Abandoned cubby huts: a site of dreaming and decay

The Cubby Hut is a powerful symbolic structure, an archetypal structure, and a place of imagination, dreams, refuge and adventure. The Cubby is ephemeral and passes from our childhood exploration of the world and into the dreams and memories of adulthood. These cubby huts are primarily built from and located in the landscape and are intrinsically linked to this context; they are landscape as architecture and architecture as landscape and in construction they articulate a connection between the imagination and landscape and decay as they return to the land and the psyche.

Changes in zinc ligation promote remodeling of the active site in the zinc hydrolase superfamily

The zinc hydrolase superfamily is a group of divergently related proteins that are predominantly enzymes with a zinc-based catalytic mechanism. The common structural scaffold of the superfamily consists of an eight-stranded β-sheet flanked by six α-helices. Previous analyses, while acknowledging the likely divergent origins of leucine aminopeptidase, carboxypeptidase A and the co-catalytic enzymes of the metallopeptidase H clan based on their structural scaffolds, have failed to find any homology between the active sites in leucine aminopeptidase and the metallopeptidase H clan enzymes. Here we show that these two groups of co-catalytic enzymes have overlapping dizinc centers where one of the two zinc atoms is conserved in each group. Carboxypeptidase A and leucine aminopeptidase, on the other hand, no longer share any homologous zinc-binding sites. At least three catalytic zinc-binding sites have existed in the structural scaffold over the period of history defined by available structures. Comparison of enzyme-inhibitor complexes show that major remodeling of the substrate-binding site has occurred in association with each change in zinc ligation in the binding site. These changes involve re-registration and re-orientation of the substrate. Some residues important to the catalytic mechanism are not conserved amongst members. We discuss how molecules acting in trans may have facilitated the mutation of catalytically important residues in the active site in this group.

Novel B-site ordered double perovskite Ba2Bi0.1Sc0.2Co1.7O6-x for highly efficient oxygen reduction reaction

Double perovskite Ba₂Bi_0.1Sc_0.2Co_1.7O_6-x (BBSC) demonstrates low polarization resistance between 600 and 750 °C due to the high oxygen reduction rate of BBSC as reflected by its large D_V and k values, which are derived from the face centered cubic structure and high cobalt content.

Northward migration of Afro-Siberian Knots Calidris canutus canutus : high variability in Red Knot numbers visiting staging sites on the French Atlantic coast, 1979–2009

The Afro–Siberian Red Knot subspecies, Calidris canutus canutus, winters mainly on Banc d’Arguin, Mauritania, West Africa. An International Wader Study Group project carried out in 1979 suggested that during northward migration Red Knots cover their migration between the wintering grounds and the Siberian breeding grounds in two long-distance non-stop flights, stopping only in the Wadden Sea in Schleswig-Holstein, Germany. Each year Red Knots also visit staging sites along the French Atlantic coast in addition to the German Wadden Sea. Ever since 1979, the French staging sites have been counted on a regular basis and here we present the count data from these 30 years. In some years more than 20% of the population used the French Atlantic coast as a staging site, but numbers are highly variable from one year to the next. We suggest that high numbers in France might occur when birds have to stop short of the Wadden Sea because of head-winds and/or a lack of tail-winds en route from West Africa.

On 4 June 2008 Siberian Red Knots at Elbe Mouth kissed the canonical evening migration departure rule goodbye

Observations of departing Siberian-breeding Red Knots Calidris canutus canutus from their central staging site during northward migration, the Schleswig-Holstein Wadden Sea, Germany, in early June 2008, challenge the established notion that departing long-distance migrating waders only leave around sunset. During four days we scanned several thousand Red Knots for colour-ringed individuals and found a total of 20 different individuals that were previously ringed at either their main wintering site, the Banc d'Arguin in Mauritania, or at stopover sites on the Atlantic coast of France. Body masses of captured Red Knots in Schleswig-Holstein were higher than 200 g and hematocrite values showed an average of 58%, clearly indicating that they were ready for take-off. On all except one evening, we noted impressive departure movements during the incoming tide. On that exceptional evening a cold front thunderstorm passed over the area. Late the next morning, thousands of Red Knots departed during the incoming tide. We assume that the birds avoided taking off in adverse weather conditions and elaborate why Red Knots presumably traded off advantages from departing during twilight. We suggest that during spring migration, schedules are so tight that further delays decrease fitness, either because it would cause another full day of exposure to high predation risk by falcons, or because of conditions upon arrival on the tundra.

