5IVT

Crystal Structure of HIV Protease complexed with [(1S)-1-[(S)-(4-chlorophenyl)-(3,5-difluorophenyl)methyl]-2-[[5-fluoro-4-[2-[(2R,5S)-5-(2,2,2-trifluoroethylcarbamoyloxymethyl)morpholin-4-ium-2-yl]ethyl]pyridin-1-ium-3-yl]amino]-2-oxo-ethyl]ammonium


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.15 Å
  • R-Value Free: 0.193 
  • R-Value Work: 0.184 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Discovery of MK-8718, an HIV Protease Inhibitor Containing a Novel Morpholine Aspartate Binding Group.

Bungard, C.J.Williams, P.D.Ballard, J.E.Bennett, D.J.Beaulieu, C.Bahnck-Teets, C.Carroll, S.S.Chang, R.K.Dubost, D.C.Fay, J.F.Diamond, T.L.Greshock, T.J.Hao, L.Holloway, M.K.Felock, P.J.Gesell, J.J.Su, H.P.Manikowski, J.J.McKay, D.J.Miller, M.Min, X.Molinaro, C.Moradei, O.M.Nantermet, P.G.Nadeau, C.Sanchez, R.I.Satyanarayana, T.Shipe, W.D.Singh, S.K.Truong, V.L.Vijayasaradhi, S.Wiscount, C.M.Vacca, J.P.Crane, S.N.McCauley, J.A.

(2016) Acs Med.Chem.Lett. 7: 702-707

  • DOI: 10.1021/acsmedchemlett.6b00135
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • A novel HIV protease inhibitor was designed using a morpholine core as the aspartate binding group. Analysis of the crystal structure of the initial lead bound to HIV protease enabled optimization of enzyme potency and antiviral activity. This afford ...

    A novel HIV protease inhibitor was designed using a morpholine core as the aspartate binding group. Analysis of the crystal structure of the initial lead bound to HIV protease enabled optimization of enzyme potency and antiviral activity. This afforded a series of potent orally bioavailable inhibitors of which MK-8718 was identified as a compound with a favorable overall profile.


    Organizational Affiliation

    Merck Research Laboratories , 770 Sumneytown Pike, PO Box 4, West Point, Pennsylvania 19486, United States.,Merck Frosst Centre for Therapeutic Research , 16711 TransCanada Highway, Kirkland, Quebec H9H 3L1, Canada.,Albany Molecular Research Singapore Research Center , 61 Science Park Road #05-01, The Galen Singapore Science Park II, Singapore 117525.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Protease
A, B
99Human immunodeficiency virus 1Mutation(s): 3 
Gene Names: pol
Find proteins for G0X8E8 (Human immunodeficiency virus 1)
Go to UniProtKB:  G0X8E8
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ACT
Query on ACT

Download SDF File 
Download CCD File 
A, B
ACETATE ION
C2 H3 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-M
 Ligand Interaction
CL
Query on CL

Download SDF File 
Download CCD File 
A, B
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 Ligand Interaction
6EE
Query on 6EE

Download SDF File 
Download CCD File 
A, B
(betaS)-4-chloro-beta-(3,5-difluorophenyl)-N-(5-fluoro-4-{2-[(2R,5S)-5-({[(2,2,2-trifluoroethyl)carbamoyl]oxy}methyl)morpholin-2-yl]ethyl}pyridin-3-yl)-L-phenylalaninamide
C30 H30 Cl F6 N5 O4
OUUHZXOSBUCFJO-ZKBLBJRCSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
6EEIC50: 0.8 nM BINDINGMOAD
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.15 Å
  • R-Value Free: 0.193 
  • R-Value Work: 0.184 
  • Space Group: P 21 21 2
Unit Cell:
Length (Å)Angle (°)
a = 58.480α = 90.00
b = 85.930β = 90.00
c = 46.220γ = 90.00
Software Package:
Software NamePurpose
SCALAdata scaling
BUSTERrefinement
XDSdata reduction
BUSTERphasing
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2016-03-21 
  • Released Date: 2016-05-18 
  • Deposition Author(s): Su, H.P.

Revision History 

  • Version 1.0: 2016-05-18
    Type: Initial release
  • Version 1.1: 2016-08-10
    Type: Data collection, Database references