Home LiteratureArticle Details
PMID: 19620707 Published · ppublish English Journal Article Research Support, N.I.H., Extramural Research Support, Non-U.S. Gov't Research Support, U.S. Gov't, Non-P.H.S.

Vinyl sulfones as antiparasitic agents and a structural basis for drug design.

The Journal of biological chemistry ·Vol. 284 ·No. 38 ·2009-09-18 ·Pages 25697-703

Kerr ID, Lee JH, Farady CJ, Marion R, Rickert M, Sajid M, Pandey KC, Caffrey CR, Legac J, Hansell E, McKerrow JH, Craik CS, Rosenthal PJ, Brinen LS

Abstract

Cysteine proteases of the papain superfamily are implicated in a number of cellular processes and are important virulence factors in the pathogenesis of parasitic disease. These enzymes have therefore emerged as promising targets for antiparasitic drugs. We report the crystal structures of three major parasite cysteine proteases, cruzain, falcipain-3, and the first reported structure of rhodesain, in complex with a class of potent, small molecule, cysteine protease inhibitors, the vinyl sulfones. These data, in conjunction with comparative inhibition kinetics, provide insight into the molecular mechanisms that drive cysteine protease inhibition by vinyl sulfones, the binding specificity of these important proteases and the potential of vinyl sulfones as antiparasitic drugs.

