The evolution of autophagy proteins–diversification in eukaryotes and potential ancestors in prokaryotes

S Zhang, Y Hama, N Mizushima - Journal of cell science, 2021 - journals.biologists.com
Autophagy is a degradative pathway for cytoplasmic constituents, and is conserved across
eukaryotes. Autophagy-related (ATG) genes have undergone extensive multiplications and …

Biosynthesis and functions of sulfur modifications in tRNA

N Shigi - Frontiers in genetics, 2014 - frontiersin.org
Sulfur is an essential element for a variety of cellular constituents in all living organisms. In
tRNA molecules, there are many sulfur-containing nucleosides, such as the derivatives of 2 …

Comparative genomic analyses reveal a vast, novel network of nucleotide-centric systems in biological conflicts, immunity and signaling

AM Burroughs, D Zhang, DE Schäffer… - Nucleic acids …, 2015 - academic.oup.com
Cyclic di-and linear oligo-nucleotide signals activate defenses against invasive nucleic
acids in animal immunity; however, their evolutionary antecedents are poorly understood …

E2/E3‐independent ubiquitin‐like protein conjugation by Urm1 is directly coupled to cysteine persulfidation

KE Ravichandran, L Kaduhr, B Skupien‐Rabian… - The EMBO …, 2022 - embopress.org
Post‐translational modifications by ubiquitin‐like proteins (UBLs) are essential for nearly all
cellular processes. Ubiquitin‐related modifier 1 (Urm1) is a unique UBL, which plays a key …

Roles of elongator dependent tRNA modification pathways in neurodegeneration and cancer

H Hawer, A Hammermeister, KE Ravichandran, S Glatt… - Genes, 2018 - mdpi.com
Transfer RNA (tRNA) is subject to a multitude of posttranscriptional modifications which can
profoundly impact its functionality as the essential adaptor molecule in messenger RNA …

Biosynthesis and degradation of sulfur modifications in tRNAs

N Shigi - International Journal of Molecular Sciences, 2021 - mdpi.com
Various sulfur-containing biomolecules include iron–sulfur clusters that act as cofactors for
enzymes, sulfur-containing vitamins such as thiamin, and sulfur-modified nucleosides in …

Shared sulfur mobilization routes for tRNA thiolation and molybdenum cofactor biosynthesis in prokaryotes and eukaryotes

S Leimkühler, M Bühning, L Beilschmidt - Biomolecules, 2017 - mdpi.com
Modifications of transfer RNA (tRNA) have been shown to play critical roles in the
biogenesis, metabolism, structural stability and function of RNA molecules, and the specific …

Structure-based mechanistic insights into catalysis by tRNA thiolation enzymes

O Bimai, S Arragain, B Golinelli-Pimpaneau - Current opinion in structural …, 2020 - Elsevier
Highlights•tRNA thiolation enzymes were thought to use a persulfide on a catalytic cysteine
as a sulfur source.•Several tRNA thiolation enzymes contain a [4Fe–4S] cluster acting as a …

Transfer RNA modification enzymes from thermophiles and their modified nucleosides in tRNA

H Hori, T Kawamura, T Awai, A Ochi, R Yamagami… - Microorganisms, 2018 - mdpi.com
To date, numerous modified nucleosides in tRNA as well as tRNA modification enzymes
have been identified not only in thermophiles but also in mesophiles. Because most …

Recent advances in our understanding of the biosynthesis of sulfur modifications in tRNAs

N Shigi - Frontiers in Microbiology, 2018 - frontiersin.org
Sulfur is an essential element in all living organisms. In tRNA molecules, there are many
sulfur-containing nucleosides, introduced post-transcriptionally, that function to ensure …