Protein Repeats from First Principles

Some natural proteins display recurrent structural patterns. Despite being highly similar at the tertiary structure level, repeating patterns within a single repeat protein can be extremely variable at the sequence level. We use a mathematical definition of a repetition and investigate the occurrences of these in sequences of different protein families. We found that long stretches of perfect repetitions are infrequent in individual natural proteins, even for those which are known to fold into structures of recurrent structural motifs. We found that natural repeat proteins are indeed repetitive in their families, exhibiting abundant stretches of 6 amino acids or longer that are perfect repetitions in the reference family. We provide a systematic quantification for this repetitiveness. We show that this form of repetitiveness is not exclusive of repeat proteins, but also occurs in globular domains. A by-product of this work is a fast quantification of the likelihood of a protein to belong to a family.Fil: Turjanski, Pablo Guillermo. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales. Departamento de Computación; ArgentinaFil: Parra, Rodrigo Gonzalo. Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Ciudad Universitaria. Instituto de Química Biológica de la Facultad de Ciencias Exactas y Naturales. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales. Instituto de Química Biológica de la Facultad de Ciencias Exactas y Naturales; ArgentinaFil: Espada, Rocío. Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Ciudad Universitaria. Instituto de Química Biológica de la Facultad de Ciencias Exactas y Naturales. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales. Instituto de Química Biológica de la Facultad de Ciencias Exactas y Naturales; ArgentinaFil: Becher, Veronica Andrea. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales. Departamento de Computación; ArgentinaFil: Ferreiro, Diego. Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Ciudad Universitaria. Instituto de Química Biológica de la Facultad de Ciencias Exactas y Naturales. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales. Instituto de Química Biológica de la Facultad de Ciencias Exactas y Naturales; Argentin

Automatic verification of timing constraints for safety critical space systems

DASIA 2015, DAta Systems In Aerospace, 19-21 May, 2015, Barcelona, SpainIn this paper is presented an automatic process of verification. We focus in the verification of scheduling analysis parameter. This proposal is part of process based on Model Driven Engineering to automate a Verification and Validation process of the software on board of satellites. This process is implemented in a software control unit of the energy particle detector which is payload of Solar Orbiter mission. From the design model is generated a scheduling analysis model and its verification model. The verification as defined as constraints in way of Finite Timed Automatas. When the system is deployed on target the verification evidence is extracted as instrumented points. The constraints are fed with the evidence, if any of the constraints is not satisfied for the on target evidence the scheduling analysis is not valid.Ministerio de Economía y Competitivida

Memory management unit for hardware-assisted dynamic relocation in on-board satellite systems

Satellite on-board systems spend their lives in hostile environments, where radiation can cause critical hardware failures. One of the most radiation-sensitive elements is memory. The so-called single event effects (SEEs) can corrupt or even irretrievably damage the cells that store the data and program instructions. When one of these cells is corrupted, the program must not use it again during execution. In order to avoid rebuilding and uploading the code, a memory management unit can be used to transparently relocate the program to an error-free memory region. This article presents the design and implementation of a memory management unit that allows the dynamic relocation of on-board software. This unit provides a hardware mechanism that allows the automatic relocation of sections of code or data at run-time, only requiring software intervention for initialization and configuration. The unit has been implemented on the LEON architecture, a reference for the European Space Agency (ESA) missions. The proposed solution has been validated using the boot and application software (ASW) of the instrument control unit of the Energetic Particle Detector of the Solar Orbiter Mission as a base. Processor synthesis on different FPGAs has shown resource usage and power consumption similar to that of a conventional memory management unit. The results vary between ± 1?15% in resource usage and ± 1?7% in power consumption, depending on the number of inputs assigned to the unit and the FPGA used. When comparing performance, both the proposed and conventional memory management units show the same results.Universidad de Alcal

First near-relativistic solar electron events observed by EPD onboard Solar Orbiter

