Structural Characterization of Cytochrome [subscript c; beta-Met] from an Ammonia-Oxidizing Bacteri

Abendroth, Jan; Buchko, Garry W.; Liew, Fong Ning; Nguyen, Joline N.; Kim, Hyung J.

doi:10.1021/acs.biochem.1c00640

Title: Structural Characterization of Cytochrome [subscript c; beta-Met] from an Ammonia-Oxidizing Bacteri

Journal Article · 01 March 2022 · Biochemistry-US

DOI:https://doi.org/10.1021/acs.biochem.1c00640· OSTI ID:1867467

Abendroth, Jan; Buchko, Garry W.; Liew, Fong Ning; Nguyen, Joline N.; Kim, Hyung J.

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Research Organization:: Argonne National Lab. (ANL), Argonne, IL (United States). Advanced Photon Source (APS)

Sponsoring Organization:: DOE - Office Of Science; UNIVERSITY

OSTI ID:: 1867467

Journal Information:: Biochemistry-US, Vol. 61, Issue (7)

Country of Publication:: United States

Language:: ENGLISH

References (40)

Scientists’ warning to humanity: microorganisms and climate change Cavicchioli, Ricardo; Ripple, William J.; Timmis, Kenneth N. Nature Reviews Microbiology, Vol. 17, Issue 9 https://doi.org/10.1038/s41579-019-0222-5	journal	June 2019
The Chemistry, Biology, and Modulation of Ammonium Nitrification in Soil Wendeborn, Sebastian Angewandte Chemie International Edition, Vol. 59, Issue 6 https://doi.org/10.1002/anie.201903014	journal	February 2020
A comprehensive quantification of global nitrous oxide sources and sinks Tian, Hanqin; Xu, Rongting; Canadell, Josep G. Nature, Vol. 586, Issue 7828 https://doi.org/10.1038/s41586-020-2780-0	journal	October 2020
Trends and seasonal cycles in the isotopic composition of nitrous oxide since 1940 Park, S.; Croteau, P.; Boering, K. A. Nature Geoscience, Vol. 5, Issue 4 https://doi.org/10.1038/ngeo1421	journal	March 2012
Electron transfer during the oxidation of ammonia by the chemolithotrophic bacterium Nitrosomonas europaea Whittaker, Mark; Bergmann, David; Arciero, David Biochimica et Biophysica Acta (BBA) - Bioenergetics, Vol. 1459, Issue 2-3 https://doi.org/10.1016/s0005-2728(00)00171-7	journal	August 2000
Membrane Tetraheme Cytochrome c _m552 of the Ammonia-Oxidizing Nitrosomonas europaea : A Ubiquinone Reductase Kim, Hyung J.; Zatsman, Anna; Upadhyay, Anup K. Biochemistry, Vol. 47, Issue 25 https://doi.org/10.1021/bi8001264	journal	May 2008
Resonance Raman, Electron Paramagnetic Resonance, and Magnetic Circular Dichroism Spectroscopic Investigation of Diheme Cytochrome c Peroxidases from Nitrosomonas europaea and Shewanella oneidensis Wolf, Matthew W.; Rizzolo, Kimberly; Elliott, Sean J. Biochemistry, Vol. 57, Issue 45 https://doi.org/10.1021/acs.biochem.8b00732	journal	October 2018
Alternative Bioenergy: Updates to and Challenges in Nitrification Metalloenzymology Lancaster, Kyle M.; Caranto, Jonathan D.; Majer, Sean H. Joule, Vol. 2, Issue 3 https://doi.org/10.1016/j.joule.2018.01.018	journal	March 2018
Cytochrome c ′ _β-Met Is a Variant in the P460 Superfamily Lacking the Heme–Lysyl Cross-Link: A Peroxidase Mimic Generating a Ferryl Intermediate Liew, Fong Ning; Brandys, Marisa A.; Biswas, Saborni Biochemistry, Vol. 59, Issue 5 https://doi.org/10.1021/acs.biochem.9b00810	journal	December 2019
Cytochromes P460 and c ′-beta; A new family of high-spin cytochromes c Elmore, Bradley O.; Bergmann, David J.; Klotz, Martin G. FEBS Letters, Vol. 581, Issue 5 https://doi.org/10.1016/j.febslet.2007.01.068	journal	February 2007
One fold, two functions: cytochrome P460 and cytochrome c ′-β from the methanotroph Methylococcus capsulatus (Bath) Adams, Hannah R.; Krewson, Callie; Vardanega, Jenny E. Chemical Science, Vol. 10, Issue 10 https://doi.org/10.1039/c8sc05210g	journal	January 2019
