Emergency stabilization of the pelvic ring: Clinical comparison between three different techniques

Background: Emergency devices for pelvic ring stabilization include circumferential sheets, pelvic binders, and c-clamps. Our knowledge of the outcome of these techniques is currently based on limited information. Methods: Using the dataset of the German Pelvic Trauma Registry, demographic and injury-associated characteristics as well as the outcome of pelvic fracture patients after sheet, binder, and c-clamp treatment was compared. Outcome parameters included transfusion requirement of packed red blood cells, length of hospital stay, mortality, and incidence of lethal pelvic bleeding. Results: Two hundred seven of 6137 (3.4%) patients documented in the German Pelvic Trauma Registry between April 30th 2004 and January 19th 2012 were treated by sheets, binders, or c-clamps. In most cases, c-clamps (69%) were used, followed by sheets (16%), and binders (15%). The median age was significantly lower in patients treated with binders than in patients treated with sheets or c-clamps (26 vs. 47 vs. 42 years, p = 0.01). Sheet wrapping was associated with a significantly higher incidence of lethal pelvic bleeding compared to binder or c-clamp stabilization (23% vs. 4% vs. 8%). No significant differences between the study groups were found in sex, fracture type, blood haemoglobin concentration, arterial blood pressure, Injury Severity Score, the incidence of additional pelvic packing and arterial embolization, need of red blood cell transfusion, length of hospitalisation, and mortality. Conclusions: The data suggest that emergency stabilization of the pelvic ring by binders and c-clamps is associated with a lower incidence of lethal pelvic bleeding compared to sheet wrapping.

Regulation of chromatin structure, Smad binding and AFP expression by the Forkhead box transcription factor: Foxa1

Transcription factors must be able to access their DNA binding sites to either activate or repress transcription. However, DNA wrapping and compaction into chromatin occludes most binding sites from ready access by proteins. Pioneer transcription factors are capable of binding their DNA elements within a condensed chromatin context and then reducing the level of nucleosome occupancy so that the chromatin structure is more accessible. This altered accessibility increases the probability of other transcription factors binding to their own DNA binding elements. My hypothesis is that Foxa1, a ‘pioneer’ transcription factor, activates alpha-fetoprotein (AFP) expression by binding DNA in a chromatinized environment, reducing the nucleosome occupancy and facilitating binding of additional transcription factors.^ Using retinoic-acid differentiated mouse embryonic stem cells, we illustrate a mechanism for activation of the tumor marker AFP by the pioneer transcription factor Foxa1 and TGF-β downstream effector transcription factors Smad2 and Smad4. In differentiating embryonic stem cells, binding of the Foxa1 forkhead box transcription factor to chromatin reduces nucleosome occupancy and levels of linker histone H1 at the AFP distal promoter. The more accessible DNA is subsequently bound by the Smad2 and Smad4 transcription factors, concurrent with activation of transcription. Chromatin immunoprecipitation analyses combined with siRNA-mediated knockdown indicate that Smad protein binding and the reduction of nucleosome occupancy at the AFP distal promoter is dependent on Foxa1. In addition to facilitating transcription factor binding, Foxa1 is also associated with histone modifications related to active gene expression. Acetylation of lysine 9 on histone H3, a mark that is associated active transcription, is dependent on Foxa1, while methylation of H3K4, also associated with active transcription, is independent of Foxa1. I propose that Foxa1 potentiates a region of chromatin to respond to Smad proteins, leading to active expression of AFP.^ These studies demonstrate one mechanism whereby a transcription factor can alter the accessibility of additional transcription factors to chromatin, by altering nucleosome positions. Specifically, Foxa1 exposes DNA so that Smad4 can bind to its regulatory element and activate transcription of the tumor-marker gene AFP.^

Análisis teórico-experimental de pilares y vigas de hormigón armado reforzados con fibra de carbono

