8ZGO | pdb_00008zgo

CryoEM structure of monomeric quinol dependent nitric oxide reductase from Neisseria meningitidis


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.25 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report

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This is version 1.1 of the entry. See complete history

Literature

Structural basis of Neisseria meningitidis quinol dependent nitric oxide reductase activation by dimerization.

Gopalasingam, C.C.Egami, H.Shigematsu, H.Sakaue, M.Fukumoto, K.Gerle, C.Yamamoto, M.Shiro, Y.Muramoto, K.Tosha, T.

(2026) Commun Biol 9

  • DOI: https://doi.org/10.1038/s42003-026-09754-0
  • Primary Citation Related Structures: 
    8ZGO, 8ZGP

  • PubMed Abstract: 

    In all kingdoms of life, the regulation of membrane-bound enzyme function via oligomerization is a fundamental aspect of cell physiology. Often, the mechanistic role of oligomerization is unclear, due to a lack of structure-function comparisons between constituent forms of the enzyme. Here, we elucidate the structural underpinnings of enzyme regulation and oligomerization in the quinol-dependent nitric oxide reductase (qNOR) from Neisseria meningitidis, by high-resolution structural analyses of the less active monomeric form (2.25 Å) and the highly active dimeric form (1.89 Å). The comparison revealed that broad helical flexibility near the dimer interface of the monomer causes a conformational change in a critical amino acid near the active site, located apart from the dimer interface. We demonstrate that the crosstalk between the dimer interface and catalytic site in qNOR allows enhanced activation of the enzyme via dimerization. Given Neisseria meningitidis' dependence on qNOR to detoxify the host's immune response of nitric oxide, our results pave a way for new strategies to combat bacterial infections, via the inactivation of qNOR by monomerization. More broadly, this provides new insights into the role of membrane protein oligomerization and its influence on regulating activity.


  • Organizational Affiliation
    • Graduate School of Science, University of Hyogo, Kamigori, Hyogo, Japan. chai.gopalasingam@riken.jp.

Macromolecule Content 

  • Total Structure Weight: 85.72 kDa 
  • Atom Count: 5,980 
  • Modeled Residue Count: 742 
  • Deposited Residue Count: 751 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Nitric-oxide reductase751Neisseria meningitidis alpha14Mutation(s): 0 
Gene Names: norBNMO_1451
EC: 1.7.99.7
Membrane Entity: Yes 
UniProt
Find proteins for C6S880 (Neisseria meningitidis (strain alpha14))
Explore C6S880 
Go to UniProtKB:  C6S880
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupC6S880
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.25 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONcryoSPARC4.1.1
MODEL REFINEMENTPHENIX1.20

Structure Validation

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Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Japan Society for the Promotion of Science (JSPS)JapanJP19H05761
Japan Society for the Promotion of Science (JSPS)JapanJP20K22633

Revision History  (Full details and data files)

  • Version 1.0: 2025-05-14
    Type: Initial release
  • Version 1.1: 2026-04-08
    Changes: Data collection, Database references