5HVU

Rho-associated protein kinase 1 (ROCK 1) in complex with a pyridine thiazole piperidine inhibitor

• PDB DOI: https://doi.org/10.2210/pdb5HVU/pdb

• Classification: Transferase/transferase inhibitor
• Organism(s): Homo sapiens
• Expression System: Spodoptera frugiperda
• Mutation(s): No 


• Deposited: 2016-01-28 Released: 2017-02-08 
• Deposition Author(s): Jacobs, M.J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free: 0.248 
• R-Value Work: 0.238 
• R-Value Observed: 0.239 

Literature

ROCK inhibitors 2. Improving potency, selectivity and solubility through the application of rationally designed solubilizing groups.

Gao, H., Marhefka, C., Jacobs, M.D., Cao, J., Bandarage, U.K., Green, J.

(2018) Bioorg Med Chem Lett 

• PubMed: 29945794 
• DOI: https://doi.org/10.1016/j.bmcl.2018.06.043
• Primary Citation of Related Structures:  
  5HVU


• PubMed Abstract: 
  

  Solubilizing groups have been frequently appended to kinase inhibitor drug molecules when solubility is insufficient for pharmaceutical development. Such groups are usually located at substitution sites that have minimal impact on target activity. In this report we describe the incorporation of solubilizing groups in a class of Rho kinase (ROCK) inhibitors that not only confer improved solubility, but also enhance target potency and selectivity against a closely related kinase, PKA.

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Organizational Affiliation: 

Vertex Pharmaceuticals, Incorporated, 50 Northern Avenue, Boston, MA 02210, USA.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Biological Assembly Evidence: equilibrium centrifugation

Macromolecule Content

• Total Structure Weight: 96.9 kDa 
• Atom Count: 6,626 
• Modelled Residue Count: 788 
• Deposited Residue Count: 830 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Rho-associated protein kinase 1	A, B	415	Homo sapiens	Mutation(s): 0  Gene Names: ROCK1 EC: 2.7.11.1
UniProt & NIH Common Fund Data Resources
Find proteins for Q13464 (Homo sapiens) Explore Q13464  Go to UniProtKB:  Q13464
PHAROS:  Q13464 GTEx:  ENSG00000067900

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
65R	C [auth A], D [auth B]	2-{3-[3-(piperidin-4-yl)propoxy]phenyl}-N-[4-(pyridin-4-yl)-1,3-thiazol-2-yl]acetamide C24 H28 N4 O2 S IMDMAPNWXDTADU-UHFFFAOYSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
65R	BindingDB:  5HVU	Ki: 13 (nM) from 1 assay(s)
		IC50: 7 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free: 0.248 
• R-Value Work: 0.238 
• R-Value Observed: 0.239 
• Space Group: P 3₁ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 181.82	α = 90
b = 181.82	β = 90
c = 90.6	γ = 120

Software Package:

Software Name	Purpose
BUSTER-TNT	refinement
d*TREK	data reduction
d*TREK	data scaling
PDB_EXTRACT	data extraction
BUSTER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2017-02-08 
Deposition Author(s): Jacobs, M.J.

Revision History  

• Version 1.0: 2017-02-08
  Type: Initial release
  
• Version 1.1: 2017-11-01
  Changes: Author supporting evidence
• Version 1.2: 2018-07-18
  Changes: Data collection, Database references
• Version 1.3: 2023-09-27
  Changes: Data collection, Database references, Refinement description