El presente trabajo se refiere al estudio teórico-experimental del comportamiento de pilares y vigas de hormigón armado reforzados con fibra de carbono o CFRP. El análisis se realiza considerando que los pilares se refuerzan mediante la técnica de adhesión de tejidos de fibra de carbono, generando un efecto de confinamiento. Las vigas se refuerzan mediante la incorporación de barras del mismo material, con refuerzos a cortante. El objetivo es poder comparar el estudio analítico de este tipo de refuerzos con resultados experimentales obtenidos con anterioridad a la realización de este documento, y así poder obtener conclusiones de las posibles diferencias. Hay que señalar que los modelos experimentales no forman parte de este estudio. Los ensayos en pilares fueron realizados en sección cuadrada y circular evaluando la rotura a compresión de las piezas, habiendo sido éstas escaladas con un factor de reducción de 2,3. Los ensayos correspondientes a vigas se realizaron en sección rectangular, centrándose en la evaluación de la rotura a flexión y habiendo sido escaladas igualmente, pero con un factor de reducción de 1:2. El documento se estructura en cuatro capítulos, cuyo contenido se expone de forma concisa a continuación. En el capítulo uno o marco teórico se exponen los principios de comportamiento y tipologías de los pilares y vigas de hormigón armado, las bases teóricas de su refuerzo y confinamiento, así como las diversas técnicas de refuerzo existentes. Se detalla la técnica con FRP, comparando y analizando sus ventajas e inconvenientes. En el capítulo dos se expone el proceso de fabricación, refuerzo y resultados de los modelos experimentales realizados para ambos elementos estructurales. La obtención de los modelos teóricos forma parte del capítulo tres, comparándose con los resultados experimentales en el cuarto capítulo. Finalmente, en el último capítulo se presentan las conclusiones obtenidas al realizar esta comparativa en el refuerzo de vigas y pilares con fibra de carbono. This work refers to the theoretical and experimental study of the behavior of CFRP reinforced concrete columns and beams. The analysis was done considering that the pillars are reinforced by CFRP wrapping technique, resulting in a confinement effect. The beams are reinforced by the addition of bars of the same material, with shear reinforcements. The objective is to compare the analytical study of this type of reinforcement with experimental results obtained prior to the performance of this document, and draw conclusions for any differences. Notice that experimental models are not part of this study. The tests were performed on circular and square section pillars, evaluating compression fracture of the pieces, having been scaled down with a factor of 2.3. The tests were performed on rectangular section beams, focusing on evaluation of the bending fracture and being scaled down equally, but with a factor of 1:2. The document is divided into four chapters, whose content is set out concisely below. The chapter one or theoretical framework sets out the principles of behavior and types of columns and beams of reinforced concrete, the theoretical basis of its reinforcement and confinement, as well as various existing reinforcement techniques. CFRP technique it’s detailed, comparing and analyzing their advantages and disadvantages. Chapter two describes the process of manufacture, reinforcement and results of experimental models made for both structural elements. Chapter three shows the obtaining of the theoretical models, comparing them with the experimental results in the fourth chapter. Finally, the last chapter presents the conclusions to make this comparison in the strengthening of beams and columns with carbon fiber.

Comportamiento estructural de elementos de fábrica reforzados con materiales compuestos avanzados solicitados a flexión y flexocompresión

