Elucidating the Native Architecture of the YidC: Ribosome Complex

• Published in: Journal of molecular biology Vol. 425; no. 22; pp. 4112 - 4124
• Main Authors: Kedrov, Alexej, Sustarsic, Marko, de Keyzer, Jeanine, Caumanns, Joseph J., Wu, Zht Cheng, Driessen, Arnold J.M.
• Format: Journal Article
• Language: English
• Published: England Elsevier Ltd 15.11.2013
• Subjects: Detergents - chemistry; Escherichia coli Proteins - chemistry; Escherichia coli Proteins - metabolism; Kinetics; Lipid Bilayers - chemistry; Lipid Bilayers - metabolism; macromolecular assembly; membrane insertase; membrane protein; Membrane Transport Proteins - chemistry; Membrane Transport Proteins - metabolism; Models, Molecular; Multiprotein Complexes - chemistry; Multiprotein Complexes - metabolism; Protein Binding; Protein Conformation; Protein Multimerization; ribosome; Ribosomes - chemistry; Ribosomes - metabolism; single-molecule biophysics; Solutions - chemistry; macromolecular assembly; single-molecule biophysics; membrane insertase; RNC; FCS; membrane protein; ribosome; FRET; MSP; DDM; cryo-EM; FCCS; Förster resonance energy transfer; ribosome:nascent chain; fluorescence correlation spectroscopy; fluorescence cross-correlation spectroscopy; n-dodecyl β-d-maltoside; major scaffold protein; cryo-electron microscopy
• ISSN: 0022-2836; 1089-8638
• DOI: 10.1016/j.jmb.2013.07.042

Membrane protein biogenesis in bacteria occurs via dedicated molecular systems SecYEG and YidC that function independently and in cooperation. YidC belongs to the universally conserved Oxa1/Alb3/YidC family of membrane insertases and is believed to associate with translating ribosomes at the membrane surface. Here, we have examined the architecture of the YidC:ribosome complex formed upon YidC-mediated membrane protein insertion. Fluorescence correlation spectroscopy was employed to investigate the complex assembly under physiological conditions. A slightly acidic environment stimulates binding of detergent-solubilized YidC to ribosomes due to electrostatic interactions, while YidC acquires specificity for translating ribosomes at pH-neutral conditions. The nanodisc reconstitution of the YidC to embed it into a native phospholipid membrane environment strongly enhances the YidC:ribosome complex formation. A single copy of YidC suffices for the binding of translating ribosome both in detergent and at the lipid membrane interface, thus being the minimal functional unit. Data reveal molecular details on the insertase functioning and interactions and suggest a new structural model for the YidC:ribosome complex. [Display omitted] •A single copy of YidC binds a translating ribosome in detergent and at the lipid membrane interface.•The YidC:ribosome interaction is determined by the presence of a substrate nascent chain.•The C-terminus of YidC stimulates ribosome:nascent chain binding and substrate insertion.•The lipid bilayer strongly stimulates the YidC:ribosome:nascent chain assembly.