6GR9

Human AURKC INCENP complex bound to VX-680

• PDB DOI: https://doi.org/10.2210/pdb6GR9/pdb

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


• Deposited: 2018-06-10 Released: 2019-05-15 
• Deposition Author(s): Abdul Azeez, K.R., Sorrell, F.J., von Delft, F., Bountra, C., Knapp, S., Edwards, A.M., Arrowsmith, C., Elkins, J.M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.25 Å
• R-Value Free: 0.224 
• R-Value Work: 0.182 
• R-Value Observed: 0.184 

Starting Model: experimental

Literature

AURKC INCENP complex bound to BRD-7880

Abdul Azeez, K.R., Elkins, J.M.

To be published.

Biological Assembly 1  

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

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

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 41.03 kDa 
• Atom Count: 2,812 
• Modelled Residue Count: 317 
• Deposited Residue Count: 344 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Aurora kinase C	A	274	Homo sapiens	Mutation(s): 0  Gene Names: AURKC, AIE2, AIK3, AIRK3, ARK3, STK13 EC: 2.7.11.1
UniProt & NIH Common Fund Data Resources
Find proteins for Q9UQB9 (Homo sapiens) Explore Q9UQB9  Go to UniProtKB:  Q9UQB9
GTEx:  ENSG00000105146

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Inner centromere protein	B	70	Homo sapiens	Mutation(s): 0  Gene Names: INCENP
UniProt & NIH Common Fund Data Resources
Find proteins for Q9NQS7 (Homo sapiens) Explore Q9NQS7  Go to UniProtKB:  Q9NQS7
GTEx:  ENSG00000149503

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
VX6	C [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
SO4	D [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Modified Residues  2 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
TPO	A	L-PEPTIDE LINKING	C4 H10 N O6 P		THR
SEP	B	L-PEPTIDE LINKING	C3 H8 N O6 P		SER

Binding Affinity Annotations
ID	Source	Binding Affinity
VX6	BindingDB:  6GR9	Ki: min: 4.60e-3, max: 4.6 (nM) from 2 assay(s)
		Kd: min: 6, max: 6.3 (nM) from 2 assay(s)
		IC50: min: 18.3, max: 70 (nM) from 3 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.25 Å
• R-Value Free: 0.224 
• R-Value Work: 0.182 
• R-Value Observed: 0.184 
• Space Group: P 3₁ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 82.617	α = 90
b = 82.617	β = 90
c = 121	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2019-05-15 
Deposition Author(s): Abdul Azeez, K.R., Sorrell, F.J., von Delft, F., Bountra, C., Knapp, S., Edwards, A.M., Arrowsmith, C., Elkins, J.M.

Revision History  

• Version 1.0: 2019-05-15
  Type: Initial release
  
• Version 1.1: 2024-01-17
  Changes: Data collection, Database references, Refinement description