MeSH Terms
Animals Antiparasitic Agents/chemistry,therapeutic use Chagas Disease/drug therapy,enzymology Crystallography, X-Ray Cysteine Endopeptidases/chemistry Drug Design Kinetics Malaria, Falciparum/drug therapy,enzymology Plasmodium falciparum/enzymology Protease Inhibitors/chemistry,therapeutic use Protein Binding Protein Structure, Tertiary Protozoan Proteins/antagonists & inhibitors,chemistry Sulfones/chemistry,therapeutic use Trypanosoma brucei brucei/enzymology Trypanosoma cruzi/enzymology Trypanosomiasis, African/drug therapy,enzymology
Chemicals
Antiparasitic Agents Protease Inhibitors Protozoan Proteins Sulfones divinyl sulfone Cysteine Endopeptidases cruzain, Trypanosoma cruzi falcipain 3 rhodesain
Authors & Affiliations
14 authors, click to expand affiliations / ORCID
Kerr Iain D
Department of Cellular and Molecular Pharmacology, University of California, San Francisco, California 94158-2550, USA.
Lee Ji H
Farady Christopher J
Marion Rachael
Rickert Mathias
Sajid Mohammed
Pandey Kailash C
Caffrey Conor R
Legac Jennifer
Hansell Elizabeth
McKerrow James H
Craik Charles S
Rosenthal Philip J
Brinen Linda S
References (52)
52 references, click to expand
  1. Cysteine proteinases of trypanosome parasites: novel targets for chemotherapy.
    Curr Drug Targets. 2000 Sep;1(2):155-62 PMID: 11465068
  2. Cysteine protease inhibitors cure an experimental Trypanosoma cruzi infection.
    J Exp Med. 1998 Aug 17;188(4):725-34 PMID: 9705954
  3. Cysteine protease inhibitors alter Golgi complex ultrastructure and function in Trypanosoma cruzi.
    J Cell Sci. 1998 Mar;111 ( Pt 5):597-606 PMID: 9454733
  4. Antimalarial effects of vinyl sulfone cysteine proteinase inhibitors.
    Antimicrob Agents Chemother. 1996 Jul;40(7):1600-3 PMID: 8807047
  5. Gene disruption confirms a critical role for the cysteine protease falcipain-2 in hemoglobin hydrolysis by Plasmodium falciparum.
    Proc Natl Acad Sci U S A. 2004 Mar 30;101(13):4384-9 PMID: 15070727
  6. A malarial cysteine proteinase is necessary for hemoglobin degradation by Plasmodium falciparum.
    J Clin Invest. 1988 Nov;82(5):1560-6 PMID: 3053784
  7. Vinyl sulfones as mechanism-based cysteine protease inhibitors.
    J Med Chem. 1995 Aug 18;38(17):3193-6 PMID: 7650671
  8. An automated system to mount cryo-cooled protein crystals on a synchrotron beam line, using compact sample cassettes and a small-scale robot.
    J Appl Crystallogr. 2002 Dec;35(6):720-726 PMID: 24899734
  9. Synthesis and structure-activity relationships of parasiticidal thiosemicarbazone cysteine protease inhibitors against Plasmodium falciparum, Trypanosoma brucei, and Trypanosoma cruzi.
    J Med Chem. 2004 Jun 3;47(12):3212-9 PMID: 15163200
  10. Screening of protease inhibitors as antiplasmodial agents. Part I: Aziridines and epoxides.
    ChemMedChem. 2007 Aug;2(8):1214-24 PMID: 17562535
  11. [Trypanocidal effect of cysteine protease inhibitors in vitro and in vivo in experimental Chagas disease].
    Medicina (B Aires). 1999;59 Suppl 2:171-5 PMID: 10668260
  12. Crystal structures of reversible ketone-Based inhibitors of the cysteine protease cruzain.
    Bioorg Med Chem. 2003 Jan 2;11(1):21-9 PMID: 12467703
  13. Refinement of macromolecular structures by the maximum-likelihood method.
    Acta Crystallogr D Biol Crystallogr. 1997 May 1;53(Pt 3):240-55 PMID: 15299926
  14. MolProbity: all-atom contacts and structure validation for proteins and nucleic acids.
    Nucleic Acids Res. 2007 Jul;35(Web Server issue):W375-83 PMID: 17452350
  15. Crystallography & NMR system: A new software suite for macromolecular structure determination.
    Acta Crystallogr D Biol Crystallogr. 1998 Sep 1;54(Pt 5):905-21 PMID: 9757107
  16. Dipeptidyl-alpha,beta-epoxyesters as potent irreversible inhibitors of the cysteine proteases cruzain and rhodesain.
    Bioorg Med Chem Lett. 2007 Dec 15;17(24):6697-700 PMID: 17977725
  17. Synthesis of macrocyclic trypanosomal cysteine protease inhibitors.
    Bioorg Med Chem Lett. 2008 Nov 15;18(22):5860-3 PMID: 18585034
  18. Cysteine proteases of malaria parasites.
    Int J Parasitol. 2004 Dec;34(13-14):1489-99 PMID: 15582526
  19. Processing of X-ray diffraction data collected in oscillation mode.
    Methods Enzymol. 1997;276:307-26 PMID: 27754618
  20. Independent intramolecular mediators of folding, activity, and inhibition for the Plasmodium falciparum cysteine protease falcipain-2.
    J Biol Chem. 2004 Jan 30;279(5):3484-91 PMID: 14625277
  21. Potency and selectivity of P2/P3-modified inhibitors of cysteine proteases from trypanosomes.
    Bioorg Med Chem Lett. 2008 Jan 15;18(2):624-8 PMID: 18055204
  22. A target within the target: probing cruzain's P1' site to define structural determinants for the Chagas' disease protease.
    Structure. 2000 Aug 15;8(8):831-40 PMID: 10997902
  23. Development of peptidomimetics with a vinyl sulfone warhead as irreversible falcipain-2 inhibitors.
    J Med Chem. 2008 Feb 28;51(4):988-96 PMID: 18232656
  24. Overlapping substrate specificities of cytochrome P450 3A and P-glycoprotein for a novel cysteine protease inhibitor.
    Drug Metab Dispos. 1998 Apr;26(4):360-6 PMID: 9531525
  25. Structural determinants of specificity in the cysteine protease cruzain.
    Protein Sci. 1997 Aug;6(8):1603-11 PMID: 9260273
