Publications by authors named "Thomas R M Barends"

67Publications

Structure of the 4-hydroxy-tetrahydrodipicolinate synthase from the thermoacidophilic methanotroph Methylacidiphilum fumariolicum SolV and the phylogeny of the aminotransferase pathway.

Acta Crystallogr F Struct Biol Commun 2020 May 28;76(Pt 5):199-208. Epub 2020 Apr 28.

Department of Biomolecular Mechanisms, Max Planck Institute for Medical Research, 69120 Heidelberg, Germany.

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http://dx.doi.org/10.1107/S2053230X20005294DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7193512PMC
May 2020

A nitric oxide-binding heterodimeric cytochrome complex from the anammox bacterium binds to hydrazine synthase.

J Biol Chem 2019 11 22;294(45):16712-16728. Epub 2019 Sep 22.

Department of Biomolecular Mechanisms, Max Planck Institute for Medical Research, Heidelberg 69120, Germany

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http://dx.doi.org/10.1074/jbc.RA119.008788DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6851330PMC
November 2019

A 60-heme reductase complex from an anammox bacterium shows an extended electron transfer pathway.

Acta Crystallogr D Struct Biol 2019 Mar 28;75(Pt 3):333-341. Epub 2019 Feb 28.

Department of Biomolecular Mechanisms, Max Planck Institute for Medical Research, Jahnstrasse 29, 69120 Heidelberg, Germany.

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http://dx.doi.org/10.1107/S2059798318017473DOI Listing
March 2019

Viscous hydrophilic injection matrices for serial crystallography.

IUCrJ 2017 Jul 5;4(Pt 4):400-410. Epub 2017 May 5.

Department of Biomolecular Mechanisms, Max Planck Institute for Medical Research, Jahnstrasse 29, Heidelberg 69120, Germany.

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http://dx.doi.org/10.1107/S2052252517005140DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5571803PMC
July 2017

Characterization of Anammox Hydrazine Dehydrogenase, a Key N2-producing Enzyme in the Global Nitrogen Cycle.

J Biol Chem 2016 08 17;291(33):17077-92. Epub 2016 Jun 17.

From the Department of Microbiology, Institute for Water and Wetland Research, Radboud University Nijmegen, 6525 AJ Nijmegen, The Netherlands,

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http://www.jbc.org/lookup/doi/10.1074/jbc.M116.735530
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http://dx.doi.org/10.1074/jbc.M116.735530DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5016112PMC
August 2016

Towards phasing using high X-ray intensity.

IUCrJ 2015 Nov 30;2(Pt 6):627-34. Epub 2015 Sep 30.

Center for Free-Electron Laser Science, Deutsches Elektronen-Synchrotron DESY , Notkestrasse 85, Hamburg, 22607, Germany ; Department of Physics, University of Hamburg , Luruper Chaussee 149, Hamburg, 22761, Germany ; The Hamburg Centre for Ultrafast Imaging , Luruper Chaussee 149, Hamburg, 22761, Germany.

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http://scripts.iucr.org/cgi-bin/paper?S2052252515014049
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http://dx.doi.org/10.1107/S2052252515014049DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4645107PMC
November 2015

Structural analysis of an oxygen-regulated diguanylate cyclase.

Acta Crystallogr D Biol Crystallogr 2015 Nov 27;71(Pt 11):2158-77. Epub 2015 Oct 27.

Department of Biomolecular Mechanisms, Max Planck Institute for Medical Research, Jahnstrasse 29, 69120 Heidelberg, Germany.

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http://dx.doi.org/10.1107/S139900471501545XDOI Listing
November 2015

The inner workings of the hydrazine synthase multiprotein complex.

Nature 2015 Nov 19;527(7578):394-7. Epub 2015 Oct 19.

Department of Biomolecular Mechanisms, Max Planck Institute for Medical Research, 69120 Heidelberg, Germany.

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http://dx.doi.org/10.1038/nature15517DOI Listing
November 2015

An unexpected reactivity of the P460 cofactor in hydroxylamine oxidoreductase.

Acta Crystallogr D Biol Crystallogr 2015 Aug 31;71(Pt 8):1708-13. Epub 2015 Jul 31.

Department of Biomolecular Mechanisms, Max Planck Institute for Medical Research, Jahnstrasse 29, 69120 Heidelberg, Germany.

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http://dx.doi.org/10.1107/S1399004715010706DOI Listing
August 2015

Characterization and use of the spent beam for serial operation of LCLS.

J Synchrotron Radiat 2015 May 11;22(3):634-43. Epub 2015 Apr 11.

Linac Coherent Light Source, SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, CA 94025, USA.

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http://dx.doi.org/10.1107/S1600577515004002DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4416680PMC
May 2015

Room-temperature serial crystallography at synchrotron X-ray sources using slowly flowing free-standing high-viscosity microstreams.

