Polymerization cycle of actin homolog MreB from a Gram-positive bacterium

In most rod-shaped bacteria, the actin homologue MreB is an essential component of the protein complex effecting cell wall elongation. The polymerization cycle and filament properties of eukaryotic actin have studied for decades and are well characterized. However, purification and in vitro work on MreB proteins have proven very difficult. Current knowledge of MreB biochemical and polymerization properties remains limited and is based on MreB proteins from Gram-negative species. In this study, we report the first observation of organized filaments and the first 3D-structure of MreB from a Gram-positive bacterium. We have purified MreB from the thermophilic Geobacillus stearothermophilus and shown that it forms straight pairs of protofilaments in vitro, and that polymerization depends on the presence of both lipids and nucleotide triphosphate. Two spatially close short hydrophobic sequences mediate membrane anchoring. Importantly, we demonstrate that unlike eukaryotic actin, nucleotide hydrolysis is a prerequisite for MreB interaction with the membrane, and that binding to lipids then triggers polymerization. Based on our results, we propose a molecular model for the mechanism of MreB polymerization.

[1]  P. Gayathri,et al.  MreB5 Is a Determinant of Rod-to-Helical Transition in the Cell-Wall-less Bacterium Spiroplasma , 2020, Current Biology.

[2]  P. Graumann,et al.  Polymerization of Bacillus subtilis MreB on a lipid membrane reveals lateral co-polymerization of MreB paralogs and strong effects of cations on filament formation , 2020, BMC Molecular and Cell Biology.

[3]  A. Libchaber,et al.  Membrane molecular crowding enhances MreB polymerization to shape synthetic cells from spheres to rods , 2020, Proceedings of the National Academy of Sciences.

[4]  Randy J. Read,et al.  Macromolecular structure determination using X-rays, neutrons and electrons: recent developments in Phenix , 2019, Acta crystallographica. Section D, Structural biology.

[5]  Michael F. Dion,et al.  Bacillus subtilis cell diameter is determined by the opposing actions of two distinct cell wall synthetic systems , 2019, Nature Microbiology.

[6]  Rut Carballido-López,et al.  MreB Forms Subdiffraction Nanofilaments during Active Growth in Bacillus subtilis , 2019, mBio.

[7]  A. Amir,et al.  MreB filaments align along greatest principal membrane curvature to orient cell wall synthesis , 2018, eLife.

[8]  E. Garner,et al.  Evolution of polymer formation within the actin superfamily , 2017, Molecular biology of the cell.

[9]  Christopher B. Stanley,et al.  Bacillus subtilis Lipid Extract, A Branched-Chain Fatty Acid Model Membrane. , 2017, The journal of physical chemistry letters.

[10]  V. Fromion,et al.  Contrasting mechanisms of growth in two model rod-shaped bacteria , 2017, Nature Communications.

[11]  R. Robinson,et al.  Large-scale purification and in vitro characterization of the assembly of MreB from Leptospira interrogans. , 2016, Biochimica et biophysica acta.

[12]  E. Peterman,et al.  MreB-Dependent Organization of the E. coli Cytoplasmic Membrane Controls Membrane Protein Diffusion , 2016, Biophysical journal.

[13]  Natalie A. Dye,et al.  A Caulobacter MreB mutant with irregular cell shape exhibits compensatory widening to maintain a preferred surface area to volume ratio , 2014, Molecular microbiology.

[14]  Xavier Robert,et al.  Deciphering key features in protein structures with the new ENDscript server , 2014, Nucleic Acids Res..

[15]  M. Thanbichler,et al.  Nucleotide‐independent cytoskeletal scaffolds in bacteria , 2013, Cytoskeleton.

[16]  D. Weibel,et al.  MinD and MinE Interact with Anionic Phospholipids and Regulate Division Plane Formation in Escherichia coli* , 2012, The Journal of Biological Chemistry.

[17]  Rut Carballido-López,et al.  The actin-like MreB proteins in Bacillus subtilis: a new turn. , 2012, Frontiers in bioscience.

[18]  Diethelm Johannsmann,et al.  Hearing what you cannot see and visualizing what you hear: interpreting quartz crystal microbalance data from solvated interfaces. , 2011, Analytical chemistry.

[19]  H. Sahl,et al.  Functional Analysis of the Cytoskeleton Protein MreB from Chlamydophila pneumoniae , 2011, PloS one.

[20]  P. D. de Boer,et al.  Direct Membrane Binding by Bacterial Actin MreB , 2011, Molecular cell.

[21]  V. Fromion,et al.  Processive Movement of MreB-Associated Cell Wall Biosynthetic Complexes in Bacteria , 2011, Science.