Preliminary characterization of a variant co-binding heme protein from Nitrosomonas Erickson, R. H.; Hooper, A. B. Biochimica et Biophysica Acta (BBA) - Bioenergetics, Vol. 275, Issue 2 https://doi.org/10.1016/0005-2728(72)90044-8	journal	August 1972
Cytochrome P460 of Nitrosomonas europaea. Formation of the heme-lysine cross-link in a heterologous host and mutagenic conversion to a non-cross-linked cytochrome c ' Bergmann, David J.; Hooper, Alan B. European Journal of Biochemistry, Vol. 270, Issue 9 https://doi.org/10.1046/j.1432-1033.2003.03550.x	journal	May 2003
Nitrosomonas europaea cytochrome P460 is a direct link between nitrification and nitrous oxide emission Caranto, Jonathan D.; Vilbert, Avery C.; Lancaster, Kyle M. Proceedings of the National Academy of Sciences, Vol. 113, Issue 51 https://doi.org/10.1073/pnas.1611051113	journal	November 2016
The Eponymous Cofactors in Cytochrome P460s from Ammonia-Oxidizing Bacteria Are Iron Porphyrinoids Whose Macrocycles Are Dibasic Smith, Meghan A.; Lancaster, Kyle M. Biochemistry, Vol. 57, Issue 3 https://doi.org/10.1021/acs.biochem.7b00921	journal	December 2017
Oxidation of hydroxylamine by cytochrome P-460 of the obligate methylotroph Methylococcus capsulatus Bath. Zahn, J. A.; Duncan, C.; DiSpirito, A. A. Journal of Bacteriology, Vol. 176, Issue 19 https://doi.org/10.1128/jb.176.19.5879-5887.1994	journal	October 1994
Cytochrome c' of Methylococcus Capsulatus Bath Zahn, James A.; Arciero, David M.; Hooper, Alan B. European Journal of Biochemistry, Vol. 240, Issue 3 https://doi.org/10.1111/j.1432-1033.1996.0684h.x	journal	September 1996
Identification of prokaryotic and eukaryotic signal peptides and prediction of their cleavage sites Nielsen, H.; Engelbrecht, J.; Brunak, S. Protein Engineering Design and Selection, Vol. 10, Issue 1, p. 1-6 https://doi.org/10.1093/protein/10.1.1	journal	January 1997
SignalP 4.0: discriminating signal peptides from transmembrane regions Petersen, Thomas Nordahl; Brunak, Søren; von Heijne, Gunnar Nature Methods, Vol. 8, Issue 10 https://doi.org/10.1038/nmeth.1701	journal	September 2011
Simultaneous determination of hemes a, b, and c from pyridine hemochrome spectra Berry, Edward A.; Trumpower, Bernard L. Analytical Biochemistry, Vol. 161, Issue 1 https://doi.org/10.1016/0003-2697(87)90643-9	journal	February 1987
XDS Kabsch, Wolfgang Acta Crystallographica Section D Biological Crystallography, Vol. 66, Issue 2 https://doi.org/10.1107/s0907444909047337	journal	January 2010
Automatic protein structure solution from weak X-ray data Skubák, Pavol; Pannu, Navraj S. Nature Communications, Vol. 4, Issue 1 https://doi.org/10.1038/ncomms3777	journal	November 2013
Coot model-building tools for molecular graphics Emsley, Paul; Cowtan, Kevin Acta Crystallographica Section D Biological Crystallography, Vol. 60, Issue 12, p. 2126-2132 https://doi.org/10.1107/s0907444904019158	journal	November 2004
PHENIX: a comprehensive Python-based system for macromolecular structure solution Adams, Paul D.; Afonine, Pavel V.; Bunkóczi, Gábor Acta Crystallographica Section D Biological Crystallography, Vol. 66, Issue 2, p. 213-221 https://doi.org/10.1107/s0907444909052925	journal	January 2010
MolProbity : all-atom structure validation for macromolecular crystallography Chen, Vincent B.; Arendall, W. Bryan; Headd, Jeffrey J. Acta Crystallographica Section D Biological Crystallography, Vol. 66, Issue 1 https://doi.org/10.1107/s0907444909042073	journal	December 2009