Acta Crystallogr D Biol Crystallogr 2015 Feb 23;71(Pt 2):387-97. Epub 2015 Jan 23.

Department of Biomolecular Mechanisms, Max Planck Institute for Medical Research, Jahnstrasse 29, 69120 Heidelberg, Germany.

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http://dx.doi.org/10.1107/S1399004714026327DOI Listing
February 2015

Structural details of light activation of the LOV2-based photoswitch PA-Rac1.

ACS Chem Biol 2015 Feb 17;10(2):502-9. Epub 2014 Nov 17.

Department of Biomolecular Mechanisms, Max Planck Institute for Medical Research , Jahnstrasse 29, 69120 Heidelberg, Germany.

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http://dx.doi.org/10.1021/cb500744mDOI Listing
February 2015

Elements in nucleotide sensing and hydrolysis of the AAA+ disaggregation machine ClpB: a structure-based mechanistic dissection of a molecular motor.

Acta Crystallogr D Biol Crystallogr 2014 Feb 31;70(Pt 2):582-95. Epub 2014 Jan 31.

Department of Biomolecular Mechanisms, Max Planck Institute for Medical Research, Jahnstrasse 29, 69120 Heidelberg, Germany.

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http://dx.doi.org/10.1107/S1399004713030629DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3940203PMC
February 2014

Structural basis of biological NO generation by octaheme oxidoreductases.

J Biol Chem 2014 Jan 3;289(3):1228-42. Epub 2013 Dec 3.

From the Department of Microbiology, Institute for Water and Wetland Research, Radboud University Nijmegen, 6525AJ Nijmegen, The Netherlands.

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http://dx.doi.org/10.1074/jbc.M113.525147DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3894310PMC
January 2014

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

Nature 2014 Jan 24;505(7482):244-7. Epub 2013 Nov 24.

Max-Planck Institute for Medical Research, Jahnstrasse 29, D-69120 Heidelberg, Germany.

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http://dx.doi.org/10.1038/nature12773DOI Listing
January 2014

Rare earth metals are essential for methanotrophic life in volcanic mudpots.

Environ Microbiol 2014 Jan 12;16(1):255-64. Epub 2013 Sep 12.

Department of Microbiology, Radboud University Nijmegen, Heyendaalseweg 135, 6525 AJ, Nijmegen, The Netherlands.

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http://dx.doi.org/10.1111/1462-2920.12249DOI Listing
January 2014

Structures of the catalytic EAL domain of the Escherichia coli direct oxygen sensor.

Acta Crystallogr D Biol Crystallogr 2013 Jun 14;69(Pt 6):1045-53. Epub 2013 May 14.

Department of Biomolecular Mechanisms, Max Planck Institute for Medical Research, Jahnstrasse 29, Heidelberg, Germany.

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http://dx.doi.org/10.1107/S0907444913004423DOI Listing
June 2013

Structural insights into the effector-immunity system Tse1/Tsi1 from Pseudomonas aeruginosa.

PLoS One 2012 6;7(7):e40453. Epub 2012 Jul 6.

Department of Biomolecular Mechanisms, Max Planck Institute for Medical Research, Heidelberg, Germany.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0040453PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3391265PMC
April 2013

Structural insights into recognition and repair of UV-DNA damage by Spore Photoproduct Lyase, a radical SAM enzyme.

Nucleic Acids Res 2012 Oct 2;40(18):9308-18. Epub 2012 Jul 2.

Department of Biomolecular Mechanisms, Max-Planck Institute for Medical Research, Jahnstrasse 29, 69120 Heidelberg, Germany.

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http://dx.doi.org/10.1093/nar/gks603DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3467042PMC
October 2012

Crystallography on a chip.

Acta Crystallogr D Biol Crystallogr 2012 Mar 14;68(Pt 3):321-3. Epub 2012 Feb 14.

Max Planck Research Group for Structural Dynamics, Center for Free-Electron Laser Science, Department of Physics, University of Hamburg, Notkestrasse 85, 22607 Hamburg, Germany.

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http://dx.doi.org/10.1107/S0907444911055296DOI Listing
March 2012

Time-resolved protein nanocrystallography using an X-ray free-electron laser.

Opt Express 2012 Jan;20(3):2706-16

Center for Free-Electron Laser Science, DESY, Notkestraße 85, 22607 Hamburg, Germany.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3413412PMC
http://dx.doi.org/10.1364/OE.20.002706DOI Listing
January 2012

Self-terminating diffraction gates femtosecond X-ray nanocrystallography measurements.

Nat Photonics 2012 ;6:35-40

Center for Free-Electron Laser Science, DESY, Notkestrasse 85, 22607 Hamburg, Germany.

