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Article
Open AccessGATD3A, a mitochondrial deglycase with evolutionary origins from gammaproteobacteria, restricts the formation of advanced glycation end products
Functional complexity of the eukaryotic mitochondrial proteome is augmented by independent gene acquisition from bacteria since its endosymbiotic origins. Mammalian homologs of many ancestral mitochondrial pro...
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Article
Ribosome collisions induce mRNA cleavage and ribosome rescue in bacteria
Ribosome rescue pathways recycle stalled ribosomes and target problematic mRNAs and aborted proteins for degradation1,2. In bacteria, it remains unclear how rescue pathways distinguish ribosomes stalled in the mi...
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Article
Open AccessAntigen Discovery, Bioinformatics and Biological Characterization of Novel Immunodominant Babesia microti Antigens
Babesia microti is an intraerythrocytic parasite and the primary causative agent of human babesiosis. It is transmitted by Ixodes ticks, transfusion of blood and blood products, organ donation, and perinatally. D...
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Article
TET methylcytosine oxidases: new insights from a decade of research
In mammals, DNA methyltransferases transfer a methyl group from S-adenosylmethionine to the 5 position of cytosine in DNA. The product of this reaction, 5-methylcytosine (5mC), has many roles, particularly in ...
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Article
Structural basis of HMCES interactions with abasic DNA and multivalent substrate recognition
Embryonic stem cell-specific 5-hydroxymethylcytosine-binding protein (HMCES) can covalently cross-link to abasic sites in single-stranded DNA at stalled replication forks to prevent genome instability. Here, w...
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Article
Open AccessRetraction Note: Vibrio parahaemolyticus RhsP represents a widespread group of pro-effectors for type VI secretion systems
This paper has been retracted.
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Article
Open AccessGenome sequencing and assessment of plant growth-promoting properties of a Serratia marcescens strain isolated from vermicompost
Plant-bacteria associations have been extensively studied for their potential in increasing crop productivity in a sustainable manner. Serratia marcescens is a species of Enterobacteriaceae found in a wide range ...
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Article
Open Access"RETRACTED ARTICLE: Vibrio parahaemolyticus RhsP represents a widespread group of pro-effectors for type VI secretion systems
Type VI secretion systems (T6SSs) translocate effector proteins, such as Rhs toxins, to eukaryotic cells or prokaryotic competitors. All T6SS Rhs-type effectors characterized thus far contain a PAAR motif or a...
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Article
Variations on a theme: evolution of the phage-shock-protein system in Actinobacteria
The phage shock protein (Psp) stress-response system protects bacteria from envelope stress through a cascade of interactions with other proteins and membrane lipids to stabilize the cell membrane. A key compo...
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Article
Vms1 and ANKZF1 peptidyl-tRNA hydrolases release nascent chains from stalled ribosomes
Ribosomal surveillance pathways scan for ribosomes that are transiently paused or terminally stalled owing to structural elements in mRNAs or nascent chain sequences1, 2. Some stalls in budding yeast are sensed b...
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Article
Open AccessEvolutionary convergence and divergence in archaeal chromosomal proteins and Chromo-like domains from bacteria and eukaryotes
SH3-fold-β-barrel domains of the chromo-like superfamily recognize epigenetic marks in eukaryotic proteins. Their provenance has been placed either in archaea, based on apparent structural similarity to chroma...
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Article
Erratum: THEMIS enhances TCR signaling and enables positive selection by selective inhibition of the phosphatase SHP-1
Nat. Immunol.; doi:10.1038/ni.3692; corrected online 7 March 2017 In the version of this article initially published online, in the second sentence of the first paragraph of the third subsection of Results ('D...
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Article
THEMIS enhances TCR signaling and enables positive selection by selective inhibition of the phosphatase SHP-1
Love and colleagues show that THEMIS enhances the TCR signaling response to low-affinity ligands by inhibiting the tyrosine-phosphatase activity of SHP-1.
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Article
The mechanism of force transmission at bacterial focal adhesion complexes
Various rod-shaped bacteria mysteriously glide on surfaces in the absence of appendages such as flagella or pili. In the deltaproteobacterium Myxococcus xanthus, a putative gliding motility machinery (the Agl–Glt...
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Article
Open AccessThe eukaryotic translation initiation regulator CDC123 defines a divergent clade of ATP-grasp enzymes with a predicted role in novel protein modifications
Deciphering the origin of uniquely eukaryotic features of sub-cellular systems, such as the translation apparatus, is critical in reconstructing eukaryogenesis. One such feature is the highly conserved, but po...
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Article
Open AccessStructure and sequence analyses of Bacteroides proteins BVU_4064 and BF1687 reveal presence of two novel predominantly-beta domains, predicted to be involved in lipid and cell surface interactions
N-terminal domains of BVU_4064 and BF1687 proteins from Bacteroides vulgatus and Bacteroides fragilis respectively are members of the Pfam family PF12985 (DUF3869). Proteins containing a domain from this family c...
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Chapter
The Natural History of ADP-Ribosyltransferases and the ADP-Ribosylation System
Catalysis of NAD+-dependent ADP-ribosylation of proteins, nucleic acids, or small molecules has evolved in at least three structurally unrelated superfamilies of enzymes, namely ADP-ribosyltransferase (ART), the ...
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Article
Multiple enzymatic activities of ParB/Srx superfamily mediate sexual conflict among conjugative plasmids
Conjugative plasmids are typically locked in intergenomic and sexual conflicts with co-resident rivals, whose translocation they block using fertility inhibition factors (FINs). We describe here the first crys...
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Article
Open AccessStructure and computational analysis of a novel protein with metallopeptidase-like and circularly permuted winged-helix-turn-helix domains reveals a possible role in modified polysaccharide biosynthesis
CA_C2195 from Clostridium acetobutylicum is a protein of unknown function. Sequence analysis predicted that part of the protein contained a metallopeptidase-related domain. There are over 200 homologs of similar ...
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Article
Open AccessLUD, a new protein domain associated with lactate utilization
A novel highly conserved protein domain, DUF162 [Pfam: PF02589], can be mapped to two proteins: LutB and LutC. Both proteins are encoded by a highly conserved LutABC operon, which has been implicated in lactat...