El refuerzo de estructuras existentes mediante el encolado exterior de láminas de polímeros reforzados con fibras (FRP) se ha convertido en la aplicación más común de los materiales compuestos avanzados en construcción. Estos materiales presentan muchas ventajas frente a los materiales convencionales (sin corrosión, ligeros, de fácil aplicación, etc.). Pero a pesar de las numerosas investigaciones realizadas, aún persisten ciertas dudas sobre algunos aspectos de su comportamiento y las aplicaciones prácticas se llevan a cabo sólo con la ayuda de guías, sin que haya una normativa oficial. El objetivo de este trabajo es incrementar el conocimiento sobre esta técnica de refuerzo, y más concretamente, sobre el refuerzo a flexión de estructuras de fábrica. Con frecuencia el elemento reforzado es de hormigón armado y las láminas de FRP encoladas al exterior sirven para mejorar su resistencia a flexión, cortante o compresión (encamisados). Sin embargo su empleo en otros materiales como las estructuras de fábrica resulta muy prometedor. Las fábricas se caracterizan por soportar muy bien los esfuerzos de compresión pero bastante mal los de tracción. Adherir láminas de materiales compuestos puede servir para mejorar la capacidad resistente de elementos de fábrica sometidos a esfuerzos de flexión. Pero para ello, debe quedar garantizada una correcta adherencia entre el FRP y la fábrica, especialmente en edificios antiguos cuya superficie puede estar deteriorada por encontrarse a la intemperie o por el propio paso del tiempo. En el capítulo II se describen los objetivos fundamentales del trabajo y el método seguido. En el capítulo III se hace una amplia revisión del estado de conocimiento sobre el tema. En el apartado III.1 se detallan las principales características y propiedades mecánicas de fibras, matrices y materiales compuestos así como sus principales aplicaciones, haciendo especial hincapié en aspectos relativos a su durabilidad. En el apartado III.2 se incluye una revisión histórica de las líneas de investigación, tanto teóricas como empíricas, publicadas sobre estructuras de hormigón reforzadas a flexión encolando materiales compuestos. El apartado III.3 se centra en el aspecto fundamental de la adherencia refuerzo-soporte. Se hace un repaso a distintos modelos propuestos para prevenir el despegue distinguiendo si éste se inicia en la zona de anclaje o si está inducido por fisuras en la zona interior del elemento. Se observa falta de consenso en las propuestas. Además en este punto se relatan las campañas experimentales publicadas acerca de la adherencia entre materiales compuestos y fábricas. En el apartado III.4 se analizan las particularidades de las estructuras de fábrica. Además, se revisan algunas de las investigaciones relativas a la mejora de su comportamiento a flexión mediante láminas de FRP. El comportamiento mecánico de muros reforzados solicitados a flexión pura (sin compresión) ha sido documentado por varios autores, si bien es una situación poco frecuente en fábricas reales. Ni el comportamiento mecánico de muros reforzados solicitados a flexocompresión ni la incidencia que el nivel de compresión soportado por la fábrica tiene sobre la capacidad resistente del elemento reforzado han sido suficientemente tratados. En cuanto a los trabajos teóricos, las diferentes propuestas se basan en los métodos utilizados para hormigón armado y comparten los principios habituales de cálculo. Sin embargo, presentan diferencias relativas, sobre todo, a tres aspectos: 1) la forma de modelar el comportamiento de la fábrica, 2) el valor de deformación de cálculo del refuerzo, y 3) el modo de fallo que se considera recomendable buscar con el diseño. A pesar de ello, el ajuste con la parte experimental de cada trabajo suele ser bueno debido a una enorme disparidad en las variables consideradas. Cada campaña presenta un modo de fallo característico y la formulación que se propone resulta apropiada para él. Parece necesario desarrollar un método de cálculo para fábricas flexocomprimidas reforzadas con FRP que pueda ser utilizado para todos los posibles fallos, tanto atribuibles a la lámina como a la fábrica. En el apartado III.4 se repasan algunas lesiones habituales en fábricas solicitadas a flexión y se recogen ejemplos de refuerzos con FRP para reparar o prevenir estos daños. Para mejorar el conocimiento sobre el tema, se llevan a cabo dos pequeñas campañas experimentales realizadas en el Instituto de Ciencias de la Construcción Eduardo Torroja. La primera acerca de la adherencia de materiales compuestos encolados a fábricas deterioradas (apartado IV.1) y la segunda sobre el comportamiento estructural a flexocompresión de probetas de fábrica reforzadas con estos materiales (apartado IV.2). En el capítulo V se analizan algunos de los modelos de adherencia propuestos para prevenir el despegue del extremo del refuerzo. Se confirma que las predicciones obtenidas con ellos resultan muy dispares. Se recopila una base de datos con los resultados experimentales de campañas sobre adherencia de FRP a fábricas extraídas de la literatura y de los resultados propios de la campaña descrita en el punto IV.1. Esta base de datos permite conocer cual de los métodos analizados resulta más adecuado para dimensionar el anclaje de láminas de FRP adheridas a fábricas. En el capítulo VI se propone un método para la comprobación en agotamiento de secciones de fábrica reforzadas con materiales compuestos sometidas a esfuerzos combinados de flexión y compresión. Está basado en el procedimiento de cálculo de la capacidad resistente de secciones de hormigón armado pero adaptado a las fábricas reforzadas. Para ello, se utiliza un diagrama de cálculo tensión deformación de la fábrica de tipo bilineal (acorde con el CTE DB SE-F) cuya simplicidad facilita el desarrollo de toda la formulación al tiempo que resulta adecuado para predecir la capacidad resistente a flexión tanto para fallos debidos al refuerzo como a la fábrica. Además se limita la deformación de cálculo del refuerzo teniendo en consideración ciertos aspectos que provocan que la lámina adherida no pueda desarrollar toda su resistencia, como el desprendimiento inducido por fisuras en el interior del elemento o el deterioro medioambiental. En concreto, se propone un “coeficiente reductor por adherencia” que se determina a partir de una base de datos con 68 resultados experimentales procedentes de publicaciones de