Biological Assembly 1  

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

Global Symmetry: Cyclic - C3  (3D View)
Global Stoichiometry: Homo 3-mer - A3 

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

Macromolecule Content

• Total Structure Weight: 126.04 kDa 
• Atom Count: 8313 
• Modelled Residue Count: 985 
• Deposited Residue Count: 1104 
• Unique protein chains: 1

2XAE

Crystal structure of human kinesin Eg5 in complex with (R)-2-amino-3-((S)-2-methyl-1,1-diphenylbutylthio)propanoic acid

• PDB DOI: 10.2210/pdb2XAE/pdb

• Classification: CELL CYCLE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2010-03-31 Released: 2011-03-30 
• Deposition Author(s): Kaan, H.Y.K., Weiss, J., Menger, D., Ulaganathan, V., Tkocz, K., Laggner, C., Popowycz, F., Joseph, B., Kozielski, F.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free: 0.257 
• R-Value Work: 0.181 
• R-Value Observed: 0.185 

Literature

Structure-Activity Relationship and Multidrug Resistance Study of New S-Trityl-L-Cysteine Derivatives as Inhibitors of Eg5.

Kaan, H.Y.K., Weiss, J., Menger, D., Ulaganathan, V., Tkocz, K., Laggner, C., Popowycz, F., Joseph, B., Kozielski, F.

(2011) J Med Chem 54: 1576

• PubMed: 21344920 
• DOI: 10.1021/jm100991m
• Primary Citation of Related Structures:  
  2X2R, 2XAE


• PubMed Abstract: 
  

The mitotic spindle is a validated target for cancer chemotherapy. Drugs such as taxanes and vinca alkaloids specifically target microtubules and cause the mitotic spindle to collapse. However, toxicity and resistance are problems associated with these drugs. Thus, alternative approaches to inhibiting the mitotic spindle are being pursued. These include targeting Eg5, a human kinesin involved in the formation of the bipolar spindle. We previously identified S-trityl-L-cysteine (STLC) as a potent allosteric inhibitor of Eg5. Here, we report the synthesis of a new series of STLC-like compounds with in vitro inhibition in the low nanomolar range. We also performed a multidrug resistance study in cell lines overexpressing P-glycoprotein and showed that some of these inhibitors may have the potential to overcome susceptibility to this efflux pump. Finally, we performed molecular docking of the compounds and determined the structures of two Eg5-inhibitor complexes to explain the structure-activity relationship of these compounds.

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Organizational Affiliation: 

The Beatson Institute for Cancer Research, Switchback Road, Bearsden, Glasgow G61 1BD, Scotland, UK.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
KINESIN-LIKE PROTEIN KIF11	A, B, C	368	Homo sapiens	Mutation(s): 0  Gene Names: KIF11, EG5, KNSL1, TRIP5
UniProt & NIH Common Fund Data Resources
Find proteins for P52732 (Homo sapiens) Explore P52732  Go to UniProtKB:  P52732
PHAROS:  P52732

Small Molecules

Ligands 5 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ADP	F [auth A], J [auth B], O [auth C]	ADENOSINE-5'-DIPHOSPHATE C10 H15 N5 O10 P2 XTWYTFMLZFPYCI-KQYNXXCUSA-N
2XA	D [auth A], H [auth B], M [auth C]	(2R)-2-AMINO-3-[(4-CHLOROPHENYL)-DIPHENYL-METHYL]SULFANYL-PROPANOIC ACID C22 H20 Cl N O2 S BSTXYLCINUXYQF-FQEVSTJZSA-N
SO4	K [auth B], L [auth B], P [auth C]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
CL	G [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M
MG	E [auth A], I [auth B], N [auth C]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
2XA	BindingDB:  2XAE	Ki: 200 (nM) from 1 assay(s)
		IC50: 53.3 (nM) from 1 assay(s)
	PDBBind:  2XAE	Ki: 50 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free: 0.257 
• R-Value Work: 0.181 
• R-Value Observed: 0.185 
• Space Group: P 3₂

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 96.77	α = 90
b = 96.77	β = 90
c = 124.751	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
iMOSFLM	data reduction
SCALA	data scaling
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2010-03-31 
• Released Date: 2011-03-30 
Deposition Author(s): Kaan, H.Y.K., Weiss, J., Menger, D., Ulaganathan, V., Tkocz, K., Laggner, C., Popowycz, F., Joseph, B., Kozielski, F.

Revision History  

• Version 1.0: 2011-03-30
  Type: Initial release
  
• Version 1.1: 2011-05-19
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance