Journal: Nat Microbiol / Year: 2023 Title: Structure of Geobacter cytochrome OmcZ identifies mechanism of nanowire assembly and conductivity. Authors: Yangqi Gu / Matthew J Guberman-Pfeffer / Vishok Srikanth / Cong Shen / Fabian Giska / Kallol Gupta / Yuri Londer / Fadel A Samatey / Victor S Batista / Nikhil S Malvankar / Abstract: OmcZ nanowires produced by Geobacter species have high electron conductivity (>30 S cm). Of 111 cytochromes present in G. sulfurreducens, OmcZ is the only known nanowire-forming cytochrome ...OmcZ nanowires produced by Geobacter species have high electron conductivity (>30 S cm). Of 111 cytochromes present in G. sulfurreducens, OmcZ is the only known nanowire-forming cytochrome essential for the formation of high-current-density biofilms that require long-distance (>10 µm) extracellular electron transport. However, the mechanisms underlying OmcZ nanowire assembly and high conductivity are unknown. Here we report a 3.5-Å-resolution cryogenic electron microscopy structure for OmcZ nanowires. Our structure reveals linear and closely stacked haems that may account for conductivity. Surface-exposed haems and charge interactions explain how OmcZ nanowires bind to diverse extracellular electron acceptors and how organization of nanowire network re-arranges in different biochemical environments. In vitro studies explain how G. sulfurreducens employ a serine protease to control the assembly of OmcZ monomers into nanowires. We find that both OmcZ and serine protease are widespread in environmentally important bacteria and archaea, thus establishing a prevalence of nanowire biogenesis across diverse species and environments.
Average exposure time: 0.2 sec. / Electron dose: 1.2 e/Å2 / Detector mode: SUPER-RESOLUTION / Film or detector model: GATAN K3 (6k x 4k) / Num. of grids imaged: 1 / Num. of real images: 14508
EM imaging optics
Energyfilter name: GIF Bioquantum / Energyfilter slit width: 20 eV
Resolution: 3.4 Å / Resolution method: FSC 0.143 CUT-OFF / Num. of particles: 128409 / Algorithm: FOURIER SPACE / Symmetry type: HELICAL
Atomic model building
Protocol: AB INITIO MODEL / Space: REAL / Target criteria: Correlation coefficient Details: Initial fitting was done with Chimera and refinement was done in Phenix
Refine LS restraints
Refine-ID
Type
Dev ideal
Number
ELECTRONMICROSCOPY
f_bond_d
0.013
7188
ELECTRONMICROSCOPY
f_angle_d
1.297
10191
ELECTRONMICROSCOPY
f_dihedral_angle_d
21.826
987
ELECTRONMICROSCOPY
f_chiral_restr
0.067
915
ELECTRONMICROSCOPY
f_plane_restr
0.009
1179
+
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