varios autores y de los ensayos propios de la campaña descrita en el punto IV.2. También se revisa la formulación propuesta con ayuda de la base de datos. En el capítulo VII se estudia la incidencia de las principales variables, como el axil, la deformación de cálculo del refuerzo o su rigidez, en la capacidad final del elemento. Las conclusiones del trabajo realizado y las posibles líneas futuras de investigación se exponen en el capítulo VIII. ABSTRACT Strengthening of existing structures with externally bonded fiber reinforced polymers (FRP) has become the most common application of advanced composite materials in construction. These materials exhibit many advantages in comparison with traditional ones (corrosion resistance, light weight, easy to apply, etc.). But despite countless researches have been done, there are still doubts about some aspects of their behaviour and applications are carried out only with the help of guidelines, without official regulations. The aim of this work is to improve the knowledge on this retrofitting technique, particularly in regard to flexural strengthening of masonry structures. Reinforced concrete is often the strengthened material and external glued FRP plates are used to improve its flexural, shear or compressive (by wrapping) capacity. However the use of this technique on other materials like masonry structures looks promising. Unreinforced masonry is characterized for being a good material to support compressive stresses but really bad to withstand tensile ones. Glue composite plates can improve the flexural capacity of masonry elements subject to bending. But a proper bond between FRP sheet and masonry must be ensured to do that, especially in old buildings whose surface can be damaged due to being outside or ageing. The main objectives of the work and the methodology carried out are described In Chapter II. An extensive overview of the state of art is done in Chapter III. In Section III.1 physical and mechanical properties of fibers, matrix and composites and their main applications are related. Durability aspects are especially emphasized. Section III.2 includes an historical overview of theoretical and empirical researches on concrete structures strengthened gluing FRP plates to improve their flexural behaviour. Section III.3 focuses on the critical point of bonding between FRP and substrate. Some theoretical models to prevent debonding of FRP laminate are reviewed, it has made a distinction between models for detachment at the end of the plate or debonding in the intermediate zones due to the effects of cracks. It is observed a lack of agreement in the proposals. Some experimental studies on bonding between masonry and FRP are also related in this chapter. The particular characteristics of masonry structures are analyzed in Section III.4. Besides some empirical and theoretical investigations relative to improve their flexural capacity with FRP sheets are reviewed. The mechanical behaviour of strengthened walls subject to pure bending (without compression) has been established by several authors, but this is an unusual situation for real masonry. Neither mechanical behaviour of walls subject to bending and compression nor influence of axial load in the final capacity of the strengthened element are adequately studied. In regard to theoretical studies, the different proposals are based on reinforced concrete analytical methods and share common design principles. However, they present differences, especially, about three aspects: 1) the constitutive law of masonry, 2) the value of ultimate FRP strain and 3) the desirable failure mode that must be looked for. In spite of them, a good agreement between each experimental program and its theoretical study is often exhibited due to enormous disparity in considered test parameters. Each experimental program usually presents a characteristic failure mode and the proposed formulation results appropriate for this one. It seems necessary to develop a method for FRP strengthened walls subject to bending and compression enable for all failure modes (due to FRP or masonry). Some common damages in masonry subject to bending are explained in Section III.4. Examples of FRP strengthening to repair or prevent these damages are also written. Two small experimental programs are carried out in Eduardo Torroja Institute to improve the knowledge on this topic. The first one is concerned about the bond between FRP plates and damaged masonry (section IV.1) and the second one is related to the mechanical behaviour of the strengthened masonry specimens subject to out of plane bending combined with axial force (section IV.2). In the Chapter V some bond models to prevent the debonding at the FRP plate end are checked. It is confirmed that their predictions are so different. A pure-shear test database is compiled with results from the existing literature and others from the experimental program described in section IV.1. This database lets know which of the considered model is more suitable to design anchorage lengths of glued FRP to masonry. In the Chapter VI a method to check unreinforced masonry sections with external FRP strengthening subject to bending and compression to the ultimate limit state is proposed. This method is based on concrete reinforced one, but it is adapted to strengthened masonry. A bilinear constitutive law is used for masonry (according to CTE DB SE-F). Its simplicity helps to develop the model formulation and it has proven to be suitable to predict bending capacity either for FRP failures or masonry crushing. With regard to FRP, the design strain is limited. It is taken into account different aspects which cause the plate can’t reach its ultimate strength, like intermediate FRP debonding induced by opening cracking or environmental damage. A “bond factor” is proposed. It is obtained by means of an experimental bending test database that includes 68 results from the existing literature and from the experimental program described in section IV.2. The proposed formulation has also been checked with the help of bending database. The effects of the main parameters, like axial load, FRP design effective strain or FRP stiffness, on the bending capacity of the strengthened element are studied in Chapter VII. Finally, the main conclusions from the work carried out are summarized in Chapter VIII. Future lines of research to be explored are suggested as well.

