1HPO

HIV-1 PROTEASE TRIPLE MUTANT/U103265 COMPLEX


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Work: 0.179 

wwPDB Validation 3D Report Full Report


This is version 1.4 of the entry. See complete history

Literature

Structure-based design of nonpeptidic HIV protease inhibitors: the sulfonamide-substituted cyclooctylpyramones.

Skulnick, H.I.Johnson, P.D.Aristoff, P.A.Morris, J.K.Lovasz, K.D.Howe, W.J.Watenpaugh, K.D.Janakiraman, M.N.Anderson, D.J.Reischer, R.J.Schwartz, T.M.Banitt, L.S.Tomich, P.K.Lynn, J.C.Horng, M.M.Chong, K.T.Hinshaw, R.R.Dolak, L.A.Seest, E.P.Schwende, F.J.Rush, B.D.Howard, G.M.Toth, L.N.Wilkinson, K.R.Kakuk, T.J.Johnson, C.W.Cole, S.L.Zaya, R.M.Zipp, G.L.Possert, P.L.Dalga, R.J.Zhong, W.-Z.Williams, M.G.Romines, K.R.

(1997) J.Med.Chem. 40: 1149-1164

  • DOI: 10.1021/jm960441m
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Recently, cyclooctylpyranone derivatives with m-carboxamide substituents (e.g. 2c) were identified as potent, nonpeptidic HIV protease inhibitors, but these compounds lacked significant antiviral activity in cell culture. Substitution of a sulfonamid ...

    Recently, cyclooctylpyranone derivatives with m-carboxamide substituents (e.g. 2c) were identified as potent, nonpeptidic HIV protease inhibitors, but these compounds lacked significant antiviral activity in cell culture. Substitution of a sulfonamide group at the meta position, however, produces compounds with excellent HIV protease binding affinity and antiviral activity. Guided by an iterative structure-based drug design process, we have prepared and evaluated a number of these derivatives, which are readily available via a seven-step synthesis. A few of the most potent compounds were further evaluated for such characteristics as pharmacokinetics and toxicity in rats and dogs. From this work, the p-cyanophenyl sulfonamide derivative 35k emerged as a promising inhibitor, was selected for further development, and entered phase I clinical trials.


    Related Citations: 
    • Structure-based design of sulfonamide-substituted non-peptidic HIV protease inhibitors.
      Skulnick, H.I.,Johnson, P.D.,Howe, W.J.,Tomich, P.K.,Chong, K.T.,Watenpaugh, K.D.,Janakiraman, M.N.,Dolak, L.A.,McGrath, J.P.,Lynn, J.C.,Horng, M.-M.,Hinshaw, R.B.,Zipp, G.L.,Ruwart, M.J.,Schwende, F.J.,Padbury, G.E.,Dalga, R.J.,Zhong, W.-Z.,Shiou, L.,Possert, P.L.,Rush, Bob D.,Wilkinson, Karen F.,Howard, Gina M.,Toth, L.N.,Williams, M.G.,Kakuk, T.J.,Cole, S.L.,Zaya, R.M.,Lovasz, K.D.,Morris, J.K.,Romines, K.R.,Thaisrivongs, S.,Aristoff, P.A.
      (1995) J.Med.Chem. 38: 4968


    Organizational Affiliation

    Discovery Chemistry Research, Pharmacia and Upjohn, Kalamazoo, Michigan 49001, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
HIV-1 PROTEASE
A, B
99Human immunodeficiency virus type 1 group M subtype BMutation(s): 3 
Gene Names: gag-pol
Find proteins for P03367 (Human immunodeficiency virus type 1 group M subtype B)
Go to UniProtKB:  P03367
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
UNI
Query on UNI

Download SDF File 
Download CCD File 
B
4-CYANO-N-(3-CYCLOPROPYL(5,6,7,8,9,10-HEXAHYDRO-4-HYDROXY-2-OXO-CYCLOOCTA[B]PYRAN-3-YL)METHYL)PHENYL BENZENSULFONAMIDE
C28 H28 N2 O5 S
VCYQENLVFRTJIC-VWLOTQADSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
UNIKi: 0.8 - <1 nM (95) BINDINGDB
UNIIC50: 2000 nM (95) BINDINGDB
UNIKi: 0.6 nM BINDINGMOAD
UNIKi: 0.6 nM PDBBIND
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Work: 0.179 
  • Space Group: P 21 21 2
Unit Cell:
Length (Å)Angle (°)
a = 60.543α = 90.00
b = 88.416β = 90.00
c = 46.484γ = 90.00
Software Package:
Software NamePurpose
MERLOTphasing
XENGENdata scaling
XENGENdata reduction
CEDARrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1997-04-21
    Type: Initial release
  • Version 1.1: 2008-03-24
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance
  • Version 1.3: 2012-02-22
    Type: Database references
  • Version 1.4: 2018-03-07
    Type: Data collection