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http://www.nature.com/nphoton/journal/v6/n1/pdf/nphoton.2011
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http://www.nature.com/doifinder/10.1038/nphoton.2011.297
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http://dx.doi.org/10.1038/nphoton.2011.297DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3783007PMC
January 2012

Radiation damage in protein serial femtosecond crystallography using an x-ray free-electron laser.

Phys Rev B Condens Matter Mater Phys 2011 Dec;84(21):214111

Max-Planck Institut für medizinische Forschung, Jahnstrasse 29, DE-69120 Heidelberg, Germany ; Max Planck Advanced Study Group, Center for Free-Electron Laser Science, Notkestrasse 85, DE-22607 Hamburg, Germany.

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http://dx.doi.org/10.1103/PhysRevB.84.214111DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3786679PMC
December 2011

Femtosecond X-ray protein nanocrystallography.

Nature 2011 Feb;470(7332):73-7

Center for Free-Electron Laser Science, DESY, Notkestrasse 85, 22607 Hamburg, Germany.

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http://www.hll.mpg.de/07_publication/2011/authV_Nature09750F
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http://mpec.ucsf.edu/pdfs_new/Pubs_51.pdf
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http://www.nature.com/doifinder/10.1038/nature09750
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http://dx.doi.org/10.1038/nature09750DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3429598PMC
February 2011

Disaggregases in 4 dimensions.

Curr Opin Struct Biol 2010 Feb 18;20(1):46-53. Epub 2010 Jan 18.

Max-Planck-Institute for Medical Research, Department of Biomolecular Mechanisms, Heidelberg, Germany.

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http://dx.doi.org/10.1016/j.sbi.2009.12.014DOI Listing
February 2010

Cupredoxin-like domains in haemocyanins.

Biochem J 2010 Feb 24;426(3):373-8. Epub 2010 Feb 24.

Institut für Molekulare Biophysik, Johannes Gutenberg-Universität, Jakob Welder Weg 26, 55128 Mainz, Germany.

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http://dx.doi.org/10.1042/BJ20091501DOI Listing
February 2010

Nucleotide binding and allosteric modulation of the second AAA+ domain of ClpB probed by transient kinetic studies.

Biochemistry 2009 Aug;48(30):7240-50

Max Planck Institute for Medical Research, Department of Biomolecular Mechanisms, Jahnstrasse 29, D-69120 Heidelberg, Germany.

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http://dx.doi.org/10.1021/bi900880cDOI Listing
August 2009

The archaeal cofactor F0 is a light-harvesting antenna chromophore in eukaryotes.

Proc Natl Acad Sci U S A 2009 Jul 1;106(28):11540-5. Epub 2009 Jul 1.

Department of Chemistry and Biochemistry, Ludwig-Maximilians University Munich, Centre for Integrative Protein Science, 81377 Munich, Germany.

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http://dx.doi.org/10.1073/pnas.0812665106DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2704855PMC
July 2009

Structure and mechanism of a bacterial light-regulated cyclic nucleotide phosphodiesterase.

Nature 2009 Jun;459(7249):1015-8

Max Planck Institute for Medical Research, Department of Biomolecular Mechanisms, Jahnstrasse 29, 69120 Heidelberg, Germany.

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http://www.nature.com/articles/nature07966
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http://dx.doi.org/10.1038/nature07966DOI Listing
June 2009

Crystal structure and mechanism of a DNA (6-4) photolyase.

Angew Chem Int Ed Engl 2008 ;47(52):10076-80

Centre for Integrative Protein Science, Department of Chemistry and Biochemistry, Ludwig-Maximilians University Munich, Butenandtstrasse 5-13, 81377 Munich, Germany.

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http://dx.doi.org/10.1002/anie.200804268DOI Listing
January 2009

Tryptophan synthase, an allosteric molecular factory.

Curr Opin Chem Biol 2008 Oct;12(5):593-600

Max Planck Institute for Medical Research, Department of Biomolecular Mechanisms, D-69120 Heidelberg, Germany.

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http://dx.doi.org/10.1016/j.cbpa.2008.07.011DOI Listing
October 2008

Tryptophan synthase: the workings of a channeling nanomachine.

Trends Biochem Sci 2008 Jun 15;33(6):254-64. Epub 2008 May 15.

Department of Biochemistry, University of California, Riverside, CA 92521, USA.

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http://dx.doi.org/10.1016/j.tibs.2008.04.008DOI Listing
June 2008

Structural insight into substrate binding and catalysis of a novel 2-keto-3-deoxy-D-arabinonate dehydratase illustrates common mechanistic features of the FAH superfamily.

J Mol Biol 2008 May 8;379(2):357-71. Epub 2008 Apr 8.

