Protein acetylation in metabolism—metabolites and cofactors

KJ Menzies, H Zhang, E Katsyuba… - Nature Reviews …, 2016 - nature.com
Reversible acetylation was initially described as an epigenetic mechanism regulating DNA
accessibility. Since then, this process has emerged as a controller of histone and nonhistone …

[HTML][HTML] Comparing protein abundance and mRNA expression levels on a genomic scale

D Greenbaum, C Colangelo, K Williams, M Gerstein - Genome biology, 2003 - Springer
Attempts to correlate protein abundance with mRNA expression levels have had variable
success. We review the results of these comparisons, focusing on yeast. In the process, we …

[HTML][HTML] Definition of a high-confidence mitochondrial proteome at quantitative scale

M Morgenstern, SB Stiller, P Lübbert, CD Peikert… - Cell reports, 2017 - cell.com
Mitochondria perform central functions in cellular bioenergetics, metabolism, and signaling,
and their dysfunction has been linked to numerous diseases. The available studies cover …

[HTML][HTML] COMPARTMENTS: unification and visualization of protein subcellular localization evidence

JX Binder, S Pletscher-Frankild, K Tsafou, C Stolte… - Database, 2014 - academic.oup.com
Information on protein subcellular localization is important to understand the cellular
functions of proteins. Currently, such information is manually curated from the literature …

Compartmentalization of metabolic pathways in yeast mitochondria improves the production of branched-chain alcohols

JL Avalos, GR Fink, G Stephanopoulos - Nature biotechnology, 2013 - nature.com
Efforts to improve the production of a compound of interest in Saccharomyces cerevisiae
have mainly involved engineering or overexpression of cytoplasmic enzymes. We show that …

WoLF PSORT: protein localization predictor

P Horton, KJ Park, T Obayashi, N Fujita… - Nucleic acids …, 2007 - academic.oup.com
WoLF PSORT is an extension of the PSORT II program for protein subcellular location
prediction. WoLF PSORT converts protein amino acid sequences into numerical localization …

Global analysis of protein localization in budding yeast

WK Huh, JV Falvo, LC Gerke, AS Carroll, RW Howson… - Nature, 2003 - nature.com
A fundamental goal of cell biology is to define the functions of proteins in the context of
compartments that organize them in the cellular environment. Here we describe the …

[HTML][HTML] A mitochondrial protein compendium elucidates complex I disease biology

DJ Pagliarini, SE Calvo, B Chang, SA Sheth, SB Vafai… - Cell, 2008 - cell.com
Mitochondria are complex organelles whose dysfunction underlies a broad spectrum of
human diseases. Identifying all of the proteins resident in this organelle and understanding …

Locating proteins in the cell using TargetP, SignalP and related tools

O Emanuelsson, S Brunak, G Von Heijne, H Nielsen - Nature protocols, 2007 - nature.com
Determining the subcellular localization of a protein is an important first step toward
understanding its function. Here, we describe the properties of three well-known N-terminal …

Microbial acetyl-CoA metabolism and metabolic engineering

A Krivoruchko, Y Zhang, V Siewers, Y Chen… - Metabolic …, 2015 - Elsevier
Recent concerns over the sustainability of petrochemical-based processes for production of
desired chemicals have fueled research into alternative modes of production. Metabolic …