Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

Standalone Viewers  
Protein Workshop | Ligand Explorer

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

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

Biological Assembly Evidence: authors reported there is no experimental evidence

Macromolecule Content

• Total Structure Weight: 41614.45 
• Atom Count: 2795 
• Residue Count: 357 
• Unique protein chains: 1

6G36

Crystal structure of haspin in complex with 5-chlorotubercidin

• DOI: 10.2210/pdb6G36/pdb

• Classification: TRANSFERASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)


• Deposited: 2018-03-24 Released: 2018-04-18 
• Deposition Author(s): Heroven, C., Chaikuad, A., Bountra, C., Arrowsmith, C.H., Edwards, A.M., Knapp, S., Structural Genomics Consortium (SGC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.46 Å
• R-Value Free: 0.176 
• R-Value Work: 0.149 

Literature

Halogen-Aromatic pi Interactions Modulate Inhibitor Residence Times.

Heroven, C., Georgi, V., Ganotra, G.K., Brennan, P., Wolfreys, F., Wade, R.C., Fernandez-Montalvan, A.E., Chaikuad, A., Knapp, S.

(2018) Angew. Chem. Int. Ed. Engl. 57: 7220-7224

• PubMed: 29601130 
• DOI: 10.1002/anie.201801666
• Primary Citation of Related Structures:  
  6G3A, 6G39, 6G38, 6G37, 6G35, 6G34, 6G33


• PubMed Abstract: 
  

Prolonged drug residence times may result in longer lasting drug efficacy, improved pharmacodynamic properties and "kinetic selectivity" over off-targets with fast drug dissociation rates. However, few strategies have been elaborated to rationally modulate drug residence time and thereby to integrate this key property into the drug development process. Here, we show that the interaction between a halogen moiety on an inhibitor and an aromatic residue in the target protein can significantly increase inhibitor residence time. By using the interaction of the serine/threonine kinase haspin with 5-iodotubercidin (5-iTU) derivatives as a model for an archetypal active state (type I) kinase-inhibitor binding mode, we demonstrate that inhibitor residence times markedly increase with the size and polarizability of the halogen atom. This key interaction is dependent on the interactions with an aromatic residue in the gatekeeper position and we observe this interaction in other kinases with an aromatic gatekeeper residue. We provide a detailed mechanistic characterization of the halogen-aromatic π interactions in the haspin-inhibitor complexes by means of kinetic, thermodynamic, and structural measurements along with binding energy calculations. Since halogens are frequently used in drugs and aromatic residues are often present in the binding sites of proteins, our results provide a compelling rationale for introducing aromatic-halogen interactions to prolong drug-target residence times.

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Organizational Affiliation: 

University of Oxford, UNITED KINGDOM.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Serine/threonine-protein kinase haspin	A	357	Homo sapiens	Mutation(s): 0  Gene Names: HASPIN (GSG2) EC: 2.7.11.1
Find proteins for Q8TF76 (Homo sapiens) Go to Gene View: HASPIN Go to UniProtKB:  Q8TF76

Small Molecules

Ligands 6 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
EPE	A	4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID HEPES C8 H18 N2 O4 S JKMHFZQWWAIEOD-UHFFFAOYSA-N
PO4	A	PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K
NA	A	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N
GOL	A	GLYCEROL GLYCERIN; PROPANE-1,2,3-TRIOL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
CO	A	COBALT (II) ION Co XLJKHNWPARRRJB-UHFFFAOYSA-N
EKH	A	5-chlorotubercidin C11 H13 Cl N4 O4 WUHZZVWKGCJQHU-IOSLPCCCSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.46 Å
• R-Value Free: 0.176 
• R-Value Work: 0.149 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length (Å)	Angle (°)
a = 77.740	α = 90.00
b = 78.910	β = 90.00
c = 79.820	γ = 90.00

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2018-03-24 
• Released Date: 2018-04-18 
• Deposition Author(s): Heroven, C., Chaikuad, A., Bountra, C., Arrowsmith, C.H., Edwards, A.M., Knapp, S., Structural Genomics Consortium (SGC)

Revision History 

• Version 1.0: 2018-04-18
  Type: Initial release
• Version 1.1: 2018-05-16
  Type: Data collection, Database references
• Version 1.2: 2018-06-13
  Type: Data collection, Database references