Author

Gabriel Umaji Oka

Universidade de São PauloORCID 0000-0002-1943-7259Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Microbiology· 2 Bioinformatics· 1

Signature Assays, Organisms & Methods

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Organism:bacteria (other)· 3 Approach:experimental assay· 3 Research Focus:protein folding & dynamics· 2 Research Focus:cell type annotation· 1 Research Focus:cell-cell communication· 1 Research Focus:chromatin & epigenetic regulation· 1 Assay:cryo-EM· 1 Research Focus:protein structure prediction· 1

Frequent Co-Authors

Wenny Camilla dos Santos AdaniD· 2 shared Axel SiroyiD· 1 shared Celso Vitor Alves Queiroz CalomenoiD· 1 shared Chuck S. FarahiD· 1 shared Diorge Paulo de SouzaiD· 1 shared Esther MarzaiD· 1 shared Francesca GubelliniiD· 1 shared Nathanaël Benoit· 1 shared

Activity by Year

2025-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 16 mutual co-author links

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2 shared papersBioinformatics

Wenny Camilla dos Santos AdanORCID

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3 papers

Recent·Most cited

BioinformaticsbioRxivPreprintAug 26, 2026

ppigFinder: an integrated desktop application for bacterial genome annotation and AlphaFold 3 based protein protein interaction screening

Gabriel Umaji Oka, Wenny Camilla dos Santos Adan, Celso Vitor Alves Queiroz Calomeno, Robson Francisco de Souza

ppigFinder integrates genome annotation and AlphaFold 3 for PPI screening, identifying high-confidence interactions in Xanthomonas citri.

DOI 10.64898/2026.08.23.746524

bacteria (other)whole-genome sequencing

𝕏 PostBluesky

MicrobiologybioRxivPreprintMay 10, 2026

To Kill or not to Kill: A Conserved trans-intoxication protection factor Blocks X-T4SS-Mediated Fratricide through Interaction with VirB5

Gabriel Umaji Oka, Wenny Camilla dos Santos Adan, Thiago Rodrigo dos Santos…·Chuck S. Farah

The paper identifies XAC2611 as a conserved protein that prevents fratricide by blocking X-T4SS-mediated toxin delivery in Xanthomonas citri.

1 citation

bacteria (other)proteomics

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MicrobiologyScience AdvancesPeer-reviewedNov 21, 2025

A ubiquitin-like protein controls assembly of a bacterial Type VIIb secretion system

Gabriel Umaji Oka, Nathanaël Benoit, Axel Siroy…·Rémi Fronzes

This study presents the cryo-EM structure of a bacterial Type VIIb secretion system core complex, showing how a ubiquitin-like protein coordinates its assembly and function.

4 citations

bacteria (other)cryo-EM

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