Human renin in complex with inhibitor 7

Experimental Data Snapshot

  • Resolution: 2.70 Å
  • R-Value Free: 0.277 
  • R-Value Work: 0.232 
  • R-Value Observed: 0.232 

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Ligand Structure Quality Assessment 

This is version 1.2 of the entry. See complete history


Design and discovery of new (3S,5R)-5-[4-(2-chlorophenyl)-2,2-dimethyl-5-oxopiperazin-1-yl]piperidine-3-carboxamides as potent renin inhibitors

Mori, Y.Ogawa, Y.Mochizuki, A.Nakamura, Y.Sugita, C.Miyazaki, S.Tamaki, K.Matsui, Y.Takahashi, M.Nagayama, T.Nagai, Y.Inoue, S.Nishi, T.

(2012) Bioorg Med Chem Lett 22: 7677-7682

  • DOI: https://doi.org/10.1016/j.bmcl.2012.09.103
  • Primary Citation of Related Structures:  
    3VYD, 3VYE, 3VYF

  • PubMed Abstract: 

    Utilizing X-ray crystal structure analysis, (3S,5R)-5-[4-(2-chlorophenyl)-2,2-dimethyl-5-oxopiperazin-1-yl]piperidine-3-carboxamides were designed and identified as renin inhibitors. The most potent compound 15 demonstrated favorable pharmacokinetic and pharmacodynamic profiles in rat.

  • Organizational Affiliation

    Lead Discovery & Optimization Research Laboratories I, Daiichi Sankyo Co., Ltd, 1-2-58 Hiromachi, Shinagawa-ku, Tokyo 140-8710, Japan.

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 VYE

Download Ideal Coordinates CCD File 
D [auth A],
F [auth B]
C23 H35 Cl 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
VYE BindingDB:  3VYE IC50: min: 7.7, max: 54 (nM) from 2 assay(s)
PDBBind:  3VYE IC50: 7.7 (nM) from 1 assay(s)
Experimental Data & Validation

Experimental Data

  • Resolution: 2.70 Å
  • R-Value Free: 0.277 
  • R-Value Work: 0.232 
  • R-Value Observed: 0.232 
  • Space Group: P 21 3
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 141.442α = 90
b = 141.442β = 90
c = 141.442γ = 90
Software Package:
Software NamePurpose
CrystalCleardata collection
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

View Full Validation Report

Ligand Structure Quality Assessment 

Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2012-12-19
    Type: Initial release
  • Version 1.1: 2020-07-29
    Type: Remediation
    Reason: Carbohydrate remediation
    Changes: Data collection, Derived calculations, Structure summary
  • Version 1.2: 2023-11-08
    Changes: Data collection, Database references, Refinement description, Structure summary