2I4Q

Human renin/PF02342674 complex

• PDB DOI: https://doi.org/10.2210/pdb2I4Q/pdb

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


• Deposited: 2006-08-22 Released: 2006-10-24 
• Deposition Author(s): Holsworth, D.D., Jalaie, M., Zhang, E., Mcconnell, P., Mochalkin, I., Finzel, B.C.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 
  0.261 (Depositor) 
• R-Value Work: 
  0.229 (Depositor), 0.221 (DCC) 
• R-Value Observed: 
  0.230 (Depositor) 

Literature

Rational design of 6-(2,4-diaminopyrimidinyl)-1,4-benzoxazin-3-ones as small molecule renin inhibitors.

Powell, N.A., Ciske, F.L., Cai, C., Holsworth, D.D., Mennen, K., Van Huis, C.A., Jalaie, M., Day, J., Mastronardi, M., McConnell, P., Mochalkin, I., Zhang, E., Ryan, M.J., Bryant, J., Collard, W., Ferreira, S., Gu, C., Collins, R., Edmunds, J.J.

(2007) Bioorg Med Chem 15: 5912-5949

• PubMed: 17574423 
• DOI: https://doi.org/10.1016/j.bmc.2007.05.069
• Primary Citation of Related Structures:  
  2I4Q


• PubMed Abstract: 
  

  We report the design and synthesis of a series of 6-(2,4-diaminopyrimidinyl)-1,4-benzoxazin-3-ones as orally bioavailable small molecule inhibitors of renin. Compounds with a 2-methyl-2-aryl substitution pattern exhibit potent renin inhibition and good permeability, solubility, and metabolic stability. Oral bioavailability was found to be dependent on metabolic clearance and cellular permeability, and was optimized through modulation of the sidechain that binds in the S3(sp) subsite.

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Organizational Affiliation: 

Pfizer Global Research & Development, Michigan Laboratories, Ann Arbor, MI 48105, USA. [e-mail]

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 74.73 kDa 
• Atom Count: 5,444 
• Modelled Residue Count: 672 
• Deposited Residue Count: 672 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Renin	A, B	336	Homo sapiens	Mutation(s): 0  Gene Names: REN EC: 3.4.23.15
UniProt & NIH Common Fund Data Resources
Find proteins for P00797 (Homo sapiens) Explore P00797  Go to UniProtKB:  P00797
PHAROS:  P00797 GTEx:  ENSG00000143839

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
UA4	C [auth A], D [auth B]	(2S)-6-(2,4-DIAMINO-6-ETHYLPYRIMIDIN-5-YL)-2-(3,5-DIFLUOROPHENYL)-4-(3-METHOXYPROPYL)-2-METHYL-2H-1,4-BENZOXAZIN-3(4H)-ONE C25 H27 F2 N5 O3 UAXNNGUDPWZOKX-VWLOTQADSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
UA4	BindingDB:  2I4Q	IC50: min: 7, max: 7.1 (nM) from 2 assay(s)
		-TΔS: -1.54e+0 (kJ/mol) from 1 assay(s)
		ΔG: -3.87e+1 (kJ/mol) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free:  0.261 (Depositor) 
• R-Value Work:  0.229 (Depositor), 0.221 (DCC) 
• R-Value Observed: 0.230 (Depositor) 

Space Group: P 2₁ 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 141.898	α = 90
b = 141.898	β = 90
c = 141.898	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction
ADSC	data collection
HKL-2000	data reduction
HKL-2000	data scaling
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2006-10-24 
Deposition Author(s): Holsworth, D.D., Jalaie, M., Zhang, E., Mcconnell, P., Mochalkin, I., Finzel, B.C.

Revision History  

• Version 1.0: 2006-10-24
  Type: Initial release
  
• Version 1.1: 2008-05-01
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2024-10-30
  Changes: Data collection, Database references, Derived calculations, Structure summary