Renin in complex with (S)-1-(3-(benzylcarbamoyl)benzyl)-4-isopropyl-4-methyl-6-oxotetrahydropyrimidin-2(1H)-iminium

Experimental Data Snapshot

  • Resolution: 2.40 Å
  • R-Value Free: 0.224 
  • R-Value Work: 0.207 
  • R-Value Observed: 0.208 

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Ligand Structure Quality Assessment 

This is version 1.5 of the entry. See complete history


Iminopyrimidinones: a novel pharmacophore for the development of orally active renin inhibitors.

McKittrick, B.A.Caldwell, J.P.Bara, T.Boykow, G.Chintala, M.Clader, J.Czarniecki, M.Courneya, B.Duffy, R.Fleming, L.Giessert, R.Greenlee, W.J.Heap, C.Hong, L.Huang, Y.Iserloh, U.Josien, H.Khan, T.Korfmacher, W.Liang, X.Mazzola, R.Mitra, S.Moore, K.Orth, P.Rajagopalan, M.Roy, S.Sakwa, S.Strickland, C.Vaccaro, H.Voigt, J.Wang, H.Wong, J.Zhang, R.Zych, A.

(2015) Bioorg Med Chem Lett 25: 1592-1596

  • DOI: https://doi.org/10.1016/j.bmcl.2015.02.003
  • Primary Citation of Related Structures:  
    4S1G, 4XX3, 4XX4

  • PubMed Abstract: 

    The development of renin inhibitors with favorable oral pharmacokinetic profiles has been a longstanding challenge for the pharmaceutical industry. As part of our work to identify inhibitors of BACE1, we have previously developed iminopyrimidinones as a novel pharmacophore for aspartyl protease inhibition. In this letter we describe how we modified substitution around this pharmacophore to develop a potent, selective and orally active renin inhibitor.

  • Organizational Affiliation

    Discovery Chemistry, Merck Research Laboratories, 2015 Galloping Hill Road, Kenilworth, NJ 07033, United States. Electronic address: brian.mckittrick@merck.com.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
A, B
340Homo sapiensMutation(s): 0 
Gene Names: REN
UniProt & NIH Common Fund Data Resources
Find proteins for P00797 (Homo sapiens)
Explore P00797 
Go to UniProtKB:  P00797
PHAROS:  P00797
GTEx:  ENSG00000143839 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP00797
Sequence Annotations
  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
Query on 70X

Download Ideal Coordinates CCD File 
D [auth A],
F [auth B]
C23 H28 N4 O2
Query on NAG

Download Ideal Coordinates CCD File 
C [auth A],
E [auth B]
C8 H15 N O6
Binding Affinity Annotations 
IDSourceBinding Affinity
70X Binding MOAD:  4XX3 Ki: 56 (nM) from 1 assay(s)
BindingDB:  4XX3 Ki: 56 (nM) from 1 assay(s)
Experimental Data & Validation

Experimental Data

  • Resolution: 2.40 Å
  • R-Value Free: 0.224 
  • R-Value Work: 0.207 
  • R-Value Observed: 0.208 
  • Space Group: P 21 3
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 142.02α = 90
b = 142.02β = 90
c = 142.02γ = 90
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
PDB_EXTRACTdata extraction

Structure Validation

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Ligand Structure Quality Assessment 

Entry History 

Deposition Data

  • Released Date: 2015-02-18 
  • Deposition Author(s): Orth, P.

Revision History  (Full details and data files)

  • Version 1.0: 2015-02-18
    Type: Initial release
  • Version 1.1: 2016-03-16
    Changes: Data collection
  • Version 1.2: 2017-11-22
    Changes: Derived calculations, Refinement description
  • Version 1.3: 2018-04-18
    Changes: Data collection, Database references
  • Version 1.4: 2020-07-29
    Type: Remediation
    Reason: Carbohydrate remediation
    Changes: Data collection, Derived calculations, Structure summary
  • Version 1.5: 2023-09-27
    Changes: Data collection, Database references, Refinement description, Structure summary