3WCH

The complex structure of HsSQS wtih ligand BPH1237


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.250 
  • R-Value Work: 0.192 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Squalene synthase as a target for Chagas disease therapeutics.

Shang, N.Li, Q.Ko, T.P.Chan, H.C.Li, J.Zheng, Y.Huang, C.H.Ren, F.Chen, C.C.Zhu, Z.Galizzi, M.Li, Z.H.Rodrigues-Poveda, C.A.Gonzalez-Pacanowska, D.Veiga-Santos, P.de Carvalho, T.M.de Souza, W.Urbina, J.A.Wang, A.H.Docampo, R.Li, K.Liu, Y.L.Oldfield, E.Guo, R.T.

(2014) Plos Pathog. 10: e1004114-e1004114

  • DOI: 10.1371/journal.ppat.1004114
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Trypanosomatid parasites are the causative agents of many neglected tropical diseases and there is currently considerable interest in targeting endogenous sterol biosynthesis in these organisms as a route to the development of novel anti-infective dr ...

    Trypanosomatid parasites are the causative agents of many neglected tropical diseases and there is currently considerable interest in targeting endogenous sterol biosynthesis in these organisms as a route to the development of novel anti-infective drugs. Here, we report the first x-ray crystallographic structures of the enzyme squalene synthase (SQS) from a trypanosomatid parasite, Trypanosoma cruzi, the causative agent of Chagas disease. We obtained five structures of T. cruzi SQS and eight structures of human SQS with four classes of inhibitors: the substrate-analog S-thiolo-farnesyl diphosphate, the quinuclidines E5700 and ER119884, several lipophilic bisphosphonates, and the thiocyanate WC-9, with the structures of the two very potent quinuclidines suggesting strategies for selective inhibitor development. We also show that the lipophilic bisphosphonates have low nM activity against T. cruzi and inhibit endogenous sterol biosynthesis and that E5700 acts synergistically with the azole drug, posaconazole. The determination of the structures of trypanosomatid and human SQS enzymes with a diverse set of inhibitors active in cells provides insights into SQS inhibition, of interest in the context of the development of drugs against Chagas disease.


    Organizational Affiliation

    Industrial Enzymes National Engineering Laboratory, Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin, China.,Center for Biophysics and Computational Biology, University of Illinois at Urbana-Champaign, Urbana, Illinois, United States of America; Department of Chemistry, University of Illinois at Urbana-Champaign, Urbana, Illinois, United States of America.,Institute of Biological Chemistry, Academia Sinica, Taipei, Taiwan.,Laboratório de Ultraestrutura Celular Hertha Meyer, CCS, Instituto de Biofísica Carlos Chagas Filho, Universidade Federal do Rio de Janeiro, Ilha do Fundão, Rio de Janeiro, Brazil; Instituto Nacional de Ciência e Tecnologia em Biologia Estrutural e Bioimagens, Universidade Federal do Rio de Janeiro, Cidade Universitária, Ilha do Fundão, Rio de Janeiro, Brazil; Diretoria de Programa, Instituto Nacional de Metrologia, Normalização e Qualidade Industrial-INMETRO, Duque de Caxias, Rio de Janeiro, Brazil.,Center for Tropical and Emerging Global Diseases and Department of Cellular Biology, University of Georgia, Athens, Georgia, United States of America.,Industrial Enzymes National Engineering Laboratory, Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin, China; Institute of Biological Chemistry, Academia Sinica, Taipei, Taiwan.,Instituto de Parasitología y Biomedicina "Lopez-Neyra", Consejo Superior de Investigaciones Cientificas, Granada, Spain.,Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin, China.,Instituto Venezolano de Investigaciones Cientificas, Caracas, Venezuela.,Department of Chemistry, University of Illinois at Urbana-Champaign, Urbana, Illinois, United States of America.,Center for Biophysics and Computational Biology, University of Illinois at Urbana-Champaign, Urbana, Illinois, United States of America.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Squalene synthase
A, B, C, D, E, F
360Homo sapiensMutation(s): 3 
Gene Names: FDFT1
EC: 2.5.1.21
Find proteins for P37268 (Homo sapiens)
Go to Gene View: FDFT1
Go to UniProtKB:  P37268
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
8PH
Query on 8PH

Download SDF File 
Download CCD File 
A, B, C, D, E, F
hydrogen [(1R)-2-(3-decyl-1H-imidazol-3-ium-1-yl)-1-hydroxy-1-phosphonoethyl]phosphonate
C15 H30 N2 O7 P2
HGWZIIXYBMYRRK-UHFFFAOYSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
8PHIC50: 89 nM BINDINGMOAD
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.250 
  • R-Value Work: 0.192 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 85.630α = 90.00
b = 153.550β = 91.18
c = 90.400γ = 90.00
Software Package:
Software NamePurpose
HKL-2000data reduction
HKL-2000data collection
HKL-2000data scaling
PHASESphasing
CNSrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2014-06-18
    Type: Initial release