G] SDF format, chain G [auth E] SDF format, chain E [auth A] MOL2 format, chain F [auth C] MOL2 format, chain H [auth G] MOL2 format, chain G [auth E] MOL2 format, chain E [auth A] mmCIF format, chain F [auth C] mmCIF format, chain H [auth G] mmCIF format, chain G [auth E] mmCIF format, chain E [auth A]	E [auth A], F [auth C], G [auth E], H [auth G]	2-{4-[3-(1H-benzimidazol-2-yl)-1H-indazol-6-yl]-1H-pyrazol-1-yl}-N-(3-methylbutyl)acetamide C₂₄ H₂₅ N₇ O MBGGBSBQBVZBHN-UHFFFAOYSA-N		Interactions Focus chain E [auth A] Focus chain F [auth C] Focus chain G [auth E] Focus chain H [auth G] Interactions & Density Focus chain E [auth A] Focus chain F [auth C] Focus chain G [auth E] Focus chain H [auth G]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.45 Å
R-Value Free: 0.320 (Depositor), 0.326 (DCC)
R-Value Work: 0.253 (Depositor)
R-Value Observed: 0.256 (Depositor)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 69.21	α = 90
b = 86.05	β = 89.83
c = 85.96	γ = 90

Software Package:

Software Name	Purpose
DNA	data collection
PHASER	phasing
REFMAC	refinement
XDS	data reduction
SCALA	data scaling

Structure Validation

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Entry History

Deposition Data

Released Date: 2014-02-05

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2014-02-05
Type: Initial release
Version 1.1: 2024-03-20
Changes: Data collection, Database references, Derived calculations

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), 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 R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.