1 Bacterial and Archaeal Globins – a Revised Perspective

A bioinformatics survey of putative globins in over 2200 bacterial and some 140 archaeal genomes revealed that over half the bacterial and approximately one fifth of archaeal genomes contain genes encoding globins that were classified into three families: the M (myoglobin-like), and S (sensor) families all exhibiting the canonical 3/3 myoglobin fold, and the T family (truncated myoglobin fold). Although the M family comprises 2 subfamilies, flavohemoglobins (FHbs) and single domain globins (SDgbs), the S family encompasses chimeric globincoupled sensors (GCSs) and single domain Pgbs (protoglobins) and SSDgbs (sensor single domain globins). The T family comprises three classes TrHb1s,TrHb2s and TrHb3s, characterized by the abbreviated 2/2 myoglobin fold. The Archaea contain only Pgbs, GCSs and TrHb1s. The smallest globin-bearing genomes are the streamlined genomes ( 1.3 Mbp) of the SAR11 clade of alphaproteobacteria and the slightly larger (ca. 1.7 Mbp) genomes of Aquificae. The smallest genome with members of all three families is the 2.3 Mbp genome of the extremophile Methylacidiphilum infernorum (Verrumicrobia). Of the 147 possible combinations of the eight globin subfamilies, only 83 are observed. Although binary combinations are infrequent and ternary combinations are rare,the FHb+TrHb2 combination is the most commonly observed. Of the possible functions of bacterial globins we discuss the two principal ones nitric oxide detoxification via the NO dioxygenase or denitrosylase activities and the sensing of oxygen concentration in the environmental niche. In only few cases a physiological role has been demonstrated in vivo. DOI: https://doi.org/10.1016/j.bbapap.2013.03.021 Posted at the Zurich Open Repository and Archive, University of Zurich ZORA URL: https://doi.org/10.5167/uzh-81249 Accepted Version Originally published at: Vinogradov, S N; Tinajero-Trejo, M; Poole, R K; Hoogewijs, D (2013). Bacterial and archaeal globins — A revised perspective. Biochimica et Biophysica Acta, 1834(9):1789-1800. DOI: https://doi.org/10.1016/j.bbapap.2013.03.021 Bacterial and Archaeal Globins – a Revised Perspective Serge N. Vinogradov, Mariana Tinajero-Trejo, Robert K. Poole, David Hoogewijs PII: S1570-9639(13)00134-9 DOI: doi: 10.1016/j.bbapap.2013.03.021 Reference: BBAPAP 39076 To appear in: BBA Proteins and Proteomics Received date: 14 December 2012 Revised date: 12 February 2013 Accepted date: 16 March 2013 Please cite this article as: Serge N. Vinogradov, Mariana Tinajero-Trejo, Robert K. Poole, David Hoogewijs, Bacterial and Archaeal Globins – a Revised Perspective, BBA Proteins and Proteomics (2013), doi: 10.1016/j.bbapap.2013.03.021 This is a PDF file of an unedited manuscript that has been accepted for publication. As a service to our customers we are providing this early version of the manuscript. The manuscript will undergo copyediting, typesetting, and review of the resulting proof before it is published in its final form. Please note that during the production process errors may be discovered which could affect the content, and all legal disclaimers that apply to the journal pertain. AC C EP TE D M AN U SC R IP T ACCEPTED MANUSCRIPT 1 Bacterial and Archaeal Globins – a Revised Perspective Serge N. Vinogradov, Mariana Tinajero-Trejo, Robert K. Poole, David Hoogewijs* Department of Biochemistry and Molecular Biology, Wayne State University School of Medicine, Detroit, Michigan 48201, USA, Institute of Biology and Biotechnology, Department of Molecular Biology and Biotechnology, The University of Sheffield, Sheffield, United Kingdom, Institute of Physiology and Zürich Center for Integrative Human Physiology, University of Zürich, Zürich, Switzerland