Demo paper: tablet-based visualization of transportation data in Madrid using SPARQLStream

In this demo paper we describe an iOS-based application that allows visualizing live bus transport data in Madrid from static and streaming RDF endpoints, reusing the Web services provided by the bus transport authority in the city and wrapping them using SPARQLStream

Hierarchical and hybrid polymer nanocomposites based on carbon nanotubes and inorganic fullerene type nanoparticles

The influence of singlewalled carbon nanotubes (SWCNT) and inorganic fullerenelike tungsten disulfide nanoparticles (IFWS2) on the morphology and thermal, mechanical and electrical performance of multifunctional fibrereinforced polymer composites has been investigated. Significant improvements were observed in stiffness, strength and toughness in poly (ether ether ketone) (PEEK) / (SWCNT) / glass fibre (GF) laminates when a compatibilizer was used for wrapping the CNTs. Hybrid poly(phenylene sulphide) (PPS)/IFWS2/ carbon fibre (CF) reinforced polymer composites showed improved mechanical and tribological properties attributed to a synergetic effect between the IF nanoparticles and CF.

Architectural specificity in chromatin structure at the TATA box in vivo: Nucleosome displacement upon β-phaseolin gene activation

Extensive studies of the β-phaseolin (phas) gene in transgenic tobacco have shown that it is highly active during seed embryogenesis but is completely silent in leaf and other vegetative tissues. In vivo footprinting revealed that the lack of even basal transcriptional activity in vegetative tissues is associated with the presence of a nucleosome that is rotationally positioned with base pair precision over three phased TATA boxes present in the phas promoter. Positioning is sequence-dependent because an identical rotational setting is obtained upon nucleosome reconstitution in vitro. A comparison of DNase I and dimethyl sulfate footprints in vivo and in vitro strongly suggests that this repressive chromatin architecture is remodeled concomitant with gene activation in the developing seed. This leads to the disruption of histone-mediated DNA wrapping and the assembly of the TATA boxes into a transcriptionally competent nucleoprotein complex.

Upstream A-tracts increase bacterial promoter activity through interactions with the RNA polymerase α subunit

Upstream A-tracts stimulate transcription from a variety of bacterial promoters, and this has been widely attributed to direct effects of the intrinsic curvature of A-tract-containing DNA. In this work we report experiments that suggest a different mechanism for the effects of upstream A-tracts on transcription. The similarity of A-tract-containing sequences to the adenine- and thymine-rich upstream recognition elements (UP elements) found in some bacterial promoters suggested that A-tracts might increase promoter activity by interacting with the α subunit of RNA polymerase (RNAP). We found that an A-tract-containing sequence placed upstream of the Escherichia coli lac or rrnB P1 promoters stimulated transcription both in vivo and in vitro, and that this stimulation required the C-terminal (DNA-binding) domain of the RNAP α subunit. The A-tract sequence was protected by wild-type RNAP but not by α-mutant RNAPs in footprints. The effect of the A-tracts on transcription was not as great as that of the most active UP elements, consistent with the degree of similarity of the A-tract sequence to the UP element consensus. A-tracts functioned best when positioned close to the −35 hexamer rather than one helical turn farther upstream, similar to the positioning optimal for UP element function. We conclude that A-tracts function as UP elements, stimulating transcription by providing binding site(s) for the RNAP αCTD, and we suggest that these interactions could contribute to the previously described wrapping of promoter DNA around RNAP.

