9HWK

Structure of the Cytochrome o ubiquinol oxidase embedded in the nanodisc

Summary for 9HWK

• Entry DOI: 10.2210/pdb9hwk/pdb
• EMDB information: 52451
• Descriptor: Cytochrome bo(3) ubiquinol oxidase subunit 1, Cytochrome bo(3) ubiquinol oxidase subunit 2, Cytochrome bo(3) ubiquinol oxidase subunit 3, ... (8 entities in total)
• Functional Keywords: oxidase, electron transport
• Biological source: Escherichia coli; More
• Total number of polymer chains: 4
• Total formula weight: 145635.94

Authors

Mim, C.,Zhang, Q.,Murthy, A.V. (deposition date: 2025-01-05, release date: 2026-01-14, Last modification date: 2026-02-18)

Primary citation

Zhang, Q.,Murthy, A.V.,Mim, C.
Exploration of a workflow for the classification and identification of co-purified protein complexes yields new structures and multiple MSP assembly states.
Plos One, 21:e0340207-e0340207, 2026

PubMed Abstract: Native protein complexes have garnered interest as targets for structural dissemination. Cryogenic electron microscopy (cryo-EM) with its ability to image protein mixtures is the most promising tool to enable structural proteomics. Additionally, image processing has evolved and can deal with conformational and compositional heterogeneity. Integrative approaches, namely mass spectrometry in conjunction with cryo-EM, have made it possible to characterize and identify complex mixtures. However, this comes at a cost of generating models and interpreting mass spectra. Here we present a modified approach that builds on publicly available software. By generating maps around 4 Å and unsupervised model building we were able to identify the most abundant proteins in our sample. This sample consisted of co-purified membrane proteins in nanodiscs. We found a novel structure and unexpected nanodisc assemblies. Our maps imply a direct interaction between membrane proteins and membrane scaffolding proteins.

PubMed: 41592050
DOI: 10.1371/journal.pone.0340207

Experimental method

ELECTRON MICROSCOPY (2.72 Å)