4XX3

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


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.224 
  • R-Value Work: 0.207 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

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: 10.1016/j.bmcl.2015.02.003
  • Primary Citation of Related Structures:  

  • 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 a ...

    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.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Renin
A, B
340Homo sapiensMutation(s): 0 
Gene Names: REN
EC: 3.4.23.15
Find proteins for P00797 (Homo sapiens)
Go to Gene View: REN
Go to UniProtKB:  P00797
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
70X
Query on 70X

Download SDF File 
Download CCD File 
A, B
N-benzyl-3-{[(2Z,4S)-2-imino-4-methyl-6-oxo-4-(propan-2-yl)tetrahydropyrimidin-1(2H)-yl]methyl}benzamide
C23 H28 N4 O2
OFTSPVADFMQIGQ-QHCPKHFHSA-N
 Ligand Interaction
NAG
Query on NAG

Download SDF File 
Download CCD File 
A, B
N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
70XKi: 56 nM (100) BINDINGDB
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.224 
  • R-Value Work: 0.207 
  • Space Group: P 21 3
Unit Cell:
Length (Å)Angle (°)
a = 142.020α = 90.00
b = 142.020β = 90.00
c = 142.020γ = 90.00
Software Package:
Software NamePurpose
PDB_EXTRACTdata extraction
BUSTER-TNTrefinement
AMoREphasing
DENZOdata reduction
BUSTERrefinement
SCALEPACKdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2015-01-29 
  • Released Date: 2015-02-18 
  • Deposition Author(s): Orth, P.

Revision History 

  • Version 1.0: 2015-02-18
    Type: Initial release
  • Version 1.1: 2016-03-16
    Type: Data collection
  • Version 1.2: 2017-11-22
    Type: Derived calculations, Refinement description
  • Version 1.3: 2018-04-18
    Type: Data collection, Database references