Conversion of DNA gyrase into a conventional type II topoisomerase

DNA gyrase is unique among topoisomerases in its ability to introduce negative supercoils into closed-circular DNA. We have demonstrated that deletion of the C-terminal DNA-binding domain of the A subunit of gyrase gives rise to an enzyme that cannot supercoil DNA but relaxes DNA in an ATP-dependent manner. Novobiocin, a competitive inhibitor of ATP binding by gyrase, inhibits this reaction. The truncated enzyme, unlike gyrase, does not introduce a right-handed wrap when bound to DNA and stabilizes DNA crossovers; characteristics reminiscent of conventional type II topoisomerases. This new enzyme form can decatenate DNA circles with increased efficiency compared with intact gyrase and, as a result, can complement the temperature-sensitive phenotype of a parCts mutant. Thus these results suggest that the unique properties of DNA gyrase are attributable to the wrapping of DNA around the C-terminal DNA-binding domains of the A subunits and provide an insight into the mechanism of type II topoisomerases.

The [(G/C)3NN]n motif: a common DNA repeat that excludes nucleosomes.

Nucleosomes, the basic structural elements of chromosomes, consist of 146 bp of DNA coiled around an octamer of histone proteins, and their presence can strongly influence gene expression. Considerations of the anisotropic flexibility of nucleotide triplets containing 3 cytosines or guanines suggested that a [5'(G/C)3 NN3']n motif might resist wrapping around a histone octamer. To test this, DNAs were constructed containing a 5'-CCGNN-3' pentanucleotide repeat with the Ns varied. Using in vitro nucleosome reconstitution and electron microscopy, a plasmid with 48 contiguous CCGNN repeats strongly excluded nucleosomes in the repeat region. Competitive reconstitution gel retardation experiments using DNA fragments containing 12, 24, or 48 CCGNN repeats showed that the propensity to exclude nucleosomes increased with the length of the repeat. Analysis showed that a 268-bp DNA containing a (CCGNN)48 block is 4.9 +/- 0.6-fold less efficient in nucleosome assembly than a similar length pUC19 fragment and approximately 78-fold less efficient than a similar length (CTG)n sequence, based on results from previous studies. Computer searches against the GenBank database for matches with a [(G/C)3NN]48 sequence revealed numerous examples that frequently were present in the control regions of "TATA-less" genes, including the human ETS-2 and human dihydrofolate reductase genes. In both cases the (G/C)3NN repeat, present in the promoter region, co-maps with loci previously shown to be nuclease hypersensitive sites.

Toxoplasma invasion: the parasitophorous vacuole is formed from host cell plasma membrane and pinches off via a fission pore.

Most intracellular pathogens avoid lysing their host cells during invasion by wrapping themselves in a vacuolar membrane. This parasitophorous vacuole membrane (PVM) is often retained, serving as a critical transport interface between the parasite and the host cell cytoplasm. To test whether the PVM formed by the parasite Toxoplasma gondii is derived from host cell membrane or from lipids secreted by the parasite, we used time-resolved capacitance measurements and video microscopy to assay host cell surface area during invasion. We observed no significant change in host cell surface area during PVM formation, demonstrating that the PVM consists primarily of invaginated host cell membrane. Pinching off of the PVM from the host cell membrane occurred after an unexpected delay (34-305 sec) and was seen as a 0.219 +/- 0.006 pF drop in capacitance, which corresponds well to the predicted surface area of the entire PVM (30-33 microns2). The formation and closure of a fission pore connecting the extracellular medium and the vacuolar space was detected as the PVM pinched off. This final stage of parasite entry was accomplished without any breach in cell membrane integrity.

Bacteriophage T7 helicase/primase proteins form rings around single-stranded DNA that suggest a general structure for hexameric helicases.

Most helicases studied to date have been characterized as oligomeric, but the relation between their structure and function has not been understood. The bacteriophage T7 gene 4 helicase/primase proteins act in T7 DNA replication. We have used electron microscopy, three-dimensional reconstruction, and protein crosslinking to demonstrate that both proteins form hexameric rings around single-stranded DNA. Each subunit has two lobes, so the hexamer appears to be two-tiered, with a small ring stacked on a large ring. The single-stranded DNA passes through the central hole of the hexamer, and the data exclude substantial wrapping of the DNA about or within the protein ring. Further, the hexamer binds DNA with a defined polarity as the smaller ring of the hexamer points toward the 5' end of the DNA. The similarity in three-dimensional structure of the T7 gene 4 proteins to that of the Escherichia coli RuvB helicase suggests that polar rings assembled around DNA may be a general feature of numerous hexameric helicases involved in DNA replication, transcription, recombination, and repair.

