4W7P

Crystal Structure of ROCK 1 bound to YB-15-QD37

• PDB DOI: https://doi.org/10.2210/pdb4W7P/pdb

• Classification: TRANSFERASE/TRANSFERASE INHIBITOR
• Organism(s): Homo sapiens
• Expression System: Spodoptera frugiperda
• Mutation(s): No 


• Deposited: 2014-08-22 Released: 2014-10-15 
• Deposition Author(s): Sprague, E.R.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free: 0.246 
• R-Value Work: 0.206 
• R-Value Observed: 0.208 

Literature

Novel ROCK inhibitors for the treatment of pulmonary arterial hypertension.

Shaw, D., Hollingworth, G., Soldermann, N., Sprague, E., Schuler, W., Vangrevelinghe, E., Duggan, N., Thomas, M., Kosaka, T., Waters, N., van Eis, M.J.

(2014) Bioorg Med Chem Lett 24: 4812-4817

• PubMed: 25248678 
• DOI: https://doi.org/10.1016/j.bmcl.2014.09.002
• Primary Citation of Related Structures:  
  4W7P


• PubMed Abstract: 
  

  A novel class of selective inhibitors of ROCK1 and ROCK2 has been identified by structural based drug design. PK/PD experiments using a set of highly selective Rho kinase inhibitors suggest that systemic Rho kinase inhibition is linked to a reversible reduction in lymphocyte counts. These results led to the consideration of topical delivery of these molecules, and to the identification of a lead molecule 7 which shows promising PK and PD in a murine model of pulmonary hypertension after intra-tracheal dosing.

---

Organizational Affiliation: 

Novartis Horsham Research Centre, Wimblehurst Road, Horsham, West Sussex RH12 5AB, United Kingdom. Electronic address: [e-mail].

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 2  

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

Biological assembly 2 assigned by authors and generated by PISA (software)

Biological Assembly 3  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Homo 4-mer - A4 

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

Biological assembly 3 generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 190.84 kDa 
• Atom Count: 12,769 
• Modelled Residue Count: 1,545 
• Deposited Residue Count: 1,644 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Rho-associated protein kinase 1	A, B, C, D	411	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
3J7	E [auth A], F [auth B], G [auth C], H [auth D]	N~1~-[2-(1H-indazol-5-yl)pyrido[3,4-d]pyrimidin-4-yl]-2-methylpropane-1,2-diamine C18 H19 N7 PTOPXBFSXASLNA-UHFFFAOYSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
3J7	BindingDB:  4W7P	IC50: 32 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free: 0.246 
• R-Value Work: 0.206 
• R-Value Observed: 0.208 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 61.545	α = 90
b = 179.659	β = 104.59
c = 89.269	γ = 90

Software Package:

Software Name	Purpose
XDS	data reduction
BUSTER-TNT	refinement
PDB_EXTRACT	data extraction
XSCALE	data scaling
BUSTER	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2014-10-15 
Deposition Author(s): Sprague, E.R.

Revision History  

• Version 1.0: 2014-10-15
  Type: Initial release
  
• Version 1.1: 2014-10-29
  Changes: Database references
• Version 1.2: 2023-12-27
  Changes: Data collection, Database references, Derived calculations, Other, Refinement description, Source and taxonomy