3Q3T

Alkyl Amine Renin Inhibitors: Filling S1 from S3


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.60 Å
  • R-Value Free: 0.268 
  • R-Value Work: 0.200 
  • R-Value Observed: 0.204 

wwPDB Validation   3D Report Full Report



Literature

Biphenyl/diphenyl ether renin inhibitors: Filling the S1 pocket of renin via the S3 pocket.

Yuan, J.Simpson, R.D.Zhao, W.Tice, C.M.Xu, Z.Cacatian, S.Jia, L.Flaherty, P.T.Guo, J.Ishchenko, A.Wu, Z.McKeever, B.M.Scott, B.B.Bukhtiyarov, Y.Berbaum, J.Panemangalore, R.Bentley, R.Doe, C.P.Harrison, R.K.McGeehan, G.M.Singh, S.B.Dillard, L.W.Baldwin, J.J.Claremon, D.A.

(2011) Bioorg Med Chem Lett 21: 4836-4843

  • DOI: 10.1016/j.bmcl.2011.06.043
  • Primary Citation of Related Structures:  
    3Q3T

  • PubMed Abstract: 
  • Structure-based design led to the discovery of a novel class of renin inhibitors in which an unprecedented phenyl ring filling the S1 site is attached to the phenyl ring filling the S3 pocket. Optimization for several parameters including potency in ...

    Structure-based design led to the discovery of a novel class of renin inhibitors in which an unprecedented phenyl ring filling the S1 site is attached to the phenyl ring filling the S3 pocket. Optimization for several parameters including potency in the presence of human plasma, selectivity against CYP3A4 inhibition and improved rat oral bioavailability led to the identification of 8d which demonstrated antihypertensive efficacy in a transgenic rat model of human hypertension.


    Organizational Affiliation

    Vitae Pharmaceuticals, 502 West Office Center Drive, Fort Washington, PA 19034, USA. jyuan@vitaerx.com



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
ReninAB340Homo sapiensMutation(s): 0 
Gene Names: RENrenin
EC: 3.4.23.15
Find proteins for P00797 (Homo sapiens)
Explore P00797 
Go to UniProtKB:  P00797
NIH Common Fund Data Resources
PHAROS  P00797
Protein Feature View
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  • Reference Sequence
Oligosaccharides

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Entity ID: 2
MoleculeChainsChain Length2D Diagram Glycosylation3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
C
2 N-Glycosylation Oligosaccharides Interaction
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
RX0
Query on RX0

Download CCD File 
A, B
[(1S,3R,4S)-3-amino-4-hydroxycyclopentyl]{(3R)-3-[(1S)-1-(biphenyl-2-yl)-1-hydroxy-5-methoxypentyl]piperidin-1-yl}methanone
C29 H40 N2 O4
GBAKDRIJFSDCNN-YJFNBJRFSA-N
 Ligand Interaction
NAG
Query on NAG

Download CCD File 
B
2-acetamido-2-deoxy-beta-D-glucopyranose
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
 Ligand Interaction
GOL
Query on GOL

Download CCD File 
A
GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
RX0IC50 :  37   nM  PDBBind
RX0IC50:  37   nM  BindingDB
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.60 Å
  • R-Value Free: 0.268 
  • R-Value Work: 0.200 
  • R-Value Observed: 0.204 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 54.253α = 90
b = 97.585β = 90
c = 148.651γ = 90
Software Package:
Software NamePurpose
SCALEPACKdata scaling
REFMACrefinement
PDB_EXTRACTdata extraction
CBASSdata collection
HKL-2000data reduction
MOLREPphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

  • Deposited Date: 2010-12-22 
  • Released Date: 2011-08-03 
  • Deposition Author(s): Wu, Z., McKeever, B.

Revision History 

  • Version 1.0: 2011-08-03
    Type: Initial release
  • Version 2.0: 2020-07-29
    Type: Remediation
    Reason: Carbohydrate remediation
    Changes: Atomic model, Data collection, Derived calculations, Structure summary