Biochemical characterization and DNA binding properties of the MocR family member GabR, a PLP-dependent transcription factor

GabR è un fattore di trascrizione chimerico appartenente alla famiglia dei MocR/GabR, costituito da un dominio N-terminale elica-giro-elica di legame al DNA e un dominio effettore e/o di oligomerizzazione al C-terminale. I due domini sono connessi da un linker flessibile di 29 aminoacidi. Il dominio C-terminale è strutturalmente omologo agli enzimi aminotransferasici fold-type I, i quali, utilizzando il piridossal-5’-fosfato (PLP) come cofattore, sono direttamente coinvolti nel metabolismo degli aminoacidi. L’interazione contemporanea di PLP e acido γ-aminobutirrico (GABA) a GabR fa sì che questa promuova la trascrizione di due geni, gabT e gabD, implicati nel metabolismo del GABA. GabR cristallizza come un omodimero con una configurazione testa-coda. Il legame con la regione promotrice gabTD avviene attraverso il riconoscimento specifico di due sequenze dirette e ripetute (ATACCA), separate da uno spacer di 34 bp. In questo studio sono state indagate le proprietà biochimiche, strutturali e di legame al DNA della proteina GabR di Bacillus subtilis. L’analisi spettroscopica dimostra che GabR interagisce con il PLP formando l’aldimina interna, mentre in presenza di GABA si ottiene l’aldimina esterna. L’interazione fra il promotore gabTD e le forme holo e apo di GabR è stata monitorata mediante Microscopia a Forza atomica (AFM). In queste due condizioni di legame è stata stimata una Kd di circa 40 ηM. La presenza di GABA invece, determinava un incremento di circa due volte della Kd, variazioni strutturali nei complessi GabR-DNA e una riduzione del compattamento del DNA alla proteina, indipendentemente dalla sequenza del promotore in esame. Al fine di valutare il ruolo delle caratteristiche topologiche del promotore, sono state inserite cinque e dieci bp all’interno della regione spacer che separa le due sequenze ripetute dirette riconosciute da GabR. I significativi cambiamenti topologici riscontrati nel frammento aggiunto di cinque bp si riflettono anche sulla forte riduzione dell’affinità di legame verso la proteina. Al contrario, l’inserzione di 10 bp provoca solamente l’allontanamento delle sequenze ripetute dirette. L’assenza quindi di cambiamenti significativi nella topologia di questo promotore fa sì che l’affinità di legame per GabR rimanga pressoché inalterata rispetto al promotore non mutato. L’analisi del potenziale elettrostatico superficiale di GabR mostra la presenza di una fascia carica positivamente che si estende lungo un’intera faccia della proteina. Per verificare l’importanza di questa caratteristica di GabR nel meccanismo di interazione al DNA, sono stati preparati ed indagati i mutanti R129Q e K362-366Q, in cui la carica positiva superficiale risultava indebolita. L’affinità di legame dei mutanti di GabR per il DNA era inferiore rispetto alla proteina non mutata, in particolar modo nel mutante K362-366Q. Le evidenze acquisite suggeriscono che la curvatura intrinseca del promotore ed il corretto orientamento delle sequenze sulla doppia elica, più della distanza che le separa, siano critici per sostenere l’interazione con GabR. Oltre a questo, la superficie positiva di GabR è richiesta per accomodare la curvatura del DNA sul corpo della proteina. Alla luce di questo, l’interazione GabR-gabTD è un esempio di come il riconoscimento specifico di sequenze, la topologia del DNA e le caratteristiche strutturali della proteina siano contemporaneamente necessarie per sostenere un’interazione proteina-DNA stabile.

The Broadway

Plymouth at Broadway 761-4280, party goods - candles - books - candy - gifts. Gift wrapping - wrap and mail service - Autotyping - bulk mailing - Bigby ice-skate exchange.

Charges for Ginning Cotton

Title Varies: Rates for Ginning and Wrapping American Cotton, and Related Data, Seasons 1928-29 To 1935-36