Slx8 removes Pli1-dependent protein-SUMO conjugates including SUMOylated Topoisomerase I to promote genome stability

Peer reviewedPublisher PD

Interoperability in Open IoT Platforms: WoT-FIWARE Comparison and Integration

The rapid and exponential growth of the Internet of Things (IoT) has been generating a new breed of technologies that introduce several different protocols and interfaces. The Web of Things (WoT) architecture stands out as an emerging and poten- tial solution to improve interoperability across IoT platforms by describing well-defined software interfaces. However, few studies analyze and compare WoT to other interoperability solutions proposed in the IoT literature. In this paper, we attempt to bridge the gap by three main contributions. First, we qualitative compare the WoT approach with the well-known FIWARE- based interoperability solution.Second, based on the previous analysis, we design and implement a connector to bridge the WoT architecture to the FIWARE ecosystem. Third, we conduct a performance analysis emulating a real IoT-based environment to understand scalability, response time, and computer resource usage of the two interoperability solutions. The results reveal that conceptual design choices impact the applications’ performance: the WoT architecture effectively enables interoperability across IoT Platforms, though it incorporates several characteristics that hinder the implementation of applications. On the other hand, the FIWARE IoT Agent solution is platform-specific. Hence new implementations are needed for each different IoT data model

MINDY-1 is a member of an evolutionarily conserved and structurally distinct new family of Deubiquitinating enzymes

Deubiquitinating enzymes (DUBs) remove ubiquitin (Ub) from Ub-conjugated substrates to regulate the functional outcome of ubiquitylation. Here we report the discovery of a new family of DUBs, which we have named MINDY (motif interacting with Ub-containing novel DUB family). Found in all eukaryotes, MINDY-family DUBs are highly selective at cleaving K48-linked polyUb, a signal that targets proteins for degradation. We identify the catalytic activity to be encoded within a previously unannotated domain, the crystal structure of which reveals a distinct protein fold with no homology to any of the known DUBs. The crystal structure of MINDY-1 (also known as FAM63A) in complex with propargylated Ub reveals conformational changes that realign the active site for catalysis. MINDY-1 prefers cleaving long polyUb chains and works by trimming chains from the distal end. Collectively, our results reveal a new family of DUBs that may have specialized roles in regulating proteostasis

Mechanism and disease-association of E2 conjugating enzymes:lessons from UBE2T and UBE2L3

Ubiquitin signalling is a fundamental eukaryotic regulatory system, controlling diverse cellular functions. A cascade of E1, E2, and E3 enzymes is required for assembly of distinct signals, whereas an array of deubiquitinases and ubiquitin-binding modules edit, remove, and translate the signals. In the centre of this cascade sits the E2-conjugating enzyme, relaying activated ubiquitin from the E1 activating enzyme to the substrate, usually via an E3 ubiquitin ligase. Many disease states are associated with dysfunction of ubiquitin signalling, with the E3s being a particular focus. However, recent evidence demonstrates that mutations or impairment of the E2s can lead to severe disease states, including chromosome instability syndromes, cancer predisposition, and immunological disorders. Given their relevance to diseases, E2s may represent an important class of therapeutic targets. In the present study, we review the current understanding of the mechanism of this important family of enzymes, and the role of selected E2s in disease

Mechanisms of regulation and diversification of deubiquitylating enzyme function

Deubiquitinating enzymes (DUBs) are proteases that reverse protein ubiquitylation and therefore modulate the outcome of this posttranslational modification. DUBs regulate a variety of intracellular processes, including protein turnover, signalling pathways and the DNA damage response. They have also been linked to a number of human diseases, such as cancer, and inflammatory and neurodegenerative disorders. Although we are beginning to better appreciate the role of DUBs in basic cell biology and their importance for human health, there are still many unknowns. Central among these is the conundrum of how the small number of ∼100 DUBs encoded in the human genome is capable of regulating the thousands of ubiquitin modification sites detected at steady-state conditions in human cells. This Commentary addresses the biological mechanisms employed to modulate and expand the functions of DUBs, and sets directions for future research aimed at elucidating the details of these fascinating processes

A Microfluidic Device for the Investigation of Rapid Gold Nanoparticle Formation in Continuous Turbulent Flow

A new setup with an integrated microfluidic chip with small dead time, high time resolution and compatibility with in situ X-ray absorption (XAS) measurements is presented. It can also be combined with a free liquid jet. By using the microfluidic chip the short reaction times from 2 to 20 milliseconds can be observed, beyond that an external cyclone mixer for extended observation times was applied. The reduction of gold ions with tetrakis(hydroxy-methyl)phosphonium (THPC) has been investigated in the microfluidic setup to monitor this reaction yielding small gold nanoparticles, requiring preferentially a free liquid jet