3LON

HCV NS3-4a protease domain with ketoamide inhibitor narlaprevir


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free: 0.269 
  • R-Value Work: 0.204 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Candidate selection and preclinical evaluation culminating in the discovery of Narlaprevir (SCH 900518): A potent, selective and orally efficacious second generation HCV NS3 serine protease inhibitor

Arasappan, A.Bennett, F.Bogen, S.L.Blackman, M.Chen, K.Hendrata, S.Huang, Y.Huelgas, R.M.Nair, L.Padilla, A.I.Pan, W.Pike, R.Pinto, P.Ruan, S.Sannigrahi, M.Velaquez, F.Vibulbhan, B.Wu, W.Yang, W.Saksena, A.K.Girijavallabhan, V.Shih, N.Y.Kong, J.Meng, T.Jin, Y.Wong, J.McNamara, P.Prongay, A.Madison, V.Piwinski, J.J.Cheng, K.C.Morrison, R.Malcolm, B.Tong, X.Ralston, R.Njoroge, F.G.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Genome polyproteinA, C200Hepatitis C virus subtype 1aMutation(s): 1 
Gene Names: NS3
Find proteins for Q9ELS8 (Hepatitis C virus subtype 1a)
Explore Q9ELS8 
Go to UniProtKB:  Q9ELS8
Protein Feature View
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  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
KK-NS4a(21-39)-KKB, D23N/AMutation(s): 0 
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NNA
Query on NNA

Download CCD File 
A
(1R,2S,5S)-3-[N-({1-[(tert-butylsulfonyl)methyl]cyclohexyl}carbamoyl)-3-methyl-L-valyl]-N-{(1S)-1-[(1R)-2-(cyclopropyla mino)-1-hydroxy-2-oxoethyl]pentyl}-6,6-dimethyl-3-azabicyclo[3.1.0]hexane-2-carboxamide
C36 H63 N5 O7 S
BZXRATSZUNDEEV-FZFXNXQRSA-N
 Ligand Interaction
BME
Query on BME

Download CCD File 
A
BETA-MERCAPTOETHANOL
C2 H6 O S
DGVVWUTYPXICAM-UHFFFAOYSA-N
 Ligand Interaction
ZN
Query on ZN

Download CCD File 
A, C
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free: 0.269 
  • R-Value Work: 0.204 
  • Space Group: H 3 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 224.392α = 90
b = 224.392β = 90
c = 75.331γ = 120
Software Package:
Software NamePurpose
HKL-2000data collection
X-PLORmodel building
X-PLORrefinement
HKL-2000data reduction
SCALEPACKdata scaling
X-PLORphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

  • Deposited Date: 2010-02-04 
  • Released Date: 2011-01-19 
  • Deposition Author(s): Prongay, A.J.

Revision History 

  • Version 1.0: 2011-01-19
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance