Literature DB >> 23196907

Natively inhibited Trypanosoma brucei cathepsin B structure determined by using an X-ray laser.

Lars Redecke1,2, Karol Nass3,4, Daniel P DePonte3, Thomas A White3, Dirk Rehders1, Anton Barty3, Francesco Stellato3, Mengning Liang3, Thomas R M Barends5,6, Sébastien Boutet7, Garth J Williams7, Marc Messerschmidt7, M Marvin Seibert7, Andrew Aquila3, David Arnlund8, Sasa Bajt9, Torsten Barth10, Michael J Bogan11, Carl Caleman3, Tzu-Chiao Chao12, R Bruce Doak13, Holger Fleckenstein3, Matthias Frank14, Raimund Fromme12, Lorenzo Galli3,4, Ingo Grotjohann12, Mark S Hunter12, Linda C Johansson8, Stephan Kassemeyer5,6, Gergely Katona8, Richard A Kirian3,13, Rudolf Koopmann10, Chris Kupitz12, Lukas Lomb5,6, Andrew V Martin3, Stefan Mogk10, Richard Neutze8, Robert L Shoeman5,6, Jan Steinbrener5,6, Nicusor Timneanu15, Dingjie Wang13, Uwe Weierstall13, Nadia A Zatsepin13, John C H Spence13, Petra Fromme12, Ilme Schlichting5,6, Michael Duszenko10, Christian Betzel16, Henry N Chapman3,4.   

Abstract

The Trypanosoma brucei cysteine protease cathepsin B (TbCatB), which is involved in host protein degradation, is a promising target to develop new treatments against sleeping sickness, a fatal disease caused by this protozoan parasite. The structure of the mature, active form of TbCatB has so far not provided sufficient information for the design of a safe and specific drug against T. brucei. By combining two recent innovations, in vivo crystallization and serial femtosecond crystallography, we obtained the room-temperature 2.1 angstrom resolution structure of the fully glycosylated precursor complex of TbCatB. The structure reveals the mechanism of native TbCatB inhibition and demonstrates that new biomolecular information can be obtained by the "diffraction-before-destruction" approach of x-ray free-electron lasers from hundreds of thousands of individual microcrystals.

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Year:  2012        PMID: 23196907      PMCID: PMC3786669          DOI: 10.1126/science.1229663

Source DB:  PubMed          Journal:  Science        ISSN: 0036-8075            Impact factor:   47.728


  27 in total

Review 1.  Human and parasitic papain-like cysteine proteases: their role in physiology and pathology and recent developments in inhibitor design.

Authors:  Fabien Lecaille; Jadwiga Kaleta; Dieter Brömme
Journal:  Chem Rev       Date:  2002-12       Impact factor: 60.622

Review 2.  Development of cathepsin inhibitors and structure-based design of cathepsin B-specific inhibitor.

Authors:  Koji Tomoo
Journal:  Curr Top Med Chem       Date:  2010       Impact factor: 3.295

3.  Femtosecond protein nanocrystallography-data analysis methods.

Authors:  Richard A Kirian; Xiaoyu Wang; Uwe Weierstall; Kevin E Schmidt; John C H Spence; Mark Hunter; Petra Fromme; Thomas White; Henry N Chapman; James Holton
Journal:  Opt Express       Date:  2010-03-15       Impact factor: 3.894

4.  Inhibition of cathepsin B by its propeptide: use of overlapping peptides to identify a critical segment.

Authors:  J R Chagas; M Ferrer-Di Martino; F Gauthier; G Lalmanach
Journal:  FEBS Lett       Date:  1996-09-02       Impact factor: 4.124

5.  The occluding loop in cathepsin B defines the pH dependence of inhibition by its propeptide.

Authors:  O Quraishi; D K Nägler; T Fox; J Sivaraman; M Cygler; J S Mort; A C Storer
Journal:  Biochemistry       Date:  1999-04-20       Impact factor: 3.162

6.  On the size of the active site in proteases. I. Papain.

Authors:  I Schechter; A Berger
Journal:  Biochem Biophys Res Commun       Date:  1967-04-20       Impact factor: 3.575

7.  Delineating functionally important regions and residues in the cathepsin B propeptide for inhibitory activity.

Authors:  Y Chen; C Plouffe; R Ménard; A C Storer
Journal:  FEBS Lett       Date:  1996-09-09       Impact factor: 4.124

8.  Novel non-peptidic vinylsulfones targeting the S2 and S3 subsites of parasite cysteine proteases.

Authors:  Clifford Bryant; Iain D Kerr; Moumita Debnath; Kenny K H Ang; Joseline Ratnam; Rafaela S Ferreira; Priyadarshini Jaishankar; DongMei Zhao; Michelle R Arkin; James H McKerrow; Linda S Brinen; Adam R Renslo
Journal:  Bioorg Med Chem Lett       Date:  2009-09-03       Impact factor: 2.823

9.  N-myristoyltransferase inhibitors as new leads to treat sleeping sickness.

Authors:  Julie A Frearson; Stephen Brand; Stuart P McElroy; Laura A T Cleghorn; Ondrej Smid; Laste Stojanovski; Helen P Price; M Lucia S Guther; Leah S Torrie; David A Robinson; Irene Hallyburton; Chidochangu P Mpamhanga; James A Brannigan; Anthony J Wilkinson; Michael Hodgkinson; Raymond Hui; Wei Qiu; Olawale G Raimi; Daan M F van Aalten; Ruth Brenk; Ian H Gilbert; Kevin D Read; Alan H Fairlamb; Michael A J Ferguson; Deborah F Smith; Paul G Wyatt
Journal:  Nature       Date:  2010-04-01       Impact factor: 49.962

Review 10.  Human African trypanosomiasis: pharmacological re-engagement with a neglected disease.

Authors:  M P Barrett; D W Boykin; R Brun; R R Tidwell
Journal:  Br J Pharmacol       Date:  2007-07-09       Impact factor: 8.739

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  166 in total

1.  Accurate determination of segmented X-ray detector geometry.

Authors:  Oleksandr Yefanov; Valerio Mariani; Cornelius Gati; Thomas A White; Henry N Chapman; Anton Barty
Journal:  Opt Express       Date:  2015-11-02       Impact factor: 3.894

Review 2.  In vivo protein crystallization in combination with highly brilliant radiation sources offers novel opportunities for the structural analysis of post-translationally modified eukaryotic proteins.

Authors:  Michael Duszenko; Lars Redecke; Celestin Nzanzu Mudogo; Benjamin Philip Sommer; Stefan Mogk; Dominik Oberthuer; Christian Betzel
Journal:  Acta Crystallogr F Struct Biol Commun       Date:  2015-07-29       Impact factor: 1.056

3.  Oxygen additions in serial femtosecond crystallographic protein structures.

Authors:  Jimin Wang
Journal:  Protein Sci       Date:  2016-07-26       Impact factor: 6.725

4.  De novo protein crystal structure determination from X-ray free-electron laser data.

Authors:  Thomas R M Barends; Lutz Foucar; Sabine Botha; R Bruce Doak; Robert L Shoeman; Karol Nass; Jason E Koglin; Garth J Williams; Sébastien Boutet; Marc Messerschmidt; Ilme Schlichting
Journal:  Nature       Date:  2013-11-24       Impact factor: 49.962

5.  Cancer cell classification with coherent diffraction imaging using an extreme ultraviolet radiation source.

Authors:  Michael Zürch; Stefan Foertsch; Mark Matzas; Katharina Pachmann; Rainer Kuth; Christian Spielmann
Journal:  J Med Imaging (Bellingham)       Date:  2014-10-03

6.  The New Macromolecular Femtosecond Crystallography (MFX) Instrument at LCLS.

Authors:  Sébastien Boutet; Aina Cohen; Soichi Wakatsuki
Journal:  Synchrotron Radiat News       Date:  2016-02-01

Review 7.  A Bright Future for Serial Femtosecond Crystallography with XFELs.

Authors:  Linda C Johansson; Benjamin Stauch; Andrii Ishchenko; Vadim Cherezov
Journal:  Trends Biochem Sci       Date:  2017-07-18       Impact factor: 13.807

8.  Lipidic cubic phase injector facilitates membrane protein serial femtosecond crystallography.

Authors:  Uwe Weierstall; Daniel James; Chong Wang; Thomas A White; Dingjie Wang; Wei Liu; John C H Spence; R Bruce Doak; Garrett Nelson; Petra Fromme; Raimund Fromme; Ingo Grotjohann; Christopher Kupitz; Nadia A Zatsepin; Haiguang Liu; Shibom Basu; Daniel Wacker; Gye Won Han; Vsevolod Katritch; Sébastien Boutet; Marc Messerschmidt; Garth J Williams; Jason E Koglin; M Marvin Seibert; Markus Klinker; Cornelius Gati; Robert L Shoeman; Anton Barty; Henry N Chapman; Richard A Kirian; Kenneth R Beyerlein; Raymond C Stevens; Dianfan Li; Syed T A Shah; Nicole Howe; Martin Caffrey; Vadim Cherezov
Journal:  Nat Commun       Date:  2014       Impact factor: 14.919

9.  X-ray Emission Spectroscopy as an in Situ Diagnostic Tool for X-ray Crystallography of Metalloproteins Using an X-ray Free-Electron Laser.

Authors:  Thomas Fransson; Ruchira Chatterjee; Franklin D Fuller; Sheraz Gul; Clemens Weninger; Dimosthenis Sokaras; Thomas Kroll; Roberto Alonso-Mori; Uwe Bergmann; Jan Kern; Vittal K Yachandra; Junko Yano
Journal:  Biochemistry       Date:  2018-06-28       Impact factor: 3.162

10.  XFELs open a new era in structural chemical biology.

Authors:  Petra Fromme
Journal:  Nat Chem Biol       Date:  2015-12       Impact factor: 15.040

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