The Protein Data Bank: a historical perspective Berman, Helen M. Acta Crystallographica Section A Foundations of Crystallography, Vol. 64, Issue 1 https://doi.org/10.1107/s0108767307035623	journal	December 2007
A public database of macromolecular diffraction experiments Grabowski, Marek; Langner, Karol M.; Cymborowski, Marcin Acta Crystallographica Section D Structural Biology, Vol. 72, Issue 11 https://doi.org/10.1107/s2059798316014716	journal	October 2016
Measurement of Heme Ruffling Changes in MhuD Using UV–vis Spectroscopy Graves, Amanda B.; Graves, Max T.; Liptak, Matthew D. The Journal of Physical Chemistry B, Vol. 120, Issue 16 https://doi.org/10.1021/acs.jpcb.6b01497	journal	April 2016
Inference of Macromolecular Assemblies from Crystalline State Krissinel, Evgeny; Henrick, Kim Journal of Molecular Biology, Vol. 372, Issue 3 https://doi.org/10.1016/j.jmb.2007.05.022	journal	September 2007
The Crystal Structure of Cytochrome P460 of Nitrosomonas europaea Reveals a Novel Cytochrome Fold and Heme−Protein Cross-link ^† ^, ^‡ Pearson, Arwen R.; Elmore, Bradley O.; Yang, Cheng Biochemistry, Vol. 46, Issue 28 https://doi.org/10.1021/bi700086r	journal	July 2007
Secondary-structure matching (SSM), a new tool for fast protein structure alignment in three dimensions Krissinel, E.; Henrick, K. Acta Crystallographica Section D Biological Crystallography, Vol. 60, Issue 12 https://doi.org/10.1107/s0907444904026460	journal	November 2004
Hinges, swivels and switches: the role of prolines in signalling via transmembrane α-helices S. P. Sansom, Mark; Weinstein, Harel Trends in Pharmacological Sciences, Vol. 21, Issue 11 https://doi.org/10.1016/s0165-6147(00)01553-4	journal	November 2000
The Flexing/Twirling Helix: Exploring the Flexibility about Molecular Hinges Formed by Proline and Glycine Motifs in Transmembrane Helices Bright, Joanne N.; Sansom, Mark S. P. The Journal of Physical Chemistry B, Vol. 107, Issue 2 https://doi.org/10.1021/jp026686u	journal	December 2002
Crystal structure of horseradish peroxidase C at 2.15 Å resolution Gajhede, Michael; Schuller, David J.; Henriksen, Anette Nature Structural Biology, Vol. 4, Issue 12 https://doi.org/10.1038/nsb1297-1032	journal	December 1997
Heme Enzyme Structure and Function Poulos, Thomas L. Chemical Reviews, Vol. 114, Issue 7 https://doi.org/10.1021/cr400415k	journal	January 2014
Influences of the heme-lysine crosslink in cytochrome P460 over redox catalysis and nitric oxide sensitivity Vilbert, Avery C.; Caranto, Jonathan D.; Lancaster, Kyle M. Chemical Science, Vol. 9, Issue 2 https://doi.org/10.1039/c7sc03450d	journal	January 2018
The Sulfonium Ion Linkage in Myeloperoxidase Kooter, Ingeborg M.; Moguilevsky, Nicole; Bollen, Alex Journal of Biological Chemistry, Vol. 274, Issue 38 https://doi.org/10.1074/jbc.274.38.26794	journal	September 1999
X-ray Crystal Structure and Characterization of Halide-binding Sites of Human Myeloperoxidase at 1.8 Å Resolution Fiedler, Tristan J.; Davey, Curt A.; Fenna, Roger E. Journal of Biological Chemistry, Vol. 275, Issue 16 https://doi.org/10.1074/jbc.275.16.11964	journal	April 2000
Controlling a burn: outer-sphere gating of hydroxylamine oxidation by a distal base in cytochrome P460 Smith, Meghan A.; Majer, Sean H.; Vilbert, Avery C. Chemical Science, Vol. 10, Issue 13 https://doi.org/10.1039/c9sc00195f	journal	January 2019
Heme P460: A (Cross) Link to Nitric Oxide Coleman, Rachael E.; Lancaster, Kyle M. Accounts of Chemical Research, Vol. 53, Issue 12 https://doi.org/10.1021/acs.accounts.0c00573	journal	November 2020

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