  26. Structures of falcipain-2 and falcipain-3 bound to small molecule inhibitors: implications for substrate specificity.
    J Med Chem. 2009 Feb 12;52(3):852-7 PMID: 19128015
  27. Improved trypanocidal activities of cathepsin L inhibitors.
    Int J Antimicrob Agents. 2003 Aug;22(2):155-9 PMID: 12927956
  28. Discovery of potent thiosemicarbazone inhibitors of rhodesain and cruzain.
    Bioorg Med Chem Lett. 2005 Jan 3;15(1):121-3 PMID: 15582423
  29. The Plasmodium falciparum cysteine protease falcipain-2 captures its substrate, hemoglobin, via a unique motif.
    Proc Natl Acad Sci U S A. 2005 Jun 28;102(26):9138-43 PMID: 15964982
  30. In vitro evaluation of the disposition of A novel cysteine protease inhibitor.
    Drug Metab Dispos. 2000 Nov;28(11):1343-51 PMID: 11038163
  31. Biochemical and molecular mechanisms of drug resistance in parasites.
    Trop Med Int Health. 2001 Nov;6(11):874-82 PMID: 11703841
  32. Structural basis for unique mechanisms of folding and hemoglobin binding by a malarial protease.
    Proc Natl Acad Sci U S A. 2006 Aug 1;103(31):11503-8 PMID: 16864794
  33. Theoretical and practical aspects of proteinase inhibition kinetics.
    Methods Enzymol. 1995;248:59-84 PMID: 7674947
  34. Current chemotherapy of human African trypanosomiasis.
    Parasitol Res. 2003 Jun;90 Supp 1:S10-3 PMID: 12811544
  35. Active site mapping, biochemical properties and subcellular localization of rhodesain, the major cysteine protease of Trypanosoma brucei rhodesiense.
    Mol Biochem Parasitol. 2001 Nov;118(1):61-73 PMID: 11704274
  36. Structure-activity relationships for inhibition of cysteine protease activity and development of Plasmodium falciparum by peptidyl vinyl sulfones.
    Antimicrob Agents Chemother. 2003 Jan;47(1):154-60 PMID: 12499184
  37. Coot: model-building tools for molecular graphics.
    Acta Crystallogr D Biol Crystallogr. 2004 Dec;60(Pt 12 Pt 1):2126-32 PMID: 15572765
  38. Monitoring and deterring drug-resistant malaria in the era of combination therapy.
    Am J Trop Med Hyg. 2007 Dec;77(6 Suppl):160-9 PMID: 18165489
  39. Folding of the Plasmodium falciparum cysteine protease falcipain-2 is mediated by a chaperone-like peptide and not the prodomain.
    J Biol Chem. 2002 Apr 26;277(17):14910-5 PMID: 11827964
  40. Expression and characterization of the Plasmodium falciparum haemoglobinase falcipain-3.
    Biochem J. 2001 Dec 1;360(Pt 2):481-9 PMID: 11716777
  41. Development of protease inhibitors for protozoan infections.
    Curr Opin Infect Dis. 2008 Dec;21(6):668-72 PMID: 18978536
  42. Rapid and general profiling of protease specificity by using combinatorial fluorogenic substrate libraries.
    Proc Natl Acad Sci U S A. 2000 Jul 5;97(14):7754-9 PMID: 10869434
  43. The sequence, organization, and expression of the major cysteine protease (cruzain) from Trypanosoma cruzi.
    J Biol Chem. 1992 Apr 15;267(11):7411-20 PMID: 1559982
  44. Gene disruptions demonstrate independent roles for the four falcipain cysteine proteases of Plasmodium falciparum.
    Mol Biochem Parasitol. 2006 Nov;150(1):96-106 PMID: 16890302
  45. Phaser crystallographic software.
    J Appl Crystallogr. 2007 Aug 1;40(Pt 4):658-674 PMID: 19461840
  46. A parasite cysteine protease is key to host protein degradation and iron acquisition.
    J Biol Chem. 2008 Oct 24;283(43):28934-43 PMID: 18701454
  47. Drug discovery and development for neglected parasitic diseases.
    Nat Chem Biol. 2006 Dec;2(12):701-10 PMID: 17108988
  48. The structure of chagasin in complex with a cysteine protease clarifies the binding mode and evolution of an inhibitor family.
    Structure. 2007 May;15(5):535-43 PMID: 17502099
  49. Cysteine proteinase inhibitors as therapy for parasitic diseases: advances in inhibitor design.
    Mini Rev Med Chem. 2006 Sep;6(9):1025-32 PMID: 17018001
  50. Aziridine-2,3-dicarboxylate inhibitors targeting the major cysteine protease of Trypanosoma brucei as lead trypanocidal agents.
    Bioorg Med Chem Lett. 2006 May 15;16(10):2753-7 PMID: 16516467
  51. Substrate profiling of cysteine proteases using a combinatorial peptide library identifies functionally unique specificities.
    J Biol Chem. 2006 May 5;281(18):12824-32 PMID: 16520377
  52. Production of crystallizable cruzain, the major cysteine protease from Trypanosoma cruzi.
    J Biol Chem. 1993 Mar 25;268(9):6115-8 PMID: 8454586
Article Info
Journal
The Journal of biological chemistry
Abbr.
J Biol Chem
ISSN
1083-351X
Published
2009-09-18
Epub
2009-00-20
Pages
25697-703
Language
English
Region
United States
NLM ID
2985121R
PMCID
PMC2757971
Subset
IM
Grants
NIAID NIH HHS · P01 AI035707 · United States
NIAID NIH HHS · R56 AI035800 · United States
NIAID NIH HHS · AI35800 · United States
NIAID NIH HHS · R29 AI035800 · United States
NIAID NIH HHS · AI35707 · United States
NIAID NIH HHS · R01 AI035800 · United States
Databases
PDB
Analysis Services
Analysis Services

Contact

No. 2 Wenbo Road, Zhangqiu District, Jinan, Shandong

Qilu Normal University · Genelibs Bioinformatics Lab

750 Shunhua Rd, Jinan

2F, Bldg F, University Science Park

Tel: 0531-88819269

WeChat Official Account

Follow our WeChat subscription account for real-time updates and the latest in medical and biological research.


Business Email

E-mail: [email protected]