[22]  X. Zhuang,et al.  Coupled, Circumferential Motions of the Cell Wall Synthesis Machinery and MreB Filaments in B. subtilis , 2011, Science.

[23]  J. Shaevitz,et al.  The structure and function of bacterial actin homologs. , 2010, Cold Spring Harbor perspectives in biology.

[24]  P. Emsley,et al.  Features and development of Coot , 2010, Acta crystallographica. Section D, Biological crystallography.

[25]  D. G. Gibson,et al.  Enzymatic assembly of DNA molecules up to several hundred kilobases , 2009, Nature Methods.

[26]  K. J. Amann,et al.  Assembly properties of the Bacillus subtilis actin, MreB. , 2009, Cell motility and the cytoskeleton.

[27]  J. Svobodová,et al.  Development of membrane lipids in the surfactin producer Bacillus subtilis , 2008, Folia Microbiologica.

[28]  K. J. Amann,et al.  Polymerization properties of the Thermotoga maritima actin MreB: roles of temperature, nucleotides, and ions. , 2008, Biochemistry.

[29]  K. Henrick,et al.  Inference of macromolecular assemblies from crystalline state. , 2007, Journal of molecular biology.

[30]  Yu-Ling Shih,et al.  The Bacterial Cytoskeleton , 2006, Microbiology and Molecular Biology Reviews.

[31]  D. Wirtz,et al.  GTPase Activity, Structure, and Mechanical Properties of Filaments Assembled from Bacterial Cytoskeleton Protein MreB , 2006, Journal of bacteriology.

[32]  D. Wirtz,et al.  The Assembly of MreB, a Prokaryotic Homolog of Actin* , 2005, Journal of Biological Chemistry.

[33]  K Henrick,et al.  Secondary-structure matching (SSM), a new tool for fast protein structure alignment in three dimensions. , 2004, Acta crystallographica. Section D, Biological crystallography.

[34]  H. Schüler ATPase activity and conformational changes in the regulation of actin. , 2001, Biochimica et biophysica acta.

[35]  Jan Löwe,et al.  Prokaryotic origin of the actin cytoskeleton , 2001, Nature.

[36]  J. Errington,et al.  Control of Cell Shape in Bacteria Helical, Actin-like Filaments in Bacillus subtilis , 2001, Cell.

[37]  T. Pollard,et al.  Polymerization and structure of nucleotide-free actin filaments. , 2000, Journal of molecular biology.

[38]  W Chiu,et al.  EMAN: semiautomated software for high-resolution single-particle reconstructions. , 1999, Journal of structural biology.

[39]  P Bork,et al.  An ATPase domain common to prokaryotic cell cycle proteins, sugar kinases, actin, and hsp70 heat shock proteins. , 1992, Proceedings of the National Academy of Sciences of the United States of America.

[40]  D. Pantaloni,et al.  Direct evidence for ADP-Pi-F-actin as the major intermediate in ATP-actin polymerization. Rate of dissociation of Pi from actin filaments. , 1986, Biochemistry.

[41]  K. Kometani,et al.  The initial phosphate burst in ATP hydrolysis by myosin and subfragment-1 as studied by a modified malachite green method for determination of inorganic phosphate. , 1986, Journal of biochemistry.

[42]  R. Cooke,et al.  Interaction of actin with analogs of adenosine triphosphate. , 1973, Biochemistry.

[43]  L. van Deenen,et al.  Phospholipid Composition of Bacillus subtilis , 1969, Journal of bacteriology.

[44]  D. G. Bishop,et al.  The chemical composition of the cytoplasmic membrane of Bacillus subtilis. , 1967, European journal of biochemistry.

[45]  F. Oosawa,et al.  POLYMERIZATION OF ACTIN FREE FROM NUCLEOTIDES AND DIVALENT CATIONS. , 1965, Biochimica et biophysica acta.

[46]  H. Weber,et al.  THE RELATIVE AFFINITIES OF NUCLEOTIDES TO G-ACTIN AND THEIR EFFECTS. , 1964, Biochimica et biophysica acta.

[47]  Hyunjoong Kim,et al.  Functional Analysis I , 2017 .

[48]  Rut Carballido-López The Actin-like MreB 'Cytoskeleton' , 2017 .

[49]  O. Geiger,et al.  Bacterial membrane lipids: diversity in structures and pathways. , 2016, FEMS microbiology reviews.

[50]  T. N. Bhat,et al.  The Protein Data Bank , 2000, Nucleic Acids Res..

[51]  A Leith,et al.  SPIDER and WEB: processing and visualization of images in 3D electron microscopy and related fields. , 1996, Journal of structural biology.

[52]  E. Korn,et al.  Actin polymerization and ATP hydrolysis. , 1987, Science.