Dataset Information

CryoEM movies of the catalytic subunit of Mo-nitrogenase (MoFeP) from Azotobacter vinelandii in the presence of 5 mM sodium dithionite under Al's oil

ABSTRACT:

SUBMITTER: Mark A Herzik, Jr

PROVIDER: EMPIAR-12748 | biostudies-other |

REPOSITORIES: biostudies-other

ACCESS DATA

Publications

Preparation of oxygen-sensitive proteins for high-resolution cryoEM structure determination using blot-free vitrification.

Cook Brian D BD Narehood Sarah M SM McGuire Kelly L KL Li Yizhou Y Akif Tezcan F F Herzik Mark A MA

Nature communications 20250414 1

High-quality grid preparation for single-particle cryogenic electron microscopy (cryoEM) remains a bottleneck for routinely obtaining high-resolution structures. The issues that arise from traditional grid preparation workflows are particularly exacerbated for oxygen-sensitive proteins, including metalloproteins, whereby oxygen-induced damage and alteration of oxidation states can result in protein inactivation, denaturation, and/or aggregation. Indeed, 99% of the current structures in the EMBD ...[more]

PMID: 40229244

Similar Datasets

Project description:Biological nitrogen fixation, the microbial reduction of atmospheric nitrogen to bioavailable ammonia, represents both a major limitation on biological productivity and a highly desirable engineering target for synthetic biology. However, the engineering of nitrogen fixation requires an integrated understanding of how the gene regulatory dynamics of host diazotrophs respond across sequence-function space of its central catalytic metalloenzyme, nitrogenase. Here, we interrogate this relationship by analyzing the transcriptome of Azotobacter vinelandii engineered with a phylogenetically inferred ancestral nitrogenase protein variant. The engineered strain exhibits reduced cellular nitrogenase activity but recovers wild-type growth rates following an extended lag period. We find that expression of genes within the immediate nitrogen fixation network is resilient to the introduced nitrogenase sequence-level perturbations. Rather the sustained physiological compatibility with the ancestral nitrogenase variant is accompanied by reduced expression of genes that support trace metal and electron resource allocation to nitrogenase. Our results spotlight gene expression changes in cellular processes adjacent to nitrogen fixation as productive engineering considerations to improve compatibility between remodeled nitrogenase proteins and engineered host diazotrophs. IMPORTANCE Azotobacter vinelandii is a key model bacterium for the study of biological nitrogen fixation, an important metabolic process catalyzed by nitrogenase enzymes. Here, we demonstrate that compatibilities between engineered A. vinelandii strains and nitrogenase variants can be modulated at the regulatory level. The engineered strain studied here responds by adjusting the expression of proteins involved in cellular processes adjacent to nitrogen fixation, rather than that of nitrogenase proteins themselves. These insights can inform future strategies to transfer nitrogenase variants to non-native hosts.

Dataset Information

CryoEM movies of the catalytic subunit of Mo-nitrogenase (MoFeP) from Azotobacter vinelandii in the presence of 5 mM sodium dithionite under Al's oil

Publications

Preparation of oxygen-sensitive proteins for high-resolution cryoEM structure determination using blot-free vitrification.

Similar Datasets

OmicsDI is part of the ELIXIR infrastructure

Tweets