Small home ranges and high site fidelity in red knots (Calidris c. canutus) wintering on the Banc d’Arguin, Mauritania

Using automated and manual radio-telemetry and resightings of individual colour-ringed birds, we assessed the daily use of space of red knots Calidris canutus canutus at a tropical wintering area along the Sahara coast, the Banc d Arguin in Mauritania. Confirming earlier suggestions, we found that birds were very faithful to their roosts and that the daily foraging range was small; in the course of several winter months birds used an area of only 2 16 km2 of intertidal area. We found no differences between their movements in daylight and at night. Additionally, individuals seem to return to exactly the same locations in subsequent winters. This pattern is very different from red knots wintering in the temperate Wadden Sea. Here, they readily change roost sites and easily cover areas of about 800 km2 in the course of weeks but, just as in Mauritania, no differences between day and night are apparent. In northern Patagonia and north-western Australia, red knots have range sizes closer to those on the Banc d Arguin, but here they do show differences in space use between day and night. Ecological explanations for these contrasting patterns require further comparative data based on in-depth studies on the predictability of the food base and the presence of diurnal and nocturnal predators.

Densities of individually marked migrants away from the marking site to estimate population sizes : a test with three wader populations

Capsule Population estimates based on the mark–resighting method can be a useful alternative to population-wide counts.

Aims To investigate whether the mark–resighting method can be used as an alternative to counts to estimate the size of wader populations.

Methods Individual colour-marking and subsequent resightings allowed accurate estimates of annual survival for three populations of waders, on which basis we could estimate the actual number of marked birds alive. Densities of marked birds were determined on sites away (2000–4300 km) from the ringing locations expecting marked birds to be randomly distributed among non-marked conspecifics. Population sizes are estimated by combining these densities with the number of marked birds alive.

Results We found indications that the distribution of marked birds was indeed random in the locations away from the site of marking. The estimated population size of Red Knot Calidris canutus canutus was in accordance with the most recent estimates based on counts. Our estimate of the Calidris c. islandica population was somewhat lower, and that of the Bar-tailed Godwit Limosa lapponica taymyrensis population was considerably lower than the latest estimates based on counts.

Conclusion Population estimates based on the mark–resighting method can be a useful alternative for, or addition to, population-wide counts, as long as the assumption of random distribution of marked birds at the reading sites is taken into account. We conclude that the Afro-Siberian Bar-tailed Godwit population has recently decreased in size or has been substantially overestimated during the counts.

Yhh1p/Cft1p directly links poly(A) site recognition and RNA polymerase II transcription termination

RNA polymerase II (pol II) transcription termination requires co-transcriptional recognition of a functional polyadenylation signal, but the molecular mechanisms that transduce this signal to pol II remain unclear. We show that Yhh1p/Cft1p, the yeast homologue of the mammalian AAUAAA interacting protein CPSF 160, is an RNA-binding protein and provide evidence that it participates in poly(A) site recognition. Interestingly, RNA binding is mediated by a central domain composed of predicted -propeller-forming repeats, which occurs in proteins of diverse cellular functions. We also found that Yhh1p/Cft1p bound specifically to the phosphorylated C-terminal domain (CTD) of pol II in vitro and in a two-hybrid test in vivo. Furthermore, transcriptional run-on analysis demonstrated that yhh1 mutants were defective in transcription termination, suggesting that Yhh1p/Cft1p functions in the coupling of transcription and 3'-end formation. We propose that direct interactions of Yhh1p/Cft1p with both the RNA transcript and the CTD are required to communicate poly(A) site recognition to elongating pol II to initiate transcription termination.

Phenylalanine-544 plays a key role in substrate and inhibitor binding by providing a hydrophobic packing point at the active site of insulin-regulated aminopeptidase

Inhibitors of insulin-regulated aminopeptidase (IRAP) improve memory and are being developed as a novel treatment for memory loss. In this study, the binding of a class of these inhibitors to human IRAP was investigated using molecular docking and site-directed mutagenesis. Four benzopyran-based IRAP inhibitors with different affinities were docked into a homology model of the catalytic site of IRAP. Two 4-pyridinyl derivatives orient with the benzopyran oxygen interacting with the Zn2+ ion and a direct parallel ring-stack interaction between the benzopyran rings and Phe544. In contrast, the two 4-quinolinyl derivatives orient in a different manner, interacting with the Zn2+ ion via the quinoline nitrogen, and Phe544 contributes an edge-face hydrophobic stacking point with the benzopyran moiety. Mutagenic replacement of Phe544 with alanine, isoleucine, or valine resulted in either complete loss of catalytic activity or altered hydrolysis velocity that was substrate-dependent. Phe544 is also important for inhibitor binding, because these mutations altered the Ki in some cases, and docking of the inhibitors into the corresponding Phe544 mutant models revealed how the interaction might be disturbed. These findings demonstrate a key role of Phe544 in the binding of the benzopyran IRAP inhibitors and for optimal positioning of enzyme substrates during catalysis.