6BQJ

CRYSTAL STRUCTURE OF HEPATIS C VIRUS PROTEASE (NS3) COMPLEXED WITH TRIPEPTIDIC ACYL SULFONAMIDE INHIBITOR (COMPOUND 16)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.69 Å
  • R-Value Free: 0.206 
  • R-Value Work: 0.197 
  • R-Value Observed: 0.197 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Potent Inhibitors of Hepatitis C Virus NS3 Protease: Employment of a Difluoromethyl Group as a Hydrogen-Bond Donor.

Zheng, B.D'Andrea, S.V.Sun, L.Q.Wang, A.X.Chen, Y.Hrnciar, P.Friborg, J.Falk, P.Hernandez, D.Yu, F.Sheaffer, A.K.Knipe, J.O.Mosure, K.Rajamani, R.Good, A.C.Kish, K.Tredup, J.Klei, H.E.Paruchuri, M.Ng, A.Gao, Q.Rampulla, R.A.Mathur, A.Meanwell, N.A.McPhee, F.Scola, P.M.

(2018) ACS Med Chem Lett 9: 143-148

  • DOI: 10.1021/acsmedchemlett.7b00503
  • Structures With Same Primary Citation

  • PubMed Abstract: 
  • The design and synthesis of potent, tripeptidic acylsulfonamide inhibitors of HCV NS3 protease that contain a difluoromethyl cyclopropyl amino acid at P1 are described. A cocrystal structure of 18 with a NS3/4A protease complex suggests the ...

    The design and synthesis of potent, tripeptidic acylsulfonamide inhibitors of HCV NS3 protease that contain a difluoromethyl cyclopropyl amino acid at P1 are described. A cocrystal structure of 18 with a NS3/4A protease complex suggests the presence of a H-bond between the polarized C-H of the CHF 2 moiety and the backbone carbonyl of Leu135 of the enzyme. Structure-activity relationship studies indicate that this H-bond enhances enzyme inhibitory potency by 13- and 17-fold compared to the CH 3 and CF 3 analogues, respectively, providing insight into the deployment of this unique amino acid.


    Organizational Affiliation

    Research and Development, Bristol-Myers Squibb, 5 Research Parkway, Wallingford, Connecticut 06492, United States.



Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
NS3 protease
A, B, C
219Hepacivirus CMutation(s): 0 
Find proteins for A0A075D220 (Hepacivirus C)
Go to UniProtKB:  A0A075D220
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
Z1B
Query on Z1B

Download CCD File 
A, B, C
N-(tert-butoxycarbonyl)-3-methyl-L-valyl-(4R)-N-{(2S)-1-[(cyclopropylsulfonyl)amino]-4,4-difluoro-1-oxobutan-2-yl}-4-[(7-methoxy-2-phenylquinolin-4-yl)oxy]-L-prolinamide
C39 H49 F2 N5 O9 S
LGOOHMFDMLUYDW-RXAGJDKHSA-N
 Ligand Interaction
ZN
Query on ZN

Download CCD File 
A, B, C
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
ACT
Query on ACT

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

Download CCD File 
A, B, C
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.69 Å
  • R-Value Free: 0.206 
  • R-Value Work: 0.197 
  • R-Value Observed: 0.197 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 88.44α = 90
b = 57.47β = 115
c = 89.83γ = 90
Software Package:
Software NamePurpose
SCALEPACKdata scaling
BUSTERrefinement

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

  • Deposited Date: 2017-11-28 
  • Released Date: 2018-03-21 
  • Deposition Author(s): Klei, H.E., Sack, J.S.

Revision History 

  • Version 1.0: 2018-03-21
    Type: Initial release
  • Version 1.1: 2019-09-04
    Changes: Data collection