Laboratory of Microbiology, Department of Agrotechnology and Food Sciences, Wageningen University, Dreienplein 10, 6703 HB Wageningen, Netherlands.

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http://dx.doi.org/10.1016/j.jmb.2008.03.064DOI Listing
May 2008

Structure and mechanistic implications of a tryptophan synthase quinonoid intermediate.

Chembiochem 2008 May;9(7):1024-8

Abteilung Biomolekulare Mechanismen, Max Planck Institut für Medizinische Forschung, Jahnstrasse 29, 69120 Heidelberg, Germany.

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http://dx.doi.org/10.1002/cbic.200700703DOI Listing
May 2008

Structure of Escherichia coli Lytic transglycosylase MltA with bound chitohexaose: implications for peptidoglycan binding and cleavage.

J Biol Chem 2007 Jul 14;282(29):21197-205. Epub 2007 May 14.

Laboratory of Biophysical Chemistry, Groningen Biomolecular Sciences and Biotechnology Institute, University of Groningen, Nijenborgh 4, 9747 AG Groningen, The Netherlands.

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http://dx.doi.org/10.1074/jbc.M701818200DOI Listing
July 2007

Three-way stabilization of the covalent intermediate in amylomaltase, an alpha-amylase-like transglycosylase.

J Biol Chem 2007 Jun 9;282(23):17242-9. Epub 2007 Apr 9.

Laboratory of Biophysical Chemistry, University of Groningen, Nijenborgh 4, 9747 AG Groningen, The Netherlands.

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http://dx.doi.org/10.1074/jbc.M701444200DOI Listing
June 2007

Acetobacter turbidans alpha-amino acid ester hydrolase: how a single mutation improves an antibiotic-producing enzyme.

J Biol Chem 2006 Mar 23;281(9):5804-10. Epub 2005 Dec 23.

Laboratories of Biophysical Chemistry and Biochemistry, University of Groningen, Nijenborgh 4, 9747 AG Groningen, The Netherlands.

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http://dx.doi.org/10.1074/jbc.M511187200DOI Listing
March 2006

Escherichia coli MltA: MAD phasing and refinement of a tetartohedrally twinned protein crystal structure.

Acta Crystallogr D Biol Crystallogr 2005 May 20;61(Pt 5):613-21. Epub 2005 Apr 20.

Laboratory of Biophysical Chemistry, University of Groningen, Nijenborgh 4, 9747 AG Groningen, The Netherlands.

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http://dx.doi.org/10.1107/S0907444905005743DOI Listing
May 2005

Three-dimensional structures of enzymes useful for beta-lactam antibiotic production.

Curr Opin Biotechnol 2004 Aug;15(4):356-63

Laboratory of Biophysical Chemistry, University of Groningen, Nijenborgh 4, 9747 AG Groningen, The Netherlands.

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http://dx.doi.org/10.1016/j.copbio.2004.06.009DOI Listing
August 2004

Oils used in microbatch crystallization do not remove a detergent from the drops they cover.

Acta Crystallogr D Biol Crystallogr 2003 Dec 27;59(Pt 12):2345-7. Epub 2003 Nov 27.

Laboratory of Biophysical Chemistry, University of Groningen, Nijenborgh 4, 9747 AG Groningen, The Netherlands.

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http://dx.doi.org/10.1107/s0907444903019103DOI Listing
December 2003

Acetobacter turbidans alpha-amino acid ester hydrolase: merohedral twinning in P21 obscured by pseudo-translational NCS.

Acta Crystallogr D Biol Crystallogr 2003 Dec 27;59(Pt 12):2237-41. Epub 2003 Nov 27.

University of Groningen, Nijenborgh 4, 9747 AG Groningen, The Netherlands.

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http://dx.doi.org/10.1107/s0907444903020729DOI Listing
December 2003

The sequence and crystal structure of the alpha-amino acid ester hydrolase from Xanthomonas citri define a new family of beta-lactam antibiotic acylases.

J Biol Chem 2003 Jun 8;278(25):23076-84. Epub 2003 Apr 8.

Department of Biophysical Chemistry, Groningen Biomolecular Sciences and Biotechnology Institute, University of Groningen, Nijenborgh 4, NL-9747 AG Groningen, The Netherlands.

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http://dx.doi.org/10.1074/jbc.M302246200DOI Listing
June 2003

X-ray analysis of two antibiotic-synthesizing bacterial ester hydrolases: preliminary results.

Acta Crystallogr D Biol Crystallogr 2003 Jan 19;59(Pt 1):158-60. Epub 2002 Dec 19.

Laboratory of Biophysical Chemistry, University of Groningen, Nijenborgh 4, 9747 AG Groningen, The Netherlands.

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http://dx.doi.org/10.1107/s090744490201836xDOI Listing
January 2003