Context. Solar Orbiter, launched in February 2020, started its cruise phase in June 2020, in coincidence with its first perihelion at 0.51 au from the Sun. The in situ instruments onboard, including the Energetic Particle Detector (EPD), operate continuously during the cruise phase enabling the observation of solar energetic particles. Aims. In situ measurements of the first near-relativistic solar electron events observed in July 2020 by EPD are analyzed and the solar origins and the conditions for the interplanetary transport of these particles investigated. Methods. Electron observations from keV energies to the near-relativistic range were combined with the detection of type III radio bursts and extreme ultraviolet (EUV) observations from multiple spacecraft in order to identify the solar origin of the electron events. Electron anisotropies and timing as well as the plasma and magnetic field environment were evaluated to characterize the interplanetary transport conditions. Results. All electron events were clearly associated with type III radio bursts. EUV jets were also found in association with all of them except one. A diversity of time profiles and pitch-angle distributions was observed. Different source locations and different magnetic connectivity and transport conditions were likely involved. The July 11 event was also detected by Wind, separated 107 degrees in longitude from Solar Orbiter. For the July 22 event, the Suprathermal Electron and Proton sensor of EPD allowed for us to not only resolve multiple electron injections at low energies, but it also provided an exceptionally high pitch-angle resolution of a very anisotropic beam. This, together with radio observations of local Langmuir waves suggest a very good magnetic connection during the July 22 event. This scenario is challenged by a high-frequency occultation of the type III radio burst and a nominally non-direct connection to the source; therefore, magnetic connectivity requires further investigation.Agencia Estatal de Investigació

The first widespread solar energetic particle event observed by Solar Orbiter on 2020 November 29

Context. On 2020 November 29, the first widespread solar energetic particle (SEP) event of solar cycle 25 was observed at four widely separated locations in the inner (.1 AU) heliosphere. Relativistic electrons as well as protons with energies >50 MeV were observed by Solar Orbiter (SolO), Parker Solar Probe, the Solar Terrestrial Relations Observatory (STEREO)-A and multiple near-Earth spacecraft. The SEP event was associated with an M4.4 class X-ray flare and accompanied by a coronal mass ejection and an extreme ultraviolet (EUV) wave as well as a type II radio burst and multiple type III radio bursts. Aims. We present multi-spacecraft particle observations and place them in context with source observations from remote sensing instruments and discuss how such observations may further our understanding of particle acceleration and transport in this widespread event. Methods. Velocity dispersion analysis (VDA) and time shift analysis (TSA) were used to infer the particle release times at the Sun. Solar wind plasma and magnetic field measurements were examined to identify structures that influence the properties of the energetic particles such as their intensity. Pitch angle distributions and first-order anisotropies were analyzed in order to characterize the particle propagation in the interplanetary medium. Results. We find that during the 2020 November 29 SEP event, particles spread over more than 230◦ in longitude close to 1 AU. The particle onset delays observed at the different spacecraft are larger as the flare–footpoint angle increases and are consistent with those from previous STEREO observations. Comparing the timing when the EUV wave intersects the estimated magnetic footpoints of each spacecraft with particle release times from TSA and VDA, we conclude that a simple scenario where the particle release is only determined by the EUV wave propagation is unlikely for this event. Observations of anisotropic particle distributions at SolO, Wind, and STEREO-A do not rule out that particles are injected over a wide longitudinal range close to the Sun. However, the low values of the first-order anisotropy observed by near-Earth spacecraft suggest that diffusive propagation processes are likely involved.Agencia Estatal de Investigació

TIC dans les techniques de recherche avancées caractérisation et information

Proyecto interfacultativo: Facultad de Ciencias Químicas Facultad de Ciencias Biológicas Facultad de Ciencias Políticas y Sociología Facultad de Ciencias de la Información Centro de Cálculo. Proyecto interdepartamental: Departamento de Química Inorgánica I Departamento de Genética Departamento de Sociología IV Departamento de Comunicación Audiovisual y Publicidad I Departamento Atos-CAU de Ciencias.Se emplean las TIC para describir la información proporcionada por difractogramas, espectros, micrografías, capturas de microscopía y diferentes gráficas obtenidos empleando técnicas avanzadas de caracterización. En un canal creado en YouTube se da difusión del trabajo realizado que se plasma en un conjunto de diez vídeos.TIC are used to describe the information provided by diffractograms, spectra, micrographs, microscope captures and graph differents obtained using advanced characterization techniques. A channel created on YouTube shows the work done which includes a set of ten videos.Les TIC sont utilisées pour décrire les informations fournies par diffractogrammes, spectres, micrographies, microscope et capture graphique and graphiques différents obtenus par l'utilisation de techniques avancées de caractérisation.Un canal créé sur YouTube montre le travail effectué qui comprend une série de dix vidéos.Depto. de Química InorgánicaFac. de Ciencias QuímicasFALSEsubmitte