3KEE

HCV NS3/NS4A complexed with Non-covalent macrocyclic compound TMC435


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.40 Å
  • R-Value Free: 0.246 
  • R-Value Work: 0.196 
  • R-Value Observed: 0.199 

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.1 of the entry. See complete history


Literature

Induced-Fit Binding of the Macrocyclic Noncovalent Inhibitor TMC435 to its HCV NS3/NS4A Protease Target

Cummings, M.D.Lindberg, J.D.Lin, T.-I.de Kock, H.Lenz, O.Lilja, E.Fellander, S.Baraznenok, V.Nystrom, S.Nilsson, M.Vrang, L.Edlund, M.Rosenquist, A.Samuelsson, B.Raboisson, P.Simmen, K.

(2010) Angew Chem Int Ed Engl 49: 1652-1655


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Genome polyproteinA, C [auth B], E [auth C], G [auth D]190Hepacivirus CMutation(s): 0 
EC: 3.4.21.98 (PDB Primary Data), 2.7.7.48 (UniProt), 3.6.1.15 (UniProt), 3.6.4.13 (UniProt)
UniProt
Find proteins for P90191 (Hepacivirus C)
Explore P90191 
Go to UniProtKB:  P90191
Protein Feature View
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
19-mer peptide from Genome polyproteinB [auth E], D [auth F], F [auth G], H23Hepacivirus CMutation(s): 0 
EC: 2.7.7.48 (UniProt), 3.4.21.98 (UniProt), 3.6.1.15 (UniProt), 3.6.4.13 (UniProt)
UniProt
Find proteins for Q6GYR8 (Hepacivirus C)
Explore Q6GYR8 
Go to UniProtKB:  Q6GYR8
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
30B (Subject of Investigation/LOI)
Query on 30B

Download Ideal Coordinates CCD File 
I [auth A], K [auth B], M [auth C], P [auth D](2R,3aR,10Z,11aS,12aR,14aR)-N-(cyclopropylsulfonyl)-2-({7-methoxy-8-methyl-2-[4-(1-methylethyl)-1,3-thiazol-2-yl]quinolin-4-yl}oxy)-5-methyl-4,14-dioxo-2,3,3a,4,5,6,7,8,9,11a,12,13,14,14a-tetradecahydrocyclopenta[c]cyclopropa[g][1,6]diazacyclotetradecine-12a(1H)-carboxamide
C38 H47 N5 O7 S2
JTZZSQYMACOLNN-VDWJNHBNSA-N
 Ligand Interaction
GOL
Query on GOL

Download Ideal Coordinates CCD File 
O [auth C], R [auth D]GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
ZN
Query on ZN

Download Ideal Coordinates CCD File 
J [auth A], L [auth B], N [auth C], Q [auth D]ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
Binding Affinity Annotations 
IDSourceBinding Affinity
30B BindingDB:  3KEE Ki: min: 0.36, max: 0.5 (nM) from 2 assay(s)
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.40 Å
  • R-Value Free: 0.246 
  • R-Value Work: 0.196 
  • R-Value Observed: 0.199 
  • Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 48.034α = 92.44
b = 54.454β = 93.16
c = 85.495γ = 116.04
Software Package:
Software NamePurpose
DNAdata collection
PHASERphasing
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling

Structure Validation

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Ligand Structure Quality Assessment  



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2010-03-09
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance